HEADER HYDROLASE 01-SEP-98 1BS7 TITLE PEPTIDE DEFORMYLASE AS NI2+ CONTAINING FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (PEPTIDE DEFORMYLASE); COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: PDF; COMPND 5 EC: 3.5.1.31; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: PDF PROTEIN FROM ESCHERICHIA COLI IS CRYSTALLIZED AS COMPND 8 NI2+ CONTAINING FORM SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: JM109; SOURCE 5 CELLULAR_LOCATION: CYTOPLASMA; SOURCE 6 GENE: DEF; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PKK223-3 (PHARMACIA); SOURCE 12 EXPRESSION_SYSTEM_PLASMID: P925C; SOURCE 13 EXPRESSION_SYSTEM_GENE: DEF KEYWDS HYDROLASE, IRON METALLOPROTEASE; PROTEIN SYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR A.BECKER,I.SCHLICHTING,W.KABSCH,D.GROCHE,S.SCHULTZ,A.F.V.WAGNER REVDAT 3 09-AUG-23 1BS7 1 REMARK LINK REVDAT 2 24-FEB-09 1BS7 1 VERSN REVDAT 1 27-AUG-99 1BS7 0 JRNL AUTH A.BECKER,I.SCHLICHTING,W.KABSCH,S.SCHULTZ,A.F.WAGNER JRNL TITL STRUCTURE OF PEPTIDE DEFORMYLASE AND IDENTIFICATION OF THE JRNL TITL 2 SUBSTRATE BINDING SITE. JRNL REF J.BIOL.CHEM. V. 273 11413 1998 JRNL REFN ISSN 0021-9258 JRNL PMID 9565550 JRNL DOI 10.1074/JBC.273.19.11413 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.BECKER,I.SCHLICHTING,W.KABSCH,D.GROCHE,S.SCHULTZ, REMARK 1 AUTH 2 A.F.WAGNER REMARK 1 TITL IRON CENTER, SUBSTRATE RECOGNITION AND MECHANISM OF PEPTIDE REMARK 1 TITL 2 DEFORMYLASE REMARK 1 REF NAT.STRUCT.BIOL. V. 5 1053 1998 REMARK 1 REFN ISSN 1072-8368 REMARK 1 REFERENCE 2 REMARK 1 AUTH D.GROCHE,A.BECKER,I.SCHLICHTING,W.KABSCH,S.SCHULTZ, REMARK 1 AUTH 2 A.F.V.WAGNER REMARK 1 TITL ISOLATION AND CRYSTALLIZATION OF FUNCTIONALLY COMPETENT REMARK 1 TITL 2 ESCHERICHIA COLI PEPTIDE DEFORMYLASE FORMS CONTAINING EITHER REMARK 1 TITL 3 IRON OR NICKEL IN THE ACTIVE SITE REMARK 1 REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 246 342 1998 REMARK 1 REFN ISSN 0006-291X REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 100000.000 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 19733 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 SET) : 0.203 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1973 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.64 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2734 REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE : 0.3340 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 322 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4038 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM SIGMAA (A) : 0.37 REMARK 3 LOW RESOLUTION CUTOFF (A) : 6.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.38 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.42 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.013 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.270 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.490 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.470 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.720 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.240 ; 2.500 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PDFNI.PARM REMARK 3 PARAMETER FILE 2 : PDFNI.SCATTER REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PDFNI.