HEADER LIGASE 24-SEP-23 8WII TITLE CRYSTAL STRUCTURE OF E. COLI THRS CATALYTIC DOMAIN MUTANT G463A IN TITLE 2 COMPLEX WITH OBAFLUORIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: THREONINE--TRNA LIGASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: THREONYL-TRNA SYNTHETASE,THRRS; COMPND 5 EC: 6.1.1.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: THRS, CX696_002870; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS THREONINE--TRNA LIGASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR H.QIAO,Z.WANG,J.WANG,P.FANG REVDAT 1 24-JUL-24 8WII 0 JRNL AUTH H.QIAO,Z.WANG,H.YANG,M.XIA,G.YANG,F.BAI,J.WANG,P.FANG JRNL TITL SPECIFIC GLYCINE-DEPENDENT ENZYME MOTION DETERMINES THE JRNL TITL 2 POTENCY OF CONFORMATION SELECTIVE INHIBITORS OF JRNL TITL 3 THREONYL-TRNA SYNTHETASE. JRNL REF COMMUN BIOL V. 7 867 2024 JRNL REFN ESSN 2399-3642 JRNL PMID 39014102 JRNL DOI 10.1038/S42003-024-06559-X REMARK 2 REMARK 2 RESOLUTION. 2.98 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.98 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 23478 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.248 REMARK 3 R VALUE (WORKING SET) : 0.246 REMARK 3 FREE R VALUE : 0.298 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.740 REMARK 3 FREE R VALUE TEST SET COUNT : 1113 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 78.6400 - 5.9500 0.98 2910 146 0.1916 0.2506 REMARK 3 2 5.9500 - 4.7200 0.99 2813 143 0.2212 0.2725 REMARK 3 3 4.7200 - 4.1300 1.00 2808 127 0.2129 0.2908 REMARK 3 4 4.1300 - 3.7500 1.00 2809 119 0.2608 0.3079 REMARK 3 5 3.7500 - 3.4800 1.00 2767 149 0.2777 0.3118 REMARK 3 6 3.4800 - 3.2800 1.00 2752 147 0.3023 0.3495 REMARK 3 7 3.2800 - 3.1100 1.00 2748 154 0.3227 0.3839 REMARK 3 8 3.1100 - 2.9800 1.00 2758 128 0.3527 0.3389 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.460 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 6743 REMARK 3 ANGLE : 1.242 9087 REMARK 3 CHIRALITY : 0.061 942 REMARK 3 PLANARITY : 0.016 1190 REMARK 3 DIHEDRAL : 11.640 898 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -24.5710 21.9069 -24.0736 REMARK 3 T TENSOR REMARK 3 T11: 0.2896 T22: 0.3916 REMARK 3 T33: 0.3290 T12: 0.0264 REMARK 3 T13: -0.0214 T23: 0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.6730 L22: 1.5636 REMARK 3 L33: 0.6414 L12: -0.0538 REMARK 3 L13: 0.0344 L23: -0.1839 REMARK 3 S TENSOR REMARK 3 S11: -0.0587 S12: 0.0388 S13: -0.0015 REMARK 3 S21: 0.2138 S22: 0.0326 S23: 0.0865 REMARK 3 S31: -0.0424 S32: -0.0282 S33: 0.0354 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 8WII COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-SEP-23. REMARK 100 THE DEPOSITION ID IS D_1300041346. