HEADER METAL BINDING PROTEIN 19-OCT-06 2ITF TITLE CRYSTAL STRUCTURE ISDA NEAT DOMAIN FROM STAPHYLOCOCCUS AUREUS WITH TITLE 2 HEME BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: IRON-REGULATED SURFACE DETERMINANT PROTEIN A; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: NEAT DOMAIN (RESIDUES 62-184); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 STRAIN: RN6390; SOURCE 5 GENE: ISDA, FRPA, STBA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS NEAT DOMAIN, HEME, IRON, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.C.GRIGG,C.L.VERMEIREN,D.E.HEINRICHS,M.E.MURPHY REVDAT 4 30-OCT-24 2ITF 1 REMARK SEQADV LINK REVDAT 3 18-OCT-17 2ITF 1 REMARK REVDAT 2 24-FEB-09 2ITF 1 VERSN REVDAT 1 26-DEC-06 2ITF 0 JRNL AUTH J.C.GRIGG,C.L.VERMEIREN,D.E.HEINRICHS,M.E.MURPHY JRNL TITL HAEM RECOGNITION BY A STAPHYLOCOCCUS AUREUS NEAT DOMAIN. JRNL REF MOL.MICROBIOL. V. 63 139 2007 JRNL REFN ISSN 0950-382X JRNL PMID 17229211 JRNL DOI 10.1111/J.1365-2958.2006.05502.X REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 48138 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2428 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3299 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE SET COUNT : 167 REMARK 3 BIN FREE R VALUE : 0.2580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3975 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 172 REMARK 3 SOLVENT ATOMS : 498 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.29000 REMARK 3 B22 (A**2) : -0.61000 REMARK 3 B33 (A**2) : 0.40000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.68000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.142 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.134 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.089 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.994 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4455 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6128 ; 1.571 ; 2.089 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 482 ; 6.398 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 213 ;41.678 ;25.681 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 699 ;13.908 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;16.826 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 602 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3488 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2105 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2992 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 457 ; 0.162 ; 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): 54 ; 0.161 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 38 ; 0.253 ; 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): 2496 ; 0.950 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3984 ; 1.483 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2282 ; 2.264 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2136 ; 3.396 ; 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 2ITF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-OCT-06. REMARK 100 THE DEPOSITION ID IS D_1000039993. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-FEB-06 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 : SSRL REMARK 200 BEAMLINE : BL1-5 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97944 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48634 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 98.4 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.29100 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: O REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 6000, 0.2M AMMONIUM SULPHATE, REMARK 280 0.1M MES, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 29.26650 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 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 350 REMARK 350 BIOMOLECULE: 2 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: 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 GLY A 58 REMARK 465 SER A 59 REMARK 465 HIS A 60 REMARK 465 MSE A 61 REMARK 465 SER A 62 REMARK 465 GLN A 63 REMARK 465 GLY B 58 REMARK 465 SER B 59 REMARK 465 HIS B 60 REMARK 465 MSE B 61 REMARK 465 SER B 62 REMARK 465 GLN B 63 REMARK 465 GLY C 58 REMARK 465 SER C 59 REMARK 465 HIS C 60 REMARK 465 MSE C 61 REMARK 465 SER C 62 REMARK 465 GLN C 63 REMARK 465 GLY D 58 REMARK 465 SER D 59 REMARK 465 HIS D 60 REMARK 465 MSE D 61 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 B 309 O HOH B 311 2.09 REMARK 500 O HOH A 215 O HOH A 338 2.15 REMARK 500 N SER D 62 O HOH D 313 2.17 REMARK 500 N ASN A 99 O HOH A 335 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 O HOH A 330 O HOH B 301 2556 1.85 REMARK 500 O HOH A 331 O HOH B 277 2556 1.90 REMARK 500 O HOH A 330 O HOH B 308 2556 2.03 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 LEU A 183 -91.50 -77.71 REMARK 500 ASN B 99 19.98 59.45 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 HEM A 200 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 166 OH REMARK 620 2 HEM A 200 NA 103.1 REMARK 620 3 HEM A 200 NB 103.7 86.5 REMARK 620 4 HEM A 200 NC 97.6 159.1 86.6 REMARK 620 5 HEM A 200 ND 95.1 86.8 161.1 93.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 200 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B 166 OH REMARK 620 2 HEM B 200 NA 102.3 REMARK 620 3 HEM B 200 NB 101.5 87.1 REMARK 620 4 HEM B 200 NC 100.4 157.1 85.6 REMARK 620 5 HEM B 200 ND 100.8 87.5 157.6 91.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM C 200 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR C 166 OH REMARK 620 2 HEM C 200 NA 88.0 REMARK 620 3 HEM C 200 NB 88.1 88.3 REMARK 620 4 HEM C 200 NC 99.1 170.2 85.2 REMARK 620 5 HEM C 200 ND 103.6 93.6 168.2 91.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM D 200 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR D 166 OH REMARK 620 2 HEM D 200 NA 89.3 REMARK 620 3 HEM D 200 NB 93.9 89.5 REMARK 620 4 HEM D 200 NC 101.3 169.3 88.3 REMARK 620 5 HEM D 200 ND 102.2 90.0 163.8 89.3 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 HEM A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM C 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM D 200 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ITF RELATED DB: PDB DBREF 2ITF A 62 184 UNP Q7A152 ISDA_STAAW 62 184 DBREF 2ITF B 62 184 UNP Q7A152 ISDA_STAAW 