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 1BS7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000007208. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-97 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 5 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : ELLIOTT GX-18 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : FRANCKS DUBBLE-MIRROR OPTICS REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS-NICOLET X100 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21929 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.32900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.420 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR 3.851 REMARK 200 STARTING MODEL: 1ICJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SEE: REMARK 280 D.GROCHE,A.BECKER,I.SCHLICHTING,W.KABSCH, S.SCHULTZ,A.F.V.WAGNER REMARK 280 (1998) BIOCHEM.BIOPHYS.RES.COMM. 246, 342, PH 7.4 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 71.70000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.70000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.00000 REMARK 290 SMTRY3 4 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 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 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 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 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 24 -167.80 -111.08 REMARK 500 ARG A 56 77.12 -68.07 REMARK 500 GLU A 68 34.30 -150.89 REMARK 500 ARG A 69 130.86 -28.85 REMARK 500 CYS A 90 131.63 -171.33 REMARK 500 GLU A 95 -2.46 77.36 REMARK 500 LYS A 165 -75.05 -50.20 REMARK 500 ALA A 166 91.66 -63.28 REMARK 500 PRO B 509 30.16 -98.10 REMARK 500 ASN B 524 -168.40 -112.74 REMARK 500 HIS B 554 55.47 -91.71 REMARK 500 GLU B 595 -2.08 76.41 REMARK 500 LEU B 664 49.75 -79.65 REMARK 500 LYS B 665 -39.00 -139.30 REMARK 500 ASN C1024 -168.92 -114.48 REMARK 500 HIS C1054 56.36 -100.54 REMARK 500 ASP C1067 38.43 -144.20 REMARK 500 GLU C1095 -2.24 77.49 REMARK 500 ARG C1163 -77.11 -60.51 REMARK 500 LEU C1164 68.66 -69.79 REMARK 500 LYS C1165 22.09 160.30 REMARK 500 ALA C1166 55.74 -142.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 153 0.07 SIDE CHAIN REMARK 500 HIS B 554 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 163 -11.40 REMARK 500 GLU B 583 10.96 REMARK 500 GLU C1083 10.45 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 NI A2001 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 90 SG REMARK 620 2 HIS A 132 NE2 127.1 REMARK 620 3 HIS A 136 NE2 106.5 96.0 REMARK 620 4 HOH A2034 O 137.1 94.9 73.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B2001 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 590 SG REMARK 620 2 HIS B 632 NE2 114.8 REMARK 620 3 HIS B 636 NE2 116.0 106.8 REMARK 620 4 HOH B3004 O 137.3 91.7 84.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI C2001 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C1090 SG REMARK 620 2 HIS C1132 NE2 114.3 REMARK 620 3 HIS C1136 NE2 109.9 99.0 REMARK 620 4 HOH C3005 O 149.3 92.2 78.