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUN-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979183 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23547 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.980 REMARK 200 RESOLUTION RANGE LOW (A) : 78.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.98 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.14 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.02 M D-GLUCOSE, 0.02 M D-MANNOSE, REMARK 280 0.02 M D-GALACTOSE, 0.02 M L-FUCOSE, 0.02 M D-XYLOSE, 0.02 M N- REMARK 280 ACETYL-D-GLUCOSAMINE, 0.05 M SODIUM HEPES, 0.05 M MOPS ACID PH REMARK 280 7.5, 12.5% V/V MPD, 12.5% W/V PEG 1000, 12.5% W/V PEG 3350., REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 45.20100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.88550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.40600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.88550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 45.20100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.40600 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 241 REMARK 465 LEU A 643 REMARK 465 GLU A 644 REMARK 465 HIS A 645 REMARK 465 HIS A 646 REMARK 465 HIS A 647 REMARK 465 HIS A 648 REMARK 465 HIS A 649 REMARK 465 HIS A 650 REMARK 465 MET B 241 REMARK 465 LEU B 643 REMARK 465 GLU B 644 REMARK 465 HIS B 645 REMARK 465 HIS B 646 REMARK 465 HIS B 647 REMARK 465 HIS B 648 REMARK 465 HIS B 649 REMARK 465 HIS B 650 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 GLU A 641 CB CG CD OE1 OE2 REMARK 470 MET B 332 CG SD CE REMARK 470 GLU B 641 CB CG CD OE1 OE2 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 NH2 ARG B 609 O GLY B 613 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ARG B 609 CB ARG B 609 CG 0.193 REMARK 500 ARG B 609 CG ARG B 609 CD 0.187 REMARK 500 REMARK 500 REMARK: NULL 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 LYS A 306 CA - CB - CG ANGL. DEV. = 16.9 DEGREES REMARK 500 LYS A 306 CG - CD - CE ANGL. DEV. = -21.4 DEGREES REMARK 500 LYS A 314 CD - CE - NZ ANGL. DEV. = -30.7 DEGREES REMARK 500 GLU A 602 N - CA - CB ANGL. DEV. = 12.8 DEGREES REMARK 500 GLU A 602 CA - CB - CG ANGL. DEV. = 23.9 DEGREES REMARK 500 MET A 619 CA - CB - CG ANGL. DEV. = 11.1 DEGREES REMARK 500 ARG B 394 C - N - CA ANGL. DEV. = -16.8 DEGREES REMARK 500 ARG B 394 CB - CA - C ANGL. DEV. = -14.6 DEGREES REMARK 500 ARG B 609 CA - CB - CG ANGL. DEV. = 34.3 DEGREES REMARK 500 ARG B 609 CG - CD - NE ANGL. DEV. = 19.8 DEGREES REMARK 500 ARG B 609 CD - NE - CZ ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG B 609 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG B 609 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP B 615 CB - CG - OD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 LEU B 640 CA - CB - CG ANGL. DEV. = 14.6 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 MET A 619 -178.31 -173.99 REMARK 500 GLU A 641 41.50 76.32 REMARK 500 GLN B 289 62.54 60.58 REMARK 500 ARG B 394 -71.95 -54.37 REMARK 500 GLU B 641 42.27 73.