HEADER HYDROLASE 04-APR-21 7MDE TITLE FULL-LENGTH S95A CLBP COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.2.6; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI CFT073; SOURCE 3 ORGANISM_TAXID: 199310; SOURCE 4 STRAIN: CFT073; SOURCE 5 GENE: CLBP, D3C88_24740, E3O05_09835, E4T84_20050, ELT23_23600, SOURCE 6 ELT33_24260, ELT38_03835, ELY31_20780, EPS76_05775, EQO00_10370, SOURCE 7 EWK56_23765, FPI65_12330, HMV41_21265, HMW38_10385, IFB95_001925; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VARIANT: C41; SOURCE 12 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 13 EXPRESSION_SYSTEM_PLASMID: PET29B KEYWDS COLIBACTIN PEPTIDASE, S12 PEPTIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.A.VELILLA,M.R.VOLPE,R.GAUDET REVDAT 6 13-NOV-24 7MDE 1 REMARK REVDAT 5 15-NOV-23 7MDE 1 REMARK REVDAT 4 25-OCT-23 7MDE 1 REMARK REVDAT 3 08-FEB-23 7MDE 1 JRNL REVDAT 2 09-NOV-22 7MDE 1 JRNL REVDAT 1 28-SEP-22 7MDE 0 JRNL AUTH J.A.VELILLA,M.R.VOLPE,G.E.KENNEY,R.M.WALSH JR.,E.P.BALSKUS, JRNL AUTH 2 R.GAUDET JRNL TITL STRUCTURAL BASIS OF COLIBACTIN ACTIVATION BY THE CLBP JRNL TITL 2 PEPTIDASE. JRNL REF NAT.CHEM.BIOL. V. 19 151 2023 JRNL REFN ESSN 1552-4469 JRNL PMID 36253550 JRNL DOI 10.1038/S41589-022-01142-Z REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 25074 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 751 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 48.7400 - 5.8100 0.99 4498 136 0.1644 0.2090 REMARK 3 2 5.8100 - 4.6200 1.00 4506 129 0.1560 0.1808 REMARK 3 3 4.6200 - 4.0300 1.00 4485 142 0.1330 0.1876 REMARK 3 4 4.0300 - 3.6600 1.00 4525 142 0.1598 0.2229 REMARK 3 5 3.6600 - 3.4000 1.00 4519 144 0.1779 0.2095 REMARK 3 6 3.4000 - 3.2000 1.00 4458 142 0.2164 0.2540 REMARK 3 7 3.2000 - 3.0400 1.00 4509 141 0.2375 0.2868 REMARK 3 8 3.0400 - 2.9100 1.00 4485 141 0.2666 0.2946 REMARK 3 9 2.9100 - 2.8000 1.00 4522 133 0.2888 0.3482 REMARK 3 10 2.8000 - 2.7000 1.00 4494 141 0.3187 0.3913 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) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.17 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 3489 REMARK 3 ANGLE : 0.909 4730 REMARK 3 CHIRALITY : 0.051 542 REMARK 3 PLANARITY : 0.008 603 REMARK 3 DIHEDRAL : 15.155 1233 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 35 THROUGH 85 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.4173 35.7798 48.9486 REMARK 3 T TENSOR REMARK 3 T11: 0.2004 T22: 0.3639 REMARK 3 T33: 0.7532 T12: 0.0333 REMARK 3 T13: 0.0782 T23: 0.0046 REMARK 3 L TENSOR REMARK 3 L11: 5.0160 L22: 2.7157 REMARK 3 L33: 4.7504 L12: -0.1405 REMARK 3 L13: 0.4388 L23: -0.6888 REMARK 3 S TENSOR REMARK 3 S11: 0.2201 S12: -0.0511 S13: 0.4772 REMARK 3 S21: 0.0328 S22: -0.1971 