62 184 DBREF 2ITF C 62 184 UNP Q7A152 ISDA_STAAW 62 184 DBREF 2ITF D 62 184 UNP Q7A152 ISDA_STAAW 62 184 SEQADV 2ITF GLY A 58 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF SER A 59 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF HIS A 60 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE A 61 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE A 84 UNP Q7A152 MET 84 MODIFIED RESIDUE SEQADV 2ITF MSE A 88 UNP Q7A152 MET 88 MODIFIED RESIDUE SEQADV 2ITF GLY B 58 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF SER B 59 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF HIS B 60 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE B 61 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE B 84 UNP Q7A152 MET 84 MODIFIED RESIDUE SEQADV 2ITF MSE B 88 UNP Q7A152 MET 88 MODIFIED RESIDUE SEQADV 2ITF GLY C 58 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF SER C 59 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF HIS C 60 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE C 61 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE C 84 UNP Q7A152 MET 84 MODIFIED RESIDUE SEQADV 2ITF MSE C 88 UNP Q7A152 MET 88 MODIFIED RESIDUE SEQADV 2ITF GLY D 58 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF SER D 59 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF HIS D 60 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE D 61 UNP Q7A152 CLONING ARTIFACT SEQADV 2ITF MSE D 84 UNP Q7A152 MET 84 MODIFIED RESIDUE SEQADV 2ITF MSE D 88 UNP Q7A152 MET 88 MODIFIED RESIDUE SEQRES 1 A 127 GLY SER HIS MSE SER GLN ALA THR SER GLN PRO ILE ASN SEQRES 2 A 127 PHE GLN VAL GLN LYS ASP GLY SER SER GLU LYS SER HIS SEQRES 3 A 127 MSE ASP ASP TYR MSE GLN HIS PRO GLY LYS VAL ILE LYS SEQRES 4 A 127 GLN ASN ASN LYS TYR TYR PHE GLN THR VAL LEU ASN ASN SEQRES 5 A 127 ALA SER PHE TRP LYS GLU TYR LYS PHE TYR ASN ALA ASN SEQRES 6 A 127 ASN GLN GLU LEU ALA THR THR VAL VAL ASN ASP ASN LYS SEQRES 7 A 127 LYS ALA ASP THR ARG THR ILE ASN VAL ALA VAL GLU PRO SEQRES 8 A 127 GLY TYR LYS SER LEU THR THR LYS VAL HIS ILE VAL VAL SEQRES 9 A 127 PRO GLN ILE ASN TYR ASN HIS ARG TYR THR THR HIS LEU SEQRES 10 A 127 GLU PHE GLU LYS ALA ILE PRO THR LEU ALA SEQRES 1 B 127 GLY SER HIS MSE SER GLN ALA THR SER GLN PRO ILE ASN SEQRES 2 B 127 PHE GLN VAL GLN LYS ASP GLY SER SER GLU LYS SER HIS SEQRES 3 B 127 MSE ASP ASP TYR MSE GLN HIS PRO GLY LYS VAL ILE LYS SEQRES 4 B 127 GLN ASN ASN LYS TYR TYR PHE GLN THR VAL LEU ASN ASN SEQRES 5 B 127 ALA SER PHE TRP LYS GLU TYR LYS PHE TYR ASN ALA ASN SEQRES 6 B 127 ASN GLN GLU LEU ALA THR THR VAL VAL ASN ASP ASN LYS SEQRES 7 B 127 LYS ALA ASP THR ARG THR ILE ASN VAL ALA VAL GLU PRO SEQRES 8 B 127 GLY TYR LYS SER LEU THR THR LYS VAL HIS ILE VAL VAL SEQRES 9 B 127 PRO GLN ILE ASN TYR ASN HIS ARG TYR THR THR HIS LEU SEQRES 10 B 127 GLU PHE GLU LYS ALA ILE PRO THR LEU ALA SEQRES 1 C 127 GLY SER HIS MSE SER GLN ALA THR SER GLN PRO ILE ASN SEQRES 2 C 127 PHE GLN VAL GLN LYS ASP GLY SER SER GLU LYS SER HIS SEQRES 3 C 127 MSE ASP ASP TYR MSE GLN HIS PRO GLY LYS VAL ILE LYS SEQRES 4 C 127 GLN ASN ASN LYS TYR TYR PHE GLN THR VAL LEU ASN ASN SEQRES 5 C 127 ALA SER PHE TRP LYS GLU