HEADER TRANSLATION 08-DEC-13 3WND TITLE CRYSTAL STRUCTURE OF EF-PYL COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN TRANSLATION ELONGATION FACTOR 1A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TRANSLATION FACTOR EF-PYL; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOSARCINA MAZEI; SOURCE 3 ORGANISM_TAXID: 2209; SOURCE 4 STRAIN: JCM9314; SOURCE 5 GENE: MM_1309; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28C KEYWDS STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 2 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 3 INITIATIVE, RSGI, TRNA, ELONGATION FACTOR, PYRROLYSINE, TRANSLATION EXPDTA X-RAY DIFFRACTION AUTHOR T.YANAGISAWA,R.ISHII,R.FUKUNAGA,T.SENGOKU,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 08-NOV-23 3WND 1 REMARK REVDAT 2 06-MAY-20 3WND 1 JRNL SEQADV REVDAT 1 10-DEC-14 3WND 0 JRNL AUTH T.YANAGISAWA,R.ISHII,Y.HIKIDA,R.FUKUNAGA,T.SENGOKU,S.SEKINE, JRNL AUTH 2 S.YOKOYAMA JRNL TITL A SELB/EF-TU/AIF2 GAMMA-LIKE PROTEIN FROM METHANOSARCINA JRNL TITL 2 MAZEI IN THE GTP-BOUND FORM BINDS CYSTEINYL-TRNA(CYS.). JRNL REF J. STRUCT. FUNCT. GENOMICS V. 16 25 2015 JRNL REFN ISSN 1570-0267 JRNL PMID 25618148 JRNL DOI 10.1007/S10969-015-9193-6 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.15 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 51110 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.200 REMARK 3 FREE R VALUE TEST SET COUNT : 5781 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3540 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.1780 REMARK 3 BIN FREE R VALUE SET COUNT : 399 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2765 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 307 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.04000 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): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.084 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.052 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.190 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): 2885 ; 0.024 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3907 ; 2.281 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 374 ; 6.575 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 115 ;34.549 ;24.957 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 536 ;14.936 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;18.877 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 461 ; 0.233 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2121 ; 0.013 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2885 ; 9.409 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 65 ;25.581 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3083 ;18.943 ; 5.000 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 USED IF PRESENT IN REMARK 3 THE INPUT U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3WND COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-DEC-13. REMARK 100 THE DEPOSITION ID IS D_1000096552. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : ROTATED-INCLINED DOUBLE-CRYSTAL REMARK 200 MONOCHROMATOR, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57020 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 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 (%) : 98.1 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08900 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: 3WNB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NA/ACETATE, NA/CITRATE, PH 4.