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 602 SER A 603 -131.61 REMARK 500 MET A 619 ASP A 620 -134.07 REMARK 500 ARG B 394 ASP B 395 -138.72 REMARK 500 ARG B 609 THR B 610 -134.85 REMARK 500 GLU B 641 GLU B 642 -142.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLU B 276 0.07 SIDE CHAIN REMARK 500 ARG B 394 0.30 SIDE CHAIN 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 ZN A 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 334 SG REMARK 620 2 HIS A 385 NE2 97.0 REMARK 620 3 HIS A 511 ND1 118.8 79.4 REMARK 620 4 WE3 A 701 O01 104.1 77.7 133.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 334 SG REMARK 620 2 HIS B 385 NE2 54.1 REMARK 620 3 HIS B 511 ND1 69.5 77.5 REMARK 620 4 WE3 B 701 O01 85.1 127.5 121.3 REMARK 620 N 1 2 3 DBREF1 8WII A 242 642 UNP A0A8S7FUD7_ECOLX DBREF2 8WII A A0A8S7FUD7 242 642 DBREF1 8WII B 242 642 UNP A0A8S7FUD7_ECOLX DBREF2 8WII B A0A8S7FUD7 242 642 SEQADV 8WII MET A 241 UNP A0A8S7FUD INITIATING METHIONINE SEQADV 8WII ALA A 463 UNP A0A8S7FUD GLY 463 ENGINEERED MUTATION SEQADV 8WII LEU A 643 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII GLU A 644 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS A 645 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS A 646 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS A 647 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS A 648 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS A 649 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS A 650 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII MET B 241 UNP A0A8S7FUD INITIATING METHIONINE SEQADV 8WII ALA B 463 UNP A0A8S7FUD GLY 463 ENGINEERED MUTATION SEQADV 8WII LEU B 643 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII GLU B 644 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS B 645 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS B 646 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS B 647 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS B 648 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS B 649 UNP A0A8S7FUD EXPRESSION TAG SEQADV 8WII HIS B 650 UNP A0A8S7FUD EXPRESSION TAG SEQRES 1 A 410 MET ARG ASP HIS ARG LYS ILE GLY LYS GLN LEU ASP LEU SEQRES 2 A 410 TYR HIS MET GLN GLU GLU ALA PRO GLY MET VAL PHE TRP SEQRES 3 A 410 HIS ASN ASP GLY TRP THR ILE PHE ARG GLU LEU GLU VAL SEQRES 4 A 410 PHE VAL ARG SER LYS LEU LYS GLU TYR GLN TYR GLN GLU SEQRES 5 A 410 VAL LYS GLY PRO PHE MET MET ASP ARG VAL LEU TRP GLU SEQRES 6 A 410 LYS THR GLY HIS TRP ASP ASN TYR LYS ASP ALA MET PHE SEQRES 7 A 410 THR THR SER SER GLU ASN ARG GLU TYR CYS ILE LYS PRO SEQRES 8 A 410 MET ASN CYS PRO