HEADER OXIDOREDUCTASE 02-MAY-07 2YYY TITLE CRYSTAL STRUCTURE OF GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GAPDH, NAD(P)-DEPENDENT GLYCERALDEHYDE-3-PHOSPHATE COMPND 5 DEHYDROGENASE; COMPND 6 EC: 1.2.1.59; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 243232; SOURCE 4 STRAIN: DSM2661; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-21A KEYWDS GLYCERALDEHYDE 3-PHOSPHATE BINDING, ALPHA AND BETA PROTEINS (A/B) KEYWDS 2 CLASS, MJ1146, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON KEYWDS 3 PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.D.MALAY,Y.BESSHO,B.PADMANABHAN,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 5 25-OCT-23 2YYY 1 REMARK REVDAT 4 09-FEB-10 2YYY 1 JRNL REVDAT 3 24-FEB-09 2YYY 1 VERSN REVDAT 2 14-OCT-08 2YYY 1 AUTHOR JRNL REVDAT 1 06-NOV-07 2YYY 0 JRNL AUTH A.D.MALAY,Y.BESSHO,M.J.ELLIS,S.V.ANTONYUK,R.W.STRANGE, JRNL AUTH 2 S.S.HASNAIN,A.SHINKAI,B.PADMANABHAN,S.YOKOYAMA JRNL TITL STRUCTURE OF GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE FROM JRNL TITL 2 THE ARCHAEAL HYPERTHERMOPHILE METHANOCALDOCOCCUS JANNASCHII. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 65 1227 2009 JRNL REFN ESSN 1744-3091 JRNL PMID 20054117 JRNL DOI 10.1107/S1744309109047046 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 59323 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3146 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3302 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 177 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5328 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 348 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.86000 REMARK 3 B22 (A**2) : 0.04000 REMARK 3 B33 (A**2) : -0.89000 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): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.117 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.078 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.612 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5516 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7490 ; 1.507 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 682 ; 6.116 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 874 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4044 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2741 ; 0.210 ; 0.200 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): 351 ; 0.132 ; 0.200 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): 83 ; 0.174 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 22 ; 0.221 ; 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): 3408 ; 0.724 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5558 ; 1.296 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2108 ; 2.418 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1932 ; 3.886 ; 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2YYY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000027310. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 120 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX10.