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: NIA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NI BINDING SITE FOR CHAIN A REMARK 800 REMARK 800 SITE_IDENTIFIER: NIB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NI BINDING SITE FOR CHAIN B REMARK 800 REMARK 800 SITE_IDENTIFIER: NIC REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NI BINDING SITE FOR CHAIN C REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI C 2001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BS4 RELATED DB: PDB REMARK 900 RELATED ID: 1BS5 RELATED DB: PDB REMARK 900 RELATED ID: 1BS6 RELATED DB: PDB REMARK 900 RELATED ID: 1BS8 RELATED DB: PDB REMARK 900 RELATED ID: 1BSZ RELATED DB: PDB DBREF 1BS7 A 1 168 UNP P0A6K3 DEF_ECOLI 1 168 DBREF 1BS7 B 501 668 UNP P0A6K3 DEF_ECOLI 1 168 DBREF 1BS7 C 1001 1168 UNP P0A6K3 DEF_ECOLI 1 168 SEQRES 1 A 168 SER VAL LEU GLN VAL LEU HIS ILE PRO ASP GLU ARG LEU SEQRES 2 A 168 ARG LYS VAL ALA LYS PRO VAL GLU GLU VAL ASN ALA GLU SEQRES 3 A 168 ILE GLN ARG ILE VAL ASP ASP MET PHE GLU THR MET TYR SEQRES 4 A 168 ALA GLU GLU GLY ILE GLY LEU ALA ALA THR GLN VAL ASP SEQRES 5 A 168 ILE HIS GLN ARG ILE ILE VAL ILE ASP VAL SER GLU ASN SEQRES 6 A 168 ARG ASP GLU ARG LEU VAL LEU ILE ASN PRO GLU LEU LEU SEQRES 7 A 168 GLU LYS SER GLY GLU THR GLY ILE GLU GLU GLY CYS LEU SEQRES 8 A 168 SER ILE PRO GLU GLN ARG ALA LEU VAL PRO ARG ALA GLU SEQRES 9 A 168 LYS VAL LYS ILE ARG ALA LEU ASP ARG ASP GLY LYS PRO SEQRES 10 A 168 PHE GLU LEU GLU ALA ASP GLY LEU LEU ALA ILE CYS ILE SEQRES 11 A 168 GLN HIS GLU MET ASP HIS LEU VAL GLY LYS LEU PHE MET SEQRES 12 A 168 ASP TYR LEU SER PRO LEU LYS GLN GLN ARG ILE ARG GLN SEQRES 13 A 168 LYS VAL GLU LYS LEU ASP ARG LEU LYS ALA ARG ALA SEQRES 1 B 168 SER VAL LEU GLN VAL LEU HIS ILE PRO ASP GLU ARG LEU SEQRES 2 B 168 ARG LYS VAL ALA LYS PRO VAL GLU GLU VAL ASN ALA GLU SEQRES 3 B 168 ILE GLN ARG ILE VAL ASP ASP MET PHE GLU THR MET TYR SEQRES 4 B 168 ALA GLU GLU GLY ILE GLY LEU ALA ALA THR GLN VAL ASP SEQRES 5 B 168 ILE HIS GLN ARG ILE ILE VAL ILE ASP VAL SER GLU ASN SEQRES 6 B 168 ARG ASP GLU ARG LEU VAL LEU ILE ASN PRO GLU LEU LEU SEQRES 7 B 168 GLU LYS SER GLY GLU THR GLY ILE GLU GLU GLY CYS LEU SEQRES 8 B 168 SER ILE PRO GLU GLN ARG ALA LEU VAL PRO ARG ALA GLU SEQRES 9 B 168 LYS VAL LYS ILE ARG ALA LEU ASP ARG ASP GLY LYS PRO SEQRES 10 B 168 PHE GLU LEU GLU ALA ASP GLY LEU LEU ALA ILE CYS ILE SEQRES 11 B 168 GLN HIS GLU MET ASP HIS LEU VAL GLY LYS LEU PHE MET SEQRES 12 B 168 ASP TYR LEU SER PRO LEU LYS GLN GLN ARG ILE ARG GLN SEQRES 13 B 168 LYS VAL GLU LYS LEU ASP ARG LEU LYS ALA ARG ALA SEQRES 1 C 168 SER VAL LEU GLN VAL LEU HIS ILE PRO ASP GLU ARG LEU SEQRES 2 C 168 ARG LYS VAL ALA LYS PRO VAL GLU GLU VAL ASN ALA GLU SEQRES 3 C 168 ILE GLN ARG ILE VAL ASP ASP MET PHE GLU THR MET TYR SEQRES 4 C 168 ALA GLU GLU GLY ILE GLY LEU ALA ALA THR GLN VAL ASP SEQRES 5 C 168 ILE HIS GLN ARG ILE ILE VAL ILE ASP VAL SER GLU ASN SEQRES 6 C 168 ARG ASP GLU ARG LEU VAL LEU ILE ASN PRO GLU LEU LEU SEQRES 7 C 168 GLU LYS SER GLY GLU THR GLY ILE GLU GLU GLY CYS LEU SEQRES 8 C 168 SER ILE PRO GLU GLN ARG ALA LEU VAL PRO ARG ALA GLU SEQRES 9 C 168 LYS VAL LYS ILE ARG ALA LEU ASP ARG ASP GLY LYS PRO SEQRES 10 C 168 PHE GLU LEU GLU ALA ASP GLY LEU LEU ALA ILE CYS ILE SEQRES 11 C 168 GLN HIS GLU MET ASP HIS LEU VAL GLY LYS LEU PHE MET SEQRES 12 C 168 