PDB Short entry for 2HR5 HEADER METAL BINDING PROTEIN 19-JUL-06 2HR5 TITLE PF1283- RUBRERYTHRIN FROM PYROCOCCUS FURIOSUS IRON BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: RUBRERYTHRIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 2261; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PF1283, PFU-1210814, RUBRERYTHRIN, PYROCOCCUS FURIOSUS, STRUCTURAL KEYWDS 2 GENOMICS, PSI, PROTEIN STRUCTURE INITIATIVE, SOUTHEAST COLLABORATORY KEYWDS 3 FOR STRUCTURAL GENOMICS, SECSG, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR B.D.DILLARD,J.R.RUBLE,L.CHEN,Z.J.LIU,F.E.JENNEY JR.,M.W.W.ADAMS, AUTHOR 2 J.P.ROSE,B.C.WANG,SOUTHEAST COLLABORATORY FOR STRUCTURAL GENOMICS AUTHOR 3 (SECSG) REVDAT 6 30-AUG-23 2HR5 1 REMARK LINK REVDAT 5 22-FEB-12 2HR5 1 AUTHOR REVDAT 4 13-JUL-11 2HR5 1 VERSN REVDAT 3 24-FEB-09 2HR5 1 VERSN REVDAT 2 30-SEP-08 2HR5 1 REMARK TITLE KEYWDS REVDAT 1 17-OCT-06 2HR5 0 JRNL AUTH B.D.DILLARD,S.M.CLARKSON,K.R.STRAND,J.R.RUBLE,L.CHEN, JRNL AUTH 2 Z.J.LIU,F.E.JENNEY JR.,M.W.W.ADAMS,J.P.ROSE,B.C.WANG JRNL TITL CRYSTAL STRUCTURE OF IRON BOUND RUBRERYTHRIN FROM PYROCOCCUS JRNL TITL 2 FURIOSUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 12220 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.247 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 624 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 862 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1830 REMARK 3 BIN FREE R VALUE SET COUNT : 50 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2726 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 37 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.03000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.06000 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): 0.755 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.323 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.193 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.855 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2817 ; 0.029 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3746 ; 2.181 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 338 ; 6.324 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;41.413 ;24.697 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 512 ;18.282 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;29.607 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 392 ; 0.142 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2112 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1278 ; 0.229 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1898 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 113 ; 0.154 ; 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): 44 ; 0.196 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.298 ; 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): 1769 ; 2.333 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2712 ; 2.021 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1215 ; 4.473 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1034 ; 6.693 ; 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 : 1.40 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 REMARK 4 REMARK 4 2HR5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038664. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-FEB-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : SI CHANNEL 220 REMARK 200 OPTICS : ROSENBAUM REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12220 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 19.730 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.90 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.26800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 26.10 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIFFERENCE FOURIER REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: PDB ENTRY 1NNQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% (W/V) PEG-3000,0.1M TRIS, PH 7.0, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K, PH 7.