HEADER LIGASE 14-FEB-08 3C8Z TITLE THE 1.6 A CRYSTAL STRUCTURE OF MSHC: THE RATE LIMITING ENZYME IN THE TITLE 2 MYCOTHIOL BIOSYNTHETIC PATHWAY COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYSTEINYL-TRNA SYNTHETASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 6.1.1.16; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS; SOURCE 3 GENE: CYSS; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_STRAIN: ROSETTA2BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS CYSTEINE LIGASE, ROSSMANN FOLD, CYS-SA INHIBITOR, ZINC BINDING, ATP- KEYWDS 2 BINDING, AMINOACYL-TRNA SYNTHETASE, NUCLEOTIDE-BINDING, PROTEIN KEYWDS 3 BIOSYNTHESIS, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR L.W.TREMBLAY,F.FAN,M.W.VETTING,J.S.BLANCHARD REVDAT 3 03-APR-24 3C8Z 1 REMARK REVDAT 2 21-FEB-24 3C8Z 1 REMARK SEQADV LINK REVDAT 1 30-DEC-08 3C8Z 0 JRNL AUTH L.W.TREMBLAY,F.FAN,M.W.VETTING,J.S.BLANCHARD JRNL TITL THE 1.6 A CRYSTAL STRUCTURE OF MYCOBACTERIUM SMEGMATIS MSHC: JRNL TITL 2 THE PENULTIMATE ENZYME IN THE MYCOTHIOL BIOSYNTHETIC JRNL TITL 3 PATHWAY. JRNL REF BIOCHEMISTRY V. 47 13326 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 19053270 JRNL DOI 10.1021/BI801708F REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 131736 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 6973 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 9530 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.30 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE SET COUNT : 501 REMARK 3 BIN FREE R VALUE : 0.3070 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6218 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 121 REMARK 3 SOLVENT ATOMS : 868 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.080 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.079 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.364 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6506 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8886 ; 1.656 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 797 ;11.396 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 313 ;34.902 ;22.620 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 932 ;12.920 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 66 ;17.821 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 962 ; 0.298 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5096 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3069 ; 0.200 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4449 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 643 ; 0.116 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.021 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 53 ; 0.162 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 30 ; 0.207 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 4075 ; 0.825 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6400 ; 1.344 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2757 ; 2.072 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2486 ; 3.215 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3C8Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000046491. