HEADER TRANSFERASE 16-JUN-20 7CCA TITLE CRYSTAL STRUCTURE OF WHITE SPOT SYNDROME VIRUS THYMIDYLATE SYNTHASE - TITLE 2 TERNARY COMPLEX WITH METHOTREXATE AND DUMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: THYMIDYLATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: WSV067; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: WHITE SPOT SYNDROME VIRUS (ISOLATE SOURCE 3 SHRIMP/CHINA/TONGAN/1996); SOURCE 4 ORGANISM_COMMON: WSSV; SOURCE 5 ORGANISM_TAXID: 654913; SOURCE 6 STRAIN: ISOLATE SHRIMP/CHINA/TONGAN/1996; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS THYMIDYLATE SYNTHASE, BIOSYNTHETIC PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.V.PANCHAL,S.KUMAR,N.SHAIKH,D.VASUDEVAN REVDAT 3 29-NOV-23 7CCA 1 REMARK REVDAT 2 27-JAN-21 7CCA 1 JRNL REVDAT 1 25-NOV-20 7CCA 0 JRNL AUTH V.PANCHAL,S.KUMAR,S.N.HOSSAIN,D.VASUDEVAN JRNL TITL STRUCTURE ANALYSIS OF THYMIDYLATE SYNTHASE FROM WHITE SPOT JRNL TITL 2 SYNDROME VIRUS REVEALS WSSV-SPECIFIC STRUCTURAL ELEMENTS. JRNL REF INT.J.BIOL.MACROMOL. V. 167 1168 2021 JRNL REFN ISSN 0141-8130 JRNL PMID 33197475 JRNL DOI 10.1016/J.IJBIOMAC.2020.11.071 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 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) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 24626 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1268 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) : 2.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1858 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 93 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4636 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 106 REMARK 3 SOLVENT ATOMS : 31 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.09000 REMARK 3 B22 (A**2) : 1.09000 REMARK 3 B33 (A**2) : -2.17000 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): 0.489 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.286 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.204 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.610 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4860 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4486 ; 0.004 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6573 ; 1.742 ; 1.665 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10393 ; 1.296 ; 1.588 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 574 ; 8.180 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 260 ;29.316 ;21.538 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 845 ;15.831 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;18.376 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 602 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5382 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1076 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 286 1 REMARK 3 1 B 1 B 286 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 1 A (A**2): 2304 ; 6.680 ; 0.500 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7CCA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1300017372. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9677 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24626 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 45.360 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 200 DATA REDUNDANCY : 4.600 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.60300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 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: 7CC8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.1 M AMMONIUM TARTRATE DIBASIC, PH 7, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 117.36000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 46.19250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 46.19250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 176.04000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 46.19250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 46.19250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 58.68000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 46.19250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.19250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 176.04000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 46.19250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.19250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 58.68000 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 117.36000 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, 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 LEU A 290 REMARK 465 GLU A 291 REMARK 465 HIS A 292 REMARK 465 HIS A 293 REMARK 465 HIS A 294 REMARK 465 HIS A 295 REMARK 465 HIS A 296 REMARK 465 HIS A 297 REMARK 465 ALA B 288 REMARK 465 VAL B 289 REMARK 465 LEU B 290 REMARK 465 GLU B 291 REMARK 465 HIS B 292 REMARK 465 HIS B 293 REMARK 465 HIS B 294 REMARK 465 HIS B 295 REMARK 465 HIS B 296 REMARK 465 HIS 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 LYS A 21 98.06 -161.87 REMARK 500 ASP A 22 -178.41 -55.64 REMARK 500 ARG A 24 -45.92 -24.62 REMARK 500 THR A 27 162.08 165.18 REMARK 500 LEU A 98 59.46 -104.72 REMARK 500 TYR A 110 -83.92 -1.29 REMARK 500 HIS A 116 37.19 -148.66 REMARK 500 ASP A 122 -88.33 -109.61 REMARK 500 ASN A 146 66.04 -153.50 REMARK 500 CYS A 170 -63.22 -100.24 REMARK 500 SER A 280 172.30 -57.19 REMARK 500 ALA A 288 -147.28 -148.60 REMARK 500 LYS B 21 96.23 -166.30 REMARK 500 ARG B 24 -37.84 -29.72 REMARK 500 LEU B 98 63.00 -102.79 REMARK 500 TYR B 110 -93.08 19.95 REMARK 500 HIS B 116 34.94 -147.88 REMARK 500 ASP B 122 -89.53 -109.90 REMARK 500 ASN B 146 64.94 -153.95 REMARK 500 CYS B 170 -62.87 -93.68 REMARK 500 ASN B 282 -152.64 118.30 REMARK 500 LEU B 283 -165.19 100.18 REMARK 500 GLN B 284 111.26 83.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UMP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MTX A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UMP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MTX B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7CC8 RELATED DB: PDB REMARK 900 APO STRUCTURE DBREF 7CCA A 1 289 UNP Q77J90 Q77J90_WSSVS 1 289 DBREF 7CCA B 1 289 UNP Q77J90 Q77J90_WSSVS 1 289 SEQADV 7CCA LEU A 290 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA GLU A 291 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS A 292 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS A 293 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS A 294 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS A 295 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS A 296 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS A 297 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA LEU B 290 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA GLU B 291 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS B 292 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS B 293 