HEADER LIGASE 12-APR-10 3MJF TITLE PHOSPHORIBOSYLAMINE-GLYCINE LIGASE FROM YERSINIA PESTIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHORIBOSYLAMINE--GLYCINE LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GARS, GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE, COMPND 5 PHOSPHORIBOSYLGLYCINAMIDE SYNTHETASE; COMPND 6 EC: 6.3.4.13; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA PESTIS; SOURCE 3 ORGANISM_TAXID: 214092; SOURCE 4 STRAIN: CO92; SOURCE 5 GENE: PURD, Y0501, YPO3729, YP_3092; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS STRUCTURAL GENOMICS, PHOSPHORIBOSYLAMINE-GLYCINE LIGASE, CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES, CSGID, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,M.ZHOU,L.PAPAZISI,W.F.ANDERSON,A.JOACHIMIAK,CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 2 08-NOV-17 3MJF 1 REMARK REVDAT 1 26-MAY-10 3MJF 0 JRNL AUTH J.OSIPIUK,M.ZHOU,L.PAPAZISI,W.F.ANDERSON,A.JOACHIMIAK JRNL TITL X-RAY CRYSTAL STRUCTURE OF PHOSPHORIBOSYLAMINE-GLYCINE JRNL TITL 2 LIGASE FROM YERSINIA PESTIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.47 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 77708 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) : 0.137 REMARK 3 R VALUE (WORKING SET) : 0.135 REMARK 3 FREE R VALUE : 0.174 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3907 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) : 1.47 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5260 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 287 REMARK 3 BIN FREE R VALUE : 0.2770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3192 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 512 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.39000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : -0.38000 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): 0.066 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.061 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.034 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.952 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.968 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3599 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2425 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4933 ; 1.740 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5986 ; 1.020 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 511 ; 5.744 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 172 ;36.225 ;25.291 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 603 ;13.873 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;22.783 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 541 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4161 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 692 ; 0.001 ; 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): 2243 ; 1.911 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 932 ; 0.636 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3627 ; 2.829 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1356 ; 4.374 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1263 ; 6.364 ; 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): 6024 ; 1.794 ; 3.000 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 : 1.40 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 3MJF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-APR-10. REMARK 100 THE DEPOSITION ID IS D_1000058619. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77813 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 REMARK 200 RESOLUTION RANGE LOW (A) : 30.