HEADER HYDROLASE 02-APR-18 6CXD TITLE CRYSTAL STRUCTURE OF PEPTIDASE B FROM YERSINIA PESTIS CO92 AT 2.75 A TITLE 2 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDASE B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AMINOPEPTIDASE B; COMPND 5 EC: 3.4.11.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA PESTIS CO92; SOURCE 3 ORGANISM_TAXID: 214092; SOURCE 4 GENE: PEPB, YPO2889, Y1342, YP_2566; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-MAGIC; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS PEPTIDASE B, STRUCTURAL GENOMICS, CENTER FOR STRUCTURAL GENOMICS OF KEYWDS 2 INFECTIOUS DISEASES, CSGID, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.WOINSKA,J.LIPOWSKA,I.G.SHABALIN,M.CYMBOROWSKI,S.GRIMSHAW,J.WINSOR, AUTHOR 2 L.SHUVALOVA,K.J.SATCHELL,A.JOACHIMIAK,W.MINOR,CENTER FOR STRUCTURAL AUTHOR 3 GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 4 04-OCT-23 6CXD 1 REMARK REVDAT 3 07-APR-21 6CXD 1 JRNL REVDAT 2 18-DEC-19 6CXD 1 REMARK REVDAT 1 18-APR-18 6CXD 0 JRNL AUTH I.G.SHABALIN,A.GRITSUNOV,J.HOU,J.SLAWEK,C.D.MIKS,D.R.COOPER, JRNL AUTH 2 W.MINOR,D.CHRISTENDAT JRNL TITL STRUCTURAL AND BIOCHEMICAL ANALYSIS OF BACILLUS ANTHRACIS JRNL TITL 2 PREPHENATE DEHYDROGENASE REVEALS AN UNUSUAL MODE OF JRNL TITL 3 INHIBITION BY TYROSINE VIA THE ACT DOMAIN. JRNL REF FEBS J. V. 287 2235 2020 JRNL REFN ISSN 1742-464X JRNL PMID 31750992 JRNL DOI 10.1111/FEBS.15150 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0218 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 11976 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 600 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) : 2.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 758 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.2730 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.3650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3163 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 33 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 60.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.54000 REMARK 3 B22 (A**2) : 0.54000 REMARK 3 B33 (A**2) : -1.74000 REMARK 3 B12 (A**2) : 0.27000 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): 0.363 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.280 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 29.699 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3244 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2957 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4403 ; 1.032 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6839 ; 0.728 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 415 ; 5.853 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;28.706 ;24.552 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 522 ;14.099 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;11.756 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 495 ; 0.058 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3666 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 650 ; 0.001 ; 0.020 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): 1669 ; 3.478 ; 3.443 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1668 ; 3.464 ; 3.441 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2081 ; 5.277 ; 5.152 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2082 ; 5.280 ; 5.154 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1575 ; 4.208 ; 3.716 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1548 ; 3.792 ; 3.644 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2285 ; 5.746 ; 5.352 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3482 ; 8.319 ;39.947 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3483 ; 8.322 ;39.960 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 : 4 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 2 A 141 REMARK 3 ORIGIN FOR THE GROUP (A): 38.4310 46.4610 27.6240 REMARK 3 T TENSOR REMARK 3 T11: 0.0698 T22: 0.0758 REMARK 3 T33: 0.3765 T12: -0.0017 REMARK 3 T13: 0.0425 T23: 0.0277 REMARK 3 L TENSOR REMARK 3 L11: 2.8978 L22: 0.9087 REMARK 3 L33: 2.2440 L12: 0.4233 REMARK 3 L13: 1.9851 L23: 0.6496 REMARK 3 S TENSOR REMARK 3 S11: -0.0289 S12: 0.0253 S13: -0.0342 REMARK 3 S21: 0.0358 S22: 0.0916 S23: -0.2602 REMARK 3 S31: 0.0718 S32: 0.0512 S33: -0.0628 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 142 A 312 REMARK 3 ORIGIN FOR THE GROUP (A): 10.8690 36.9590 14.5370 REMARK 3 T TENSOR REMARK 3 T11: 0.0713 T22: 0.1000 REMARK 3 T33: 0.1196 T12: -0.0128 REMARK 3 T13: 0.0267 T23: -0.0271 REMARK 3 L TENSOR REMARK 3 L11: 3.5669 L22: 2.4912 REMARK 3 L33: 1.6472 L12: -1.0700 REMARK 3 L13: -0.1942 L23: -0.2950 REMARK 3 S TENSOR REMARK 3 S11: -0.0203 S12: 0.2132 S13: 0.0099 REMARK 3 S21: -0.1360 S22: 0.0046 S23: 0.0238 REMARK 3 S31: -0.0265 S32: -0.1122 S33: 0.0157 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 313 A 367 REMARK 3 ORIGIN FOR THE GROUP (A): 12.5310 30.8590 31.8330 REMARK 3 T TENSOR REMARK 3 T11: 0.0406 T22: 0.0140 REMARK 3 T33: 0.1705 T12: -0.0063 REMARK 3 T13: 0.0460 T23: 0.0260 REMARK 3 L TENSOR REMARK 3 L11: 2.3783 L22: 1.2501 REMARK 3 L33: 1.1453 L12: -0.4185 REMARK 3 L13: 0.7966 L23: 0.1590 REMARK 3 S TENSOR REMARK 3 S11: 0.1720 S12: -0.0865 S13: -0.1346 REMARK 3 S21: -0.0151 S22: -0.0640 S23: -0.1000 REMARK 3 S31: 0.1175 S32: -0.1037 S33: -0.1081 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 368 A 432 REMARK 3 ORIGIN FOR THE GROUP (A): 17.0300 34.1870 27.3200 REMARK 3 T TENSOR REMARK 3 T11: 0.1094 T22: 0.0641 REMARK 3 T33: 0.1752 T12: 0.0129 REMARK 3 T13: 0.0527 T23: 0.0233 REMARK 3 L TENSOR REMARK 3 L11: 4.5514 L22: 3.0295 REMARK 3 L33: 1.2099 L12: 2.1604 REMARK 3 L13: 1.1761 L23: 0.4582 REMARK 3 S TENSOR REMARK 3 S11: 0.0901 S12: -0.1625 S13: 0.0560 REMARK 3 S21: 0.1837 S22: -0.1095 S23: 0.1675 REMARK 3 S31: 0.0361 S32: -0.0711 S33: 0.0193 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 6CXD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-18. REMARK 100 THE DEPOSITION ID IS D_1000233599. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : DIAMOND(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 V716.4, DENZO REMARK 200 DATA SCALING SOFTWARE : HKL-3000 V716.4, SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12769 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 10.80 REMARK 200 R MERGE (I) : 0.15200 REMARK 200 R SYM (I) : 0.15200 REMARK 200 FOR THE DATA SET : 16.