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X12C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9486, 1.1 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 131763 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 37.090 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : 0.05700 REMARK 200 FOR THE DATA SET : 37.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.34900 REMARK 200 R SYM FOR SHELL (I) : 0.40300 REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD AND MOLECULAR REMARK 200 REPLACEMENT REMARK 200 SOFTWARE USED: ARP/WARP REMARK 200 STARTING MODEL: DE NOVO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.9, 2 M NH4SO4, 2% REMARK 280 PEG400, UNDER OIL, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 61.76050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.65744 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 62.00867 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 61.76050 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 35.65744 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 62.00867 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 61.76050 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 35.65744 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 62.00867 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 71.31488 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 124.01733 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 71.31488 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 124.01733 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 71.31488 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 124.01733 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 B 514 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 782 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 835 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 HIS A -1 REMARK 465 MET A 0 REMARK 465 TRP A 285 REMARK 465 ASP A 286 REMARK 465 GLY A 287 REMARK 465 HIS A 288 REMARK 465 LYS A 289 REMARK 465 MET A 290 REMARK 465 SER A 291 REMARK 465 LYS A 292 REMARK 465 SER A 293 REMARK 465 ARG A 294 REMARK 465 GLY A 295 REMARK 465 ASN A 296 REMARK 465 LEU A 297 REMARK 465 TRP B 285 REMARK 465 ASP B 286 REMARK 465 GLY B 287 REMARK 465 HIS B 288 REMARK 465 LYS B 289 REMARK 465 MET B 290 REMARK 465 SER B 291 REMARK 465 LYS B 292 REMARK 465 SER B 293 REMARK 465 ARG B 294 REMARK 465 GLY B 295 REMARK 465 ASN B 296 REMARK 465 LEU B 297 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 SER A 3 -137.78 -93.95 REMARK 500 ARG A 188 45.42 -105.41 REMARK 500 SER B 3 -135.01 -96.24 REMARK 500 ASP B 49 -159.53 -169.32 REMARK 500 ALA B 50 -165.97 87.44 REMARK 500 ARG B 188 47.97 -107.62 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 413 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 43 SG REMARK 620 2 CYS A 231 SG 124.9 REMARK 620 3 HIS A 256 NE2 104.9 107.4 REMARK 620 4 5CA A 418 SG 114.6 94.8 109.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 413 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 43 SG REMARK 620 2 CYS B 231 SG 126.9 REMARK 620 3 HIS B 256 NE2 103.3 105.9 REMARK 620 4 5CA B 416 SG 115.0 97.4 106.