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 9.10 REMARK 200 R MERGE FOR SHELL (I) : 0.88300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, MLPHARE, DM, SOLVE, RESOLVE, HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 0.1 M SODIUM REMARK 280 CACODYLATE, 30% PEG-8000, PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 34.31850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.58300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.57550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.58300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.31850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.57550 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 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 SER A -2 REMARK 465 ASN A -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 OG SER A 277 OD1 ASP A 279 1.94 REMARK 500 O4 SO4 A 508 O HOH A 433 2.06 REMARK 500 NZ LYS A 283 O HOH A 725 2.11 REMARK 500 ND2 ASN A 8 O HOH A 888 2.13 REMARK 500 O HOH A 757 O HOH A 929 2.14 REMARK 500 O1 SO4 A 510 O HOH A 490 2.17 REMARK 500 O HOH A 483 O HOH A 582 2.19 REMARK 500 CG GLU A 194 O HOH A 842 2.19 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 OE1 GLN A 161 O HOH A 771 1655 2.04 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 ASP A 191 CB - CG - OD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP A 214 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 217 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 MSE A 303 CG - SE - CE ANGL. DEV. = -14.2 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 ASN A 8 15.22 -153.52 REMARK 500 ASN A 8 13.58 -152.72 REMARK 500 ASP A 26 -94.53 -97.49 REMARK 500 ALA A 343 -150.35 -86.56 REMARK 500 ALA A 367 -97.30 -117.81 REMARK 500 ASN A 380 36.63 -150.10 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 NA A 513 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 290 O REMARK 620 2 ASP A 214 OD2 131.3 REMARK 620 3 ASP A 293 O 98.6 129.9 REMARK 620 4 GLY A 228 O 94.0 91.5 78.7 REMARK 620 5 GLU A 295 OE1 96.4 93.2 84.5 161.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 513 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: IDP04490 RELATED DB: TARGETDB DBREF 3MJF A 1 428 UNP Q8ZAR2 PUR2_YERPE 1 428 SEQADV 3MJF SER A -2 UNP Q8ZAR2 EXPRESSION TAG SEQADV 3MJF ASN A -1 UNP Q8ZAR2 EXPRESSION TAG SEQADV 3MJF ALA A 0 UNP Q8ZAR2 EXPRESSION TAG SEQRES 1 A 431 SER ASN ALA MSE ASN ILE LEU ILE ILE GLY ASN GLY GLY SEQRES 2 A 431 ARG GLU HIS ALA LEU GLY TRP LYS ALA ALA GLN SER PRO SEQRES 3 A 431 LEU ALA ASP LYS ILE TYR VAL ALA PRO GLY ASN ALA GLY SEQRES 4 A 431 THR ALA LEU GLU PRO THR LEU GLU ASN VAL ASP ILE ALA SEQRES 5 A 431 ALA THR ASP ILE ALA GLY LEU LEU ALA PHE ALA GLN SER SEQRES 6 A 431 HIS ASP ILE GLY LEU THR ILE VAL GLY PRO GLU ALA PRO SEQRES 7 A 431 LEU VAL ILE GLY VAL VAL ASP ALA PHE ARG ALA ALA GLY SEQRES 8 A 431 LEU ALA ILE PHE GLY PRO THR GLN ALA ALA ALA GLN LEU SEQRES 9 A 431 GLU GLY SER LYS ALA PHE THR LYS ASP PHE LEU ALA ARG SEQRES 10 A 431 HIS ASN ILE PRO SER ALA GLU TYR GLN ASN PHE THR ASP SEQRES 11 A 431 VAL GLU ALA ALA LEU ALA TYR VAL ARG GLN LYS GLY ALA SEQRES 12 A 431 PRO ILE VAL ILE LYS ALA ASP GLY LEU ALA ALA GLY LYS SEQRES 13 A 431 GLY VAL ILE VAL ALA MSE THR GLN GLU GLU ALA GLU THR SEQRES 14 A 431 ALA VAL ASN ASP MSE LEU ALA GLY ASN ALA PHE GLY ASP SEQRES 15 A 431 ALA GLY HIS ARG ILE VAL VAL GLU GLU PHE LEU ASP GLY SEQRES 16 A 431 GLU GLU ALA SER PHE ILE VAL MSE VAL ASP GLY GLU ASN