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.66600 REMARK 200 R SYM FOR SHELL (I) : 0.66600 REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: HKL-3000 V716.4, MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3IJ3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 UL 14 MG/ML PROTEIN IN 20 MM TRIS REMARK 280 -HCL PH 7.5, 150 MM SODIUM CHLORIDE, 10% GLYCEROL, 0.1% SODIUM REMARK 280 AZIDE, 0.5 MM TCEP, 1 MM ZNCL2 + 0.2 UL TOP96 #29 (0.2 M REMARK 280 AMMONIUM SULFATE, 0.1 M SODIUM CACODYLATE, 30% W/V PEG8000) REMARK 280 AGAINST 1.5 M SODIUM CHLORIDE, 96-WELL 3-DROP CRYSTALLIZATION REMARK 280 PLATE (SWISSCI), PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 50.77900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 29.31727 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 80.15833 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 50.77900 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 29.31727 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 80.15833 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 50.77900 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 29.31727 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 80.15833 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 50.77900 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 29.31727 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 80.15833 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 50.77900 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 29.31727 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 80.15833 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 50.77900 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 29.31727 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 80.15833 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 58.63454 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 160.31667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 58.63454 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 160.31667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 58.63454 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 160.31667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 58.63454 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 160.31667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 58.63454 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 160.31667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 58.63454 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 160.31667 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 25550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 88810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -667.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 BIOMT1 2 -0.500000 -0.866025 0.000000 50.77900 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 87.95181 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -50.77900 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 87.95181 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 -50.77900 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 29.31727 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 80.15833 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 117.26908 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 80.15833 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 50.77900 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 29.31727 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 80.15833 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 S SO4 A 505 LIES ON A SPECIAL POSITION. REMARK 375 O2 SO4 A 505 LIES ON A SPECIAL POSITION. 