HEADER HYDROLASE/ANTIBIOTIC 13-MAY-11 3S04 TITLE CRYSTAL STRUCTURE OF ESCHERICHIA COLI TYPE I SIGNAL PEPTIDASE IN TITLE 2 COMPLEX WITH AN ARYLOMYCIN LIPOGLYCOPEPTIDE ANTIBIOTIC COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL PEPTIDASE I; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PERIPLASMIC DOMAIN, UNP RESIDUES 76-323; COMPND 5 SYNONYM: SPASE I, LEADER PEPTIDASE I; COMPND 6 EC: 3.4.21.89; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: GLYCO-ARYLOMYCIN; COMPND 10 CHAIN: I, J SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: B2568, JW2552, LEPB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET3D; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: STREPTOMYCES SP.; SOURCE 13 ORGANISM_TAXID: 1931 KEYWDS MOSTLY-BETA FOLD, MEMBRANE BOUND, SERINE PROTEASE, SECRETED KEYWDS 2 PREPROTEINS, CYTOPLASMIC MEMBRANE, HYDROLASE-ANTIBIOTIC COMPLEX, KEYWDS 3 SIGNAL PEPTIDASE, LEADER PEPTIDASE, SIGNAL PEPTIDE, LEADER PEPTIDE, KEYWDS 4 SERINE-LYSINE DYAD EXPDTA X-RAY DIFFRACTION AUTHOR M.PAETZEL,C.LUO REVDAT 8 06-DEC-23 3S04 1 LINK REVDAT 7 13-SEP-23 3S04 1 HETSYN REVDAT 6 29-JUL-20 3S04 1 COMPND REMARK SEQADV HETNAM REVDAT 6 2 1 LINK SITE REVDAT 5 10-JUL-13 3S04 1 REMARK REVDAT 4 10-APR-13 3S04 1 REMARK REVDAT 3 16-NOV-11 3S04 1 JRNL REVDAT 2 02-NOV-11 3S04 1 JRNL REVDAT 1 05-OCT-11 3S04 0 JRNL AUTH J.LIU,C.LUO,P.A.SMITH,J.K.CHIN,M.G.PAGE,M.PAETZEL, JRNL AUTH 2 F.E.ROMESBERG JRNL TITL SYNTHESIS AND CHARACTERIZATION OF THE ARYLOMYCIN JRNL TITL 2 LIPOGLYCOPEPTIDE ANTIBIOTICS AND THE CRYSTALLOGRAPHIC JRNL TITL 3 ANALYSIS OF THEIR COMPLEX WITH SIGNAL PEPTIDASE. JRNL REF J.AM.CHEM.SOC. V. 133 17869 2011 JRNL REFN ISSN 0002-7863 JRNL PMID 21999324 JRNL DOI 10.1021/JA207318N REMARK 2 REMARK 2 RESOLUTION. 2.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 24852 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.246 REMARK 3 R VALUE (WORKING SET) : 0.245 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1321 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.44 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1821 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.3290 REMARK 3 BIN FREE R VALUE SET COUNT : 87 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3475 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 57 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.08000 REMARK 3 B22 (A**2) : 1.08000 REMARK 3 B33 (A**2) : -2.16000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.253 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.195 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.315 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.915 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3665 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5005 ; 1.098 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 438 ; 5.257 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;37.980 ;24.146 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 564 ;14.699 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;13.333 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 535 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2868 ; 0.005 ; 0.022 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2174 ; 0.387 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3530 ; 0.727 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1491 ; 0.890 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1468 ; 1.626 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 