S23: -0.5863 REMARK 3 S31: -0.1356 S32: 0.3209 S33: -0.0682 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 86 THROUGH 245 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.1528 23.1802 49.6445 REMARK 3 T TENSOR REMARK 3 T11: 0.2985 T22: 0.2873 REMARK 3 T33: 0.8216 T12: -0.0015 REMARK 3 T13: 0.0262 T23: 0.0111 REMARK 3 L TENSOR REMARK 3 L11: 3.7287 L22: 0.7743 REMARK 3 L33: 0.8777 L12: 0.1210 REMARK 3 L13: 0.0194 L23: 0.0075 REMARK 3 S TENSOR REMARK 3 S11: -0.0683 S12: -0.1409 S13: -0.3328 REMARK 3 S21: 0.1140 S22: 0.0303 S23: 0.1999 REMARK 3 S31: 0.1474 S32: -0.1063 S33: 0.0525 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 246 THROUGH 344 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.0996 32.2604 43.2385 REMARK 3 T TENSOR REMARK 3 T11: 0.1959 T22: 0.3217 REMARK 3 T33: 0.6544 T12: -0.0304 REMARK 3 T13: 0.0309 T23: 0.0039 REMARK 3 L TENSOR REMARK 3 L11: 2.7066 L22: 1.4461 REMARK 3 L33: 0.9235 L12: -0.0980 REMARK 3 L13: 0.3921 L23: 0.1673 REMARK 3 S TENSOR REMARK 3 S11: -0.0336 S12: 0.1524 S13: -0.0932 REMARK 3 S21: -0.1144 S22: 0.0202 S23: -0.0472 REMARK 3 S31: 0.0521 S32: -0.0236 S33: 0.0543 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 345 THROUGH 381 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.1913 42.1743 48.9148 REMARK 3 T TENSOR REMARK 3 T11: 0.2304 T22: 0.3382 REMARK 3 T33: 0.7804 T12: 0.0142 REMARK 3 T13: 0.0072 T23: -0.0582 REMARK 3 L TENSOR REMARK 3 L11: 2.3588 L22: 2.7164 REMARK 3 L33: 5.1444 L12: 0.3014 REMARK 3 L13: -1.2584 L23: -3.5333 REMARK 3 S TENSOR REMARK 3 S11: 0.1943 S12: -0.1761 S13: -0.1024 REMARK 3 S21: 0.3230 S22: -0.0122 S23: 0.0647 REMARK 3 S31: -0.3030 S32: 0.1309 S33: 0.0616 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 382 THROUGH 408 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.5347 41.3817 83.1333 REMARK 3 T TENSOR REMARK 3 T11: 0.9617 T22: 1.0661 REMARK 3 T33: 0.6071 T12: -0.2174 REMARK 3 T13: -0.1312 T23: -0.0190 REMARK 3 L TENSOR REMARK 3 L11: 3.5532 L22: 2.2438 REMARK 3 L33: 7.0863 L12: -1.0546 REMARK 3 L13: -2.2858 L23: 0.2876 REMARK 3 S TENSOR REMARK 3 S11: 0.3569 S12: -1.2886 S13: -0.0572 REMARK 3 S21: 1.2086 S22: -0.1794 S23: -0.5290 REMARK 3 S31: -0.9944 S32: 0.4454 S33: -0.1459 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 433 THROUGH 448 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.4563 29.5498 89.6623 REMARK 3 T TENSOR REMARK 3 T11: 0.7726 T22: 1.2852 REMARK 3 T33: 0.8943 T12: -0.1897 REMARK 3 T13: 0.1487 T23: -0.0942 REMARK 3 L TENSOR REMARK 3 L11: 2.2318 L22: 5.8956 REMARK 3 L33: 4.3348 L12: -1.9899 REMARK 3 L13: 1.0531 L23: -4.9035 REMARK 3 S TENSOR REMARK 3 S11: -0.4716 S12: -0.5178 S13: -0.0547 REMARK 3 S21: -0.1763 S22: 1.2491 S23: -0.8883 REMARK 