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 -23 REMARK 465 HIS A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 GLY A -14 REMARK 465 VAL A -13 REMARK 465 ASP A -12 REMARK 465 LEU A -11 REMARK 465 GLY A -10 REMARK 465 THR A -9 REMARK 465 GLU A -8 REMARK 465 ASN A -7 REMARK 465 LEU A -6 REMARK 465 TYR A -5 REMARK 465 PHE A -4 REMARK 465 GLN A -3 REMARK 465 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 MET A 1 REMARK 465 GLY A 204 REMARK 465 TYR A 205 REMARK 465 SER A 206 REMARK 465 LEU A 207 REMARK 465 LYS A 208 REMARK 465 GLN A 209 REMARK 465 SER A 210 REMARK 465 ALA A 211 REMARK 465 PHE A 212 REMARK 465 MET A 213 REMARK 465 GLY A 308 REMARK 465 ALA A 309 REMARK 465 ALA A 310 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 ASP A 214 CG OD1 OD2 REMARK 470 LYS A 311 CG CD CE NZ REMARK 470 GLU A 327 CG CD OE1 OE2 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 THR A 3 -134.05 44.27 REMARK 500 ASN A 28 -154.53 -137.86 REMARK 500 THR A 37 -164.63 -111.72 REMARK 500 SER A 139 96.82 -170.61 REMARK 500 SER A 372 85.79 -41.34 REMARK 500 ASN A 388 73.29 -110.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 506 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: CSGID-IDP04127 RELATED DB: TARGETTRACK DBREF 6CXD A 1 432 UNP P58475 PEPB_YERPE 1 432 SEQADV 6CXD MET A -23 UNP P58475 EXPRESSION TAG SEQADV 6CXD HIS A -22 UNP P58475 EXPRESSION TAG SEQADV 6CXD HIS A -21 UNP P58475 EXPRESSION TAG SEQADV 6CXD HIS A -20 UNP P58475 EXPRESSION TAG SEQADV 6CXD HIS A -19 UNP P58475 EXPRESSION TAG SEQADV 6CXD HIS A -18 UNP P58475 EXPRESSION TAG SEQADV 6CXD HIS A -17 UNP P58475 EXPRESSION TAG SEQADV 6CXD SER A -16 UNP P58475 EXPRESSION TAG SEQADV 6CXD SER A -15 UNP P58475 EXPRESSION TAG SEQADV 6CXD GLY A -14 UNP P58475 EXPRESSION TAG SEQADV 6CXD VAL A -13 UNP P58475 EXPRESSION TAG SEQADV 6CXD ASP A -12 UNP P58475 EXPRESSION TAG SEQADV 6CXD LEU A -11 UNP P58475 EXPRESSION TAG SEQADV 6CXD GLY A -10 UNP P58475 EXPRESSION TAG SEQADV 6CXD THR A -9 UNP P58475 EXPRESSION TAG SEQADV 6CXD GLU A -8 UNP P58475 EXPRESSION TAG SEQADV 6CXD ASN A -7 UNP P58475 EXPRESSION TAG SEQADV 6CXD LEU A -6 UNP P58475 EXPRESSION TAG SEQADV 6CXD TYR A -5 UNP P58475 EXPRESSION TAG SEQADV 6CXD PHE A -4 UNP P58475 EXPRESSION TAG SEQADV 6CXD GLN A -3 UNP P58475 EXPRESSION TAG SEQADV 6CXD SER A -2 UNP P58475 EXPRESSION TAG SEQADV 6CXD ASN A -1 UNP P58475 EXPRESSION TAG SEQADV 6CXD ALA A 0 UNP P58475 EXPRESSION TAG SEQRES 1 A 456 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 456 GLY THR GLU ASN LEU TYR PHE GLN SER ASN ALA MET THR SEQRES 3 A 456 THR GLU ILE MET GLN ILE SER LEU SER HIS ASN PRO ALA SEQRES 4 A 456 ASP ALA ARG TRP GLY GLU LYS ALA LEU ILE SER THR ASN SEQRES 5 A 456 ASP GLN GLY VAL THR ILE HIS LEU THR SER HIS ASP GLN SEQRES 6 A 456 LEU GLY GLY ILE GLN ARG ALA ALA ARG LYS ILE ASP GLY SEQRES 7 A 456 GLN GLY ILE LYS GLN VAL LYS LEU ALA GLY GLU GLY TRP SEQRES 8 A 456 GLY LEU GLU GLN SER TRP ALA PHE TRP GLN GLY PHE ARG SEQRES 9 A 456 GLY PRO LYS GLY GLN ARG SER VAL VAL TRP ALA GLU LEU SEQRES 10 A 456 PRO ALA ASN GLU LYS THR GLU LEU GLU GLN ARG LEU LYS SEQRES 11 A 456 ILE ILE ASP TRP VAL ARG ASP THR ILE ASN ALA PRO ALA SEQRES 12 A 456 GLU ASP LEU GLY PRO GLU GLN LEU ALA LYS ASN ALA ILE SEQRES 13 A 456 ASP LEU LEU CYS ALA VAL SER CYS ASP ALA VAL SER TYR SEQRES 14 A 456 ARG ILE THR LYS GLY GLU ASP LEU ARG GLU GLN ASN TYR SEQRES 15 A 456 ALA GLY ILE TYR THR VAL GLY ARG GLY SER ASP ARG ALA SEQRES 16 A 456 PRO VAL LEU LEU ALA LEU ASP TYR ASN PRO THR GLY ASN SEQRES 17 A 456 PRO ASP ALA PRO VAL MET ALA CYS LEU VAL GLY LYS GLY SEQRES 18 A 456 ILE THR PHE ASP SER GLY GLY TYR SER LEU LYS GLN SER SEQRES 19 A 456 ALA PHE MET ASP SER MET LYS SER ASP MET GLY GLY ALA SEQRES 20 A 456 ALA THR LEU