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5CA B 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 5CA A 418 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1PE A 419 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EPE B 417 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U0B RELATED DB: PDB REMARK 900 CYSTEINYL-TRNA SYNTHASE REMARK 900 RELATED ID: 1LI5 RELATED DB: PDB REMARK 900 CYSTEINYL-TRNA SYNTHASE DBREF 3C8Z A 1 412 UNP A0QZY0 A0QZY0_MYCS2 1 412 DBREF 3C8Z B 1 412 UNP A0QZY0 A0QZY0_MYCS2 1 412 SEQADV 3C8Z HIS A -1 UNP A0QZY0 EXPRESSION TAG SEQADV 3C8Z MET A 0 UNP A0QZY0 EXPRESSION TAG SEQADV 3C8Z HIS B -1 UNP A0QZY0 EXPRESSION TAG SEQADV 3C8Z MET B 0 UNP A0QZY0 EXPRESSION TAG SEQRES 1 A 414 HIS MET MET GLN SER TRP SER ALA PRO ALA ILE PRO VAL SEQRES 2 A 414 VAL PRO GLY ARG GLY PRO ALA LEU ARG LEU PHE ASP SER SEQRES 3 A 414 ALA ASP ARG GLN VAL ARG PRO VAL THR PRO GLY PRO THR SEQRES 4 A 414 ALA THR MET TYR VAL CYS GLY ILE THR PRO TYR ASP ALA SEQRES 5 A 414 THR HIS LEU GLY HIS ALA ALA THR TYR LEU THR PHE ASP SEQRES 6 A 414 LEU VAL HIS ARG LEU TRP LEU ASP ALA GLY HIS THR VAL SEQRES 7 A 414 GLN TYR VAL GLN ASN VAL THR ASP VAL ASP ASP PRO LEU SEQRES 8 A 414 PHE GLU ARG ALA GLU ARG ASP GLY ILE ASP TRP ARG THR SEQRES 9 A 414 LEU GLY ASP ARG GLU THR GLN LEU PHE ARG GLU ASP MET SEQRES 10 A 414 ALA ALA LEU ARG VAL LEU PRO PRO HIS ASP TYR VAL ALA SEQRES 11 A 414 ALA THR ASP ALA ILE ALA GLU VAL VAL GLU MET VAL GLU SEQRES 12 A 414 LYS LEU LEU ALA SER GLY ALA ALA TYR ILE VAL GLU ASP SEQRES 13 A 414 ALA GLU TYR PRO ASP VAL TYR PHE ARG ALA ASP ALA THR SEQRES 14 A 414 ALA GLN PHE GLY TYR GLU SER GLY TYR ASP ARG ASP THR SEQRES 15 A 414 MET LEU THR LEU PHE ALA GLU ARG GLY GLY ASP PRO ASP SEQRES 16 A 414 ARG PRO GLY LYS SER ASP GLN LEU ASP ALA LEU LEU TRP SEQRES 17 A 414 ARG ALA GLU ARG PRO GLY GLU PRO SER TRP PRO SER PRO SEQRES 18 A 414 PHE GLY ARG GLY ARG PRO GLY TRP HIS VAL GLU CYS SER SEQRES 19 A 414 ALA ILE ALA LEU THR ARG ILE GLY THR GLY LEU ASP ILE SEQRES 20 A 414 GLN GLY GLY GLY SER ASP LEU ILE PHE PRO HIS HIS GLU SEQRES 21 A 414 TYR SER ALA ALA HIS ALA GLU SER VAL THR GLY GLU ARG SEQRES 22 A 414 ARG PHE ALA ARG HIS TYR VAL HIS THR GLY MET ILE GLY SEQRES 23 A 414 TRP ASP GLY HIS LYS MET SER LYS SER ARG GLY ASN LEU SEQRES 24 A 414 VAL LEU VAL SER GLN LEU ARG ALA GLN GLY VAL ASP PRO SEQRES 25 A 414 SER ALA ILE ARG LEU GLY LEU PHE SER GLY HIS TYR ARG SEQRES 26 A 414 GLU ASP ARG PHE TRP SER ASN GLU VAL LEU ASP GLU ALA SEQRES 27 A 414 ASN ALA ARG LEU ALA ARG TRP ARG SER ALA THR ALA LEU SEQRES 28 A 414 PRO GLU ALA PRO ASP ALA THR ASP VAL ILE ALA ARG VAL SEQRES 29 A 414 ARG GLN TYR LEU ALA ASP ASP LEU ASP THR PRO LYS ALA SEQRES 30 A 414 LEU ALA ALA LEU ASP GLY TRP CYS THR ASP ALA LEU SER SEQRES 31 A 414 TYR GLY GLY HIS ASP THR GLU SER PRO ARG LEU VAL ALA SEQRES 32 A 414 THR THR VAL ASP ALA LEU LEU GLY VAL ASP LEU SEQRES 1 B 414 HIS MET MET GLN SER TRP SER ALA PRO ALA ILE PRO VAL SEQRES 2 B 414 VAL PRO GLY ARG GLY PRO ALA LEU ARG LEU PHE ASP SER SEQRES 3 B 414 ALA ASP ARG GLN VAL ARG PRO VAL THR PRO GLY PRO THR SEQRES 4 B 414 ALA THR MET TYR VAL CYS GLY ILE THR PRO TYR ASP ALA SEQRES 5 B 414 THR HIS LEU GLY HIS ALA ALA THR TYR LEU THR PHE ASP SEQRES 6 B 414 LEU VAL HIS ARG LEU TRP LEU ASP ALA GLY HIS THR VAL SEQRES 7 B 414 GLN TYR VAL GLN ASN VAL THR ASP VAL ASP ASP PRO LEU SEQRES 8 B 414 PHE GLU ARG ALA GLU ARG ASP GLY ILE ASP TRP ARG THR SEQRES 9 B 414 LEU GLY ASP ARG GLU THR GLN LEU PHE ARG GLU