3 S31: -0.1288 S32: -2.2534 S33: -0.8200 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 449 THROUGH 468 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.0885 30.6653 70.9254 REMARK 3 T TENSOR REMARK 3 T11: 0.5066 T22: 0.9099 REMARK 3 T33: 1.0984 T12: 0.0354 REMARK 3 T13: 0.1196 T23: -0.0216 REMARK 3 L TENSOR REMARK 3 L11: 4.7629 L22: 7.4259 REMARK 3 L33: 9.7614 L12: 4.1856 REMARK 3 L13: -6.4417 L23: -4.1386 REMARK 3 S TENSOR REMARK 3 S11: 0.4352 S12: -0.6819 S13: -0.2762 REMARK 3 S21: 0.5597 S22: -0.7136 S23: 1.8211 REMARK 3 S31: -0.3458 S32: -1.2563 S33: 0.2956 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 469 THROUGH 489 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.9705 33.8247 87.2788 REMARK 3 T TENSOR REMARK 3 T11: 0.8422 T22: 1.3997 REMARK 3 T33: 0.5061 T12: -0.0424 REMARK 3 T13: -0.1881 T23: 0.0363 REMARK 3 L TENSOR REMARK 3 L11: 2.0150 L22: 2.6021 REMARK 3 L33: 2.7085 L12: 0.3182 REMARK 3 L13: 0.4443 L23: 0.4139 REMARK 3 S TENSOR REMARK 3 S11: 0.0841 S12: -0.9546 S13: 0.0941 REMARK 3 S21: 1.2555 S22: 0.2105 S23: 0.2761 REMARK 3 S31: 1.2532 S32: -2.9491 S33: -0.2455 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 7MDE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-21. REMARK 100 THE DEPOSITION ID IS D_1000255897. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4-7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97920 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20190806 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25099 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 48.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.21100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.7400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.80 REMARK 200 R MERGE FOR SHELL (I) : 1.33800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.220 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX 1.19.1-4122-000 REMARK 200 STARTING MODEL: 3O3V REMARK 200 REMARK 200 REMARK: SQUARE PLATES GROWN IN THE SPONGE PHASE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.88 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PRECIPITANT COMPOSITION: 1 PART 0.1M REMARK 280 IMIDAZOLE PH 7.8, 10% (V/V) PEG 400, 150 MM LI2SO4, 5.5 MM (4-(4- REMARK 280 BROMOPHENYL)BUTANOYL)-D-ASPARAGINE PLUS 3.5 PARTS 0.1M TRIS PH REMARK 280 7.4, 28%(V/V) PEG400, 100 MM LI2SO4, 4% (V/V) PPG, LIPIDIC CUBIC REMARK 280 PHASE, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 48.73750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 48.73750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 91.98650 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 48.73750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 