THR GLY ALA LEU ALA LEU ALA ALA ALA ARG SEQRES 21 A 456 GLY LEU LYS GLU ARG VAL LYS LEU TYR LEU CYS CYS ALA SEQRES 22 A 456 ASP ASN MET VAL SER GLY ASN ALA PHE LYS LEU GLY ASP SEQRES 23 A 456 ILE ILE ARG TYR ARG ASN GLY LYS THR VAL GLU ILE MET SEQRES 24 A 456 ASN THR ASP ALA GLU GLY ARG LEU VAL LEU ALA ASP GLY SEQRES 25 A 456 LEU ILE ASP ALA SER GLU GLN ASN ALA PRO LEU ILE ILE SEQRES 26 A 456 ASP ALA ALA THR LEU THR GLY ALA ALA LYS THR ALA LEU SEQRES 27 A 456 GLY ASN ASP TYR HIS ALA LEU PHE SER PHE ASP ASP GLU SEQRES 28 A 456 LEU ALA GLN ALA LEU LEU ASN SER ALA HIS SER GLU HIS SEQRES 29 A 456 GLU LEU PHE TRP ARG LEU PRO LEU ALA GLU PHE HIS ARG SEQRES 30 A 456 SER GLN LEU PRO SER ASN PHE ALA GLU LEU ASN ASN VAL SEQRES 31 A 456 ALA GLY GLY ALA TYR SER ALA GLY ALA SER THR ALA ALA SEQRES 32 A 456 ALA PHE LEU SER HIS PHE VAL LYS ASN TYR GLN GLN GLY SEQRES 33 A 456 TRP LEU HIS ILE ASP CYS SER ALA THR TYR ARG LYS SER SEQRES 34 A 456 ALA VAL ASP GLN TRP SER ALA GLY ALA THR GLY LEU GLY SEQRES 35 A 456 VAL ARG THR VAL ALA ASN LEU LEU LEU ALA GLN ALA LYS SEQRES 36 A 456 GLN HET SO4 A 501 5 HET SO4 A 502 5 HET SO4 A 503 5 HET SO4 A 504 5 HET SO4 A 505 5 HET SO4 A 506 5 HETNAM SO4 SULFATE ION FORMUL 2 SO4 6(O4 S 2-) FORMUL 8 HOH *33(H2 O) HELIX 1 AA1 ASP A 16 GLY A 20 5 5 HELIX 2 AA2 ASP A 40 GLN A 55 1 16 HELIX 3 AA3 GLY A 68 ARG A 80 1 13 HELIX 4 AA4 PRO A 94 ALA A 117 1 24 HELIX 5 AA5 PRO A 118 LEU A 122 5 5 HELIX 6 AA6 GLY A 123 SER A 139 1 17 HELIX 7 AA7 GLY A 150 GLN A 156 1 7 HELIX 8 AA8 TYR A 158 GLY A 165 1 8 HELIX 9 AA9 ASP A 214 ASP A 219 5 6 HELIX 10 AB1 MET A 220 ARG A 236 1 17 HELIX 11 AB2 SER A 254 PHE A 258 5 5 HELIX 12 AB3 GLU A 280 GLU A 294 1 15 HELIX 13 AB4 ASP A 325 GLU A 339 1 15 HELIX 14 AB5 ALA A 349 GLN A 355 5 7 HELIX 15 AB6 GLY A 374 HIS A 384 1 11 HELIX 16 AB7 GLY A 418 ALA A 430 1 13 SHEET 1 AA1 5 ILE A 25 THR A 27 0 SHEET 2 AA1 5 VAL A 32 HIS A 35 -1 O THR A 33 N SER A 26 SHEET 3 AA1 5 MET A 6 SER A 11 1 N SER A 9 O ILE A 34 SHEET 4 AA1 5 GLN A 59 LEU A 62 1 O LYS A 61 N MET A 6 SHEET 5 AA1 5 SER A 87 VAL A 89 1 O VAL A 89 N VAL A 60 SHEET 1 AA2 8 VAL A 143 LYS A 149 0 SHEET 2 AA2 8 VAL A 173 TYR A 179 -1 O ASP A 178 N SER A 144 SHEET 3 AA2 8 ARG A 241 ASN A 251 -1 O VAL A 242 N TYR A 179 SHEET 4 AA2 8 VAL A 189 ASP A 201 1 N LEU A 193 O TYR A 245 SHEET 5 AA2 8 LEU A 299 ALA A 304 1 O ILE A 301 N VAL A 194 SHEET 6 AA2 8 TRP A 393 ASP A 397 1 O ILE A 396 N ASP A 302 SHEET 7 AA2 8 HIS A 319 PHE A 322 -1 N PHE A 322 O HIS A 395 SHEET 8 AA2 8 PHE A 343 ARG A 345 1 O TRP A 344 N HIS A 319 SHEET 1 AA3 3 ILE A 263 ARG A 265 0 SHEET 2 AA3 3 THR A 271 GLU A 273 -1 O VAL A 272 N ILE A 264 SHEET 3 AA3 3 LEU A 363 ASN A 364 1 O LEU A 363 N GLU A 273 SHEET 1 AA4 2 TYR A 402 ARG A 403 0 SHEET 2 AA4 2 GLY A 413 ALA A 414 -1 O GLY A 413 N ARG A 403 SITE 1 AC1 6 GLU A 70 GLU A 100 ARG A 104 ARG A 236 SITE 2 AC1 6 GLU A 339 ARG A 420 SITE 1 AC2 3 LYS A 270 ARG A 353 HIS A 384 SITE 1 AC3 8 LYS A 196 ASP A 278 ALA A 279 GLU A 280 SITE 2 AC3 8 GLY A 281 ARG A 282 LEU A 306 THR A 307 SITE 1 AC4 5 SER A 202 MET A 252 VAL A 253 SER A 254 SITE 2 AC4 5 GLY A 255 SITE 1 AC5 1 ASN A 256 SITE 1 AC6 5 ASP A 16 ARG A 18 TRP A 19 SER A 26 SITE 2 AC6 5 ASN A 28 CRYST1 101.558 101.558 240.475 90.00 90.00 120.00 H 3 2 18 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 0.009847 0.005685 0.000000 0.00000 SCALE2 0.000000 0.011370 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004158 0.00000