GLY HIS VAL GLN ILE PHE ASN GLN GLY SEQRES 9 A 410 LEU LYS SER TYR ARG ASP LEU PRO LEU ARG MET ALA GLU SEQRES 10 A 410 PHE GLY SER CYS HIS ARG ASN GLU PRO SER GLY SER LEU SEQRES 11 A 410 HIS GLY LEU MET ARG VAL ARG GLY PHE THR GLN ASP ASP SEQRES 12 A 410 ALA HIS ILE PHE CYS THR GLU GLU GLN ILE ARG ASP GLU SEQRES 13 A 410 VAL ASN GLY CYS ILE ARG LEU VAL TYR ASP MET TYR SER SEQRES 14 A 410 THR PHE GLY PHE GLU LYS ILE VAL VAL LYS LEU SER THR SEQRES 15 A 410 ARG PRO GLU LYS ARG ILE GLY SER ASP GLU MET TRP ASP SEQRES 16 A 410 ARG ALA GLU ALA ASP LEU ALA VAL ALA LEU GLU GLU ASN SEQRES 17 A 410 ASN ILE PRO PHE GLU TYR GLN LEU GLY GLU GLY ALA PHE SEQRES 18 A 410 TYR ALA PRO LYS ILE GLU PHE THR LEU TYR ASP CYS LEU SEQRES 19 A 410 ASP ARG ALA TRP GLN CYS GLY THR VAL GLN LEU ASP PHE SEQRES 20 A 410 SER LEU PRO SER ARG LEU SER ALA SER TYR VAL GLY GLU SEQRES 21 A 410 ASP ASN GLU ARG LYS VAL PRO VAL MET ILE HIS ARG ALA SEQRES 22 A 410 ILE LEU GLY SER MET GLU ARG PHE ILE GLY ILE LEU THR SEQRES 23 A 410 GLU GLU PHE ALA GLY PHE PHE PRO THR TRP LEU ALA PRO SEQRES 24 A 410 VAL GLN VAL VAL ILE MET ASN ILE THR ASP SER GLN SER SEQRES 25 A 410 GLU TYR VAL ASN GLU LEU THR GLN LYS LEU SER ASN ALA SEQRES 26 A 410 GLY ILE ARG VAL LYS ALA ASP LEU ARG ASN GLU LYS ILE SEQRES 27 A 410 GLY PHE LYS ILE ARG GLU HIS THR LEU ARG ARG VAL PRO SEQRES 28 A 410 TYR MET LEU VAL CYS GLY ASP LYS GLU VAL GLU SER GLY SEQRES 29 A 410 LYS VAL ALA VAL ARG THR ARG ARG GLY LYS ASP LEU GLY SEQRES 30 A 410 SER MET ASP VAL ASN GLU VAL ILE GLU LYS LEU GLN GLN SEQRES 31 A 410 GLU ILE ARG SER ARG SER LEU LYS GLN LEU GLU GLU LEU SEQRES 32 A 410 GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 410 MET ARG ASP HIS ARG LYS ILE GLY LYS GLN LEU ASP LEU SEQRES 2 B 410 TYR HIS MET GLN GLU GLU ALA PRO GLY MET VAL PHE TRP SEQRES 3 B 410 HIS ASN ASP GLY TRP THR ILE PHE ARG GLU LEU GLU VAL SEQRES 4 B 410 PHE VAL ARG SER LYS LEU LYS GLU TYR GLN TYR GLN GLU SEQRES 5 B 410 VAL LYS GLY PRO PHE MET MET ASP ARG VAL LEU TRP GLU SEQRES 6 B 410 LYS THR GLY HIS TRP ASP ASN TYR LYS ASP ALA MET PHE SEQRES 7 B 410 THR THR SER SER GLU ASN ARG GLU TYR CYS ILE LYS PRO SEQRES 8 B 410 MET ASN CYS PRO GLY HIS VAL GLN ILE PHE ASN GLN GLY SEQRES 9 B 410 LEU LYS SER TYR ARG ASP LEU PRO LEU ARG MET ALA GLU SEQRES 10 B 410 PHE GLY SER CYS HIS ARG ASN GLU PRO SER GLY SER LEU SEQRES 11 B 410 HIS GLY LEU MET ARG VAL ARG GLY PHE THR GLN ASP ASP SEQRES 12 B 410 ALA HIS ILE PHE CYS THR GLU GLU GLN ILE ARG ASP GLU SEQRES 13 B 410 VAL ASN GLY CYS ILE ARG LEU VAL TYR ASP MET TYR SER SEQRES 14 B 410 THR PHE GLY PHE GLU LYS ILE VAL VAL LYS LEU SER THR SEQRES 15 B 410 ARG PRO GLU LYS ARG ILE GLY SER ASP GLU MET TRP ASP SEQRES 16 B 410 ARG ALA GLU ALA ASP LEU ALA VAL ALA LEU GLU GLU ASN SEQRES 17 B 410 ASN ILE PRO PHE GLU TYR GLN