48.73750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 91.98650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 48.73750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.73750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 91.98650 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 48.73750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.73750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 91.98650 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 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: DIMERIC 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 97.47500 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 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 HOH A 758 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 813 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 GLN A 31 REMARK 465 GLU A 32 REMARK 465 HIS A 33 REMARK 465 GLU A 34 REMARK 465 ALA A 415 REMARK 465 THR A 416 REMARK 465 ALA A 417 REMARK 465 HIS A 418 REMARK 465 GLY A 419 REMARK 465 PRO A 420 REMARK 465 GLY A 421 REMARK 465 LYS A 422 REMARK 465 GLN A 423 REMARK 465 GLN A 424 REMARK 465 ARG A 425 REMARK 465 LEU A 426 REMARK 465 ARG A 427 REMARK 465 LEU A 428 REMARK 465 ARG A 429 REMARK 465 LEU A 496 REMARK 465 HIS A 497 REMARK 465 ASN A 498 REMARK 465 LYS A 499 REMARK 465 GLU A 500 REMARK 465 TRP A 501 REMARK 465 ASP A 502 REMARK 465 ASP A 503 REMARK 465 GLU A 504 REMARK 465 HIS A 505 REMARK 465 HIS A 506 REMARK 465 HIS A 507 REMARK 465 HIS A 508 REMARK 465 HIS A 509 REMARK 465 HIS A 510 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 PRO A 35 CG CD REMARK 470 LYS A 245 CG CD CE NZ REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 VAL A 404 CG1 CG2 REMARK 470 VAL A 406 CG1 CG2 REMARK 470 ARG A 411 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 412 CG1 CG2 REMARK 470 TYR A 413 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 414 CG CD NE CZ NH1 NH2 REMARK 470 VAL A 430 CG1 CG2 REMARK 470 ARG A 431 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 432 CG OD1 OD2 REMARK 470 TYR A 433 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE A 434 CG1 CG2 CD1 REMARK 470 ILE A 435 CG1 CG2 CD1 REMARK 470 VAL A 439 CG1 CG2 REMARK 470 LEU A 485 CG CD1 CD2 REMARK 470 THR A 486 OG1 CG2 REMARK 470 ASN A 488 CG OD1 ND2 REMARK 470 HIS A 489 CG ND1 CD2 CE1 NE2 REMARK 470 GLN A 490 CG CD OE1 NE2 REMARK 470 ILE A 491 CG1 CG2 CD1 REMARK 470 LYS A 492 CG CD CE NZ REMARK 470 ARG A 493 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 494 CG1 CG2 CD1 REMARK 470 LEU A 495 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 TYR A 375 O - C - N ANGL. DEV. = -21.7 DEGREES 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 LEU A 214 -58.97 -122.27 REMARK 500 ASP A 229 43.03 -92.86 REMARK 500 ASN A 234 -15.89 81.99 REMARK 500 ALA A 261 -25.32 -149.06 REMARK 500 ASP A 300 48.74 -79.93 REMARK 500 ALA A 312 -140.45 -115.73 REMARK 500 ASN A 353 37.98 -95.