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.117 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 WITH SAGITTAL FOCUSSING REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62507 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.23800 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: 1CF2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M MAGNESIUM CHLORIDE HEXAHYDRATE, REMARK 280 0.08M TRIS HYDROCHLORIDE, PH 8.5, 24%(W/V) PEG4000, 20%(V/V) REMARK 280 GLYCEROL ANHYDROUS, OIL-BATCH, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.27600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.27600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 41.69900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 76.02000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 41.69900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 76.02000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.27600 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 41.69900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 76.02000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.27600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 41.69900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 76.02000 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 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 300 DETAILS: AUTHOR DETERMINED BIOLOGICAL UNIT: UNKNOWN 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25960 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 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 1 REMARK 465 MET B 1 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 OD1 ASN B 145 NH1 ARG B 171 2.08 REMARK 500 OD2 ASP A 122 CD ARG A 132 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 1122 O HOH B 1122 3655 2.09 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 ARG A 132 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 132 NE - CZ - NH2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 171 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 171 NE - CZ - NH2 ANGL. DEV. = -3.4 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 LYS A 92 -32.98 87.52 REMARK 500 ILE A 101 -56.17 -122.84 REMARK 500 ASN A 185 78.54 -152.17 REMARK 500 ASN A 190 88.61 -152.49 REMARK 500 ASP B 38 -169.76 -104.16 REMARK 500 LYS B 92 -32.69 86.86 REMARK 500 ILE B 101 -57.89 -125.11 REMARK 500 ASN B 185 76.26 -150.02 REMARK 500 ASN B 190 89.99 -154.10 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 NAP B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A 2001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MJA001001146.1 RELATED DB: TARGETDB DBREF 2YYY A 1 343 UNP Q58546 G3P_METJA 1 343 DBREF 2YYY B 1 343 UNP Q58546 G3P_METJA 1 343 SEQRES 1 A 343 MET PRO ALA LYS VAL LEU ILE ASN GLY TYR GLY SER ILE SEQRES 2 A 343 GLY LYS ARG VAL ALA ASP ALA VAL SER MET GLN ASP ASP SEQRES 3 A 343 MET GLU VAL ILE GLY VAL THR LYS THR LYS PRO ASP PHE SEQRES 4 A 343 GLU ALA ARG LEU ALA VAL GLU LYS GLY TYR LYS LEU PHE SEQRES 5 A 343 VAL ALA ILE PRO ASP ASN GLU ARG VAL LYS LEU PHE GLU SEQRES 6 A 343 ASP ALA GLY ILE PRO VAL GLU GLY THR ILE LEU ASP ILE SEQRES 7 A 343 ILE GLU ASP ALA ASP ILE VAL VAL ASP GLY ALA PRO LYS SEQRES 8 A 343 LYS ILE GLY LYS GLN ASN LEU GLU ASN ILE TYR LYS PRO SEQRES 9 A 343 HIS LYS VAL LYS ALA ILE LEU GLN GLY GLY GLU LYS ALA SEQRES 10 A 343 LYS ASP VAL GLU ASP ASN PHE ASN ALA LEU TRP SER TYR SEQRES 11 A 343 ASN ARG CYS TYR GLY LYS ASP TYR VAL ARG VAL VAL SER SEQRES 12 A 343 CYS ASN THR THR GLY LEU CYS ARG ILE LEU TYR ALA ILE SEQRES 13 A 343 ASN SER ILE ALA ASP ILE LYS LYS ALA ARG ILE VAL LEU SEQRES 14 A 343 VAL ARG ARG ALA ALA ASP PRO ASN ASP ASP LYS THR GLY SEQRES 15 A 343 PRO VAL ASN ALA ILE THR PRO ASN PRO VAL THR VAL PRO SEQRES 16 A 343 SER HIS HIS GLY PRO ASP VAL VAL SER VAL VAL PRO GLU SEQRES 17 A 343 PHE GLU GLY LYS ILE LEU THR SER ALA VAL ILE VAL PRO SEQRES 18 A 343 THR THR LEU MET HIS MET HIS THR LEU MET VAL GLU VAL SEQRES 19 A 343 