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS B 294 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS B 295 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS B 296 UNP Q77J90 EXPRESSION TAG SEQADV 7CCA HIS B 297 UNP Q77J90 EXPRESSION TAG SEQRES 1 A 297 MET GLU GLY GLU HIS GLN TYR LEU ASN LEU VAL ARG GLU SEQRES 2 A 297 ILE LEU GLU ARG GLY VAL LYS LYS ASP ASP ARG THR GLY SEQRES 3 A 297 THR GLY THR LEU SER ILE PHE GLY PRO GLN MET ARG PHE SEQRES 4 A 297 SER LEU ARG ASP ASP THR ILE PRO VAL LEU THR THR LYS SEQRES 5 A 297 LYS ILE PHE TRP ARG GLY VAL VAL GLU GLU LEU LEU TRP SEQRES 6 A 297 PHE ILE ARG GLY ASN THR ASP ALA LYS GLU LEU ALA LYS SEQRES 7 A 297 LYS LYS ILE HIS ILE TRP ASN ALA ASN GLY SER ARG GLU SEQRES 8 A 297 PHE LEU ASP SER ARG GLY LEU TYR ASP ARG ALA GLU GLY SEQRES 9 A 297 ASP LEU GLY PRO VAL TYR GLY PHE GLN TRP ARG HIS PHE SEQRES 10 A 297 GLY ALA GLU TYR ASP THR CYS SER SER ASP TYR THR GLY SEQRES 11 A 297 LYS GLY ILE ASP GLN LEU ALA ASN ILE LEU LYS THR LEU SEQRES 12 A 297 ARG GLU ASN PRO ASP ASP ARG ARG MET ILE MET THR ALA SEQRES 13 A 297 TRP ASN PRO MET ASP LEU HIS LEU MET ALA LEU PRO PRO SEQRES 14 A 297 CYS HIS MET THR ALA GLN PHE TYR VAL ALA ASN GLY GLU SEQRES 15 A 297 LEU SER CYS GLN LEU TYR GLN ARG SER GLY ASP VAL GLY SEQRES 16 A 297 LEU GLY VAL PRO PHE ASN ILE ALA SER TYR SER LEU LEU SEQRES 17 A 297 THR HIS LEU MET ALA SER MET VAL GLY LEU LYS PRO GLY SEQRES 18 A 297 GLU PHE ILE LEU THR LEU GLY ASP ALA HIS ILE TYR ASN SEQRES 19 A 297 THR HIS ILE GLU VAL LEU LYS LYS GLN LEU CYS ARG VAL SEQRES 20 A 297 PRO ARG PRO PHE PRO LYS LEU ARG ILE LEU MET ALA PRO SEQRES 21 A 297 GLU LYS ILE GLU ASP PHE THR ILE ASP MET PHE TYR LEU SEQRES 22 A 297 GLU GLY TYR GLN PRO HIS SER GLY ASN LEU GLN MET LYS SEQRES 23 A 297 MET ALA VAL LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 297 MET GLU GLY GLU HIS GLN TYR LEU ASN LEU VAL ARG GLU SEQRES 2 B 297 ILE LEU GLU ARG GLY VAL LYS LYS ASP ASP ARG THR GLY SEQRES 3 B 297 THR GLY THR LEU SER ILE PHE GLY PRO GLN MET ARG PHE SEQRES 4 B 297 SER LEU ARG ASP ASP THR ILE PRO VAL LEU THR THR LYS SEQRES 5 B 297 LYS ILE PHE TRP ARG GLY VAL VAL GLU GLU LEU LEU TRP SEQRES 6 B 297 PHE ILE ARG GLY ASN THR ASP ALA LYS GLU LEU ALA LYS SEQRES 7 B 297 LYS LYS ILE HIS ILE TRP ASN ALA ASN GLY SER ARG GLU SEQRES 8 B 297 PHE LEU ASP SER ARG GLY LEU TYR ASP ARG ALA GLU GLY SEQRES 9 B 297 ASP LEU GLY PRO VAL TYR GLY PHE GLN TRP ARG HIS PHE SEQRES 10 B 297 GLY ALA GLU TYR ASP THR CYS SER SER ASP TYR THR GLY SEQRES 11 B 297 LYS GLY ILE ASP GLN LEU ALA ASN ILE LEU LYS THR LEU SEQRES 12 B 297 ARG GLU ASN PRO ASP ASP ARG ARG MET ILE MET THR ALA SEQRES 13 B 297 TRP ASN PRO MET ASP LEU HIS LEU MET ALA LEU PRO PRO SEQRES 14 B 297 CYS HIS MET THR ALA GLN PHE TYR VAL ALA ASN GLY GLU SEQRES 15 B 297 LEU SER CYS GLN LEU TYR GLN ARG SER GLY ASP VAL GLY SEQRES 16 B 297 LEU GLY VAL PRO PHE ASN ILE ALA SER TYR SER LEU LEU SEQRES 17 B 297 THR HIS LEU MET ALA SER MET VAL GLY LEU LYS PRO GLY SEQRES 18 B 297 GLU PHE ILE LEU THR LEU GLY ASP ALA HIS ILE TYR ASN SEQRES 19 B 297 THR HIS ILE GLU VAL LEU LYS LYS GLN LEU CYS ARG VAL SEQRES 20 B 297 PRO ARG PRO PHE PRO LYS LEU ARG ILE LEU MET ALA PRO SEQRES 21 B 297 GLU LYS ILE GLU ASP PHE THR ILE ASP MET PHE TYR LEU SEQRES 22 B 297 GLU GLY TYR GLN PRO HIS SER GLY ASN LEU GLN MET LYS SEQRES 23 B 297 MET ALA VAL LEU GLU HIS HIS HIS HIS HIS HIS HET UMP A 301 20 HET MTX A 302 33 HET UMP B 301 20 HET MTX B 302 33 HETNAM UMP 