TYR LYS PHE TYR ASN ALA ASN SEQRES 6 C 127 ASN GLN GLU LEU ALA THR THR VAL VAL ASN ASP ASN LYS SEQRES 7 C 127 LYS ALA ASP THR ARG THR ILE ASN VAL ALA VAL GLU PRO SEQRES 8 C 127 GLY TYR LYS SER LEU THR THR LYS VAL HIS ILE VAL VAL SEQRES 9 C 127 PRO GLN ILE ASN TYR ASN HIS ARG TYR THR THR HIS LEU SEQRES 10 C 127 GLU PHE GLU LYS ALA ILE PRO THR LEU ALA SEQRES 1 D 127 GLY SER HIS MSE SER GLN ALA THR SER GLN PRO ILE ASN SEQRES 2 D 127 PHE GLN VAL GLN LYS ASP GLY SER SER GLU LYS SER HIS SEQRES 3 D 127 MSE ASP ASP TYR MSE GLN HIS PRO GLY LYS VAL ILE LYS SEQRES 4 D 127 GLN ASN ASN LYS TYR TYR PHE GLN THR VAL LEU ASN ASN SEQRES 5 D 127 ALA SER PHE TRP LYS GLU TYR LYS PHE TYR ASN ALA ASN SEQRES 6 D 127 ASN GLN GLU LEU ALA THR THR VAL VAL ASN ASP ASN LYS SEQRES 7 D 127 LYS ALA ASP THR ARG THR ILE ASN VAL ALA VAL GLU PRO SEQRES 8 D 127 GLY TYR LYS SER LEU THR THR LYS VAL HIS ILE VAL VAL SEQRES 9 D 127 PRO GLN ILE ASN TYR ASN HIS ARG TYR THR THR HIS LEU SEQRES 10 D 127 GLU PHE GLU LYS ALA ILE PRO THR LEU ALA MODRES 2ITF MSE A 84 MET SELENOMETHIONINE MODRES 2ITF MSE A 88 MET SELENOMETHIONINE MODRES 2ITF MSE B 84 MET SELENOMETHIONINE MODRES 2ITF MSE B 88 MET SELENOMETHIONINE MODRES 2ITF MSE C 84 MET SELENOMETHIONINE MODRES 2ITF MSE C 88 MET SELENOMETHIONINE MODRES 2ITF MSE D 84 MET SELENOMETHIONINE MODRES 2ITF MSE D 88 MET SELENOMETHIONINE HET MSE A 84 8 HET MSE A 88 8 HET MSE B 84 8 HET MSE B 88 8 HET MSE C 84 8 HET MSE C 88 8 HET MSE D 84 8 HET MSE D 88 8 HET HEM A 200 85 HET HEM B 200 85 HET HEM C 200 85 HET HEM D 200 85 HETNAM MSE SELENOMETHIONINE HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 5 HEM 4(C34 H32 FE N4 O4) FORMUL 9 HOH *498(H2 O) HELIX 1 1 SER A 82 MSE A 88 5 7 HELIX 2 2 PRO A 162 ASN A 165 5 4 HELIX 3 3 SER B 82 MSE B 88 5 7 HELIX 4 4 PRO B 162 ASN B 165 5 4 HELIX 5 5 SER C 82 MSE C 88 5 7 HELIX 6 6 PRO C 162 ASN C 165 5 4 HELIX 7 7 SER D 82 MSE D 88 5 7 HELIX 8 8 PRO D 162 ASN D 165 5 4 SHEET 1 A 5 THR A 65 ILE A 69 0 SHEET 2 A 5 GLY A 92 GLN A 97 -1 O VAL A 94 N GLN A 67 SHEET 3 A 5 LYS A 100 ASN A 108 -1 O TYR A 102 N ILE A 95 SHEET 4 A 5 THR A 139 VAL A 146 -1 O ARG A 140 N LEU A 107 SHEET 5 A 5 THR A 128 ASN A 134 -1 N VAL A 131 O THR A 141 SHEET 1 B 5 PHE A 71 LYS A 75 0 SHEET 2 B 5 TYR A 166 PHE A 176 -1 O HIS A 173 N GLN A 74 SHEET 3 B 5 SER A 152 VAL A 161 -1 N LEU A 153 O LEU A 174 SHEET 4 B 5 TRP A 113 TYR A 119 -1 N TYR A 119 O THR A 154 SHEET 5 B 5 GLU A 125 LEU A 126 -1 O LEU A 126 N PHE A 118 SHEET 1 C 5 THR B 65 ILE B 69 0 SHEET 2 C 5 GLY B 92 GLN B 97 -1 O VAL B 94 N GLN B 67 SHEET 3 C 5 LYS B 100 ASN B 108 -1 O GLN B 104 N LYS B 93 SHEET 4 C 5 THR B 139 VAL B 146 -1 O ARG B 140 N LEU B 107 SHEET 5 C 5 THR B 128 ASN B 134 -1 N ASN B 132 O THR B 141 SHEET 1 D 5 PHE B 71 LYS B 75 0 SHEET 2 D 5 TYR B 166 PHE B 176 -1 O HIS B 173 N GLN B 74 SHEET 3 D 5 SER B 152 VAL B 161 -1 N LEU B 153 O LEU B 174 SHEET 4 D 5 TRP B 113 TYR B 119 -1 N TYR B 119 O THR B 154 SHEET 5 D 5 GLU B 125 LEU B 126 -1 O LEU B 126 N PHE B 118 SHEET 1 E 5 THR C 65 ILE C 69 0 SHEET 2 E 5 GLY C 92 GLN C 97 -1 O VAL C 94 N GLN C 67 SHEET 3 E 5 LYS C 100 ASN C 108 -1 O GLN C 104 N LYS C 93 SHEET 4 E 5 THR C 139 