PDB Short entry for 5IGW HEADER TRANSFERASE 28-FEB-16 5IGW TITLE MACROLIDE 2'-PHOSPHOTRANSFERASE TYPE II - COMPLEX WITH GDP AND TITLE 2 CLARITHROMYCIN 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 EXPDTA X-RAY DIFFRACTION AUTHOR A.M.BERGHUIS,D.H.FONG REVDAT 6 27-SEP-23 5IGW 1 LINK REVDAT 5 08-JAN-20 5IGW 1 REMARK REVDAT 4 13-SEP-17 5IGW 1 REMARK REVDAT 3 17-MAY-17 5IGW 1 JRNL REVDAT 2 03-MAY-17 5IGW 1 JRNL REVDAT 1 26-APR-17 5IGW 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. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10PRE_2104 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.45 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.6 REMARK 3 NUMBER OF REFLECTIONS : 17949 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1790 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 37.4526 - 4.9259 1.00 1459 163 0.1563 0.1884 REMARK 3 2 4.9259 - 3.9112 1.00 1372 151 0.1298 0.1913 REMARK 3 3 3.9112 - 3.4172 1.00 1349 151 0.1490 0.2226 REMARK 3 4 3.4172 - 3.1049 0.99 1328 148 0.1683 0.2419 REMARK 3 5 3.1049 - 2.8824 0.99 1325 148 0.1987 0.2350 REMARK 3 6 2.8824 - 2.7126 0.98 1318 143 0.1857 0.2452 REMARK 3 7 2.7126 - 2.5767 0.98 1303 146 0.1815 0.2410 REMARK 3 8 2.5767 - 2.4646 0.98 1297 145 0.1874 0.2675 REMARK 3 9 2.4646 - 2.3697 0.98 1294 137 0.1895 0.2632 REMARK 3 10 2.3697 - 2.2880 0.93 1242 137 0.1768 0.2549 REMARK 3 11 2.2880 - 2.2164 0.89 1158 129 0.1927 0.2877 REMARK 3 12 2.2164 - 2.1531 0.73 953 109 0.2104 0.2931 REMARK 3 13 2.1531 - 2.0964 0.57 761 83 0.2104 0.3069 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.780 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.007 2520 REMARK 3 ANGLE : 0.906 3441 REMARK 3 CHIRALITY : 0.049 381 REMARK 3 PLANARITY : 0.004 430 REMARK 3 DIHEDRAL : 13.760 1449 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 12 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 2:17) REMARK 3 ORIGIN FOR THE GROUP (A): -10.7041 11.8586 51.2394 REMARK 3 T TENSOR REMARK 3 T11: 0.5220 T22: 0.3881 REMARK 3 T33: 0.2554 T12: 0.0523 REMARK 3 T13: 0.1096 T23: -0.0573 REMARK 3 L TENSOR REMARK 3 L11: 0.0635 L22: 0.1209 REMARK 3 L33: 0.0737 L12: -0.0738 REMARK 3 L13: 0.0367 L23: -0.0878 REMARK 3 S TENSOR REMARK 3 S11: -0.0446 S12: -0.0251 S13: 0.4064 REMARK 3 S21: 0.6613 S22: 0.0302 S23: 0.1760 REMARK 3 S31: 0.0464 S32: -0.1610 S33: -0.0101 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 18:28) REMARK 3 ORIGIN FOR THE GROUP (A): -2.7374 7.1523 50.9529 REMARK 3 T TENSOR REMARK 3 T11: 0.5237 T22: 0.3991 REMARK 3 T33: 0.2226 T12: 0.0764 REMARK 3 T13: 0.0127 T23: 0.0854 REMARK 3 L TENSOR REMARK 3 L11: 0.1003 L22: 0.1505 REMARK 3 L33: 0.1088 L12: -0.0304 REMARK 3 L13: -0.0372 L23: 0.1289 REMARK 3 S TENSOR REMARK 3 S11: -0.4698 S12: -0.0570 S13: 0.2259 REMARK 3 S21: 0.6830 S22: 0.1486 S23: -0.0365 REMARK 3 S31: 0.0583 S32: -0.1270 S33: -0.0209 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 29:51) REMARK 3 ORIGIN FOR THE GROUP (A): -5.2584 7.2736 43.9796 REMARK 3 T TENSOR REMARK 3 T11: 0.2713 T22: 0.3211 REMARK 3 T33: -0.0267 T12: 0.1087 REMARK 3 T13: 0.0937 T23: 0.0709 REMARK 3 L TENSOR REMARK 3 L11: 1.0383 L22: 0.9861 REMARK 3 L33: 0.7089 L12: 0.3495 REMARK 3 L13: 0.3837 L23: -0.1522 REMARK 3 S TENSOR REMARK 3 S11: -0.2778 S12: -0.0171 S13: 0.0688 REMARK 3 S21: 0.2450 S22: -0.1139 S23: 0.1555 REMARK 3 S31: 0.0654 S32: 0.5832 S33: -0.2285 