HEADER TRANSFERASE/ANTIBIOTIC 22-MAR-16 5IWU TITLE MACROLIDE 2'-PHOSPHOTRANSFERASE TYPE II COMPLEXED WITH ERYTHROMYCIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: MACROLIDE 2'-PHOSPHOTRANSFERASE II; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MACROLIDE 2'-PHOSPHOTRANSFERASE II PROTEIN MPHB,MACROLIDE 2- COMPND 5 PHOSPHOTRANSFERASE,MPH(B); COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: MPHB, PO103_99; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS MACROLIDE PHOSPHOTRANSFERASE, KINASE, TRANSFERASE, TRANSFERASE- KEYWDS 2 ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.M.BERGHUIS,D.H.FONG REVDAT 6 27-SEP-23 5IWU 1 LINK REVDAT 5 08-JAN-20 5IWU 1 REMARK REVDAT 4 13-SEP-17 5IWU 1 REMARK REVDAT 3 17-MAY-17 5IWU 1 JRNL REVDAT 2 03-MAY-17 5IWU 1 JRNL REVDAT 1 26-APR-17 5IWU 0 JRNL AUTH D.H.FONG,D.L.BURK,J.BLANCHET,A.Y.YAN,A.M.BERGHUIS JRNL TITL STRUCTURAL BASIS FOR KINASE-MEDIATED MACROLIDE ANTIBIOTIC JRNL TITL 2 RESISTANCE. JRNL REF STRUCTURE V. 25 750 2017 JRNL REFN ISSN 1878-4186 JRNL PMID 28416110 JRNL DOI 10.1016/J.STR.2017.03.007 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.79 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 77513 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.159 REMARK 3 R VALUE (WORKING SET) : 0.158 REMARK 3 FREE R VALUE : 0.171 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.580 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 41.8077 - 3.1326 1.00 5827 155 0.1588 0.1641 REMARK 3 2 3.1326 - 2.4866 1.00 5621 148 0.1606 0.1537 REMARK 3 3 2.4866 - 2.1723 1.00 5569 147 0.1421 0.1736 REMARK 3 4 2.1723 - 1.9736 1.00 5514 147 0.1394 0.1448 REMARK 3 5 1.9736 - 1.8322 1.00 5521 146 0.1457 0.1720 REMARK 3 6 1.8322 - 1.7242 1.00 5490 146 0.1490 0.1805 REMARK 3 7 1.7242 - 1.6378 1.00 5501 145 0.1425 0.1714 REMARK 3 8 1.6378 - 1.5665 1.00 5447 145 0.1438 0.1936 REMARK 3 9 1.5665 - 1.5062 1.00 5472 145 0.1543 0.1723 REMARK 3 10 1.5062 - 1.4542 1.00 5489 144 0.1757 0.1843 REMARK 3 11 1.4542 - 1.4088 1.00 5434 145 0.1851 0.1909 REMARK 3 12 1.4088 - 1.3685 0.97 5273 139 0.2144 0.2206 REMARK 3 13 1.3685 - 1.3325 0.91 4947 132 0.2408 0.2470 REMARK 3 14 1.3325 - 1.2999 0.81 4408 116 0.2651 0.2722 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.100 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.39 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 2678 REMARK 3 ANGLE : 1.082 3657 REMARK 3 CHIRALITY : 0.056 398 REMARK 3 PLANARITY : 0.005 470 REMARK 3 DIHEDRAL : 12.382 976 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 1:14) REMARK 3 ORIGIN FOR THE GROUP (A): 8.9723 -14.5385 52.3913 REMARK 3 T TENSOR REMARK 3 T11: 0.4419 T22: 0.2987 REMARK 3 T33: 0.2464 T12: 0.0346 REMARK 3 T13: 0.0000 T23: 0.0561 REMARK 3 L TENSOR REMARK 3 L11: 4.6670 L22: 3.0059 REMARK 3 L33: 2.4294 L12: 2.2984 REMARK 3 L13: -1.6654 L23: -0.8010 REMARK 3 S TENSOR REMARK 3 S11: -0.0891 S12: -0.4252 S13: -0.7165 REMARK 3 S21: 0.5679 S22: 0.0638 S23: 0.0696 REMARK 3 S31: 0.5425 S32: -0.0089 S33: 0.0912 