20 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 80 A 107 REMARK 3 ORIGIN FOR THE GROUP (A): 3.5415 -9.4614 54.8742 REMARK 3 T TENSOR REMARK 3 T11: 0.6323 T22: 0.4350 REMARK 3 T33: 0.4711 T12: 0.0301 REMARK 3 T13: 0.0354 T23: 0.0227 REMARK 3 L TENSOR REMARK 3 L11: 2.6527 L22: 4.9697 REMARK 3 L33: 8.5309 L12: 2.7503 REMARK 3 L13: -1.3577 L23: -4.6565 REMARK 3 S TENSOR REMARK 3 S11: -0.0560 S12: -0.3269 S13: -0.4373 REMARK 3 S21: -0.3379 S22: 0.0877 S23: 0.0589 REMARK 3 S31: 1.3330 S32: 0.1100 S33: -0.0317 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 108 A 128 REMARK 3 ORIGIN FOR THE GROUP (A): -13.6604 -8.5119 55.0550 REMARK 3 T TENSOR REMARK 3 T11: 0.6369 T22: 0.6079 REMARK 3 T33: 0.6954 T12: -0.1777 REMARK 3 T13: 0.2090 T23: -0.1766 REMARK 3 L TENSOR REMARK 3 L11: 11.2640 L22: 48.8787 REMARK 3 L33: 11.1474 L12: -6.0602 REMARK 3 L13: 6.3729 L23: -20.8811 REMARK 3 S TENSOR REMARK 3 S11: -0.1219 S12: -0.3753 S13: -0.3378 REMARK 3 S21: -0.6866 S22: 0.4512 S23: 2.0698 REMARK 3 S31: 0.8623 S32: -0.5953 S33: -0.3293 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 129 A 167 REMARK 3 ORIGIN FOR THE GROUP (A): -7.1403 -5.1883 44.1530 REMARK 3 T TENSOR REMARK 3 T11: 0.5216 T22: 0.4459 REMARK 3 T33: 0.4733 T12: -0.1180 REMARK 3 T13: 0.0338 T23: -0.0280 REMARK 3 L TENSOR REMARK 3 L11: 2.4828 L22: 4.8395 REMARK 3 L33: 4.4445 L12: -1.0997 REMARK 3 L13: 0.8781 L23: -1.9710 REMARK 3 S TENSOR REMARK 3 S11: 0.1691 S12: 0.2279 S13: -0.4920 REMARK 3 S21: -0.3118 S22: -0.1172 S23: 0.1939 REMARK 3 S31: 0.8336 S32: -0.1443 S33: -0.0519 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 168 A 177 REMARK 3 ORIGIN FOR THE GROUP (A): -24.2493 -0.5454 42.8660 REMARK 3 T TENSOR REMARK 3 T11: 1.3546 T22: 2.6076 REMARK 3 T33: 1.4884 T12: -0.7908 REMARK 3 T13: 0.0308 T23: -0.5295 REMARK 3 L TENSOR REMARK 3 L11: 24.6455 L22: -12.1092 REMARK 3 L33: 19.8131 L12: -0.8169 REMARK 3 L13: 11.1661 L23: -6.6518 REMARK 3 S TENSOR REMARK 3 S11: -3.9413 S12: 1.0122 S13: 1.7771 REMARK 3 S21: -0.9971 S22: 1.8405 S23: 0.0528 REMARK 3 S31: 0.9973 S32: -6.4357 S33: 2.1008 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 178 A 189 REMARK 3 ORIGIN FOR THE GROUP (A): -11.8561 9.8291 48.4792 REMARK 3 T TENSOR REMARK 3 T11: 0.5860 T22: 0.4935 REMARK 3 T33: 0.4874 T12: 0.0404 REMARK 3 T13: -0.0174 T23: 0.0716 REMARK 3 L TENSOR REMARK 3 L11: 12.8041 L22: 4.4977 REMARK 3 L33: 12.1052 L12: -5.4608 REMARK 3 L13: -4.8878 L23: -1.8463 REMARK 3 S TENSOR REMARK 3 S11: -0.2342 S12: 0.5498 S13: -0.2448 REMARK 3 S21: -0.4372 S22: 0.0941 S23: 0.6991 REMARK 3 S31: 0.2401 S32: -0.7862 S33: 0.1401 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 190 A 206 REMARK 3 ORIGIN FOR THE GROUP (A): 11.5338 6.7382 42.9166 REMARK 3 T TENSOR REMARK 3 T11: 0.3626 T22: 0.4835 REMARK 3 T33: 0.4883 T12: -0.1116 REMARK 3 T13: 0.0147 T23: -0.0602 REMARK 3 L TENSOR REMARK 3 L11: 9.3485 L22: 28.1208 REMARK 3 L33: 5.0178 L12: -4.5170 REMARK 3 L13: 2.2075 L23: 4.3027 REMARK 3 S TENSOR REMARK 3 S11: 0.6086 S12: 0.9130 S13: -0.0362 REMARK 3 S21: -1.3893 S22: 0.0008 S23: -0.8614 REMARK 3 S31: 0.0876 S32: 0.5280 S33: -0.6095 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 207 A 215 REMARK 3 ORIGIN FOR THE GROUP (A): 14.6089 8.0552 47.1738 REMARK 3 T TENSOR REMARK 3 T11: 0.2233 T22: 0.7051 REMARK 3 T33: 0.4948 T12: 0.0081 REMARK 3 T13: 0.0219 T23: 0.1137 REMARK 3 L TENSOR REMARK 3 L11: 27.2740 L22: 29.7594 REMARK 3 L33: 15.2205 