LEU GLY GLU GLY ALA PHE SEQRES 18 B 410 TYR ALA PRO LYS ILE GLU PHE THR LEU TYR ASP CYS LEU SEQRES 19 B 410 ASP ARG ALA TRP GLN CYS GLY THR VAL GLN LEU ASP PHE SEQRES 20 B 410 SER LEU PRO SER ARG LEU SER ALA SER TYR VAL GLY GLU SEQRES 21 B 410 ASP ASN GLU ARG LYS VAL PRO VAL MET ILE HIS ARG ALA SEQRES 22 B 410 ILE LEU GLY SER MET GLU ARG PHE ILE GLY ILE LEU THR SEQRES 23 B 410 GLU GLU PHE ALA GLY PHE PHE PRO THR TRP LEU ALA PRO SEQRES 24 B 410 VAL GLN VAL VAL ILE MET ASN ILE THR ASP SER GLN SER SEQRES 25 B 410 GLU TYR VAL ASN GLU LEU THR GLN LYS LEU SER ASN ALA SEQRES 26 B 410 GLY ILE ARG VAL LYS ALA ASP LEU ARG ASN GLU LYS ILE SEQRES 27 B 410 GLY PHE LYS ILE ARG GLU HIS THR LEU ARG ARG VAL PRO SEQRES 28 B 410 TYR MET LEU VAL CYS GLY ASP LYS GLU VAL GLU SER GLY SEQRES 29 B 410 LYS VAL ALA VAL ARG THR ARG ARG GLY LYS ASP LEU GLY SEQRES 30 B 410 SER MET ASP VAL ASN GLU VAL ILE GLU LYS LEU GLN GLN SEQRES 31 B 410 GLU ILE ARG SER ARG SER LEU LYS GLN LEU GLU GLU LEU SEQRES 32 B 410 GLU HIS HIS HIS HIS HIS HIS HET WE3 A 701 26 HET ZN A 702 1 HET WE3 B 701 26 HET ZN B 702 1 HETNAM WE3 ~{N}-[(2~{R},3~{S})-2-[(4-NITROPHENYL)METHYL]-4- HETNAM 2 WE3 OXIDANYLIDENE-OXETAN-3-YL]-2,3-BIS(OXIDANYL)BENZAMIDE HETNAM ZN ZINC ION HETSYN WE3 OBAFLUORIN FORMUL 3 WE3 2(C17 H14 N2 O7) FORMUL 4 ZN 2(ZN 2+) HELIX 1 AA1 ASP A 243 LEU A 251 1 9 HELIX 2 AA2 HIS A 267 TYR A 288 1 22 HELIX 3 AA3 ARG A 301 GLY A 308 1 8 HELIX 4 AA4 GLY A 308 LYS A 314 1 7 HELIX 5 AA5 ASP A 315 MET A 317 5 3 HELIX 6 AA6 ASN A 333 GLN A 343 1 11 HELIX 7 AA7 SER A 347 LEU A 351 5 5 HELIX 8 AA8 PRO A 366 LEU A 370 5 5 HELIX 9 AA9 THR A 389 GLU A 391 5 3 HELIX 10 AB1 GLN A 392 PHE A 411 1 20 HELIX 11 AB2 SER A 430 ASN A 448 1 19 HELIX 12 AB3 SER A 488 LEU A 493 1 6 HELIX 13 AB4 SER A 517 ALA A 530 1 14 HELIX 14 AB5 PRO A 534 ALA A 538 5 5 HELIX 15 AB6 THR A 548 SER A 550 5 3 HELIX 16 AB7 GLN A 551 ALA A 565 1 15 HELIX 17 AB8 LYS A 577 ARG A 588 1 12 HELIX 18 AB9 GLY A 597 GLY A 604 1 8 HELIX 19 AC1 VAL A 621 ARG A 635 1 15 HELIX 20 AC2 ASP B 243 LEU B 251 1 9 HELIX 21 AC3 HIS B 267 TYR B 288 1 22 HELIX 22 AC4 ARG B 301 THR B 307 1 7 HELIX 23 AC5 GLY B 308 TYR B 313 1 6 HELIX 24 AC6 ASN B 333 GLN B 343 1 11 HELIX 25 AC7 ARG B 349 LEU B 351 5 3 HELIX 26 AC8 THR B 389 GLU B 391 5 3 HELIX 27 AC9 GLN B 392 PHE B 411 1 20 HELIX 28 AD1 SER B 430 ASN B 448 1 19 HELIX 29 AD2 SER B 488 LEU B 493 1 6 HELIX 30 AD3 MET B 518 ALA B 530 1 13 HELIX 31 AD4 PRO B 534 ALA B 538 5 5 HELIX 32 AD5 THR B 548 SER B 550 5 3 HELIX 33 AD6 GLN B 551 ALA B 565 1 15 HELIX 34 AD7 LYS B 577 ARG B 588 1 12 HELIX 35 AD8 GLY B 597 GLY B 604 1 8 HELIX 36 AD9 VAL B 621 SER B 634 1 14 SHEET 1 AA1 2 TYR A 254 HIS A 255 0 SHEET 2 AA1 2 PHE A 265 TRP A 266 -1 O PHE A 265 N HIS A 255 SHEET 1 AA2 8 GLN A 291 GLU A 292 0 SHEET 2 AA2 