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 30.93650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.30400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.93650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.30400 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: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 502 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 581 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 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 O HOH A 649 O HOH A 780 1.87 REMARK 500 SG CYS A 131 O HOH A 792 2.03 REMARK 500 O2 CIT A 402 O HOH A 751 2.07 REMARK 500 O LYS A 93 O HOH A 773 2.07 REMARK 500 O HOH A 776 O HOH A 789 2.11 REMARK 500 NH1 ARG A 14 O HOH A 655 2.14 REMARK 500 O HOH A 601 O HOH A 617 2.14 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 A 540 O HOH A 684 4544 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 A 14 CZ ARG A 14 NH1 -0.103 REMARK 500 HIS A 79 CG HIS A 79 CD2 0.083 REMARK 500 HIS A 179 CG HIS A 179 CD2 0.075 REMARK 500 HIS A 283 CG HIS A 283 CD2 0.063 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 14 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 14 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ASP A 223 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP A 338 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP A 338 CB - CG - OD2 ANGL. DEV. = -6.9 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 SER A 28 -111.72 -134.27 REMARK 500 ASP A 77 -168.04 -112.85 REMARK 500 THR A 205 -157.70 -152.14 REMARK 500 ASP A 223 4.39 81.30 REMARK 500 ASN A 241 12.01 88.25 REMARK 500 PHE A 272 44.80 -107.22 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 CIT A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CIT A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ELF RELATED DB: PDB REMARK 900 RELATED ID: 3WNB RELATED DB: PDB REMARK 900 RELATED ID: 3WNC RELATED DB: PDB REMARK 900 RELATED ID: RSGI-MY_001000402.1 RELATED DB: TARGETTRACK DBREF 3WND A 1 350 UNP Q8PXB3 Q8PXB3_METMA 1 350 SEQADV 3WND MET A -19 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND GLY A -18 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND SER A -17 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND SER A -16 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A -15 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A -14 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A -13 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A -12 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A -11 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A -10 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND SER A -9 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND SER A -8 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND GLY A -7 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND LEU A -6 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND VAL A -5 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND PRO A -4 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND ARG A -3 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND GLY A -2 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND SER A -1 UNP Q8PXB3 EXPRESSION TAG SEQADV 3WND HIS A 0 UNP Q8PXB3 EXPRESSION TAG SEQRES 1 A 370 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 370 LEU VAL PRO ARG GLY SER HIS MET ALA ASN VAL ALA ILE SEQRES 3 A 370 ILE GLY THR GLU LYS SER GLY ARG THR SER LEU ALA ALA SEQRES 4 A 370 ASN LEU GLY LYS LYS GLY THR SER SER ASP ILE THR MET SEQRES 5 A 370 TYR ASN ASN ASP LYS GLU GLY ARG ASN MET VAL PHE VAL SEQRES 6 A 370 ASP ALA HIS SER TYR PRO LYS THR LEU LYS SER LEU ILE SEQRES 7 A 370 THR ALA LEU ASN ILE SER ASP ILE ALA VAL LEU CYS ILE