ASP TYR LEU SER PRO LEU LYS GLN GLN ARG ILE ARG GLN SEQRES 13 C 168 LYS VAL GLU LYS LEU ASP ARG LEU LYS ALA ARG ALA HET NI A2001 1 HET SO4 B3001 5 HET SO4 B3002 5 HET NI B2001 1 HET NI C2001 1 HETNAM NI NICKEL (II) ION HETNAM SO4 SULFATE ION FORMUL 4 NI 3(NI 2+) FORMUL 5 SO4 2(O4 S 2-) FORMUL 9 HOH *131(H2 O) HELIX 1 1 GLU A 11 ARG A 14 5 4 HELIX 2 2 ALA A 25 GLU A 41 1 17 HELIX 3 3 ALA A 48 VAL A 51 5 4 HELIX 4 4 GLY A 124 VAL A 138 1 15 HELIX 5 5 PHE A 142 TYR A 145 5 4 HELIX 6 6 PRO A 148 LYS A 165 1 18 HELIX 7 7 GLU B 511 ARG B 514 5 4 HELIX 8 8 ALA B 525 GLU B 541 1 17 HELIX 9 9 ALA B 548 VAL B 551 5 4 HELIX 10 10 GLY B 624 VAL B 638 1 15 HELIX 11 11 PHE B 642 TYR B 645 5 4 HELIX 12 12 PRO B 648 ALA B 666 1 19 HELIX 13 13 GLU C 1011 ARG C 1014 5 4 HELIX 14 14 ALA C 1025 GLU C 1041 1 17 HELIX 15 15 ALA C 1048 VAL C 1051 5 4 HELIX 16 16 GLY C 1124 VAL C 1138 1 15 HELIX 17 17 PHE C 1142 TYR C 1145 5 4 HELIX 18 18 PRO C 1148 ARG C 1163 1 16 SHEET 1 A 3 GLY A 45 ALA A 47 0 SHEET 2 A 3 ILE A 57 ILE A 60 -1 N VAL A 59 O LEU A 46 SHEET 3 A 3 LEU A 70 ILE A 73 -1 N LEU A 72 O ILE A 58 SHEET 1 B 3 PRO A 117 ASP A 123 0 SHEET 2 B 3 LYS A 105 LEU A 111 -1 N ALA A 110 O PHE A 118 SHEET 3 B 3 GLU A 76 SER A 81 -1 N SER A 81 O LYS A 105 SHEET 1 C 3 GLY B 545 ALA B 547 0 SHEET 2 C 3 ILE B 557 ILE B 560 -1 N VAL B 559 O LEU B 546 SHEET 3 C 3 LEU B 570 ILE B 573 -1 N LEU B 572 O ILE B 558 SHEET 1 D 3 PRO B 617 ASP B 623 0 SHEET 2 D 3 LYS B 605 LEU B 611 -1 N ALA B 610 O PHE B 618 SHEET 3 D 3 GLU B 576 SER B 581 -1 N SER B 581 O LYS B 605 SHEET 1 E 3 GLY C1045 ALA C1047 0 SHEET 2 E 3 ILE C1057 ILE C1060 -1 N VAL C1059 O LEU C1046 SHEET 3 E 3 LEU C1070 ILE C1073 -1 N LEU C1072 O ILE C1058 SHEET 1 F 3 PRO C1117 ASP C1123 0 SHEET 2 F 3 LYS C1105 LEU C1111 -1 N ALA C1110 O PHE C1118 SHEET 3 F 3 GLU C1076 SER C1081 -1 N SER C1081 O LYS C1105 LINK SG CYS A 90 NI NI A2001 1555 1555 2.08 LINK NE2 HIS A 132 NI NI A2001 1555 1555 2.07 LINK NE2 HIS A 136 NI NI A2001 1555 1555 2.36 LINK NI NI A2001 O HOH A2034 1555 1555 2.52 LINK SG CYS B 590 NI NI B2001 1555 1555 2.20 LINK NE2 HIS B 632 NI NI B2001 1555 1555 2.18 LINK NE2 HIS B 636 NI NI B2001 1555 1555 1.99 LINK NI NI B2001 O HOH B3004 1555 1555 1.93 LINK SG CYS C1090 NI NI C2001 1555 1555 2.15 LINK NE2 HIS C1132 NI NI C2001 1555 1555 2.20 LINK NE2 HIS C1136 NI NI C2001 1555 1555 2.13 LINK NI NI C2001 O HOH C3005 1555 1555 2.16 CISPEP 1 ILE A 8 PRO A 9 0 9.90 CISPEP 2 ILE B 508 PRO B 509 0 11.12 CISPEP 3 ILE C 1008 PRO C 1009 0 11.31 SITE 1 NIA 3 CYS A 90 HIS A 132 HIS A 136 SITE 1 NIB 3 CYS B 590 HIS B 632 HIS B 636 SITE 1 NIC 3 CYS C1090 HIS C1132 HIS C1136 SITE 1 AC1 5 ASP B 552 ILE B 553 HIS B 554 GLN B 555 SITE 2 AC1 5 ARG C1029 SITE 1 AC2 4 ARG B 529 ILE C1053 HIS C1054 GLN C1055 SITE 1 AC3 4 CYS A 90 HIS A 132 HIS A 136 HOH A2034 SITE 1 AC4 5 GLN B 550 CYS B 590 HIS B 632 HIS B 636 SITE 2 AC4 5 HOH B3004 SITE 1 AC5 5 GLN C1050 CYS C1090 HIS C1132 HIS C1136 SITE 2 AC5 5 HOH C3005 CRYST1 143.400 64.000 84.500 90.00 123.00 90.00 C 1 2 1 12 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 0.006974 0.000000 0.004529 0.00000 SCALE2 0.000000 0.015625 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014111 0.00000