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TYR A 375 27.28 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 A 878 DISTANCE = 8.33 ANGSTROMS 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 OLC A 601 REMARK 610 OLC A 602 REMARK 610 2PE A 603 REMARK 610 2PE A 604 REMARK 610 2PE A 606 REMARK 610 2PE A 607 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7MDF RELATED DB: PDB REMARK 900 FULL-LENGTH S95A CLBP BOUND TO N-ACYL-D-ASPARAGINE ANALOG REMARK 900 RELATED ID: 7UL6 RELATED DB: PDB REMARK 900 CRYOEM STRUCTURE OF FULL-LENGTH DIMERIC CLBP REMARK 900 RELATED ID: 7MDC RELATED DB: PDB REMARK 900 STRUCTURE OF FULL-LENGTH WILDTYPE CLBP INHIBITED BY BORONIC ACID DBREF 7MDE A 31 504 UNP Q0P7K6 Q0P7K6_ECOLX 31 504 SEQADV 7MDE ALA A 95 UNP Q0P7K6 SER 95 ENGINEERED MUTATION SEQADV 7MDE MSE A 454 UNP Q0P7K6 LEU 454 ENGINEERED MUTATION SEQADV 7MDE MSE A 478 UNP Q0P7K6 ILE 478 ENGINEERED MUTATION SEQADV 7MDE HIS A 505 UNP Q0P7K6 EXPRESSION TAG SEQADV 7MDE HIS A 506 UNP Q0P7K6 EXPRESSION TAG SEQADV 7MDE HIS A 507 UNP Q0P7K6 EXPRESSION TAG SEQADV 7MDE HIS A 508 UNP Q0P7K6 EXPRESSION TAG SEQADV 7MDE HIS A 509 UNP Q0P7K6 EXPRESSION TAG SEQADV 7MDE HIS A 510 UNP Q0P7K6 EXPRESSION TAG SEQRES 1 A 480 GLN GLU HIS GLU PRO ILE GLY ALA GLN ASP GLU ARG LEU SEQRES 2 A 480 SER THR LEU ILE HIS GLN ARG MSE GLN GLU ALA LYS VAL SEQRES 3 A 480 PRO ALA LEU SER VAL SER VAL THR ILE LYS GLY VAL ARG SEQRES 4 A 480 GLN ARG PHE VAL TYR GLY VAL ALA ASP VAL ALA SER GLN SEQRES 5 A 480 LYS ALA ASN THR LEU ASP THR VAL TYR GLU LEU GLY ALA SEQRES 6 A 480 MSE SER LYS ALA PHE THR GLY LEU VAL VAL GLN ILE LEU SEQRES 7 A 480 ILE GLN GLU GLY ARG LEU ARG GLN GLY ASP ASP ILE ILE SEQRES 8 A 480 THR TYR LEU PRO GLU MSE ARG LEU ASN TYR GLN GLY LYS SEQRES 9 A 480 PRO ALA SER LEU THR VAL ALA ASP PHE LEU TYR HIS THR SEQRES 10 A 480 SER GLY LEU PRO PHE SER THR LEU ALA ARG LEU GLU ASN SEQRES 11 A 480 PRO MSE PRO GLY SER ALA VAL ALA GLN GLN LEU ARG ASN SEQRES 12 A 480 GLU ASN LEU LEU PHE ALA PRO GLY ALA LYS PHE SER TYR SEQRES 13 A 480 ALA SER ALA ASN TYR ASP VAL LEU GLY ALA VAL ILE GLU SEQRES 14 A 480 ASN VAL THR GLY LYS THR PHE THR GLU VAL ILE ALA GLU SEQRES 15 A 480 ARG LEU THR GLN PRO LEU GLY MSE SER ALA THR VAL ALA SEQRES 16 A 480 VAL LYS GLY ASP GLU ILE ILE VAL ASN LYS ALA SER GLY SEQRES 17 A 480 TYR LYS LEU GLY PHE GLY LYS PRO VAL LEU PHE HIS ALA SEQRES 18 A 480 PRO LEU ALA ARG ASN HIS VAL PRO ALA ALA TYR ILE HIS SEQRES 19 A 480 SER THR LEU PRO ASP MSE GLU ILE TRP ILE ASP ALA TRP SEQRES 20 A 