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 52:75) REMARK 3 ORIGIN FOR THE GROUP (A): -11.6708 8.5952 28.8219 REMARK 3 T TENSOR REMARK 3 T11: 0.1609 T22: 0.1888 REMARK 3 T33: 0.2608 T12: 0.0037 REMARK 3 T13: 0.0335 T23: -0.0110 REMARK 3 L TENSOR REMARK 3 L11: 0.0662 L22: 0.0253 REMARK 3 L33: 0.0423 L12: -0.0388 REMARK 3 L13: -0.0716 L23: 0.0531 REMARK 3 S TENSOR REMARK 3 S11: -0.0231 S12: -0.0097 S13: -0.0117 REMARK 3 S21: -0.0510 S22: -0.0090 S23: 0.1124 REMARK 3 S31: -0.0246 S32: 0.0155 S33: -0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 76:108) REMARK 3 ORIGIN FOR THE GROUP (A): -4.7153 4.7762 36.7856 REMARK 3 T TENSOR REMARK 3 T11: 0.1829 T22: 0.2030 REMARK 3 T33: 0.2097 T12: 0.0426 REMARK 3 T13: 0.0326 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.2438 L22: 0.4145 REMARK 3 L33: 0.4725 L12: -0.2893 REMARK 3 L13: -0.0978 L23: -0.1072 REMARK 3 S TENSOR REMARK 3 S11: -0.1532 S12: -0.2212 S13: -0.1742 REMARK 3 S21: 0.3476 S22: 0.0988 S23: 0.1507 REMARK 3 S31: 0.2070 S32: 0.0613 S33: -0.0009 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 109:143) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8553 -3.9916 25.0937 REMARK 3 T TENSOR REMARK 3 T11: 0.0924 T22: 0.1595 REMARK 3 T33: 0.1707 T12: 0.0302 REMARK 3 T13: -0.0024 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.3083 L22: 0.2357 REMARK 3 L33: 0.0818 L12: -0.0190 REMARK 3 L13: -0.1612 L23: 0.0298 REMARK 3 S TENSOR REMARK 3 S11: -0.1806 S12: -0.0748 S13: -0.0926 REMARK 3 S21: 0.0363 S22: 0.0198 S23: 0.1383 REMARK 3 S31: 0.0453 S32: 0.0448 S33: -0.0087 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 144:180) REMARK 3 ORIGIN FOR THE GROUP (A): 4.0753 16.1756 9.9476 REMARK 3 T TENSOR REMARK 3 T11: 0.4374 T22: 0.1268 REMARK 3 T33: 0.1214 T12: -0.0139 REMARK 3 T13: 0.0072 T23: 0.0622 REMARK 3 L TENSOR REMARK 3 L11: 0.4586 L22: 0.6244 REMARK 3 L33: 0.5723 L12: -0.2755 REMARK 3 L13: -0.1952 L23: 0.1911 REMARK 3 S TENSOR REMARK 3 S11: 0.1863 S12: 0.3038 S13: 0.1123 REMARK 3 S21: -0.3556 S22: -0.1838 S23: 0.1771 REMARK 3 S31: -0.5885 S32: -0.1704 S33: -0.0264 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 181:190) REMARK 3 ORIGIN FOR THE GROUP (A): 7.8665 8.3678 2.6907 REMARK 3 T TENSOR REMARK 3 T11: 0.4659 T22: 0.2756 REMARK 3 T33: 0.1458 T12: -0.0812 REMARK 3 T13: 0.0339 T23: -0.0214 REMARK 3 L TENSOR REMARK 3 L11: 0.2045 L22: 0.0250 REMARK 3 L33: 0.0090 L12: -0.0672 REMARK 3 L13: 0.0338 L23: -0.0152 REMARK 3 S TENSOR REMARK 3 S11: 0.0209 S12: 0.3556 S13: -0.1946 REMARK 3 S21: -0.1367 S22: -0.1179 S23: 0.0511 REMARK 3 S31: -0.0464 S32: -0.1534 S33: 0.0011 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 191:240) REMARK 3 ORIGIN FOR THE GROUP (A): 3.3918 1.4894 23.4454 REMARK 3 T TENSOR REMARK 3 T11: 0.0865 T22: 0.1286 REMARK 3 T33: 0.1264 T12: 0.0084 REMARK 3 T13: -0.0112 T23: 0.0004 REMARK 3 L TENSOR REMARK 3 L11: 0.6118 L22: 0.6797 REMARK 3 L33: 0.2189 L12: -0.1369 REMARK 3 L13: -0.2815 L23: 0.3149 REMARK 3 S TENSOR REMARK 3 S11: -0.1383 S12: -0.0943 S13: -0.0689 REMARK 3 S21: -0.0356 S22: 0.1166 S23: 0.0801 REMARK 3 S31: -0.0465 S32: 0.0165 S33: 0.0000 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 241:271) REMARK 3 ORIGIN FOR THE GROUP (A): 8.8667 -3.0430 12.4343 REMARK 3 T TENSOR REMARK 3 T11: 0.1492 T22: 0.1748 REMARK 3 T33: 0.1752 T12: -0.0163 REMARK 3 T13: 0.0139 T23: -0.0214 REMARK 3 L