VAL C 146 -1 O ARG C 140 N LEU C 107 SHEET 5 E 5 THR C 128 ASN C 134 -1 N THR C 129 O ASN C 143 SHEET 1 F 5 PHE C 71 LYS C 75 0 SHEET 2 F 5 TYR C 166 PHE C 176 -1 O HIS C 173 N GLN C 74 SHEET 3 F 5 SER C 152 VAL C 161 -1 N LEU C 153 O LEU C 174 SHEET 4 F 5 TRP C 113 TYR C 119 -1 N GLU C 115 O HIS C 158 SHEET 5 F 5 GLU C 125 LEU C 126 -1 O LEU C 126 N PHE C 118 SHEET 1 G 5 THR D 65 ILE D 69 0 SHEET 2 G 5 GLY D 92 GLN D 97 -1 O VAL D 94 N GLN D 67 SHEET 3 G 5 LYS D 100 ASN D 108 -1 O GLN D 104 N LYS D 93 SHEET 4 G 5 THR D 139 VAL D 146 -1 O ARG D 140 N LEU D 107 SHEET 5 G 5 THR D 128 ASN D 134 -1 N THR D 129 O ASN D 143 SHEET 1 H 5 PHE D 71 LYS D 75 0 SHEET 2 H 5 TYR D 166 PHE D 176 -1 O GLU D 175 N GLN D 72 SHEET 3 H 5 SER D 152 VAL D 161 -1 N LEU D 153 O LEU D 174 SHEET 4 H 5 TRP D 113 TYR D 119 -1 N GLU D 115 O HIS D 158 SHEET 5 H 5 GLU D 125 LEU D 126 -1 O LEU D 126 N PHE D 118 LINK C HIS A 83 N MSE A 84 1555 1555 1.33 LINK C MSE A 84 N ASP A 85 1555 1555 1.34 LINK C TYR A 87 N MSE A 88 1555 1555 1.33 LINK C MSE A 88 N GLN A 89 1555 1555 1.32 LINK C HIS B 83 N MSE B 84 1555 1555 1.34 LINK C MSE B 84 N ASP B 85 1555 1555 1.34 LINK C TYR B 87 N MSE B 88 1555 1555 1.32 LINK C MSE B 88 N GLN B 89 1555 1555 1.33 LINK C HIS C 83 N MSE C 84 1555 1555 1.34 LINK C MSE C 84 N ASP C 85 1555 1555 1.34 LINK C TYR C 87 N MSE C 88 1555 1555 1.33 LINK C MSE C 88 N GLN C 89 1555 1555 1.33 LINK C HIS D 83 N MSE D 84 1555 1555 1.33 LINK C MSE D 84 N ASP D 85 1555 1555 1.33 LINK C TYR D 87 N MSE D 88 1555 1555 1.33 LINK C MSE D 88 N GLN D 89 1555 1555 1.33 LINK OH TYR A 166 FE HEM A 200 1555 1555 2.11 LINK OH TYR B 166 FE HEM B 200 1555 1555 1.97 LINK OH TYR C 166 FE HEM C 200 1555 1555 2.23 LINK OH TYR D 166 FE HEM D 200 1555 1555 2.13 CISPEP 1 HIS A 90 PRO A 91 0 -2.71 CISPEP 2 HIS B 90 PRO B 91 0 -3.06 CISPEP 3 HIS C 90 PRO C 91 0 -2.53 CISPEP 4 HIS D 90 PRO D 91 0 -6.80 SITE 1 AC1 18 LYS A 75 SER A 82 HIS A 83 TYR A 87 SITE 2 AC1 18 TRP A 113 ILE A 159 VAL A 161 ILE A 164 SITE 3 AC1 18 TYR A 166 TYR A 170 THR A 172 HOH A 206 SITE 4 AC1 18 PRO B 162 GLN B 163 ASN B 165 PRO C 162 SITE 5 AC1 18 GLN C 163 HOH C 314 SITE 1 AC2 21 PRO A 162 GLN A 163 ASN A 165 HOH A 274 SITE 2 AC2 21 HOH A 288 LYS B 75 SER B 82 HIS B 83 SITE 3 AC2 21 MSE B 84 TYR B 87 PHE B 112 TRP B 113 SITE 4 AC2 21 ILE B 159 VAL B 161 ILE B 164 TYR B 166 SITE 5 AC2 21 TYR B 170 THR B 172 HOH B 248 HOH B 280 SITE 6 AC2 21 HOH B 307 SITE 1 AC3 19 LYS C 75 SER C 82 HIS C 83 MSE C 84 SITE 2 AC3 19 TYR C 87 PHE C 112 TRP C 113 ILE C 159 SITE 3 AC3 19 ILE C 164 TYR C 166 TYR C 170 THR C 172 SITE 4 AC3 19 HOH C 225 HOH C 249 HOH C 282 ASP D 86 SITE 5 AC3 19 TYR D 87 HEM D 200 HOH D 237 SITE 1 AC4 18 ASP C 86 TYR C 87 HEM C 200 HOH C 230 SITE 2 AC4 18 SER D 82 HIS D 83 MSE D 84 TYR D 87 SITE 3 AC4 18 TRP D 113 ILE D 159 VAL D 161 ILE D 164 SITE 4 AC4 18 TYR D 166 TYR D 170 THR D 172 HOH D 201 SITE 5 AC4 18 HOH D 221 HOH D 303 CRYST1 56.089 58.533 95.584 90.00 93.28 90.00 P 1 21 1 8 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 0.017829 0.000000 0.001022 0.00000 SCALE2 0.000000 0.017084 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010479 0.00000