ASP MET SEQRES 10 B 414 ALA ALA LEU ARG VAL LEU PRO PRO HIS ASP TYR VAL ALA SEQRES 11 B 414 ALA THR ASP ALA ILE ALA GLU VAL VAL GLU MET VAL GLU SEQRES 12 B 414 LYS LEU LEU ALA SER GLY ALA ALA TYR ILE VAL GLU ASP SEQRES 13 B 414 ALA GLU TYR PRO ASP VAL TYR PHE ARG ALA ASP ALA THR SEQRES 14 B 414 ALA GLN PHE GLY TYR GLU SER GLY TYR ASP ARG ASP THR SEQRES 15 B 414 MET LEU THR LEU PHE ALA GLU ARG GLY GLY ASP PRO ASP SEQRES 16 B 414 ARG PRO GLY LYS SER ASP GLN LEU ASP ALA LEU LEU TRP SEQRES 17 B 414 ARG ALA GLU ARG PRO GLY GLU PRO SER TRP PRO SER PRO SEQRES 18 B 414 PHE GLY ARG GLY ARG PRO GLY TRP HIS VAL GLU CYS SER SEQRES 19 B 414 ALA ILE ALA LEU THR ARG ILE GLY THR GLY LEU ASP ILE SEQRES 20 B 414 GLN GLY GLY GLY SER ASP LEU ILE PHE PRO HIS HIS GLU SEQRES 21 B 414 TYR SER ALA ALA HIS ALA GLU SER VAL THR GLY GLU ARG SEQRES 22 B 414 ARG PHE ALA ARG HIS TYR VAL HIS THR GLY MET ILE GLY SEQRES 23 B 414 TRP ASP GLY HIS LYS MET SER LYS SER ARG GLY ASN LEU SEQRES 24 B 414 VAL LEU VAL SER GLN LEU ARG ALA GLN GLY VAL ASP PRO SEQRES 25 B 414 SER ALA ILE ARG LEU GLY LEU PHE SER GLY HIS TYR ARG SEQRES 26 B 414 GLU ASP ARG PHE TRP SER ASN GLU VAL LEU ASP GLU ALA SEQRES 27 B 414 ASN ALA ARG LEU ALA ARG TRP ARG SER ALA THR ALA LEU SEQRES 28 B 414 PRO GLU ALA PRO ASP ALA THR ASP VAL ILE ALA ARG VAL SEQRES 29 B 414 ARG GLN TYR LEU ALA ASP ASP LEU ASP THR PRO LYS ALA SEQRES 30 B 414 LEU ALA ALA LEU ASP GLY TRP CYS THR ASP ALA LEU SER SEQRES 31 B 414 TYR GLY GLY HIS ASP THR GLU SER PRO ARG LEU VAL ALA SEQRES 32 B 414 THR THR VAL ASP ALA LEU LEU GLY VAL ASP LEU HET ZN A 413 1 HET SO4 A 414 5 HET SO4 A 415 5 HET SO4 A 416 5 HET SO4 A 417 5 HET 5CA A 418 29 HET 1PE A 419 16 HET ZN B 413 1 HET SO4 B 414 5 HET SO4 B 415 5 HET 5CA B 416 29 HET EPE B 417 15 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM 5CA 5'-O-(N-(L-CYSTEINYL)-SULFAMOYL)ADENOSINE HETNAM 1PE PENTAETHYLENE GLYCOL HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETSYN 1PE PEG400 HETSYN EPE HEPES FORMUL 3 ZN 2(ZN 2+) FORMUL 4 SO4 6(O4 S 2-) FORMUL 8 5CA 2(C13 H19 N7 O7 S2) FORMUL 9 1PE C10 H22 O6 FORMUL 14 EPE C8 H18 N2 O4 S FORMUL 15 HOH *868(H2 O) HELIX 1 1 HIS A 52 ALA A 72 1 21 HELIX 2 2 ASP A 86 GLY A 97 1 12 HELIX 3 3 ASP A 99 LEU A 118 1 20 HELIX 4 4 ALA A 132 SER A 146 1 15 HELIX 5 5 ASP A 177 ARG A 188 1 12 HELIX 6 6 GLY A 226 ILE A 239 1 14 HELIX 7 7 ASP A 251 ILE A 253 5 3 HELIX 8 8 PRO A 255 GLY A 269 1 15 HELIX 9 9 LEU A 299 GLN A 306 1 8 HELIX 10 10 ASP A 309 SER A 319 1 11 HELIX 11 11 SER A 329 ALA A 348 1 20 HELIX 12 12 ALA A 355 ASP A 368 1 14 HELIX 13 13 ASP A 371 GLY A 390 1 20 HELIX 14 14 GLU A 395 GLY A 409 1 15 HELIX 15 15 HIS B 52 ALA B 72 1 21 HELIX 16 16 ASP B 86 GLY B 97 1 12 HELIX 17 17 ASP B 99 LEU B 118 1 20 HELIX 18 18 ALA B 132 SER B 146 1 15 HELIX 19 19 ASP B 177 ARG B 188 1 12 HELIX 20 20 GLY B 226 ILE B 239 1 14 HELIX 21 21 ASP B 251 ILE B 253 5 3 HELIX 22 22 PRO B 255 GLY B 269 1 15 HELIX 23 23 LEU B 299 GLN B 306 1 8 HELIX 24 24 ASP B 309 SER B 319 1 11 HELIX 25 25 SER B 329 ALA B 348 1 20 HELIX 26 26 ALA B 355 ASP B 368 1 14 HELIX 27 27 ASP B 371 GLY B 390 1 20 HELIX 28 28 GLU B 395 GLY B 409 1 15 SHEET 1 A 2 ARG A 20 ASP A 23 0 SHEET 2 A 2 GLN A 28 PRO A 31 -1 O ARG A 30 N LEU A 21 SHEET 1 B 5 ASP A 125 ALA A 128 