TENSOR REMARK 3 L11: 0.1702 L22: 0.2547 REMARK 3 L33: 0.2391 L12: -0.1952 REMARK 3 L13: -0.0056 L23: -0.0915 REMARK 3 S TENSOR REMARK 3 S11: -0.0149 S12: 0.1120 S13: -0.0812 REMARK 3 S21: -0.2376 S22: 0.0711 S23: -0.1449 REMARK 3 S31: 0.0007 S32: 0.1649 S33: -0.0001 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN A AND RESID 272:289) REMARK 3 ORIGIN FOR THE GROUP (A): 8.4598 20.3510 23.5820 REMARK 3 T TENSOR REMARK 3 T11: 0.6428 T22: 0.2042 REMARK 3 T33: 0.2402 T12: 0.0753 REMARK 3 T13: -0.1310 T23: -0.0440 REMARK 3 L TENSOR REMARK 3 L11: 0.1609 L22: 0.4089 REMARK 3 L33: 0.3504 L12: 0.0451 REMARK 3 L13: 0.0834 L23: 0.3870 REMARK 3 S TENSOR REMARK 3 S11: -0.4920 S12: -0.2278 S13: 0.3432 REMARK 3 S21: 0.3683 S22: 0.3550 S23: -0.3918 REMARK 3 S31: -0.2301 S32: 0.1901 S33: 0.0145 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN A AND RESID 290:299) REMARK 3 ORIGIN FOR THE GROUP (A): 16.6854 22.2642 20.0029 REMARK 3 T TENSOR REMARK 3 T11: 0.4866 T22: 0.3319 REMARK 3 T33: 0.5850 T12: -0.0464 REMARK 3 T13: -0.1369 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 0.0011 L22: 0.0406 REMARK 3 L33: 0.0192 L12: -0.0012 REMARK 3 L13: 0.0019 L23: -0.0295 REMARK 3 S TENSOR REMARK 3 S11: 0.3358 S12: -0.1789 S13: 0.2126 REMARK 3 S21: -0.5396 S22: 0.0400 S23: 0.1288 REMARK 3 S31: -0.2023 S32: -0.2194 S33: 0.0029 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 5IGW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAR-16. REMARK 100 THE DEPOSITION ID IS D_1000218810. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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 RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944+ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18372 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.096 REMARK 200 RESOLUTION RANGE LOW (A) : 37.447 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.18000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH 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 (%): 47.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 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 20.08650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.79000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.55150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.79000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.08650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.55150 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 MET A 1 REMARK 465 ASN A 106 REMARK 465 ILE A 107 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 LYS A 3 CG CD CE NZ REMARK 470 LYS A 6 CG CD CE NZ REMARK 470 GLN A 7 CG CD OE1 NE2 REMARK 470 LYS A 13 CG CD CE NZ REMARK 470 LYS A 14 CG CD CE NZ REMARK 470 LEU A 31 CG CD1 CD2 REMARK 470 ARG A 52 CG CD NE CZ NH1 NH2 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 O HOH A 518 O HOH A 698 1.68 REMARK 500 O HOH A 661 O HOH A 753 1.81 REMARK 500 O LEU A 95 O HOH A 501 1.88 REMARK 500 O HOH A 577 O HOH A 699 1.89 REMARK 500 O HOH A 701 O HOH A 751 1.95 REMARK 500 OE1 GLU A 87 O HOH A 502 2.07 REMARK 500 O HOH A 772 O HOH A 778 2.07 REMARK 500 O HOH A 623 O HOH A 680 2.08 REMARK 500 OD2 ASP A 164 O HOH A 503 2.10 REMARK 500 OE2 GLU A 154 O HOH A 504 2.11 REMARK 500 O HOH A 713 O HOH A 739 2.15 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 528 O HOH A 584 1455 2.17 