HEADER ISOMERASE 26-NOV-08 3FDZ TITLE CRYSTAL STRUCTURE OF PHOSPHOGLYCEROMUTASE FROM BURKHOLDERIA TITLE 2 PSEUDOMALLEI 1710B WITH BOUND 2,3-DIPHOSPHOGLYCERIC ACID AND 3- TITLE 3 PHOSPHOGLYCERIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2,3-BISPHOSPHOGLYCERATE-DEPENDENT PHOSPHOGLYCERATE MUTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PHOSPHOGLYCEROMUTASE, PGAM, BPG-DEPENDENT PGAM, DPGM; COMPND 5 EC: 5.4.2.1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 2,3-BISPHOSPHOGLYCERATE-DEPENDENT PHOSPHOGLYCERATE MUTASE; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: PHOSPHOGLYCEROMUTASE, PGAM, BPG-DEPENDENT PGAM, DPGM; COMPND 11 EC: 5.4.2.1; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI 1710B; SOURCE 3 ORGANISM_TAXID: 320372; SOURCE 4 STRAIN: 1719B; SOURCE 5 GENE: BURPS1710B_0662, GPMA; 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: AVA0421; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI 1710B; SOURCE 13 ORGANISM_TAXID: 320372; SOURCE 14 STRAIN: 1719B; SOURCE 15 GENE: BURPS1710B_0662, GPMA; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: AVA0421 KEYWDS ISOMERASE, SSGCID, PHOSPHOGLYCEROMUTASE, BURKHOLDERIA PSEUDOMALLEI, KEYWDS 2 GLYCOLYSIS, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER KEYWDS 3 FOR INFECTIOUS DISEASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 5 20-JUL-16 3FDZ 1 HETNAM HETSYN REVDAT 4 05-OCT-11 3FDZ 1 JRNL VERSN REVDAT 3 07-APR-09 3FDZ 1 REMARK REVDAT 2 31-MAR-09 3FDZ 1 REMARK REVDAT 1 13-JAN-09 3FDZ 0 JRNL AUTH D.R.DAVIES,B.L.STAKER,J.A.ABENDROTH,T.E.EDWARDS,R.HARTLEY, JRNL AUTH 2 J.LEONARD,H.KIM,A.L.RYCHEL,S.N.HEWITT,P.J.MYLER,L.J.STEWART JRNL TITL AN ENSEMBLE OF STRUCTURES OF BURKHOLDERIA PSEUDOMALLEI JRNL TITL 2 2,3-BISPHOSPHOGLYCERATE-DEPENDENT PHOSPHOGLYCERATE MUTASE. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 67 1044 2011 JRNL REFN ISSN 1744-3091 JRNL PMID 21904048 JRNL DOI 10.1107/S1744309111030405 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0053 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 20934 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) : 0.183 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1066 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1440 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3668 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 40 REMARK 3 SOLVENT ATOMS : 223 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.18 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.60000 REMARK 3 B22 (A**2) : -0.45000 REMARK 3 B33 (A**2) : -0.17000 REMARK 3 B12 (A**2) : 0.12000 REMARK 3 B13 (A**2) : -1.14000 REMARK 3 B23 (A**2) : -0.05000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.418 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.266 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.174 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.030 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.891 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3796 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5175 ; 1.526 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 457 ; 6.698 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 177 ;38.445 ;23.390 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 610 ;14.593 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;13.904 