L12: 6.3329 REMARK 3 L13: 0.4411 L23: -2.3790 REMARK 3 S TENSOR REMARK 3 S11: -0.2039 S12: -1.0279 S13: 0.1435 REMARK 3 S21: 0.3470 S22: 0.5861 S23: -2.1976 REMARK 3 S31: -0.3611 S32: 1.5877 S33: -0.3822 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 216 A 223 REMARK 3 ORIGIN FOR THE GROUP (A): 16.3924 11.4954 41.3393 REMARK 3 T TENSOR REMARK 3 T11: 0.4115 T22: 0.5234 REMARK 3 T33: 0.5437 T12: -0.1842 REMARK 3 T13: -0.0094 T23: 0.2766 REMARK 3 L TENSOR REMARK 3 L11: 9.7628 L22: 28.7978 REMARK 3 L33: 42.6182 L12: -3.7317 REMARK 3 L13: -10.6680 L23: 20.1220 REMARK 3 S TENSOR REMARK 3 S11: 0.8683 S12: 0.4250 S13: 1.5533 REMARK 3 S21: -1.3440 S22: -0.1113 S23: -2.4528 REMARK 3 S31: -3.5319 S32: 2.4037 S33: -0.7570 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 224 A 287 REMARK 3 ORIGIN FOR THE GROUP (A): -6.6315 -0.3737 40.8803 REMARK 3 T TENSOR REMARK 3 T11: 0.4468 T22: 0.4301 REMARK 3 T33: 0.4323 T12: -0.0526 REMARK 3 T13: 0.0030 T23: 0.0243 REMARK 3 L TENSOR REMARK 3 L11: 3.7308 L22: 4.2625 REMARK 3 L33: 4.6533 L12: 1.4840 REMARK 3 L13: -1.1176 L23: -0.4498 REMARK 3 S TENSOR REMARK 3 S11: -0.1595 S12: 0.2402 S13: -0.0394 REMARK 3 S21: -0.1341 S22: 0.1772 S23: 0.3540 REMARK 3 S31: 0.4658 S32: -0.3864 S33: -0.0177 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 288 A 324 REMARK 3 ORIGIN FOR THE GROUP (A): 4.1438 -7.6129 57.3098 REMARK 3 T TENSOR REMARK 3 T11: 0.6603 T22: 0.4835 REMARK 3 T33: 0.4789 T12: 0.0528 REMARK 3 T13: 0.0445 T23: 0.1122 REMARK 3 L TENSOR REMARK 3 L11: 5.8789 L22: 5.3446 REMARK 3 L33: 5.8075 L12: 3.6556 REMARK 3 L13: 2.1390 L23: 3.7710 REMARK 3 S TENSOR REMARK 3 S11: 0.0369 S12: -0.6245 S13: -0.3406 REMARK 3 S21: 0.0968 S22: 0.0014 S23: -0.4501 REMARK 3 S31: 0.4971 S32: 0.2729 S33: -0.0383 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 80 B 90 REMARK 3 ORIGIN FOR THE GROUP (A): -24.9691 39.5235 59.7078 REMARK 3 T TENSOR REMARK 3 T11: 0.3942 T22: 0.4617 REMARK 3 T33: 0.5357 T12: -0.0255 REMARK 3 T13: 0.0514 T23: 0.0128 REMARK 3 L TENSOR REMARK 3 L11: 7.5134 L22: 16.0342 REMARK 3 L33: 20.1625 L12: 3.4592 REMARK 3 L13: 2.6101 L23: 3.3410 REMARK 3 S TENSOR REMARK 3 S11: -0.2037 S12: -0.6370 S13: 0.2073 REMARK 3 S21: 0.3684 S22: -0.2274 S23: -0.7007 REMARK 3 S31: -1.8331 S32: -0.2290 S33: 0.4312 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 91 B 125 REMARK 3 ORIGIN FOR THE GROUP (A): -22.0990 34.9667 57.8671 REMARK 3 T TENSOR REMARK 3 T11: 0.3947 T22: 0.3021 REMARK 3 T33: 0.4000 T12: -0.0099 REMARK 3 T13: -0.0329 T23: 0.0025 REMARK 3 L TENSOR REMARK 3 L11: 1.8820 L22: 5.9592 REMARK 3 L33: 6.1954 L12: 1.2858 REMARK 3 L13: -0.5834 L23: 3.5045 REMARK 3 S TENSOR REMARK 3 S11: 0.0487 S12: -0.4477 S13: 0.2313 REMARK 3 S21: 0.5142 S22: 0.0587 S23: -0.3299 REMARK 3 S31: -0.2972 S32: 0.4778 S33: -0.1074 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 126 B 165 REMARK 3 ORIGIN FOR THE GROUP (A): -11.8203 34.6962 50.0384 REMARK 3 T TENSOR REMARK 3 T11: 0.4674 T22: 0.4420 REMARK 3 T33: 0.5290 T12: -0.0939 REMARK 3 T13: 0.0324 T23: 0.0364 REMARK 3 L TENSOR REMARK 3 L11: 2.2260 L22: 3.7654 REMARK 3 L33: 2.9318 L12: -0.8097 REMARK 3 L13: -1.4433 L23: 1.8360 REMARK 3 S TENSOR REMARK 3 S11: 0.2203 S12: -0.1650 S13: 0.4453 REMARK 3 S21: -0.1045 S22: -0.0502 S23: -0.5110 REMARK 3 S31: -0.3086 S32: 0.1728 S33: -0.1701 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 166 B 197 REMARK 3 ORIGIN FOR THE GROUP (A): -15.4762 21.9317 46.1242 REMARK 3 T TENSOR REMARK 