ASP GLY ASP VAL SER ARG ASP ASP ILE LEU GLU ALA ILE SEQRES 20 A 343 LYS LYS THR PRO ARG ILE ILE THR VAL ARG ALA GLU ASP SEQRES 21 A 343 GLY PHE SER SER THR ALA LYS ILE ILE GLU TYR GLY ARG SEQRES 22 A 343 ASP LEU GLY ARG LEU ARG TYR ASP ILE ASN GLU LEU VAL SEQRES 23 A 343 VAL TRP GLU GLU SER ILE ASN VAL LEU GLU ASN GLU ILE SEQRES 24 A 343 PHE LEU MET GLN ALA VAL HIS GLN GLU SER ILE VAL ILE SEQRES 25 A 343 PRO GLU ASN ILE ASP CYS ILE ARG ALA MET LEU GLN MET SEQRES 26 A 343 GLU GLU ASP ASN PHE LYS SER ILE GLU LYS THR ASN LYS SEQRES 27 A 343 ALA MET GLY ILE GLN SEQRES 1 B 343 MET PRO ALA LYS VAL LEU ILE ASN GLY TYR GLY SER ILE SEQRES 2 B 343 GLY LYS ARG VAL ALA ASP ALA VAL SER MET GLN ASP ASP SEQRES 3 B 343 MET GLU VAL ILE GLY VAL THR LYS THR LYS PRO ASP PHE SEQRES 4 B 343 GLU ALA ARG LEU ALA VAL GLU LYS GLY TYR LYS LEU PHE SEQRES 5 B 343 VAL ALA ILE PRO ASP ASN GLU ARG VAL LYS LEU PHE GLU SEQRES 6 B 343 ASP ALA GLY ILE PRO VAL GLU GLY THR ILE LEU ASP ILE SEQRES 7 B 343 ILE GLU ASP ALA ASP ILE VAL VAL ASP GLY ALA PRO LYS SEQRES 8 B 343 LYS ILE GLY LYS GLN ASN LEU GLU ASN ILE TYR LYS PRO SEQRES 9 B 343 HIS LYS VAL LYS ALA ILE LEU GLN GLY GLY GLU LYS ALA SEQRES 10 B 343 LYS ASP VAL GLU ASP ASN PHE ASN ALA LEU TRP SER TYR SEQRES 11 B 343 ASN ARG CYS TYR GLY LYS ASP TYR VAL ARG VAL VAL SER SEQRES 12 B 343 CYS ASN THR THR GLY LEU CYS ARG ILE LEU TYR ALA ILE SEQRES 13 B 343 ASN SER ILE ALA ASP ILE LYS LYS ALA ARG ILE VAL LEU SEQRES 14 B 343 VAL ARG ARG ALA ALA ASP PRO ASN ASP ASP LYS THR GLY SEQRES 15 B 343 PRO VAL ASN ALA ILE THR PRO ASN PRO VAL THR VAL PRO SEQRES 16 B 343 SER HIS HIS GLY PRO ASP VAL VAL SER VAL VAL PRO GLU SEQRES 17 B 343 PHE GLU GLY LYS ILE LEU THR SER ALA VAL ILE VAL PRO SEQRES 18 B 343 THR THR LEU MET HIS MET HIS THR LEU MET VAL GLU VAL SEQRES 19 B 343 ASP GLY ASP VAL SER ARG ASP ASP ILE LEU GLU ALA ILE SEQRES 20 B 343 LYS LYS THR PRO ARG ILE ILE THR VAL ARG ALA GLU ASP SEQRES 21 B 343 GLY PHE SER SER THR ALA LYS ILE ILE GLU TYR GLY ARG SEQRES 22 B 343 ASP LEU GLY ARG LEU ARG TYR ASP ILE ASN GLU LEU VAL SEQRES 23 B 343 VAL TRP GLU GLU SER ILE ASN VAL LEU GLU ASN GLU ILE SEQRES 24 B 343 PHE LEU MET GLN ALA VAL HIS GLN GLU SER ILE VAL ILE SEQRES 25 B 343 PRO GLU ASN ILE ASP CYS ILE ARG ALA MET LEU GLN MET SEQRES 26 B 343 GLU GLU ASP ASN PHE LYS SER ILE GLU LYS THR ASN LYS SEQRES 27 B 343 ALA MET GLY ILE GLN HET NAP A2001 48 HET NAP B1001 48 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 3 NAP 2(C21 H28 N7 O17 P3) FORMUL 5 HOH *348(H2 O) HELIX 1 1 GLY A 11 GLN A 24 1 14 HELIX 2 2 ASP A 38 LYS A 47 1 10 HELIX 3 3 ASP A 57 ALA A 67 1 11 HELIX 4 4 THR A 74 ALA A 82 5 9 HELIX 5 5 LYS A 92 ILE A 101 1 10 HELIX 6 6 LYS A 116 VAL A 120 5 5 HELIX 7 7 SER A 129 TYR A 134 1 6 HELIX 8 8 SER A 143 SER A 158 1 16 HELIX 9 9 HIS A 197 VAL A 206 1 10 HELIX 10 10 PRO A 207 GLU A 210 5 4 HELIX 11 11 SER A 239 THR A 250 1 12 HELIX 12 12 ARG A 257 GLY A 261 5 5 HELIX 13 13 SER A 264 GLY A 276 1 13 HELIX 14 14 ARG A 277 ASP A 281 5 5 HELIX 15 15 GLU A 290 ILE A 292 5 3 HELIX 16 16 VAL A 311 LEU A 323 1 13 HELIX 17 17 ASP A 328 GLY A 341 1 14 HELIX 18 18 GLY B 11 GLN B 24 1 14 HELIX 19 19 ASP B 38 LYS B 47 1 10 HELIX 20 20 ASP B 57 GLY B 68 1 12 HELIX 21 21 THR B 74 ALA B 82 5 9 HELIX 22 22 LYS B 92 ILE B 101 1 10 HELIX 23 23 LYS B 116 VAL B 120 5 5 HELIX 24 24 SER B 143 SER B 158 1 16 HELIX 25 25 HIS B 197 VAL B 206 1 10 HELIX 26 26 PRO B 207 GLU B 210 5 4 HELIX 27 27 SER B 239 THR B 250 1 12 HELIX 28 28 ARG B 257 GLY B 261 5 5 HELIX 29 29 SER B 