SEQRES 17 A 431 VAL LEU PRO MSE ALA THR SER GLN ASP HIS LYS ARG VAL SEQRES 18 A 431 GLY ASP GLY ASP THR GLY PRO ASN THR GLY GLY MSE GLY SEQRES 19 A 431 ALA TYR SER PRO ALA PRO VAL VAL THR ASP ASP VAL HIS SEQRES 20 A 431 GLN ARG VAL MSE ASP GLN VAL ILE TRP PRO THR VAL ARG SEQRES 21 A 431 GLY MSE ALA ALA GLU GLY ASN ILE TYR THR GLY PHE LEU SEQRES 22 A 431 TYR ALA GLY LEU MSE ILE SER ALA ASP GLY GLN PRO LYS SEQRES 23 A 431 VAL ILE GLU PHE ASN CYS ARG PHE GLY ASP PRO GLU THR SEQRES 24 A 431 GLN PRO ILE MSE LEU ARG MSE ARG SER ASP LEU VAL GLU SEQRES 25 A 431 LEU CYS LEU ALA GLY THR GLN GLY LYS LEU ASN GLU LYS SEQRES 26 A 431 THR SER ASP TRP ASP GLU ARG PRO SER LEU GLY VAL VAL SEQRES 27 A 431 LEU ALA ALA GLY GLY TYR PRO ALA ASP TYR ARG GLN GLY SEQRES 28 A 431 ASP VAL ILE HIS GLY LEU PRO GLN GLN GLU VAL LYS ASP SEQRES 29 A 431 GLY LYS VAL PHE HIS ALA GLY THR LYS LEU ASN GLY ASN SEQRES 30 A 431 HIS GLU VAL VAL THR ASN GLY GLY ARG VAL LEU CYS VAL SEQRES 31 A 431 THR ALA LEU GLY GLU THR VAL ALA GLN ALA GLN GLN TYR SEQRES 32 A 431 ALA TYR GLN LEU ALA GLU GLY ILE GLN TRP GLU GLY VAL SEQRES 33 A 431 PHE CYS ARG LYS ASP ILE GLY TYR ARG ALA ILE ALA ARG SEQRES 34 A 431 GLY LYS MODRES 3MJF MSE A 1 MET SELENOMETHIONINE MODRES 3MJF MSE A 159 MET SELENOMETHIONINE MODRES 3MJF MSE A 171 MET SELENOMETHIONINE MODRES 3MJF MSE A 200 MET SELENOMETHIONINE MODRES 3MJF MSE A 209 MET SELENOMETHIONINE MODRES 3MJF MSE A 230 MET SELENOMETHIONINE MODRES 3MJF MSE A 248 MET SELENOMETHIONINE MODRES 3MJF MSE A 259 MET SELENOMETHIONINE MODRES 3MJF MSE A 275 MET SELENOMETHIONINE MODRES 3MJF MSE A 300 MET SELENOMETHIONINE MODRES 3MJF MSE A 303 MET SELENOMETHIONINE HET MSE A 1 13 HET MSE A 159 8 HET MSE A 171 8 HET MSE A 200 13 HET MSE A 209 8 HET MSE A 230 8 HET MSE A 248 8 HET MSE A 259 8 HET MSE A 275 13 HET MSE A 300 8 HET MSE A 303 8 HET GOL A 501 6 HET GOL A 502 6 HET PGE A 504 10 HET PEG A 505 7 HET EDO A 506 4 HET BME A 507 8 HET SO4 A 508 5 HET SO4 A 509 5 HET SO4 A 510 5 HET SO4 A 511 5 HET SO4 A 512 5 HET NA A 513 1 HETNAM MSE SELENOMETHIONINE HETNAM GOL GLYCEROL HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM EDO 1,2-ETHANEDIOL HETNAM BME BETA-MERCAPTOETHANOL HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 2 GOL 2(C3 H8 O3) FORMUL 4 PGE C6 H14 O4 FORMUL 5 PEG C4 H10 O3 FORMUL 6 EDO C2 H6 O2 FORMUL 7 BME C2 H6 O S FORMUL 8 SO4 5(O4 S 2-) FORMUL 13 NA NA 1+ FORMUL 14 HOH *512(H2 O) HELIX 1 1 GLY A 9 ALA A 20 1 12 HELIX 2 2 ASN A 34 GLU A 40 1 7 HELIX 3 3 ASP A 52 HIS A 63 1 12 HELIX 4 4 PRO A 72 ILE A 78 1 7 HELIX 5 5 GLY A 79 ALA A 87 1 9 HELIX 6 6 THR A 95 SER A 104 1 10 HELIX 7 7 SER A 104 HIS A 115 1 12 HELIX 8 8 ASP A 127 GLY A 139 1 13 HELIX 9 9 THR A 160 ALA A 173 1 14 HELIX 10 10 GLY A 174 ASP A 179 1 6 HELIX 11 11 THR A 240 VAL A 251 1 12 HELIX 12 12 VAL A 251 GLU A 262 1 12 HELIX 13 13 CYS A 289 GLY A 292 5 4 HELIX 14 14 GLU A 295 MSE A 303 1 9 HELIX 15 15 ASP A 306 GLN A 316 1 11 HELIX 16 16 LYS A 318 LYS A 322 5 5 HELIX 17 17 THR A 393 GLU A 406 1 14 HELIX 18 18 GLY A 420 ALA A 425 1 6 SHEET 1 A 5 GLU A 44 ASN A 45 0 SHEET 2 A 5 ALA A 25 PRO A 32 1 N ILE A 28 O GLU A 44 SHEET 3 A 5 MSE A 1 GLY A 7 1 N ILE A 3 O TYR A 29 SHEET 4 A 5 ILE A 65 VAL A 70 1 O ILE A 69 N LEU A 4 SHEET 5 A 5 ILE A 91 PHE A 92 1 O PHE A 92 N THR A 68 SHEET 1 B 4 TYR A 122 PHE A 125 0 SHEET 2 B 4 ILE A 184 GLU A 188 -1 O VAL A 186 N GLN A 123 SHEET 3 B 4 ILE A 142 ALA A 146 -1 N VAL A 143 O GLU A 187 SHEET 4 B 4 VAL A 155 ALA A 158 -1 O ILE A 156 N ILE A 144 SHEET 1 C 4 VAL A 206 PRO A 208 0 SHEET 2 C 4 