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 563 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2905 ; 0.006 ; 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): 2291 ; 0.585 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3693 ; 1.059 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1505 ; 1.923 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1482 ; 3.013 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE REMARK 4 REMARK 4 3FDZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-DEC-08. REMARK 100 THE RCSB ID CODE IS RCSB050471. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SATURN REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20934 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.34500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 600, 5% PEG 1000, 10% REMARK 280 GLYCEROL, 100 MM MES PH 6.0, CRYSTALS SOAKED OVERNIGHT WITH 20 MM REMARK 280 3-PHOSPHOGLYCERIC ACID, VAPOR DIFFUSION, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS TWO BIOLOGICAL UNITS 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: 3090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 4.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 MET A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 GLN A 231 REMARK 465 GLU A 232 REMARK 465 ALA A 233 REMARK 465 ILE A 234 REMARK 465 ALA A 235 REMARK 465 LYS A 236 REMARK 465 ALA A 237 REMARK 465 GLN A 238 REMARK 465 ALA A 239 REMARK 465 ALA A 240 REMARK 465 VAL A 241 REMARK 465 ALA A 242 REMARK 465 GLN A 243 REMARK 465 GLN A 244 REMARK 465 GLY A 245 REMARK 465 LYS A 246 REMARK 465 SER A 247 REMARK 465 ALA A 248 REMARK 465 ALA A 249 REMARK 465 MET B -7 REMARK 465 ALA B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 HIS B -3 REMARK 465 HIS B -2 REMARK 465 HIS B -1 REMARK 465 HIS B 0 REMARK 465 ASP B 230 REMARK 465 GLN B 231 REMARK 465 GLU B 232 REMARK 465 ALA B 233 REMARK 465 ILE B 234 REMARK 465 ALA B 235 REMARK 465 LYS B 236 REMARK 465 ALA B 237 REMARK 465 GLN B 238 REMARK 465 ALA B 239 REMARK 465 ALA B 240 REMARK 465 VAL B 241 REMARK 465 ALA B 242 REMARK 465 GLN B 243 REMARK 465 GLN B 244 REMARK 465 GLY B 245 REMARK 465 LYS B 246 REMARK 465 SER B 247 REMARK 465 ALA B 248 REMARK 465 ALA B 249 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 129 CG CD OE1 OE2 REMARK 470 LYS A 140 CG CD CE NZ REMARK 470 LYS B 140 CG CD CE NZ 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 NE2 GLN A 41 OE1 GLN A 71 2.08 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 ASP A 25 52.32 -95.95 REMARK 500 SER A 166 -60.56 -138.38 REMARK 500 ALA A 181 -137.08 -143.90 REMARK 500 ASP B 25 56.83 -93.88 REMARK 500 SER B 166 -59.07 -127.36 REMARK 500 ALA B 181 -141.56 -141.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 323 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH B 345 DISTANCE = 5.69 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DG2 A1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3PG B1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B1002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3EZN RELATED DB: PDB REMARK 900 SAME STRUCTURE WITHOUT LIGANDS REMARK 900 RELATED ID: BUPSA.00114.A RELATED DB: TARGETDB REMARK 900 RELATED ID: 3GP3 RELATED DB: PDB REMARK 900 RELATED ID: 3GP5 RELATED DB: PDB REMARK 900 RELATED ID: 3GW8 RELATED DB: PDB DBREF 3FDZ A 1 249 UNP Q3JWH7 GPMA_BURP1 1 