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 GLU A 28 120.50 48.14 REMARK 500 ASP A 200 42.41 -142.08 REMARK 500 ASP A 219 83.90 58.73 REMARK 500 THR A 226 -164.61 -163.58 REMARK 500 SER A 284 -25.99 -145.99 REMARK 500 SER A 284 -25.18 -146.36 REMARK 500 REMARK 500 REMARK: NULL 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 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 219 OD1 REMARK 620 2 ASP A 219 OD2 49.2 REMARK 620 3 THR A 221 OG1 81.3 127.0 REMARK 620 4 HOH A 526 O 68.8 72.0 73.4 REMARK 620 5 HOH A 563 O 72.2 80.1 104.4 140.9 REMARK 620 6 HOH A 590 O 127.3 80.0 151.4 112.8 88.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 219 OD2 REMARK 620 2 GDP A 401 O3B 100.8 REMARK 620 3 GDP A 401 O1A 77.9 77.1 REMARK 620 4 HOH A 637 O 177.5 79.4 99.7 REMARK 620 5 HOH A 675 O 84.1 98.5 160.2 98.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CTY A 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5IGU RELATED DB: PDB REMARK 900 RELATED ID: 5IGV RELATED DB: PDB REMARK 900 RELATED ID: 5IGY RELATED DB: PDB REMARK 900 RELATED ID: 5IGZ RELATED DB: PDB REMARK 900 RELATED ID: 5IH0 RELATED DB: PDB REMARK 900 RELATED ID: 5IH1 RELATED DB: PDB DBREF 5IGW 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 GDP A 401 28 HET MG A 402 1 HET MG A 403 1 HET CTY A 404 52 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CTY CLARITHROMYCIN FORMUL 2 GDP C10 H15 N5 O11 P2 FORMUL 3 MG 2(MG 2+) FORMUL 5 CTY C38 H69 N O13 FORMUL 6 HOH *301(H2 O) HELIX 1 AA1 SER A 2 HIS A 15 1 14 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 ASN A 185 1 13 HELIX 8 AA8 ASP A 186 TRP A 190 5 5 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 VAL A 283 1 12 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 LEU A 48 N VAL A 36 SHEET 4 AA1 5 ILE A 90 LYS A 93 -1 O TYR A 92 N VAL A 47 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 ILE A 103 0 SHEET 2 AA3 2 TYR A 110 TRP A 112 -1 O ILE A 111 N THR A 102 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 OD1 ASP A 219 MG MG A 402 1555 1555 2.56 LINK OD2 ASP A 219 MG MG A 402 1555 1555 2.70 LINK OD2 ASP A 219 MG MG A 403 1555 1555 2.22 LINK OG1 THR A 221 MG MG A 402 1555 1555 2.69 LINK O3B GDP A 401 MG MG A 403 1555 1555 2.32 LINK O1A GDP A 401 MG MG A 403 1555 1555 2.23 LINK MG MG A 402 O HOH A 526 1555 1555 2.64 LINK MG MG A 402 O HOH A 563 1555 1555 2.43 LINK MG MG A 402 O HOH A 590 1555 1555 2.35 LINK MG MG A 403 O HOH A 637 1555 1555 2.12 LINK MG MG A 403 O HOH A 675 1555 1555 2.14 CISPEP 1 SER A 29 GLY A 30 0 4.30 SITE 1 AC1 21 ASN A 27 PHE A 33 PHE A 37 ARG A 49 SITE 2 AC1 21 TYR A 92 LYS A 94 LEU A 95 HIS A 205 SITE 3 AC1 21 ILE A 218 ASP A 219 MG A 403 HOH A 501 SITE 4 AC1 21 HOH A 529 HOH A 563 HOH A 567 HOH A 570 SITE 5 AC1 21 HOH A 590 HOH A 623 HOH A 634 HOH A 637 SITE 6 AC1 21 HOH A 700 SITE 1 AC2 5 ASP A 219 THR A 221 HOH A 526 HOH A 563 SITE 2 AC2 5 HOH A 590 SITE 1 AC3 5 HIS A 205 ASP A 219 GDP A 401 HOH A 637 SITE 2 AC3 5 HOH A 675 SITE 1 AC4 14 GLY A 108 ASP A 200 VAL A 201 HIS A 202 SITE 2 AC4 14 GLU A 222 ILE A 233 ARG A 237 SER A 276 SITE 3 AC4 14 ILE A 277 HOH A 516 HOH A 533 HOH A 544 SITE 4 AC4 14 HOH A 545 HOH A 628 CRYST1 40.173 81.103 97.580 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 0.024892 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012330 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010248 0.00000