3 T11: 0.5482 T22: 0.4786 REMARK 3 T33: 0.4288 T12: -0.0959 REMARK 3 T13: 0.1147 T23: 0.0816 REMARK 3 L TENSOR REMARK 3 L11: 3.6271 L22: 3.1818 REMARK 3 L33: 4.2362 L12: -1.6160 REMARK 3 L13: 1.4177 L23: 1.3915 REMARK 3 S TENSOR REMARK 3 S11: 0.1122 S12: 0.5004 S13: 0.0591 REMARK 3 S21: -0.2280 S22: 0.0542 S23: -0.3167 REMARK 3 S31: -0.2545 S32: 0.4680 S33: -0.1664 REMARK 3 REMARK 3 TLS GROUP : 15 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 198 B 243 REMARK 3 ORIGIN FOR THE GROUP (A): -26.0396 23.6982 42.7517 REMARK 3 T TENSOR REMARK 3 T11: 0.3385 T22: 0.2549 REMARK 3 T33: 0.3197 T12: 0.0045 REMARK 3 T13: 0.0345 T23: -0.0252 REMARK 3 L TENSOR REMARK 3 L11: 7.8231 L22: 3.2964 REMARK 3 L33: 6.2928 L12: -2.0500 REMARK 3 L13: 3.5110 L23: -2.1518 REMARK 3 S TENSOR REMARK 3 S11: -0.0266 S12: 0.0001 S13: 0.0368 REMARK 3 S21: -0.0413 S22: 0.0264 S23: 0.0759 REMARK 3 S31: -0.0897 S32: -0.3509 S33: 0.0002 REMARK 3 REMARK 3 TLS GROUP : 16 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 244 B 269 REMARK 3 ORIGIN FOR THE GROUP (A): -4.3039 35.2860 41.7695 REMARK 3 T TENSOR REMARK 3 T11: 0.6495 T22: 0.5603 REMARK 3 T33: 0.6510 T12: -0.1589 REMARK 3 T13: 0.1555 T23: 0.0662 REMARK 3 L TENSOR REMARK 3 L11: 9.6614 L22: 8.4652 REMARK 3 L33: 7.9319 L12: 3.8319 REMARK 3 L13: 2.5665 L23: 4.8191 REMARK 3 S TENSOR REMARK 3 S11: -0.2448 S12: 1.0766 S13: 0.4813 REMARK 3 S21: -1.0638 S22: 0.6899 S23: -0.7002 REMARK 3 S31: -1.0737 S32: 1.0213 S33: -0.4452 REMARK 3 REMARK 3 TLS GROUP : 17 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 270 B 304 REMARK 3 ORIGIN FOR THE GROUP (A): -17.7882 35.6201 51.8546 REMARK 3 T TENSOR REMARK 3 T11: 0.4967 T22: 0.3182 REMARK 3 T33: 0.4612 T12: -0.0324 REMARK 3 T13: -0.0039 T23: 0.0712 REMARK 3 L TENSOR REMARK 3 L11: 2.6921 L22: 2.3891 REMARK 3 L33: 3.1993 L12: 1.3793 REMARK 3 L13: -0.6016 L23: 0.5211 REMARK 3 S TENSOR REMARK 3 S11: 0.2667 S12: -0.2164 S13: 0.2104 REMARK 3 S21: 0.1128 S22: -0.0395 S23: -0.1328 REMARK 3 S31: -0.6168 S32: 0.0253 S33: -0.2272 REMARK 3 REMARK 3 TLS GROUP : 18 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 305 B 311 REMARK 3 ORIGIN FOR THE GROUP (A): -36.4608 34.6348 46.3958 REMARK 3 T TENSOR REMARK 3 T11: 1.5012 T22: 0.8177 REMARK 3 T33: 0.1605 T12: 0.6116 REMARK 3 T13: -0.3814 T23: -0.2274 REMARK 3 L TENSOR REMARK 3 L11: 72.0649 L22: 94.0571 REMARK 3 L33: 55.5805 L12: 40.5569 REMARK 3 L13: 2.1165 L23: -43.4559 REMARK 3 S TENSOR REMARK 3 S11: -1.3001 S12: 2.8180 S13: -0.7286 REMARK 3 S21: -3.4705 S22: -0.3997 S23: 0.0315 REMARK 3 S31: -0.9708 S32: -0.6967 S33: 1.6998 REMARK 3 REMARK 3 TLS GROUP : 19 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 312 B 318 REMARK 3 ORIGIN FOR THE GROUP (A): -38.7185 29.2852 54.9176 REMARK 3 T TENSOR REMARK 3 T11: 0.6317 T22: 1.0840 REMARK 3 T33: 1.0107 T12: -0.1900 REMARK 3 T13: -0.1640 T23: 0.2023 REMARK 3 L TENSOR REMARK 3 L11: 14.3744 L22: 39.0048 REMARK 3 L33: 38.6256 L12: -23.9650 REMARK 3 L13: 17.0618 L23: -25.3100 REMARK 3 S TENSOR REMARK 3 S11: 0.7624 S12: -0.7180 S13: -1.2915 REMARK 3 S21: -1.2908 S22: 1.0276 S23: 2.3003 REMARK 3 S31: -0.3081 S32: -2.7523 S33: -1.7900 REMARK 3 REMARK 3 TLS GROUP : 20 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 319 B 324 REMARK 3 ORIGIN FOR THE GROUP (A): -27.5856 26.4412 60.1150 REMARK 3 T TENSOR REMARK 3 T11: 1.4801 T22: 0.5540 REMARK 3 T33: 0.2842 T12: 0.0349 REMARK 3 T13: 0.1278 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 11.5933 L22: 10.1914 REMARK 3 L33: 6.2351 L12: 10.0962 REMARK 3 L13: -9.3760 L23: -9.9716 REMARK 3 S TENSOR REMARK 3 S11: -0.1222 S12: -0.0751 S13: -1.1831 REMARK 3 S21: -0.5158 S22: -0.6578 S23: -0.6082 REMARK 3 S31: 0.5856 S32: 0.4407 S33: 0.7800 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3S04 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000065592. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-AUG-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : OSIMIC CONFOCAL VARIMAX HIGH REMARK 200 FLUX OPTICS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26680 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.440 REMARK 200 RESOLUTION RANGE LOW (A) : 32.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 5.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 9.290 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.44 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.89 REMARK 200 R MERGE FOR SHELL (I) : 0.43700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1T7D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG 4000, 0.2M KCL, 0.025M N REMARK 280 -DODECYL BETA-D-MALTOSIDE (DDM), PH 7.4, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 131.28500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.00500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.00500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 196.92750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.00500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.00500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 65.64250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.00500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.00500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 196.92750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.00500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.00500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 65.64250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 131.28500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 THE BIOLOGICAL ASSEMBLY IS A HETERODIMER OF ONE SIGNAL PEPTIDASE REMARK 300 I MOLECULE AND ONE GLYCOLIPOPEPTIDE INHIBITOR (GLYCO-ARYLOMYCIN) REMARK 300 MOLECULE. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, J REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, I REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, J REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, I REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 36.00500 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 36.00500 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 65.64250 REMARK 400 REMARK 400 COMPOUND REMARK 400 THE GLYCO-ARYLOMYCIN IS A CYCLIC LIPOHEXAPEPTIDE, A MEMBER OF THE REMARK 400 ARYLOMYCIN FAMILY. ALL MEMBERS HAVE A FATTY ACID AT THE N-TERMINAL REMARK 400 AND A CORE STRUCTURE OF TRIPEPTIDE MACROCYCLE FORMED BY A C-C REMARK 400 BIARYL LINKAGE BETWEEN RESIDUES 5 AND 7. HERE, GLYCO-ARYLOMYCIN IS REMARK 400 REPRESENTED BY GROUPING TOGETHER THE SEQUENCE (SEQRES), THE LIPID REMARK 400 (02U) AND RHAMNOSE (RAM). REMARK 400 REMARK 400 THE ARYLOMYCIN IS LIPOGLYCOPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ARYLOMYCIN REMARK 400 CHAIN: I, J REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 COMPONENT_2: RESIDUE 02U REMARK 400 COMPONENT_3: RESIDUE RAM REMARK 400 DESCRIPTION: BAL4850C IS A VARIANT OF THE LIPOGLYCO ARYLOMYCIN REMARK 400 HERE BAL4850C IS REPRESENTED BY GROUPING TOGETHER REMARK 400 THE SEQUENCE, THE LIPID (O2U) AND RHAMNOSE. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 75 REMARK 465 ILE A 76 REMARK 465 VAL A 77 REMARK 465 ARG A 78 REMARK 465 SER A 79 REMARK 465 TYR A 109 REMARK 465 GLY A 110 REMARK 465 ILE A 111 REMARK 465 LYS A 112 REMARK 465 ASP A 113 REMARK 465 PRO A 114 REMARK 465 ILE A 115 REMARK 465 TYR A 116 REMARK 465 GLN A 117 REMARK 465 LYS A 118 REMARK 465 THR A 119 REMARK 465 LEU A 120 REMARK 465 ILE A 121 REMARK 465 GLU A 122 REMARK 465 THR A 123 REMARK 465 GLY A 124 REMARK 465 SER A 173 REMARK 465 GLY A 174 REMARK 465 GLN A 175 REMARK 465 SER A 198 REMARK 465 ARG A 199 REMARK 465 ARG A 200 REMARK 465 ASN A 201 REMARK 465 GLY A 202 REMARK 465 GLY A 203 REMARK 465 GLU A 204 REMARK 465 ALA A 205 REMARK 465 LYS A 306 REMARK 465 GLN A 307 REMARK 465 GLU A 308 REMARK 465 GLY A 309 REMARK 465 GLU A 310 REMARK 465 TRP A 311 REMARK 465 PRO A 312 REMARK 465 THR A 313 REMARK 465 GLY A 314 REMARK 465 MET B 75 REMARK 465 ILE B 76 REMARK 465 VAL B 77 REMARK 465 ARG B 78 REMARK 465 SER B 79 REMARK 465 TYR B 109 REMARK 465 GLY B 110 REMARK 465 ILE B 111 REMARK 465 LYS B 112 REMARK 465 ASP B 113 REMARK 465 PRO B 114 REMARK 465 ILE B 115 REMARK 465 TYR B 116 REMARK 465 GLN B 117 REMARK 465 LYS B 118 REMARK 465 THR B 119 REMARK 465 LEU B 120 REMARK 465 ILE B 121 REMARK 465 GLU B 122 REMARK 465 SER B 172 REMARK 465 SER B 173 REMARK 465 GLY B 174 REMARK 465 GLN B 175 REMARK 465 ALA B 176 REMARK 465 CYS B 177 REMARK 465 GLU B 178 REMARK 465 ASN B 179 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 PHE A 80 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 141 CB CG CD CE NZ REMARK 470 SER A 207 OG REMARK 470 ARG B 199 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 200 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 204 CG CD OE1 OE2 REMARK 470 GLU B 211 CD OE1 OE2 REMARK 470 GLU B 310 CG CD OE1 OE2 REMARK 470 TRP B 311 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 311 CZ3 CH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DAL I 3 C GLY I 4 N 0.148 REMARK 500 DAL J 3 C GLY J 4 N 0.143 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 281 -162.20 -129.37 REMARK 500 ARG A 316 73.37 -112.36 REMARK 500 PRO B 140 0.60 -64.95 REMARK 500 ASP B 281 -159.74 -134.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 02U I 1 REMARK 610 02U J 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1B12 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TYPE 1 SIGNAL PEPTIDASE FROM ESCHERICHIA COLI REMARK 900 IN COMPLEX WITH A BETA-LACTAM INHIBITOR REMARK 900 RELATED ID: 1T7D RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ESCHERICHIA COLI TYPE I SIGNAL PEPTIDASE IN REMARK 900 COMPLEX WITH A LIPOPEPTIDE INHIBITOR REMARK 900 RELATED ID: 3IIQ RELATED DB: PDB REMARK 900 CRYSTALLOGRAPHIC ANALYSIS OF BACTERIAL SIGNAL PEPTIDASE IN TERNARY REMARK 900 COMPLEX WITH ARYLOMYCIN A2 AND A BETA-SULTAM INHIBITOR REMARK 900 RELATED ID: 1KN9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BACTERIAL SIGNAL PEPTIDASE APO-ENZYME, REMARK 900 IMPLICATIONS FOR SIGNAL PEPTIDE BINDING AND THE SER-LYS DYAD REMARK 900 MECHANISM. REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE 02V OF CHAIN I AND J IS N-METHYL-DIHYDROXYPHENYLGLYCINE DBREF 3S04 A 76 324 UNP P00803 LEP_ECOLI 76 324 DBREF 3S04 B 76 324 UNP P00803 LEP_ECOLI 76 324 DBREF 3S04 I 2 7 PDB 3S04 3S04 2 7 DBREF 3S04 J 2 7 PDB 3S04 3S04 2 7 SEQADV 3S04 MET A 75 UNP P00803 