264 GLY B 276 1 13 HELIX 30 30 ARG B 277 ASP B 281 5 5 HELIX 31 31 GLU B 290 ILE B 292 5 3 HELIX 32 32 VAL B 311 LEU B 323 1 13 HELIX 33 33 ASP B 328 GLY B 341 1 14 SHEET 1 A 7 LEU A 51 VAL A 53 0 SHEET 2 A 7 MET A 27 LYS A 34 1 N VAL A 32 O PHE A 52 SHEET 3 A 7 ALA A 3 ASN A 8 1 N VAL A 5 O GLU A 28 SHEET 4 A 7 ILE A 84 ASP A 87 1 O VAL A 86 N LEU A 6 SHEET 5 A 7 LYS A 108 LEU A 111 1 O ILE A 110 N ASP A 87 SHEET 6 A 7 TYR A 138 VAL A 141 1 O VAL A 141 N LEU A 111 SHEET 7 A 7 ASP A 122 PHE A 124 1 N PHE A 124 O ARG A 140 SHEET 1 B 7 THR A 188 PRO A 189 0 SHEET 2 B 7 ILE A 213 VAL A 220 -1 O ILE A 219 N THR A 188 SHEET 3 B 7 ASP A 161 ARG A 172 1 N ALA A 165 O LEU A 214 SHEET 4 B 7 HIS A 226 ASP A 235 -1 O MET A 227 N VAL A 170 SHEET 5 B 7 GLU A 298 VAL A 305 -1 O ILE A 299 N VAL A 232 SHEET 6 B 7 LEU A 285 TRP A 288 -1 N VAL A 286 O ALA A 304 SHEET 7 B 7 ILE A 253 VAL A 256 1 N ILE A 254 O LEU A 285 SHEET 1 C 6 THR A 188 PRO A 189 0 SHEET 2 C 6 ILE A 213 VAL A 220 -1 O ILE A 219 N THR A 188 SHEET 3 C 6 ASP A 161 ARG A 172 1 N ALA A 165 O LEU A 214 SHEET 4 C 6 HIS A 226 ASP A 235 -1 O MET A 227 N VAL A 170 SHEET 5 C 6 GLU A 298 VAL A 305 -1 O ILE A 299 N VAL A 232 SHEET 6 C 6 ASN A 293 LEU A 295 -1 N ASN A 293 O PHE A 300 SHEET 1 D 7 LEU B 51 VAL B 53 0 SHEET 2 D 7 MET B 27 LYS B 34 1 N VAL B 32 O PHE B 52 SHEET 3 D 7 ALA B 3 ASN B 8 1 N VAL B 5 O GLU B 28 SHEET 4 D 7 ILE B 84 ASP B 87 1 O VAL B 86 N LEU B 6 SHEET 5 D 7 LYS B 108 LEU B 111 1 O ILE B 110 N ASP B 87 SHEET 6 D 7 TYR B 138 VAL B 141 1 O VAL B 141 N LEU B 111 SHEET 7 D 7 ASP B 122 PHE B 124 1 N PHE B 124 O ARG B 140 SHEET 1 E 7 THR B 188 PRO B 189 0 SHEET 2 E 7 ILE B 213 VAL B 220 -1 O ILE B 219 N THR B 188 SHEET 3 E 7 ASP B 161 ARG B 172 1 N ARG B 171 O VAL B 218 SHEET 4 E 7 HIS B 226 ASP B 235 -1 O MET B 227 N VAL B 170 SHEET 5 E 7 GLU B 298 VAL B 305 -1 O ILE B 299 N VAL B 232 SHEET 6 E 7 LEU B 285 TRP B 288 -1 N VAL B 286 O ALA B 304 SHEET 7 E 7 ILE B 253 VAL B 256 1 N ILE B 254 O LEU B 285 SHEET 1 F 6 THR B 188 PRO B 189 0 SHEET 2 F 6 ILE B 213 VAL B 220 -1 O ILE B 219 N THR B 188 SHEET 3 F 6 ASP B 161 ARG B 172 1 N ARG B 171 O VAL B 218 SHEET 4 F 6 HIS B 226 ASP B 235 -1 O MET B 227 N VAL B 170 SHEET 5 F 6 GLU B 298 VAL B 305 -1 O ILE B 299 N VAL B 232 SHEET 6 F 6 ASN B 293 LEU B 295 -1 N ASN B 293 O PHE B 300 CISPEP 1 GLY A 182 PRO A 183 0 4.45 CISPEP 2 ASN A 190 PRO A 191 0 3.62 CISPEP 3 VAL A 194 PRO A 195 0 -6.15 CISPEP 4 GLY B 182 PRO B 183 0 5.98 CISPEP 5 ASN B 190 PRO B 191 0 2.78 CISPEP 6 VAL B 194 PRO B 195 0 -2.17 SITE 1 AC1 28 ASN B 8 GLY B 9 TYR B 10 GLY B 11 SITE 2 AC1 28 SER B 12 ILE B 13 LYS B 34 THR B 35 SITE 3 AC1 28 LYS B 36 ALA B 54 GLY B 88 ALA B 89 SITE 4 AC1 28 PRO B 90 ILE B 93 ASN B 97 GLN B 112 SITE 5 AC1 28 GLY B 114 CYS B 144 ARG B 172 ASP B 175 SITE 6 AC1 28 GLN B 307 HOH B1004 HOH B1005 HOH B1062 SITE 7 AC1 28 HOH B1075 HOH B1119 HOH B1127 HOH B1142 SITE 1 AC2 28 ASN A 8 GLY A 9 TYR A 10 GLY A 11 SITE 2 AC2 28 SER A 12 ILE A 13 LYS A 34 THR A 35 SITE 3 AC2 28 LYS A 36 ALA A 54 GLY A 88 ALA A 89 SITE 4 AC2 28 PRO A 90 ILE A 93 ASN A 97 GLN A 112 SITE 5 AC2 28 GLY A 114 CYS A 144 ARG A 172 ASP A 175 SITE 6 AC2 28 GLN A 307 HOH A2025 HOH A2038 HOH A2045 SITE 7 AC2 28 HOH A2099 HOH A2100 HOH A2105 HOH A2112 CRYST1 83.398 152.040 118.552 90.00 90.00 90.00 C 2 2 21 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 0.011991 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006577 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008435 0.00000