SEQRES 8 A 370 PRO PRO GLN GLY LEU ASP ALA HIS THR GLY GLU CYS ILE SEQRES 9 A 370 ILE ALA LEU ASP LEU LEU GLY PHE LYS HIS GLY ILE ILE SEQRES 10 A 370 ALA LEU THR ARG SER ASP SER THR HIS MET HIS ALA ILE SEQRES 11 A 370 ASP GLU LEU LYS ALA LYS LEU LYS VAL ILE THR SER GLY SEQRES 12 A 370 THR VAL LEU GLN ASP TRP GLU CYS ILE SER LEU ASN THR SEQRES 13 A 370 ASN LYS SER ALA LYS ASN PRO PHE GLU GLY VAL ASP GLU SEQRES 14 A 370 LEU LYS ALA ARG ILE ASN GLU VAL ALA GLU LYS ILE GLU SEQRES 15 A 370 ALA GLU ASN ALA GLU LEU ASN SER LEU PRO ALA ARG ILE SEQRES 16 A 370 PHE ILE ASP HIS ALA PHE ASN VAL THR GLY LYS GLY CYS SEQRES 17 A 370 VAL VAL LEU GLY VAL VAL LYS GLN GLY ILE SER LYS ASP SEQRES 18 A 370 LYS ASP LYS THR LYS ILE PHE PRO LEU ASP ARG ASP ILE SEQRES 19 A 370 GLU ILE ARG SER ILE GLN SER HIS ASP VAL ASP ILE ASP SEQRES 20 A 370 SER ALA PRO ALA GLY THR ARG VAL GLY MET ARG LEU LYS SEQRES 21 A 370 ASN VAL GLN ALA LYS ASP ILE GLU ARG GLY PHE ILE ILE SEQRES 22 A 370 SER ASP LYS GLU ILE VAL THR THR ASP TYR THR LEU GLU SEQRES 23 A 370 CYS THR VAL SER LYS PHE THR LYS LYS ILE GLU PRO ALA SEQRES 24 A 370 SER VAL LEU HIS LEU PHE VAL GLY LEU GLN SER GLU PRO SEQRES 25 A 370 VAL ARG VAL GLU LYS ILE LEU VAL ASP GLY ASN GLU VAL SEQRES 26 A 370 GLU GLU ALA LYS PRO GLY SER THR CYS VAL LEU GLU LEU SEQRES 27 A 370 SER GLY ASN LYS LYS LEU ALA TYR SER LYS GLN ASP ARG SEQRES 28 A 370 PHE LEU LEU ALA ASN LEU ASP LEU THR GLN ARG PHE ALA SEQRES 29 A 370 ALA TYR GLY PHE SER LYS HET CIT A 401 13 HET CIT A 402 13 HETNAM CIT CITRIC ACID FORMUL 2 CIT 2(C6 H8 O7) FORMUL 4 HOH *307(H2 O) HELIX 1 1 GLY A 13 ASN A 20 1 8 HELIX 2 2 THR A 53 SER A 64 1 12 HELIX 3 3 ASP A 77 LEU A 90 1 14 HELIX 4 4 ARG A 101 THR A 105 5 5 HELIX 5 5 HIS A 106 THR A 121 1 16 HELIX 6 6 GLY A 146 LEU A 168 1 23 HELIX 7 7 ASN A 169 LEU A 171 5 3 HELIX 8 8 GLN A 243 ILE A 247 5 5 SHEET 1 A 7 LYS A 23 SER A 27 0 SHEET 2 A 7 THR A 31 ASN A 35 -1 O MET A 32 N GLY A 25 SHEET 3 A 7 ASN A 41 ASP A 46 -1 O MET A 42 N ASN A 35 SHEET 4 A 7 MET A 1 GLY A 8 1 N VAL A 4 O VAL A 43 SHEET 5 A 7 ILE A 66 ILE A 71 1 O CYS A 70 N ILE A 7 SHEET 6 A 7 GLY A 95 LEU A 99 1 O ALA A 98 N ILE A 71 SHEET 7 A 7 GLU A 130 SER A 133 1 O GLU A 130 N ILE A 97 SHEET 1 B 8 VAL A 224 ILE A 226 0 SHEET 2 B 8 ARG A 212 SER A 221 -1 N ILE A 219 O ILE A 226 SHEET 3 B 8 ARG A 234 LYS A 240 -1 O GLY A 236 N GLN A 220 SHEET 4 B 8 GLY A 187 GLN A 196 -1 N VAL A 190 O MET A 237 SHEET 5 B 8 ARG A 174 VAL A 183 -1 N ASP A 178 O LEU A 191 SHEET 6 B 8 ILE A 252 SER A 254 -1 O ILE A 253 N ILE A 175 SHEET 7 B 8 LYS A 204 PHE A 208 -1 N PHE A 208 O ILE A 252 SHEET 8 B 8 ARG A 212 SER A 221 -1 O ILE A 214 N THR A 205 SHEET 1 C 2 ILE A 198 LYS A 200 0 SHEET 2 C 2 SER A 228 PRO A 230 -1 O ALA A 229 N SER A 199 SHEET 1 D 8 ASN A 303 GLU A 304 0 SHEET 2 D 8 GLN A 289 VAL A 300 -1 N VAL A 300 O ASN A 303 SHEET 3 D 8 THR A 313 TYR A 326 -1 O VAL A 315 N LEU A 299 SHEET 4 D 8 ILE A 258 VAL A 269 -1 N TYR A 263 O LEU A 318 SHEET 5 D 8 PHE A 343 SER A 349 -1 O PHE A 348 N GLU A 266 SHEET 6 D 8 PHE A 332 ALA A 335 -1 N PHE A 332 O GLY A 347 SHEET 7 D 8 VAL A 281 VAL A 286 -1 N PHE A 285 O LEU A 333 SHEET 8 D 8 GLN A 289 VAL A 300 -1 O GLU A 291 N LEU A 284 CISPEP 1 TYR A 50 PRO A 51 0 14.97 CISPEP 2 PHE A 208 PRO A 209 0 11.41 SITE 1 AC1 7 THR A 53 LEU A 54 LYS A 55 HIS A 283 SITE 2 AC1 7 SER A 290 HOH A 566 HOH A 696 SITE 1 AC2 5 LEU A -6 GLY A 81 ILE A 120 PHE A 272 SITE 2 AC2 5 HOH A 751 CRYST1 61.873 108.608 58.620 90.00 90.00 90.00 P 21 21 2 4 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 0.016162 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017059 0.00000