INITIATING METHIONINE SEQADV 3S04 MET B 75 UNP P00803 INITIATING METHIONINE SEQRES 1 A 250 MET ILE VAL ARG SER PHE ILE TYR GLU PRO PHE GLN ILE SEQRES 2 A 250 PRO SER GLY SER MET MET PRO THR LEU LEU ILE GLY ASP SEQRES 3 A 250 PHE ILE LEU VAL GLU LYS PHE ALA TYR GLY ILE LYS ASP SEQRES 4 A 250 PRO ILE TYR GLN LYS THR LEU ILE GLU THR GLY HIS PRO SEQRES 5 A 250 LYS ARG GLY ASP ILE VAL VAL PHE LYS TYR PRO GLU ASP SEQRES 6 A 250 PRO LYS LEU ASP TYR ILE LYS ARG ALA VAL GLY LEU PRO SEQRES 7 A 250 GLY ASP LYS VAL THR TYR ASP PRO VAL SER LYS GLU LEU SEQRES 8 A 250 THR ILE GLN PRO GLY CYS SER SER GLY GLN ALA CYS GLU SEQRES 9 A 250 ASN ALA LEU PRO VAL THR TYR SER ASN VAL GLU PRO SER SEQRES 10 A 250 ASP PHE VAL GLN THR PHE SER ARG ARG ASN GLY GLY GLU SEQRES 11 A 250 ALA THR SER GLY PHE PHE GLU VAL PRO LYS ASN GLU THR SEQRES 12 A 250 LYS GLU ASN GLY ILE ARG LEU SER GLU ARG LYS GLU THR SEQRES 13 A 250 LEU GLY ASP VAL THR HIS ARG ILE LEU THR VAL PRO ILE SEQRES 14 A 250 ALA GLN ASP GLN VAL GLY MET TYR TYR GLN GLN PRO GLY SEQRES 15 A 250 GLN GLN LEU ALA THR TRP ILE VAL PRO PRO GLY GLN TYR SEQRES 16 A 250 PHE MET MET GLY ASP ASN ARG ASP ASN SER ALA ASP SER SEQRES 17 A 250 ARG TYR TRP GLY PHE VAL PRO GLU ALA ASN LEU VAL GLY SEQRES 18 A 250 ARG ALA THR ALA ILE TRP MET SER PHE ASP LYS GLN GLU SEQRES 19 A 250 GLY GLU TRP PRO THR GLY LEU ARG LEU SER ARG ILE GLY SEQRES 20 A 250 GLY ILE HIS SEQRES 1 B 250 MET ILE VAL ARG SER PHE ILE TYR GLU PRO PHE GLN ILE SEQRES 2 B 250 PRO SER GLY SER MET MET PRO THR LEU LEU ILE GLY ASP SEQRES 3 B 250 PHE ILE LEU VAL GLU LYS PHE ALA TYR GLY ILE LYS ASP SEQRES 4 B 250 PRO ILE TYR GLN LYS THR LEU ILE GLU THR GLY HIS PRO SEQRES 5 B 250 LYS ARG GLY ASP ILE VAL VAL PHE LYS TYR PRO GLU ASP SEQRES 6 B 250 PRO LYS LEU ASP TYR ILE LYS ARG ALA VAL GLY LEU PRO SEQRES 7 B 250 GLY ASP LYS VAL THR TYR ASP PRO VAL SER LYS GLU LEU SEQRES 8 B 250 THR ILE GLN PRO GLY CYS SER SER GLY GLN ALA CYS GLU SEQRES 9 B 250 ASN ALA LEU PRO VAL THR TYR SER ASN VAL GLU PRO SER SEQRES 10 B 250 ASP PHE VAL GLN THR PHE SER ARG ARG ASN GLY GLY GLU SEQRES 11 B 250 ALA THR SER GLY PHE PHE GLU VAL PRO LYS ASN GLU THR SEQRES 12 B 250 LYS GLU ASN GLY ILE ARG LEU SER GLU ARG LYS GLU THR SEQRES 13 B 250 LEU GLY ASP VAL THR HIS ARG ILE LEU THR VAL PRO ILE SEQRES 14 B 250 ALA GLN ASP GLN VAL GLY MET TYR TYR GLN GLN PRO GLY SEQRES 15 B 250 GLN GLN LEU ALA THR TRP ILE VAL PRO PRO GLY GLN TYR SEQRES 16 B 250 PHE MET MET GLY ASP ASN ARG ASP ASN SER ALA ASP SER SEQRES 17 B 250 ARG TYR TRP GLY PHE VAL PRO GLU ALA ASN LEU VAL GLY SEQRES 18 B 250 ARG ALA THR ALA ILE TRP MET SER PHE ASP LYS GLN GLU SEQRES 19 B 250 GLY GLU TRP PRO THR GLY LEU ARG LEU SER ARG ILE GLY SEQRES 20 B 250 GLY ILE HIS SEQRES 1 I 6 DSE DAL GLY 02V ALA TYR SEQRES 1 J 6 DSE DAL GLY 02V ALA TYR HET DSE I 2 7 HET DAL I 3 5 HET 02V I 5 12 HET DSE J 2 7 HET DAL J 3 5 HET 02V J 5 12 HET 02U I 1 3 HET RAM I 8 11 HET RAM J 8 11 HET 02U J 1 3 HETNAM DSE N-METHYL-D-SERINE HETNAM DAL D-ALANINE HETNAM 02V (2S)-(3,4-DIHYDROXYPHENYL)(METHYLAMINO)ETHANOIC ACID HETNAM 02U 14-METHYLHEXADEC-9-ENOIC ACID HETNAM RAM ALPHA-L-RHAMNOPYRANOSE HETSYN RAM ALPHA-L-RHAMNOSE; 6-DEOXY-ALPHA-L-MANNOPYRANOSE; L- HETSYN 2 RAM RHAMNOSE; RHAMNOSE FORMUL 3 DSE 2(C4 H9 N O3) FORMUL 3 DAL 2(C3 H7 N O2) FORMUL 3 02V 2(C9 H11 N O4) FORMUL 5 02U 2(C17 H32 O2) FORMUL 6 RAM 2(C6 H12 O5) FORMUL 9 HOH *57(H2 O) HELIX 1 1 GLN A 247 TYR A 251 5 5 HELIX 2 2 ASP A 281 GLY A 286 1 6 HELIX 3 3 ARG A 316 ILE A 320 5 5 HELIX 