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 52.70100 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 52.70100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 40.04750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 52.70100 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 52.70100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 40.04750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 52.70100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.70100 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 40.04750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 52.70100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.70100 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 40.04750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -123.0 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 21270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -267.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 210.80400 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 105.40200 REMARK 350 BIOMT3 2 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 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 GLU A 71 NZ LYS B 4 3645 2.15 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 LYS A 127 CD LYS A 127 CE 0.191 REMARK 500 GLU A 152 CB GLU A 152 CG 0.129 REMARK 500 GLU A 152 CG GLU A 152 CD 0.164 REMARK 500 ARG B 46 CG ARG B 46 CD 0.173 REMARK 500 GLU B 102 CG GLU B 102 CD 0.098 REMARK 500 LYS B 127 CD LYS B 127 CE 0.188 REMARK 500 GLU B 155 CG GLU B 155 CD 0.099 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 46 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 PRO A 70 C - N - CA ANGL. DEV. = -11.1 DEGREES REMARK 500 ARG A 105 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 25 NE - CZ - NH1 ANGL. DEV. = -3.0 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 PHE A 38 72.10 -117.42 REMARK 500 ASP A 151 -55.65 66.27 REMARK 500 GLU B 86 -71.15 -117.83 REMARK 500 ASP B 151 -48.79 58.09 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 FE A 202 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 19 OE1 REMARK 620 2 GLU A 19 OE2 58.2 REMARK 620 3 GLU A 52 OE2 147.6 94.0 REMARK 620 4 HIS A 55 ND1 86.1 114.4 92.1 REMARK 620 5 GLU B 114 OE1 82.6 124.7 129.4 98.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 52 OE1 REMARK 620 2 GLU B 80 OE1 137.4 REMARK 620 3 GLU B 80 OE2 85.0 56.2 REMARK 620 4 GLU B 114 OE2 135.6 80.4 136.5 REMARK 620 5 HIS B 117 ND1 100.0 104.6 102.4 86.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 80 OE1 REMARK 620 2 GLU A 80 OE2 58.0 REMARK 620 3 GLU A 114 OE2 138.0 80.1 REMARK 620 4 HIS A 117 ND1 97.7 102.5 86.3 REMARK 620 5 GLU B 52 OE2 87.4 144.2 134.6 90.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 202 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 114 OE1 REMARK 620 2 GLU B 19 OE1 143.5 REMARK 620 3 GLU B 19 OE2 89.3 59.4 REMARK 620 4 GLU B 52 OE1 124.7 84.2 143.6 REMARK 620 5 HIS B 55 ND1 99.3 102.8 97.4 89.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 200 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 142 SG REMARK 620 2 CYS A 145 SG 107.6 REMARK 620 3 CYS A 157 SG 115.8 92.3 REMARK 620 4 CYS A 160 SG 107.0 118.8 115.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 200 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 142 SG REMARK 620 2 CYS B 145 SG 108.7 REMARK 620 3 CYS B 157 SG 120.0 96.0 REMARK 620 4 CYS B 160 SG 102.4 121.0 110.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE B 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: PFU-1210814-001 RELATED DB: TARGETDB DBREF 2HR5 A 1 171 UNP Q9UWP7 Q9UWP7_PYRFU 1 171 DBREF 2HR5 B 1 171 UNP Q9UWP7 Q9UWP7_PYRFU 1 171 SEQRES 1 A 171 MET VAL VAL LYS ARG THR MET THR LYS LYS PHE LEU GLU SEQRES 2 A 171 GLU ALA PHE ALA GLY GLU SER MET ALA HIS MET ARG TYR SEQRES 3 A 171 LEU ILE PHE ALA GLU LYS ALA GLU GLN GLU GLY PHE PRO SEQRES 4 A 171 ASN ILE ALA LYS LEU PHE ARG ALA ILE ALA TYR ALA GLU SEQRES 5 A 171 PHE VAL HIS ALA LYS ASN HIS PHE ILE ALA LEU GLY LYS SEQRES 6 A 171 LEU GLY LYS THR PRO GLU ASN LEU GLN MET GLY ILE GLU SEQRES 7 A 171 GLY GLU THR PHE GLU VAL GLU GLU MET TYR PRO VAL TYR SEQRES 8 A 171 ASN