GLU A 193 ASP A 202 -1 N MSE A 200 O LEU A 207 SHEET 3 C 4 THR A 267 ILE A 276 -1 O LEU A 274 N ALA A 195 SHEET 4 C 4 PRO A 282 PHE A 287 -1 O ILE A 285 N GLY A 273 SHEET 1 D 5 GLN A 213 ASP A 214 0 SHEET 2 D 5 GLY A 231 SER A 234 -1 O TYR A 233 N GLN A 213 SHEET 3 D 5 SER A 331 ALA A 338 -1 O GLY A 333 N ALA A 232 SHEET 4 D 5 ARG A 383 LEU A 390 -1 O VAL A 387 N VAL A 334 SHEET 5 D 5 GLY A 362 HIS A 366 -1 N LYS A 363 O THR A 388 SHEET 1 E 4 GLN A 213 ASP A 214 0 SHEET 2 E 4 GLY A 231 SER A 234 -1 O TYR A 233 N GLN A 213 SHEET 3 E 4 SER A 331 ALA A 338 -1 O GLY A 333 N ALA A 232 SHEET 4 E 4 VAL A 413 PHE A 414 -1 O PHE A 414 N ALA A 337 SHEET 1 F 2 ARG A 217 GLY A 219 0 SHEET 2 F 2 THR A 223 ASN A 226 -1 O THR A 223 N GLY A 219 SHEET 1 G 2 THR A 369 LEU A 371 0 SHEET 2 G 2 VAL A 377 THR A 379 -1 O VAL A 378 N LYS A 370 LINK C ALA A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N ASN A 2 1555 1555 1.31 LINK C ALA A 158 N MSE A 159 1555 1555 1.33 LINK C MSE A 159 N THR A 160 1555 1555 1.34 LINK C ASP A 170 N MSE A 171 1555 1555 1.34 LINK C MSE A 171 N LEU A 172 1555 1555 1.32 LINK C VAL A 199 N MSE A 200 1555 1555 1.33 LINK C MSE A 200 N VAL A 201 1555 1555 1.33 LINK C PRO A 208 N MSE A 209 1555 1555 1.32 LINK C MSE A 209 N ALA A 210 1555 1555 1.32 LINK C GLY A 229 N MSE A 230 1555 1555 1.33 LINK C MSE A 230 N GLY A 231 1555 1555 1.32 LINK C VAL A 247 N MSE A 248 1555 1555 1.33 LINK C MSE A 248 N ASP A 249 1555 1555 1.33 LINK C GLY A 258 N MSE A 259 1555 1555 1.33 LINK C MSE A 259 N ALA A 260 1555 1555 1.33 LINK C LEU A 274 N MSE A 275 1555 1555 1.34 LINK C MSE A 275 N ILE A 276 1555 1555 1.32 LINK C ILE A 299 N MSE A 300 1555 1555 1.34 LINK C MSE A 300 N LEU A 301 1555 1555 1.32 LINK C ARG A 302 N MSE A 303 1555 1555 1.33 LINK C MSE A 303 N ARG A 304 1555 1555 1.32 LINK O ARG A 290 NA NA A 513 1555 1555 2.08 LINK OD2 ASP A 214 NA NA A 513 1555 1555 2.37 LINK O ASP A 293 NA NA A 513 1555 1555 2.47 LINK O GLY A 228 NA NA A 513 1555 1555 2.48 LINK OE1 GLU A 295 NA NA A 513 1555 1555 2.51 CISPEP 1 ALA A 31 PRO A 32 0 1.53 CISPEP 2 ALA A 140 PRO A 141 0 -5.91 CISPEP 3 ALA A 140 PRO A 141 0 -5.22 CISPEP 4 SER A 234 PRO A 235 0 -1.62 CISPEP 5 ASP A 293 PRO A 294 0 13.94 CISPEP 6 TYR A 341 PRO A 342 0 10.93 SITE 1 AC1 9 GLU A 193 GLU A 194 GLN A 213 ASP A 214 SITE 2 AC1 9 HIS A 215 ASP A 222 TYR A 421 ARG A 422 SITE 3 AC1 9 HOH A 589 SITE 1 AC2 4 GLN A 398 LYS A 417 HOH A 441 HOH A 668 SITE 1 AC3 9 LYS A 27 SER A 62 HIS A 63 GLN A 96 SITE 2 AC3 9 ALA A 97 GLN A 100 ASN A 264 HOH A 675 SITE 3 AC3 9 HOH A 860 SITE 1 AC4 5 GLU A 162 GLU A 165 THR A 166 ASN A 169 SITE 2 AC4 5 ASP A 170 SITE 1 AC5 5 ALA A 210 ARG A 302 TRP A 326 SO4 A 509 SITE 2 AC5 5 HOH A 796 SITE 1 AC6 5 GLN A 409 CYS A 415 LYS A 417 HOH A 429 SITE 2 AC6 5 HOH A 740 SITE 1 AC7 6 ARG A 383 HOH A 432 HOH A 433 HOH A 838 SITE 2 AC7 6 HOH A 916 HOH A 927 SITE 1 AC8 6 ALA A 210 THR A 211 EDO A 506 HOH A 576 SITE 2 AC8 6 HOH A 696 HOH A 782 SITE 1 AC9 7 ILE A 48 ALA A 261 GLU A 262 GLY A 263 SITE 2 AC9 7 HOH A 490 HOH A 742 HOH A 793 SITE 1 BC1 5 GLY A 152 LYS A 153 GLY A 154 VAL A 155 SITE 2 BC1 5 HOH A 836 SITE 1 BC2 5 SER A 104 LYS A 105 ALA A 106 HOH A 907 SITE 2 BC2 5 HOH A 908 SITE 1 BC3 7 ASP A 214 LYS A 216 GLY A 228 ARG A 290 SITE 2 BC3 7 ASP A 293 PRO A 294 GLU A 295 CRYST1 68.637 69.151 95.166 90.00 90.00 90.00 P 21 21 21 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 0.014569 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014461 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010508 0.00000