4 4 GLN B 247 TYR B 251 5 5 HELIX 5 5 ASP B 281 GLY B 286 1 6 HELIX 6 6 LEU B 317 ILE B 320 5 4 SHEET 1 A 6 VAL A 288 PRO A 289 0 SHEET 2 A 6 GLN A 268 MET A 272 -1 N TYR A 269 O VAL A 288 SHEET 3 A 6 ASP A 143 GLY A 150 -1 N VAL A 149 O PHE A 270 SHEET 4 A 6 ILE A 131 LYS A 135 -1 N PHE A 134 O TYR A 144 SHEET 5 A 6 LEU A 293 SER A 303 -1 O GLY A 295 N VAL A 133 SHEET 6 A 6 GLY A 321 GLY A 322 -1 O GLY A 321 N ILE A 300 SHEET 1 B 8 VAL A 288 PRO A 289 0 SHEET 2 B 8 GLN A 268 MET A 272 -1 N TYR A 269 O VAL A 288 SHEET 3 B 8 ASP A 143 GLY A 150 -1 N VAL A 149 O PHE A 270 SHEET 4 B 8 ILE A 131 LYS A 135 -1 N PHE A 134 O TYR A 144 SHEET 5 B 8 LEU A 293 SER A 303 -1 O GLY A 295 N VAL A 133 SHEET 6 B 8 ASP A 100 LYS A 106 -1 N GLU A 105 O ARG A 296 SHEET 7 B 8 TYR A 82 GLN A 86 -1 N PHE A 85 O ILE A 102 SHEET 8 B 8 GLY J 4 02V J 5 1 O GLY J 4 N GLN A 86 SHEET 1 C 3 GLU A 164 GLN A 168 0 SHEET 2 C 3 LYS A 155 ASP A 159 -1 N LYS A 155 O GLN A 168 SHEET 3 C 3 THR A 261 ILE A 263 -1 O TRP A 262 N VAL A 156 SHEET 1 D 8 GLY A 208 GLU A 211 0 SHEET 2 D 8 GLU A 189 THR A 196 -1 N VAL A 194 O PHE A 210 SHEET 3 D 8 GLY A 221 LEU A 231 -1 O ILE A 222 N GLN A 195 SHEET 4 D 8 VAL A 183 SER A 186 -1 N THR A 184 O THR A 230 SHEET 5 D 8 VAL B 183 SER B 186 -1 O TYR B 185 N TYR A 185 SHEET 6 D 8 ILE B 222 LEU B 231 -1 O THR B 230 N THR B 184 SHEET 7 D 8 GLU B 189 ARG B 199 -1 N GLN B 195 O ILE B 222 SHEET 8 D 8 ALA B 205 GLU B 211 -1 O GLY B 208 N THR B 196 SHEET 1 E 6 VAL A 234 THR A 240 0 SHEET 2 E 6 GLY A 221 LEU A 231 -1 N SER A 225 O THR A 240 SHEET 3 E 6 VAL A 183 SER A 186 -1 N THR A 184 O THR A 230 SHEET 4 E 6 VAL B 183 SER B 186 -1 O TYR B 185 N TYR A 185 SHEET 5 E 6 ILE B 222 LEU B 231 -1 O THR B 230 N THR B 184 SHEET 6 E 6 VAL B 234 THR B 240 -1 O HIS B 236 N GLU B 229 SHEET 1 F 6 VAL B 288 PRO B 289 0 SHEET 2 F 6 GLN B 268 MET B 272 -1 N TYR B 269 O VAL B 288 SHEET 3 F 6 ASP B 143 GLY B 150 -1 N GLY B 150 O PHE B 270 SHEET 4 F 6 ILE B 131 LYS B 135 -1 N PHE B 134 O TYR B 144 SHEET 5 F 6 LEU B 293 ASP B 305 -1 O GLY B 295 N VAL B 133 SHEET 6 F 6 GLY B 321 GLY B 322 -1 O GLY B 321 N ILE B 300 SHEET 1 G 5 GLY B 314 LEU B 315 0 SHEET 2 G 5 LEU B 293 ASP B 305 -1 N ASP B 305 O GLY B 314 SHEET 3 G 5 ASP B 100 LYS B 106 -1 N GLU B 105 O ARG B 296 SHEET 4 G 5 TYR B 82 GLN B 86 -1 N GLU B 83 O VAL B 104 SHEET 5 G 5 GLY I 4 02V I 5 1 O GLY I 4 N GLN B 86 SHEET 1 H 3 GLU B 164 GLN B 168 0 SHEET 2 H 3 LYS B 155 ASP B 159 -1 N ASP B 159 O GLU B 164 SHEET 3 H 3 THR B 261 ILE B 263 -1 O TRP B 262 N VAL B 156 SSBOND 1 CYS A 171 CYS A 177 1555 1555 2.03 LINK C 02U I 1 N DSE I 2 1555 1555 1.35 LINK C DSE I 2 N DAL I 3 1555 1555 1.33 LINK C DAL I 3 N GLY I 4 1555 1555 1.48 LINK C GLY I 4 N 02V I 5 1555 1555 1.34 LINK C 02V I 5 N ALA I 6 1555 1555 1.34 LINK C22 02V I 5 CE1 TYR I 7 1555 1555 1.40 LINK C24 02V I 5 O1 RAM I 8 1555 1555 1.37 LINK C 02U J 1 N DSE J 2 1555 1555 1.35 LINK C DSE J 2 N DAL J 3 1555 1555 1.34 LINK C DAL J 3 N GLY J 4 1555 1555 1.48 LINK C GLY J 4 N 02V J 5 1555 1555 1.34 LINK C 02V J 5 N ALA J 6 1555 1555 1.33 LINK C22 02V J 5 CE1 TYR J 7 1555 1555 1.40 LINK C24 02V J 5 O1 RAM J 8 1555 1555 1.37 CISPEP 1 MET A 93 PRO A 94 0 5.54 CISPEP 2 MET B 93 PRO B 94 0 1.89 CRYST1 72.010 72.010 262.570 90.00 90.00 90.00 P 43 21 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.013887 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013887 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003809 0.00000