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 15:95) REMARK 3 ORIGIN FOR THE GROUP (A): 7.8712 -7.5071 39.0546 REMARK 3 T TENSOR REMARK 3 T11: 0.1056 T22: 0.1192 REMARK 3 T33: 0.0934 T12: 0.0020 REMARK 3 T13: -0.0052 T23: -0.0178 REMARK 3 L TENSOR REMARK 3 L11: 1.1813 L22: 1.3429 REMARK 3 L33: 1.1189 L12: -0.4926 REMARK 3 L13: 0.2106 L23: -0.0141 REMARK 3 S TENSOR REMARK 3 S11: -0.0714 S12: -0.1836 S13: 0.0087 REMARK 3 S21: 0.2145 S22: 0.0221 S23: -0.0263 REMARK 3 S31: 0.0996 S32: -0.0566 S33: 0.0260 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 96:143) REMARK 3 ORIGIN FOR THE GROUP (A): -5.9695 1.8102 27.2927 REMARK 3 T TENSOR REMARK 3 T11: 0.0670 T22: 0.0617 REMARK 3 T33: 0.0780 T12: -0.0007 REMARK 3 T13: 0.0078 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 1.5362 L22: 0.8362 REMARK 3 L33: 0.8553 L12: -0.3319 REMARK 3 L13: -0.1302 L23: 0.2604 REMARK 3 S TENSOR REMARK 3 S11: -0.0008 S12: 0.0148 S13: 0.1194 REMARK 3 S21: 0.0687 S22: -0.0127 S23: 0.0369 REMARK 3 S31: 0.0145 S32: -0.1287 S33: 0.0133 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 144:191) REMARK 3 ORIGIN FOR THE GROUP (A): -4.3433 -13.9637 8.0081 REMARK 3 T TENSOR REMARK 3 T11: 0.2000 T22: 0.1468 REMARK 3 T33: 0.0638 T12: 0.0374 REMARK 3 T13: 0.0013 T23: -0.0114 REMARK 3 L TENSOR REMARK 3 L11: 1.9595 L22: 1.1958 REMARK 3 L33: 0.7495 L12: 0.1698 REMARK 3 L13: 0.2802 L23: -0.0256 REMARK 3 S TENSOR REMARK 3 S11: 0.1019 S12: 0.3514 S13: -0.1747 REMARK 3 S21: -0.3332 S22: -0.0539 S23: 0.0188 REMARK 3 S31: 0.1499 S32: -0.0164 S33: -0.0164 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 192:252) REMARK 3 ORIGIN FOR THE GROUP (A): -5.0438 0.1182 22.3447 REMARK 3 T TENSOR REMARK 3 T11: 0.0713 T22: 0.0794 REMARK 3 T33: 0.0875 T12: 0.0029 REMARK 3 T13: 0.0160 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 1.0671 L22: 0.9932 REMARK 3 L33: 0.7372 L12: -0.0486 REMARK 3 L13: 0.1986 L23: -0.1272 REMARK 3 S TENSOR REMARK 3 S11: 0.0053 S12: 0.0211 S13: 0.1501 REMARK 3 S21: -0.0359 S22: 0.0031 S23: -0.0066 REMARK 3 S31: 0.0011 S32: -0.0410 S33: -0.0109 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 253:273) REMARK 3 ORIGIN FOR THE GROUP (A): -8.2476 -0.2788 10.8102 REMARK 3 T TENSOR REMARK 3 T11: 0.1347 T22: 0.1530 REMARK 3 T33: 0.1255 T12: 0.0165 REMARK 3 T13: 0.0078 T23: 0.0333 REMARK 3 L TENSOR REMARK 3 L11: 1.0548 L22: 2.5994 REMARK 3 L33: 0.4010 L12: 1.1065 REMARK 3 L13: -0.1681 L23: -0.0787 REMARK 3 S TENSOR REMARK 3 S11: 0.0551 S12: 0.1602 S13: 0.2177 REMARK 3 S21: -0.1213 S22: -0.0202 S23: 0.1921 REMARK 3 S31: 0.0096 S32: -0.0630 S33: 0.0018 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 274:299) REMARK 3 ORIGIN FOR THE GROUP (A): -11.7950 -21.6682 22.6784 REMARK 3 T TENSOR REMARK 3 T11: 0.2521 T22: 0.1396 REMARK 3 T33: 0.1915 T12: -0.0204 REMARK 3 T13: 0.0228 T23: 0.0025 REMARK 3 L TENSOR REMARK 3 L11: 1.4951 L22: 2.2043 REMARK 3 L33: 2.4659 L12: -0.1354 REMARK 3 L13: -0.2583 L23: -1.4711 REMARK 3 S TENSOR REMARK 3 S11: 0.0614 S12: -0.1253 S13: -0.1992 REMARK 3 S21: 0.3153 S22: -0.0391 S23: 0.2804 REMARK 3 S31: -0.1232 S32: -0.0505 S33: -0.0028 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5IWU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000219579. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : DCM REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77516 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 41.786 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.03700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 26.9800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.60400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.890 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5IGU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M CALCIUM ACETATE, 0.1M TRIS, 25 REMARK 280 -40% PEG 4000, PH 7.5, VAPOR DIFFUSION, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 20.08000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.71500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.64500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.71500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.08000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.64500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC 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 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 GLN A 300 REMARK 465 GLY A 301 REMARK 465 SER A 302 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 MET A 1 CG SD CE REMARK 470 SER A 2 OG REMARK 470 ASN A 106 CG OD1 ND2 REMARK 470 ILE A 107 CG1 CG2 CD1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HD21 ASN A 140 O HOH A 510 1.45 REMARK 500 HZ3 LYS A 252 O HOH A 518 1.53 REMARK 500 HZ3 LYS A 263 O HOH A 502 1.57 REMARK 500 O HOH A 702 O HOH A 927 1.74 REMARK 500 OE2 GLU A 21 O HOH A 501 1.87 REMARK 500 NZ LYS A 263 O HOH A 502 1.88 REMARK 500 O HOH A 514 O HOH A 932 1.88 REMARK 500 O HOH A 873 O HOH A 915 1.97 REMARK 500 O1 GOL A 401 O HOH A 503 2.00 REMARK 500 O HOH A 560 O HOH A 771 2.02 REMARK 500 O HOH A 703 O HOH A 921 2.04 REMARK 500 O ILE A 107 O HOH A 504 2.05 REMARK 500 O HOH A 562 O HOH A 848 2.06 REMARK 500 O HOH A 665 O HOH A 1014 2.07 REMARK 500 O HOH A 908 O HOH A 986 2.09 REMARK 500 O HOH A 914 O HOH A 968 2.09 REMARK 500 O HOH A 675 O HOH A 1057 2.11 REMARK 500 O HOH A 876 O HOH A 894 2.11 REMARK 500 OE2 GLU A 10 O HOH A 505 2.12 REMARK 500 O HOH A 1064 O HOH A 1083 2.12 REMARK 500 SD MET A 292 O HOH A 611 2.13 REMARK 500 O HOH A 986 O HOH A 992 2.14 REMARK 500 O HOH A 730 O HOH A 820 2.15 REMARK 500 O HOH A 672 O HOH A 1027 2.15 REMARK 500 OE1 GLU A 222 O HOH A 503 2.16 REMARK 500 O HOH A 714 O HOH A 973 2.19 REMARK 500 O HOH A 898 O HOH A 916 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 889 O HOH A 992 1655 1.95 REMARK 500 O HOH A 849 O HOH A 1015 1455 2.00 REMARK 500 O HOH A 903 O HOH A 969 3555 2.03 REMARK 500 O HOH A 562 O HOH A 567 3555 2.08 REMARK 500 SD MET A 57 O HOH A 504 1655 2.13 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 ASN A 118 67.80 -155.22 REMARK 500 ALA A 144 72.10 -156.45 REMARK 500 ASP A 200 46.20 -141.74 REMARK 500 ASP A 219 75.61 66.01 REMARK 500 THR A 226 -164.32 -163.