249 DBREF 3FDZ B 1 249 UNP Q3JWH7 GPMA_BURP1 1 249 SEQADV 3FDZ MET A -7 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ ALA A -6 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS A -5 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS A -4 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS A -3 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS A -2 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS A -1 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS A 0 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ MET B -7 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ ALA B -6 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS B -5 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS B -4 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS B -3 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS B -2 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS B -1 UNP Q3JWH7 EXPRESSION TAG SEQADV 3FDZ HIS B 0 UNP Q3JWH7 EXPRESSION TAG SEQRES 1 A 257 MET ALA HIS HIS HIS HIS HIS HIS MET TYR LYS LEU VAL SEQRES 2 A 257 LEU ILE ARG HIS GLY GLU SER THR TRP ASN LYS GLU ASN SEQRES 3 A 257 ARG PHE THR GLY TRP VAL ASP VAL ASP LEU THR GLU GLN SEQRES 4 A 257 GLY ASN ARG GLU ALA ARG GLN ALA GLY GLN LEU LEU LYS SEQRES 5 A 257 GLU ALA GLY TYR THR PHE ASP ILE ALA TYR THR SER VAL SEQRES 6 A 257 LEU LYS ARG ALA ILE ARG THR LEU TRP HIS VAL GLN ASP SEQRES 7 A 257 GLN MET ASP LEU MET TYR VAL PRO VAL VAL HIS SER TRP SEQRES 8 A 257 ARG LEU ASN GLU ARG HIS TYR GLY ALA LEU SER GLY LEU SEQRES 9 A 257 ASN LYS ALA GLU THR ALA ALA LYS TYR GLY ASP GLU GLN SEQRES 10 A 257 VAL LEU VAL TRP ARG ARG SER TYR ASP THR PRO PRO PRO SEQRES 11 A 257 ALA LEU GLU PRO GLY ASP GLU ARG ALA PRO TYR ALA ASP SEQRES 12 A 257 PRO ARG TYR ALA LYS VAL PRO ARG GLU GLN LEU PRO LEU SEQRES 13 A 257 THR GLU CYS LEU LYS ASP THR VAL ALA ARG VAL LEU PRO SEQRES 14 A 257 LEU TRP ASN GLU SER ILE ALA PRO ALA VAL LYS ALA GLY SEQRES 15 A 257 LYS GLN VAL LEU ILE ALA ALA HIS GLY ASN SER LEU ARG SEQRES 16 A 257 ALA LEU ILE LYS TYR LEU ASP GLY ILE SER ASP ALA ASP SEQRES 17 A 257 ILE VAL GLY LEU ASN ILE PRO ASN GLY VAL PRO LEU VAL SEQRES 18 A 257 TYR GLU LEU ASP GLU SER LEU THR PRO ILE ARG HIS TYR SEQRES 19 A 257 TYR LEU GLY ASP GLN GLU ALA ILE ALA LYS ALA GLN ALA SEQRES 20 A 257 ALA VAL ALA GLN GLN GLY LYS SER ALA ALA SEQRES 1 B 257 MET ALA HIS HIS HIS HIS HIS HIS MET TYR LYS LEU VAL SEQRES 2 B 257 LEU ILE ARG NEP GLY GLU SER THR TRP ASN LYS GLU ASN SEQRES 3 B 257 ARG PHE THR GLY TRP VAL ASP VAL ASP LEU THR GLU GLN SEQRES 4 B 257 GLY ASN ARG GLU ALA ARG GLN ALA GLY GLN LEU LEU LYS SEQRES 5 B 257 GLU ALA GLY TYR THR PHE ASP ILE ALA TYR THR SER VAL SEQRES 6 B 257 LEU LYS ARG ALA ILE ARG THR LEU TRP HIS VAL GLN ASP SEQRES 7 B 257 GLN MET ASP LEU MET TYR VAL PRO VAL VAL HIS SER TRP SEQRES 8 B 257 ARG LEU ASN GLU ARG HIS TYR GLY ALA LEU SER GLY LEU SEQRES 9 B 257 ASN LYS ALA GLU THR ALA ALA LYS TYR GLY ASP GLU GLN SEQRES 10 B 257 VAL LEU VAL TRP ARG ARG SER TYR ASP THR PRO PRO PRO SEQRES 11 B 257 ALA LEU GLU PRO GLY ASP GLU ARG ALA PRO TYR ALA ASP SEQRES 12 B 257 PRO ARG TYR ALA LYS VAL PRO ARG GLU GLN LEU PRO LEU SEQRES 13 B 257 THR GLU CYS LEU LYS ASP THR VAL ALA ARG VAL LEU PRO SEQRES 14 B 257 LEU TRP ASN GLU SER ILE ALA PRO ALA VAL LYS ALA GLY SEQRES 15 B 257 LYS GLN VAL LEU ILE ALA ALA HIS GLY ASN SER LEU ARG