480 LEU HIS ARG LYS ALA LEU PRO ALA THR LEU ARG GLU ALA SEQRES 21 A 480 MSE SER ASN SER TRP ARG GLY ASN SER ASP VAL PRO LEU SEQRES 22 A 480 ALA ALA ASP ASN ARG ILE LEU TYR ALA SER GLY TRP PHE SEQRES 23 A 480 ILE ASP GLN ASN GLN GLY PRO TYR ILE SER HIS GLY GLY SEQRES 24 A 480 GLN ASN PRO ASN PHE SER SER CYS ILE ALA LEU ARG PRO SEQRES 25 A 480 ASP GLN GLN ILE GLY ILE VAL ALA LEU ALA ASN MSE ASN SEQRES 26 A 480 SER ASN LEU ILE LEU GLN LEU CYS ALA ASP ILE ASP ASN SEQRES 27 A 480 TYR LEU ARG ILE GLY LYS TYR ALA ASP GLY ALA GLY ASP SEQRES 28 A 480 ALA ILE THR ALA THR ASP THR LEU PHE VAL TYR LEU THR SEQRES 29 A 480 LEU LEU LEU CYS PHE TRP GLY ALA VAL VAL VAL VAL ARG SEQRES 30 A 480 GLY ALA PHE ARG VAL TYR ARG ALA THR ALA HIS GLY PRO SEQRES 31 A 480 GLY LYS GLN GLN ARG LEU ARG LEU ARG VAL ARG ASP TYR SEQRES 32 A 480 ILE ILE ALA LEU ALA VAL PRO GLY LEU VAL ALA ALA MSE SEQRES 33 A 480 LEU TYR VAL ALA PRO GLY ILE MSE SER PRO GLY LEU ASP SEQRES 34 A 480 TRP ARG PHE ILE LEU VAL TRP GLY PRO SER SER VAL LEU SEQRES 35 A 480 ALA ILE PRO PHE GLY MSE ILE LEU LEU ALA PHE VAL LEU SEQRES 36 A 480 THR LEU ASN HIS GLN ILE LYS ARG ILE LEU LEU HIS ASN SEQRES 37 A 480 LYS GLU TRP ASP ASP GLU HIS HIS HIS HIS HIS HIS MODRES 7MDE MSE A 51 MET MODIFIED RESIDUE MODRES 7MDE MSE A 96 MET MODIFIED RESIDUE MODRES 7MDE MSE A 127 MET MODIFIED RESIDUE MODRES 7MDE MSE A 162 MET MODIFIED RESIDUE MODRES 7MDE MSE A 220 MET MODIFIED RESIDUE MODRES 7MDE MSE A 270 MET MODIFIED RESIDUE MODRES 7MDE MSE A 291 MET MODIFIED RESIDUE MODRES 7MDE MSE A 354 MET MODIFIED RESIDUE MODRES 7MDE MSE A 446 MET MODIFIED RESIDUE HET MSE A 51 8 HET MSE A 96 8 HET MSE A 127 8 HET MSE A 162 8 HET MSE A 220 8 HET MSE A 270 8 HET MSE A 291 8 HET MSE A 354 8 HET MSE A 446 8 HET MSE A 454 8 HET MSE A 478 8 HET OLC A 601 19 HET OLC A 602 11 HET 2PE A 603 14 HET 2PE A 604 7 HET IMD A 605 5 HET 2PE A 606 11 HET 2PE A 607 7 HET DMS A 608 4 HET SO4 A 609 5 HET CL A 610 1 HET CL A 611 1 HET CL A 612 1 HETNAM MSE SELENOMETHIONINE HETNAM OLC (2R)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE HETNAM 2PE NONAETHYLENE GLYCOL HETNAM IMD IMIDAZOLE HETNAM DMS DIMETHYL SULFOXIDE HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETSYN OLC 1-OLEOYL-R-GLYCEROL FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 2 OLC 2(C21 H40 O4) FORMUL 4 2PE 4(C18 H38 O10) FORMUL 6 IMD C3 H5 N2 1+ FORMUL 9 DMS C2 H6 O S FORMUL 10 SO4 O4 S 2- FORMUL 11 CL 3(CL 1-) FORMUL 14 HOH *178(H2 O) HELIX 1 AA1 ASP A 40 LYS A 55 1 16 HELIX 2 AA2 GLY A 94 MSE A 96 5 3 HELIX 3 AA3 SER A 97 GLY A 112 1 16 HELIX 4 AA4 ASP A 119 TYR A 123 5 5 HELIX 5 AA5 THR A 139 TYR A 145 1 7 HELIX 6 AA6 SER A 153 ASN A 160 1 8 HELIX 7 AA7 ALA A 166 ARG A 172 1 7 HELIX 8 AA8 SER A 188 GLY A 