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1088 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A1089 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A1090 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A1091 DISTANCE = 7.34 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 72 O REMARK 620 2 ASN A 117 O 59.4 REMARK 620 3 HOH A 558 O 60.9 3.1 REMARK 620 4 HOH A 682 O 61.2 1.9 3.5 REMARK 620 5 HOH A 798 O 62.9 4.6 2.1 4.2 REMARK 620 6 HOH A 853 O 57.9 4.6 3.3 6.0 5.2 REMARK 620 7 HOH A 872 O 59.6 5.7 3.2 6.6 4.3 2.2 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ERY A 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5IGU RELATED DB: PDB REMARK 900 5IGU CONTAINS THE SAME PROTEIN WITHOUT COFACTOR OR SUBSTRATE REMARK 900 RELATED ID: 5IGY RELATED DB: PDB REMARK 900 5IGY CONTAINS THE SAME PROTEIN COMPLEXED WITH GDP AND ERYTHROMYCIN REMARK 900 RELATED ID: 5IGW RELATED DB: PDB REMARK 900 5IGW CONTAINS THE SAME PROTEIN COMPLEXED WITH GDP AND CLARITHROMYCIN REMARK 900 RELATED ID: 5IGV RELATED DB: PDB REMARK 900 5IGV CONTAINS THE SAME PROTEIN COMPLEXED WITH GDP AND AZITHROMYCIN REMARK 900 RELATED ID: 5IGZ RELATED DB: PDB REMARK 900 5IGZ CONTAINS THE SAME PROTEIN COMPLEXED WITH GDP AND SPIRAMYCIN REMARK 900 RELATED ID: 5IH0 RELATED DB: PDB REMARK 900 5IH0 CONTAINS A Y92M MUTANT OF THIS PROTEIN COMPLEXED WITH GDP AND REMARK 900 ERYTHROMYCIN REMARK 900 RELATED ID: 5IH1 RELATED DB: PDB REMARK 900 5IH1 CONTAINS THE SAME PROTEIN COMPLEXED WITH GDP AND JOSAMYCIN REMARK 900 RELATED ID: 5IGH RELATED DB: PDB REMARK 900 RELATED ID: 5IGI RELATED DB: PDB REMARK 900 RELATED ID: 5IGJ RELATED DB: PDB REMARK 900 RELATED ID: 5IGP RELATED DB: PDB REMARK 900 RELATED ID: 5IGR RELATED DB: PDB REMARK 900 RELATED ID: 5IGS RELATED DB: PDB REMARK 900 RELATED ID: 5IGT RELATED DB: PDB DBREF 5IWU A 1 302 UNP O32553 O32553_ECOLX 1 302 SEQRES 1 A 302 MET SER LYS ASP ILE LYS GLN VAL ILE GLU ILE ALA LYS SEQRES 2 A 302 LYS HIS ASN LEU PHE LEU LYS GLU GLU THR ILE GLN PHE SEQRES 3 A 302 ASN GLU SER GLY LEU ASP PHE GLN ALA VAL PHE ALA GLN SEQRES 4 A 302 ASP ASN ASN GLY ILE ASP TRP VAL LEU ARG LEU PRO ARG SEQRES 5 A 302 ARG GLU ASP VAL MET PRO ARG THR LYS VAL GLU LYS GLN SEQRES 6 A 302 ALA LEU ASP LEU VAL ASN LYS TYR ALA ILE SER PHE GLN SEQRES 7 A 302 ALA PRO ASN TRP ILE ILE TYR THR GLU GLU LEU ILE ALA SEQRES 8 A 302 TYR LYS LYS LEU ASP GLY VAL PRO ALA GLY THR ILE ASP SEQRES 9 A 302 HIS ASN ILE GLY ASN TYR ILE TRP GLU ILE ASP ILE ASN SEQRES 10 A 302 ASN VAL PRO GLU LEU PHE HIS LYS SER LEU GLY ARG VAL SEQRES 11 A 302 LEU ALA GLU LEU HIS SER ILE PRO SER ASN LYS ALA ALA SEQRES 12 A 302 ALA LEU ASP LEU VAL VAL HIS THR PRO GLU GLU ALA ARG SEQRES 13 A 302 MET SER MET LYS GLN ARG MET ASP ALA VAL ARG ALA LYS SEQRES 14 A 302 PHE GLY VAL GLY GLU ASN LEU TRP ASN ARG TRP GLN ALA SEQRES 15 A 302 TRP LEU ASN ASP ASP ASP MET TRP PRO LYS LYS THR GLY SEQRES 16 A 302 LEU ILE HIS GLY ASP VAL HIS