0 SHEET 2 B 5 THR A 75 VAL A 82 1 N GLN A 80 O ASP A 125 SHEET 3 B 5 THR A 37 VAL A 42 1 N ALA A 38 O GLN A 77 SHEET 4 B 5 LEU A 243 GLY A 249 1 O GLY A 247 N TYR A 41 SHEET 5 B 5 ALA A 274 THR A 280 1 O VAL A 278 N GLN A 246 SHEET 1 C 4 ALA A 149 ILE A 151 0 SHEET 2 C 4 VAL A 160 PHE A 162 -1 O TYR A 161 N TYR A 150 SHEET 3 C 4 ALA A 203 ALA A 208 -1 O LEU A 205 N VAL A 160 SHEET 4 C 4 GLY A 223 PRO A 225 -1 O ARG A 224 N ARG A 207 SHEET 1 D 2 ILE A 283 GLY A 284 0 SHEET 2 D 2 ARG A 326 PHE A 327 1 O ARG A 326 N GLY A 284 SHEET 1 E 2 ARG B 20 ASP B 23 0 SHEET 2 E 2 GLN B 28 PRO B 31 -1 O GLN B 28 N ASP B 23 SHEET 1 F 5 ASP B 125 ALA B 128 0 SHEET 2 F 5 VAL B 76 VAL B 82 1 N GLN B 80 O VAL B 127 SHEET 3 F 5 ALA B 38 VAL B 42 1 N MET B 40 O VAL B 79 SHEET 4 F 5 ILE B 245 GLY B 249 1 O GLY B 247 N TYR B 41 SHEET 5 F 5 HIS B 276 THR B 280 1 O VAL B 278 N GLN B 246 SHEET 1 G 4 ALA B 149 ILE B 151 0 SHEET 2 G 4 VAL B 160 PHE B 162 -1 O TYR B 161 N TYR B 150 SHEET 3 G 4 ALA B 203 ALA B 208 -1 O LEU B 205 N VAL B 160 SHEET 4 G 4 GLY B 223 PRO B 225 -1 O ARG B 224 N ARG B 207 SHEET 1 H 2 ILE B 283 GLY B 284 0 SHEET 2 H 2 ARG B 326 PHE B 327 1 O ARG B 326 N GLY B 284 LINK SG CYS A 43 ZN ZN A 413 1555 1555 2.30 LINK SG CYS A 231 ZN ZN A 413 1555 1555 2.33 LINK NE2 HIS A 256 ZN ZN A 413 1555 1555 2.13 LINK ZN ZN A 413 SG 5CA A 418 1555 1555 2.44 LINK SG CYS B 43 ZN ZN B 413 1555 1555 2.33 LINK SG CYS B 231 ZN ZN B 413 1555 1555 2.34 LINK NE2 HIS B 256 ZN ZN B 413 1555 1555 2.10 LINK ZN ZN B 413 SG 5CA B 416 1555 1555 2.38 CISPEP 1 PHE A 254 PRO A 255 0 8.61 CISPEP 2 ALA B 50 THR B 51 0 -4.26 CISPEP 3 PHE B 254 PRO B 255 0 5.22 SITE 1 AC1 3 CYS A 43 CYS A 231 HIS A 256 SITE 1 AC2 3 CYS B 43 CYS B 231 HIS B 256 SITE 1 AC3 10 HOH A 589 ARG B 15 ALA B 18 LEU B 19 SITE 2 AC3 10 PRO B 34 HIS B 74 HOH B 444 HOH B 504 SITE 3 AC3 10 HOH B 525 HOH B 618 SITE 1 AC4 2 ARG A 207 ARG A 210 SITE 1 AC5 5 PRO A 7 ALA A 8 ARG A 119 HOH A 511 SITE 2 AC5 5 HOH A 569 SITE 1 AC6 3 PRO B 7 ALA B 8 ARG B 119 SITE 1 AC7 5 SER A 215 PRO A 217 ARG A 222 HOH A 506 SITE 2 AC7 5 HIS B -1 SITE 1 AC8 5 PRO A 353 ASP A 354 GLY A 391 HIS A 392 SITE 2 AC8 5 ASP A 393 SITE 1 AC9 27 CYS B 43 GLY B 44 ILE B 45 THR B 46 SITE 2 AC9 27 HIS B 52 GLY B 54 HIS B 55 THR B 58 SITE 3 AC9 27 TYR B 59 ASN B 81 THR B 83 TRP B 227 SITE 4 AC9 27 CYS B 231 GLY B 248 GLY B 249 ASP B 251 SITE 5 AC9 27 LEU B 252 HIS B 256 GLY B 281 MET B 282 SITE 6 AC9 27 ILE B 283 HOH B 459 HOH B 494 HOH B 502 SITE 7 AC9 27 HOH B 512 HOH B 810 HOH B 827 SITE 1 BC1 22 CYS A 43 GLY A 44 ILE A 45 THR A 46 SITE 2 BC1 22 GLY A 54 HIS A 55 THR A 58 TYR A 59 SITE 3 BC1 22 ASN A 81 THR A 83 TRP A 227 CYS A 231 SITE 4 BC1 22 GLY A 248 GLY A 249 ASP A 251 LEU A 252 SITE 5 BC1 22 GLY A 281 MET A 282 ILE A 283 HOH A 433 SITE 6 BC1 22 HOH A 479 HOH A 579 SITE 1 BC2 6 TYR A 157 GLU A 209 HOH A 436 HOH A 477 SITE 2 BC2 6 PRO B 122 HIS B 124 SITE 1 BC3 9 HOH A 465 MET B 1 ASP B 84 ARG B 101 SITE 2 BC3 9 ASP B 105 THR B 108 ALA B 128 THR B 130 SITE 3 BC3 9 TRP B 216 CRYST1 123.521 123.521 186.026 90.00 90.00 120.00 H 3 18 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008096 0.004674 0.000000 0.00000 SCALE2 0.000000 0.009348 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005376 0.00000