8 LEU A 353 HIS A 362 1 O ALA A 356 N GLN A 291 SHEET 3 AA2 8 GLY A 378 CYS A 388 -1 O PHE A 387 N LEU A 353 SHEET 4 AA2 8 VAL A 508 ALA A 513 -1 O VAL A 508 N CYS A 388 SHEET 5 AA2 8 ALA A 477 ASP A 486 -1 N ASP A 486 O MET A 509 SHEET 6 AA2 8 LYS A 465 TYR A 471 -1 N ILE A 466 O VAL A 483 SHEET 7 AA2 8 ILE A 416 SER A 421 -1 N VAL A 417 O THR A 469 SHEET 8 AA2 8 PHE A 452 GLN A 455 1 O GLN A 455 N LEU A 420 SHEET 1 AA3 3 MET A 298 ASP A 300 0 SHEET 2 AA3 3 GLU A 326 ILE A 329 -1 O CYS A 328 N MET A 299 SHEET 3 AA3 3 THR A 319 SER A 321 -1 N THR A 320 O TYR A 327 SHEET 1 AA4 2 TYR A 497 VAL A 498 0 SHEET 2 AA4 2 ARG A 504 LYS A 505 -1 O LYS A 505 N TYR A 497 SHEET 1 AA5 5 VAL A 569 ASP A 572 0 SHEET 2 AA5 5 VAL A 542 ASN A 546 1 N ILE A 544 O ASP A 572 SHEET 3 AA5 5 TYR A 592 CYS A 596 1 O LEU A 594 N VAL A 543 SHEET 4 AA5 5 LYS A 605 THR A 610 -1 O ARG A 609 N MET A 593 SHEET 5 AA5 5 ASP A 615 ASP A 620 -1 O LEU A 616 N VAL A 608 SHEET 1 AA6 2 TYR B 254 HIS B 255 0 SHEET 2 AA6 2 PHE B 265 TRP B 266 -1 O PHE B 265 N HIS B 255 SHEET 1 AA7 8 GLN B 291 GLU B 292 0 SHEET 2 AA7 8 LEU B 353 HIS B 362 1 O ARG B 354 N GLN B 291 SHEET 3 AA7 8 GLY B 378 CYS B 388 -1 O PHE B 387 N LEU B 353 SHEET 4 AA7 8 VAL B 508 SER B 517 -1 O VAL B 508 N CYS B 388 SHEET 5 AA7 8 ALA B 477 ASP B 486 -1 N GLN B 484 O HIS B 511 SHEET 6 AA7 8 LYS B 465 TYR B 471 -1 N ILE B 466 O VAL B 483 SHEET 7 AA7 8 ILE B 416 SER B 421 -1 N LYS B 419 O GLU B 467 SHEET 8 AA7 8 PHE B 452 GLN B 455 1 O GLN B 455 N LEU B 420 SHEET 1 AA8 3 MET B 298 ASP B 300 0 SHEET 2 AA8 3 GLU B 326 ILE B 329 -1 O CYS B 328 N MET B 299 SHEET 3 AA8 3 THR B 319 SER B 321 -1 N THR B 320 O TYR B 327 SHEET 1 AA9 3 LYS B 346 SER B 347 0 SHEET 2 AA9 3 TYR B 497 VAL B 498 1 O VAL B 498 N LYS B 346 SHEET 3 AA9 3 ARG B 504 LYS B 505 -1 O LYS B 505 N TYR B 497 SHEET 1 AB1 5 VAL B 569 ASP B 572 0 SHEET 2 AB1 5 VAL B 542 ASN B 546 1 N ILE B 544 O ASP B 572 SHEET 3 AB1 5 TYR B 592 CYS B 596 1 O LEU B 594 N MET B 545 SHEET 4 AB1 5 LYS B 605 ARG B 609 -1 O ALA B 607 N VAL B 595 SHEET 5 AB1 5 ASP B 615 ASP B 620 -1 O GLY B 617 N VAL B 608 LINK SG CYS A 334 ZN ZN A 702 1555 1555 2.29 LINK NE2 HIS A 385 ZN ZN A 702 1555 1555 2.30 LINK ND1 HIS A 511 ZN ZN A 702 1555 1555 2.29 LINK O01 WE3 A 701 ZN ZN A 702 1555 1555 2.09 LINK SG CYS B 334 ZN ZN B 702 1555 1555 2.29 LINK NE2 HIS B 385 ZN ZN B 702 1555 1555 2.30 LINK ND1 HIS B 511 ZN ZN B 702 1555 1555 2.30 LINK O01 WE3 B 701 ZN ZN B 702 1555 1555 2.09 CISPEP 1 LEU A 351 PRO A 352 0 3.17 CISPEP 2 LEU B 351 PRO B 352 0 2.87 CRYST1 90.402 108.812 113.771 90.00 90.00 90.00 P 21 21 21 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 0.011062 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009190 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008790 0.00000