ALA GLY HIS THR MET ILE SEQRES 17 A 302 ASP LYS ASP ALA ASN VAL THR GLY LEU ILE ASP TRP THR SEQRES 18 A 302 GLU ALA LYS VAL THR ASP VAL SER HIS ASP PHE ILE PHE SEQRES 19 A 302 ASN TYR ARG ALA PHE GLY GLU GLU GLY LEU GLU ALA LEU SEQRES 20 A 302 ILE LEU ALA TYR LYS GLU ILE GLY GLY TYR TYR TRP PRO SEQRES 21 A 302 LYS MET LYS GLU HIS ILE ILE GLU LEU ASN ALA ALA TYR SEQRES 22 A 302 PRO VAL SER ILE ALA GLU PHE ALA LEU VAL SER GLY ILE SEQRES 23 A 302 GLU GLU TYR GLU GLN MET ALA LYS GLU ALA LEU GLU VAL SEQRES 24 A 302 GLN GLY SER HET GOL A 401 28 HET ACT A 402 7 HET CA A 403 1 HET ERY A 404 118 HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM CA CALCIUM ION HETNAM ERY ERYTHROMYCIN A HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL C3 H8 O3 FORMUL 3 ACT C2 H3 O2 1- FORMUL 4 CA CA 2+ FORMUL 5 ERY C37 H67 N O13 FORMUL 6 HOH *591(H2 O) HELIX 1 AA1 MET A 1 HIS A 15 1 15 HELIX 2 AA2 LYS A 20 ILE A 24 5 5 HELIX 3 AA3 ASP A 55 ALA A 74 1 20 HELIX 4 AA4 PRO A 120 SER A 136 1 17 HELIX 5 AA5 ILE A 137 ALA A 142 5 6 HELIX 6 AA6 THR A 151 GLY A 171 1 21 HELIX 7 AA7 GLY A 173 ASP A 186 1 14 HELIX 8 AA8 ASP A 187 TRP A 190 5 4 HELIX 9 AA9 ASP A 227 ASP A 231 5 5 HELIX 10 AB1 PHE A 232 ILE A 254 1 23 HELIX 11 AB2 LYS A 261 ALA A 272 1 12 HELIX 12 AB3 ALA A 272 GLY A 285 1 14 HELIX 13 AB4 ILE A 286 LEU A 297 1 12 SHEET 1 AA1 5 GLN A 25 PHE A 26 0 SHEET 2 AA1 5 PHE A 33 GLN A 39 -1 O PHE A 37 N GLN A 25 SHEET 3 AA1 5 ASP A 45 PRO A 51 -1 O TRP A 46 N ALA A 38 SHEET 4 AA1 5 ILE A 90 LYS A 93 -1 O ILE A 90 N ARG A 49 SHEET 5 AA1 5 ILE A 84 TYR A 85 -1 N ILE A 84 O ALA A 91 SHEET 1 AA2 3 VAL A 98 PRO A 99 0 SHEET 2 AA2 3 THR A 206 ILE A 208 -1 O ILE A 208 N VAL A 98 SHEET 3 AA2 3 VAL A 214 LEU A 217 -1 O THR A 215 N MET A 207 SHEET 1 AA3 2 GLY A 101 ASP A 104 0 SHEET 2 AA3 2 ASN A 109 TRP A 112 -1 O ASN A 109 N ASP A 104 SHEET 1 AA4 2 GLY A 195 ILE A 197 0 SHEET 2 AA4 2 LYS A 224 THR A 226 -1 O LYS A 224 N ILE A 197 LINK O LYS A 72 CA CA A 403 1555 1655 2.35 LINK O ASN A 117 CA CA A 403 1555 1555 2.38 LINK CA CA A 403 O HOH A 558 1555 3455 2.33 LINK CA CA A 403 O HOH A 682 1555 1555 2.47 LINK CA CA A 403 O HOH A 798 1555 1555 2.39 LINK CA CA A 403 O HOH A 853 1555 1555 2.53 LINK CA CA A 403 O HOH A 872 1555 1455 2.45 SITE 1 AC1 9 GLY A 199 GLU A 222 LYS A 224 HIS A 230 SITE 2 AC1 9 HOH A 503 HOH A 525 HOH A 597 HOH A 676 SITE 3 AC1 9 HOH A 794 SITE 1 AC2 5 VAL A 47 TYR A 92 ILE A 218 HOH A 589 SITE 2 AC2 5 HOH A 723 SITE 1 AC3 7 LYS A 72 ASN A 117 HOH A 558 HOH A 682 SITE 2 AC3 7 HOH A 798 HOH A 853 HOH A 872 SITE 1 AC4 17 GLY A 108 ASP A 200 VAL A 201 HIS A 202 SITE 2 AC4 17 GLU A 222 HIS A 230 ILE A 233 ARG A 237 SITE 3 AC4 17 TYR A 273 SER A 276 ILE A 277 TYR A 289 SITE 4 AC4 17 MET A 292 HOH A 573 HOH A 597 HOH A 685 SITE 5 AC4 17 HOH A 716 CRYST1 40.160 81.290 97.430 90.00 90.00 90.00 P 21 21 21 4 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 0.024900 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012302 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010264 0.00000