203 1 16 HELIX 9 AA9 THR A 205 LEU A 214 1 10 HELIX 10 AB1 LEU A 214 GLY A 219 1 6 HELIX 11 AB2 ALA A 254 ASN A 256 5 3 HELIX 12 AB3 HIS A 257 TYR A 262 1 6 HELIX 13 AB4 THR A 266 HIS A 279 1 14 HELIX 14 AB5 PRO A 284 TRP A 295 1 12 HELIX 15 AB6 PRO A 342 GLN A 344 5 3 HELIX 16 AB7 SER A 356 GLN A 361 1 6 HELIX 17 AB8 GLN A 361 GLY A 373 1 13 HELIX 18 AB9 ASP A 381 ARG A 414 1 34 HELIX 19 AC1 ARG A 431 ALA A 436 1 6 HELIX 20 AC2 LEU A 437 SER A 455 1 19 HELIX 21 AC3 ASP A 459 GLY A 467 1 9 HELIX 22 AC4 PRO A 468 VAL A 471 5 4 HELIX 23 AC5 LEU A 472 LYS A 492 1 21 SHEET 1 AA1 8 LYS A 83 ALA A 84 0 SHEET 2 AA1 8 VAL A 68 ASP A 78 -1 N ASP A 78 O LYS A 83 SHEET 3 AA1 8 ALA A 58 ILE A 65 -1 N LEU A 59 O TYR A 74 SHEET 4 AA1 8 ILE A 346 ALA A 352 -1 O LEU A 351 N SER A 60 SHEET 5 AA1 8 SER A 335 ARG A 341 -1 N ALA A 339 O ILE A 348 SHEET 6 AA1 8 TYR A 324 GLN A 330 -1 N ILE A 325 O LEU A 340 SHEET 7 AA1 8 PHE A 316 ASP A 318 -1 N PHE A 316 O SER A 326 SHEET 8 AA1 8 LEU A 310 TYR A 311 -1 N LEU A 310 O ILE A 317 SHEET 1 AA2 3 TYR A 91 GLU A 92 0 SHEET 2 AA2 3 ILE A 263 SER A 265 -1 O SER A 265 N TYR A 91 SHEET 3 AA2 3 VAL A 224 ALA A 225 -1 N VAL A 224 O HIS A 264 SHEET 1 AA3 3 LYS A 134 PRO A 135 0 SHEET 2 AA3 3 LEU A 129 TYR A 131 -1 N TYR A 131 O LYS A 134 SHEET 3 AA3 3 GLU A 174 ASN A 175 1 O GLU A 174 N ASN A 130 SHEET 1 AA4 2 TYR A 239 GLY A 242 0 SHEET 2 AA4 2 LYS A 245 LEU A 248 -1 O LYS A 245 N GLY A 242 SSBOND 1 CYS A 337 CYS A 363 1555 1555 2.06 LINK C ARG A 50 N MSE A 51 1555 1555 1.33 LINK C MSE A 51 N GLN A 52 1555 1555 1.34 LINK C ALA A 95 N MSE A 96 1555 1555 1.34 LINK C MSE A 96 N SER A 97 1555 1555 1.35 LINK C GLU A 126 N MSE A 127 1555 1555 1.33 LINK C MSE A 127 N ARG A 128 1555 1555 1.33 LINK C PRO A 161 N MSE A 162 1555 1555 1.33 LINK C MSE A 162 N PRO A 163 1555 1555 1.35 LINK C GLY A 219 N MSE A 220 1555 1555 1.33 LINK C MSE A 220 N SER A 221 1555 1555 1.33 LINK C ASP A 269 N MSE A 270 1555 1555 1.33 LINK C MSE A 270 N GLU A 271 1555 1555 1.34 LINK C ALA A 290 N MSE A 291 1555 1555 1.33 LINK C MSE A 291 N SER A 292 1555 1555 1.34 LINK C ASN A 353 N MSE A 354 1555 1555 1.33 LINK C MSE A 354 N ASN A 355 1555 1555 1.34 LINK C ALA A 445 N MSE A 446 1555 1555 1.33 LINK C MSE A 446 N LEU A 447 1555 1555 1.34 LINK C ILE A 453 N MSE A 454 1555 1555 1.33 LINK C MSE A 454 N SER A 455 1555 1555 1.33 LINK C GLY A 477 N MSE A 478 1555 1555 1.33 LINK C MSE A 478 N ILE A 479 1555 1555 1.34 CISPEP 1 GLY A 322 PRO A 323 0 3.40 CRYST1 97.475 97.475 183.973 90.00 90.00 90.00 P 42 21 2 8 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 0.010259 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010259 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005436 0.00000