2'-DEOXYURIDINE 5'-MONOPHOSPHATE HETNAM MTX METHOTREXATE HETSYN UMP DUMP FORMUL 3 UMP 2(C9 H13 N2 O8 P) FORMUL 4 MTX 2(C20 H22 N8 O5) FORMUL 7 HOH *31(H2 O) HELIX 1 AA1 GLU A 4 GLY A 18 1 15 HELIX 2 AA2 ARG A 42 THR A 45 5 4 HELIX 3 AA3 PHE A 55 GLY A 69 1 15 HELIX 4 AA4 ASP A 72 LYS A 79 1 8 HELIX 5 AA5 TRP A 84 SER A 89 1 6 HELIX 6 AA6 SER A 89 ARG A 96 1 8 HELIX 7 AA7 VAL A 109 PHE A 117 1 9 HELIX 8 AA8 ASP A 134 ASN A 146 1 13 HELIX 9 AA9 ASP A 161 MET A 165 5 5 HELIX 10 AB1 GLY A 197 VAL A 216 1 20 HELIX 11 AB2 HIS A 236 CYS A 245 1 10 HELIX 12 AB3 LYS A 262 PHE A 266 5 5 HELIX 13 AB4 THR A 267 ASP A 269 5 3 HELIX 14 AB5 GLU B 4 GLY B 18 1 15 HELIX 15 AB6 ARG B 42 THR B 45 5 4 HELIX 16 AB7 PHE B 55 GLY B 69 1 15 HELIX 17 AB8 ASP B 72 LYS B 79 1 8 HELIX 18 AB9 ASN B 85 GLY B 88 5 4 HELIX 19 AC1 SER B 89 ARG B 96 1 8 HELIX 20 AC2 TYR B 110 PHE B 117 1 8 HELIX 21 AC3 ASP B 134 ASN B 146 1 13 HELIX 22 AC4 ASP B 161 MET B 165 5 5 HELIX 23 AC5 LEU B 196 VAL B 216 1 21 HELIX 24 AC6 HIS B 236 CYS B 245 1 10 HELIX 25 AC7 LYS B 262 PHE B 266 5 5 HELIX 26 AC8 THR B 267 ASP B 269 5 3 SHEET 1 AA1 4 VAL A 19 LYS A 21 0 SHEET 2 AA1 4 THR A 29 PHE A 33 -1 O SER A 31 N VAL A 19 SHEET 3 AA1 4 LYS A 219 TYR A 233 -1 O ALA A 230 N ILE A 32 SHEET 4 AA1 4 GLN A 36 SER A 40 -1 N PHE A 39 O PHE A 223 SHEET 1 AA2 6 VAL A 19 LYS A 21 0 SHEET 2 AA2 6 THR A 29 PHE A 33 -1 O SER A 31 N VAL A 19 SHEET 3 AA2 6 LYS A 219 TYR A 233 -1 O ALA A 230 N ILE A 32 SHEET 4 AA2 6 GLU A 182 ASP A 193 1 N LEU A 183 O LYS A 219 SHEET 5 AA2 6 HIS A 171 ALA A 179 -1 N THR A 173 O TYR A 188 SHEET 6 AA2 6 ILE A 153 THR A 155 -1 N MET A 154 O ALA A 174 SHEET 1 AA3 2 LYS A 253 ILE A 256 0 SHEET 2 AA3 2 PHE A 271 GLU A 274 -1 O TYR A 272 N ARG A 255 SHEET 1 AA4 4 VAL B 19 ASP B 22 0 SHEET 2 AA4 4 GLY B 28 PHE B 33 -1 O SER B 31 N VAL B 19 SHEET 3 AA4 4 LYS B 219 TYR B 233 -1 O ALA B 230 N ILE B 32 SHEET 4 AA4 4 GLN B 36 SER B 40 -1 N PHE B 39 O PHE B 223 SHEET 1 AA5 6 VAL B 19 ASP B 22 0 SHEET 2 AA5 6 GLY B 28 PHE B 33 -1 O SER B 31 N VAL B 19 SHEET 3 AA5 6 LYS B 219 TYR B 233 -1 O ALA B 230 N ILE B 32 SHEET 4 AA5 6 GLU B 182 ASP B 193 1 N LEU B 183 O LYS B 219 SHEET 5 AA5 6 HIS B 171 ALA B 179 -1 N THR B 173 O TYR B 188 SHEET 6 AA5 6 ILE B 153 THR B 155 -1 N MET B 154 O ALA B 174 SHEET 1 AA6 2 LYS B 253 ILE B 256 0 SHEET 2 AA6 2 PHE B 271 GLU B 274 -1 O GLU B 274 N LYS B 253 SITE 1 AC1 13 ARG A 24 CYS A 170 HIS A 171 GLN A 189 SITE 2 AC1 13 ARG A 190 SER A 191 ASP A 193 ASN A 201 SITE 3 AC1 13 HIS A 231 TYR A 233 MTX A 302 ARG B 150 SITE 4 AC1 13 ARG B 151 SITE 1 AC2 8 HIS A 82 ILE A 83 ASP A 193 GLY A 197 SITE 2 AC2 8 PHE A 200 TYR A 233 LYS A 286 UMP A 301 SITE 1 AC3 14 ARG A 150 ARG A 151 ARG B 24 CYS B 170 SITE 2 AC3 14 HIS B 171 GLN B 189 ARG B 190 SER B 191 SITE 3 AC3 14 GLY B 192 ASP B 193 ASN B 201 HIS B 231 SITE 4 AC3 14 TYR B 233 MTX B 302 SITE 1 AC4 11 PHE B 55 ILE B 81 HIS B 82 ILE B 83 SITE 2 AC4 11 LEU B 167 ASP B 193 GLY B 197 PHE B 200 SITE 3 AC4 11 TYR B 233 LYS B 286 UMP B 301 CRYST1 92.385 92.385 234.720 90.00 90.00 90.00 P 43 21 2 16 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 0.010824 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010824 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004260 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 -0.640894 0.765623 0.055465 39.52488 1 MTRIX2 2 0.766863 0.635350 0.090840 -16.84287 1 MTRIX3 2 0.034310 0.100753 -0.994320 -27.72703 1