SEQRES 16 B 257 ALA LEU ILE LYS TYR LEU ASP GLY ILE SER ASP ALA ASP SEQRES 17 B 257 ILE VAL GLY LEU ASN ILE PRO ASN GLY VAL PRO LEU VAL SEQRES 18 B 257 TYR GLU LEU ASP GLU SER LEU THR PRO ILE ARG HIS TYR SEQRES 19 B 257 TYR LEU GLY ASP GLN GLU ALA ILE ALA LYS ALA GLN ALA SEQRES 20 B 257 ALA VAL ALA GLN GLN GLY LYS SER ALA ALA MODRES 3FDZ NEP B 9 HIS N1-PHOSPHONOHISTIDINE HET NEP B 9 14 HET DG2 A1001 15 HET PEG A1002 7 HET 3PG B1001 11 HET PEG B1002 7 HETNAM NEP N1-PHOSPHONOHISTIDINE HETNAM DG2 (2R)-2,3-DIPHOSPHOGLYCERIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM 3PG 3-PHOSPHOGLYCERIC ACID HETSYN DG2 2,3-BISPHOSPHOGLYCERIC ACID; 2,3-BISPHOSPHOGLYCERATE; HETSYN 2 DG2 2,3-BPG; 2,3-DIPHOSPHOGLYCERIC ACID; 2,3- HETSYN 3 DG2 DIPHOSPHOGLYCERATE; 2,3-DPG; (2~{R})-2,3- HETSYN 4 DG2 DIPHOSPHONOOXYPROPANOIC ACID FORMUL 2 NEP C6 H10 N3 O5 P FORMUL 3 DG2 C3 H8 O10 P2 FORMUL 4 PEG 2(C4 H10 O3) FORMUL 5 3PG C3 H7 O7 P FORMUL 7 HOH *223(H2 O) HELIX 1 1 SER A 12 GLU A 17 1 6 HELIX 2 2 THR A 29 ALA A 46 1 18 HELIX 3 3 LEU A 58 ASP A 73 1 16 HELIX 4 4 TRP A 83 ASN A 86 5 4 HELIX 5 5 TYR A 90 SER A 94 5 5 HELIX 6 6 ASN A 97 GLY A 106 1 10 HELIX 7 7 GLY A 106 SER A 116 1 11 HELIX 8 8 ASP A 135 ALA A 139 5 5 HELIX 9 9 PRO A 142 LEU A 146 5 5 HELIX 10 10 CYS A 151 SER A 166 1 16 HELIX 11 11 SER A 166 GLY A 174 1 9 HELIX 12 12 HIS A 182 GLY A 195 1 14 HELIX 13 13 SER A 197 VAL A 202 1 6 HELIX 14 14 SER B 12 GLU B 17 1 6 HELIX 15 15 THR B 29 GLY B 47 1 19 HELIX 16 16 LEU B 58 ASP B 73 1 16 HELIX 17 17 TRP B 83 ASN B 86 5 4 HELIX 18 18 TYR B 90 SER B 94 5 5 HELIX 19 19 ASN B 97 GLY B 106 1 10 HELIX 20 20 GLY B 106 SER B 116 1 11 HELIX 21 21 ASP B 135 ALA B 139 5 5 HELIX 22 22 PRO B 142 LEU B 146 5 5 HELIX 23 23 CYS B 151 SER B 166 1 16 HELIX 24 24 SER B 166 ALA B 173 1 8 HELIX 25 25 HIS B 182 ASP B 194 1 13 SHEET 1 A 6 VAL A 79 HIS A 81 0 SHEET 2 A 6 ILE A 52 THR A 55 1 N THR A 55 O VAL A 80 SHEET 3 A 6 VAL A 177 ALA A 181 1 O LEU A 178 N TYR A 54 SHEET 4 A 6 TYR A 2 ARG A 8 1 N VAL A 5 O ILE A 179 SHEET 5 A 6 LEU A 212 LEU A 216 -1 O LEU A 212 N LEU A 6 SHEET 6 A 6 PRO A 222 TYR A 227 -1 O ILE A 223 N GLU A 215 SHEET 1 B 6 VAL B 79 HIS B 81 0 SHEET 2 B 6 ILE B 52 THR B 55 1 N THR B 55 O VAL B 80 SHEET 3 B 6 VAL B 177 ALA B 181 1 O LEU B 178 N TYR B 54 SHEET 4 B 6 TYR B 2 ARG B 8 1 N VAL B 5 O ILE B 179 SHEET 5 B 6 PRO B 211 LEU B 216 -1 O LEU B 216 N TYR B 2 SHEET 6 B 6 PRO B 222 TYR B 227 -1 O TYR B 226 N VAL B 213 LINK C ARG B 8 N NEP B 9 1555 1555 1.34 LINK C NEP B 9 N GLY B 10 1555 1555 1.32 SITE 1 AC1 17 ARG A 8 HIS A 9 ASN A 15 THR A 21 SITE 2 AC1 17 GLY A 22 ARG A 60 GLU A 87 TYR A 90 SITE 3 AC1 17 LYS A 98 ARG A 114 ARG A 115 HIS A 182 SITE 4 AC1 17 GLY A 183 ASN A 184 HOH A 349 HOH A 350 SITE 5 AC1 17 HOH A 355 SITE 1 AC2 6 ASP A 194 LEU A 204 TYR A 214 HIS A 225 SITE 2 AC2 6 TYR A 227 HOH A 259 SITE 1 AC3 12 NEP B 9 ARG B 19 PHE B 20 THR B 21 SITE 2 AC3 12 GLY B 22 GLU B 87 TYR B 90 LYS B 98 SITE 3 AC3 12 ARG B 114 ARG B 115 ASN B 184 HOH B 330 SITE 1 AC4 6 ILE B 190 LEU B 204 TYR B 214 HIS B 225 SITE 2 AC4 6 TYR B 227 HOH B 366 CRYST1 44.390 48.480 62.090 106.03 91.54 107.50 P 1 1 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 0.022528 0.007103 0.002853 0.00000 SCALE2 0.000000 0.021628 0.006755 0.00000 SCALE3 0.000000 0.000000 0.016879 0.00000 MASTER 384 0 5 25 12 0 12 6 0 0 0 40 END