LYS ALA ALA GLU PHE GLN GLY GLU LYS GLU ALA VAL SEQRES 9 A 171 ARG THR THR HIS TYR ALA LEU GLU ALA GLU LYS ILE HIS SEQRES 10 A 171 ALA GLU LEU TYR ARG LYS ALA LYS GLU LYS ALA GLU LYS SEQRES 11 A 171 GLY GLU ASP ILE GLU ILE LYS LYS VAL TYR ILE CYS PRO SEQRES 12 A 171 ILE CYS GLY TYR THR ALA VAL ASP GLU ALA PRO GLU TYR SEQRES 13 A 171 CYS PRO VAL CYS GLY ALA PRO LYS GLU LYS PHE VAL VAL SEQRES 14 A 171 PHE GLU SEQRES 1 B 171 MET VAL VAL LYS ARG THR MET THR LYS LYS PHE LEU GLU SEQRES 2 B 171 GLU ALA PHE ALA GLY GLU SER MET ALA HIS MET ARG TYR SEQRES 3 B 171 LEU ILE PHE ALA GLU LYS ALA GLU GLN GLU GLY PHE PRO SEQRES 4 B 171 ASN ILE ALA LYS LEU PHE ARG ALA ILE ALA TYR ALA GLU SEQRES 5 B 171 PHE VAL HIS ALA LYS ASN HIS PHE ILE ALA LEU GLY LYS SEQRES 6 B 171 LEU GLY LYS THR PRO GLU ASN LEU GLN MET GLY ILE GLU SEQRES 7 B 171 GLY GLU THR PHE GLU VAL GLU GLU MET TYR PRO VAL TYR SEQRES 8 B 171 ASN LYS ALA ALA GLU PHE GLN GLY GLU LYS GLU ALA VAL SEQRES 9 B 171 ARG THR THR HIS TYR ALA LEU GLU ALA GLU LYS ILE HIS SEQRES 10 B 171 ALA GLU LEU TYR ARG LYS ALA LYS GLU LYS ALA GLU LYS SEQRES 11 B 171 GLY GLU ASP ILE GLU ILE LYS LYS VAL TYR ILE CYS PRO SEQRES 12 B 171 ILE CYS GLY TYR THR ALA VAL ASP GLU ALA PRO GLU TYR SEQRES 13 B 171 CYS PRO VAL CYS GLY ALA PRO LYS GLU LYS PHE VAL VAL SEQRES 14 B 171 PHE GLU HET FE A 200 1 HET FE A 201 1 HET FE A 202 1 HET FE B 200 1 HET FE B 201 1 HET FE B 202 1 HETNAM FE FE (III) ION FORMUL 3 FE 6(FE 3+) FORMUL 9 HOH *37(H2 O) HELIX 1 1 ARG A 5 GLU A 36 1 32 HELIX 2 2 PHE A 38 LEU A 63 1 26 HELIX 3 3 LYS A 68 GLU A 86 1 19 HELIX 4 4 GLU A 86 GLY A 99 1 14 HELIX 5 5 GLU A 100 GLU A 129 1 30 HELIX 6 6 PRO A 163 PHE A 167 5 5 HELIX 7 7 ARG B 5 GLU B 36 1 32 HELIX 8 8 PHE B 38 LEU B 63 1 26 HELIX 9 9 LYS B 68 GLU B 86 1 19 HELIX 10 10 GLU B 86 GLY B 99 1 14 HELIX 11 11 GLU B 100 LYS B 130 1 31 HELIX 12 12 PRO B 163 PHE B 167 5 5 SHEET 1 A 3 THR A 148 VAL A 150 0 SHEET 2 A 3 VAL A 139 ILE A 141 -1 N TYR A 140 O ALA A 149 SHEET 3 A 3 VAL A 168 PHE A 170 -1 O VAL A 168 N ILE A 141 SHEET 1 B 3 THR B 148 VAL B 150 0 SHEET 2 B 3 VAL B 139 ILE B 141 -1 N TYR B 140 O ALA B 149 SHEET 3 B 3 VAL B 168 PHE B 170 -1 O VAL B 168 N ILE B 141 LINK OE1 GLU A 119 NH2 ARG A 122 1555 1555 1.45 LINK OE1 GLU A 19 FE FE A 202 1555 1555 2.30 LINK OE2 GLU A 19 FE FE A 202 1555 1555 2.29 LINK OE2 GLU A 52 FE FE A 202 1555 1555 2.34 LINK OE1 GLU A 52 FE FE B 201 1555 1555 2.33 LINK ND1 HIS A 55 FE FE A 202 1555 1555 2.32 LINK OE1 GLU A 80 FE FE A 201 1555 1555 2.36 LINK OE2 GLU A 80 FE FE A 201 1555 1555 2.34 LINK OE2 GLU A 114 FE FE A 201 1555 1555 2.30 LINK OE1 GLU A 114 FE FE B 202 1555 1555 2.27 LINK ND1 HIS A 117 FE FE A 201 1555 1555 2.32 LINK SG CYS A 142 FE FE A 200 1555 1555 2.25 LINK SG CYS A 145 FE FE A 200 1555 1555 2.32 LINK SG CYS A 157 FE FE A 200 1555 1555 2.26 LINK SG CYS A 160 FE FE A 200 1555 1555 2.28 LINK FE FE A 201 OE2 GLU B 52 1555 1555 2.31 LINK FE FE A 202 OE1 GLU B 114 1555 1555 2.28 LINK OE1 GLU B 19 FE FE B 202 1555 1555 2.26 LINK OE2 GLU B 19 FE FE B 202 1555 1555 2.38 LINK OE1 GLU B 52 FE FE B 202 1555 1555 2.30 LINK ND1 HIS B 55 FE FE B 202 1555 1555 2.32 LINK OE1 GLU B 80 FE FE B 201 1555 1555 2.35 LINK OE2 GLU B 80 FE FE B 201 1555 1555 2.37 LINK OE2 GLU B 114 FE FE B 201 1555 1555 2.25 LINK ND1 HIS B 117 FE FE B 201 1555 1555 2.37 LINK SG CYS B 142 FE FE B 200 1555 1555 2.26 LINK SG CYS B 145 FE FE B 200 1555 1555 2.25 LINK SG CYS B 157 FE FE B 200 1555 1555 2.30 LINK SG CYS B 160 FE FE B 200 1555 1555 2.25 SITE 1 AC1 4 CYS A 142 CYS A 145 CYS A 157 CYS A 160 SITE 1 AC2 4 GLU A 80 GLU A 114 HIS A 117 GLU B 52 SITE 1 AC3 5 GLU A 19 GLU A 52 HIS A 55 GLU B 114 SITE 2 AC3 5 FE B 201 SITE 1 AC4 4 CYS B 142 CYS B 145 CYS B 157 CYS B 160 SITE 1 AC5 5 GLU A 52 FE A 202 GLU B 80 GLU B 114 SITE 2 AC5 5 HIS B 117 SITE 1 AC6 4 GLU A 114 GLU B 19 GLU B 52 HIS B 55 CRYST1 105.402 105.402 80.095 90.00 90.00 90.00 P 42 21 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009487 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009487 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012485 0.00000