HEADER HYDROLASE 01-SEP-98 1BS6 TITLE PEPTIDE DEFORMYLASE AS NI2+ CONTAINING FORM IN COMPLEX WITH TRIPEPTIDE TITLE 2 MET-ALA-SER 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 FORM ESCHERICHIA COLI IS CRYSTALLIZED AS COMPND 8 NI2+ CONTAINING FORM, COCRYSTALLIZED WITH PRODUCT PEPTIDE MET-ALA-SER COMPND 9 (MAS); COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: PROTEIN (MET-ALA-SER); COMPND 12 CHAIN: D, E, F; COMPND 13 ENGINEERED: YES 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; SOURCE 14 MOL_ID: 2; SOURCE 15 SYNTHETIC: YES; SOURCE 16 OTHER_DETAILS: THE PROTEIN WAS CHEMICALLY SYNTHESIZED 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 1BS6 1 REMARK LINK REVDAT 2 24-FEB-09 1BS6 1 VERSN REVDAT 1 27-AUG-99 1BS6 0 JRNL AUTH A.BECKER,I.SCHLICHTING,W.KABSCH,D.GROCHE,S.SCHULTZ, JRNL AUTH 2 A.F.WAGNER JRNL TITL IRON CENTER, SUBSTRATE RECOGNITION AND MECHANISM OF PEPTIDE JRNL TITL 2 DEFORMYLASE. JRNL REF NAT.STRUCT.BIOL. V. 5 1053 1998 JRNL REFN ISSN 1072-8368 JRNL PMID 9846875 JRNL DOI 10.1038/4162 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.BECKER,I.SCHLICHTING,W.KABSCH,S.SCHULTZ,A.F.V.WAGNER REMARK 1 TITL STRUCTURE OF PEPTIDE DEFORMYLASE AND IDENTIFICATION OF THE REMARK 1 TITL 2 SUBSTRATE BINDING SITE REMARK 1 REF J.BIOL.CHEM. V. 273 11413 1998 REMARK 1 REFN ISSN 0021-9258 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. 2.10 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) : 2.10 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) (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 34576 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) : 0.206 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.200 REMARK 3 FREE R VALUE TEST SET COUNT : 3539 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4681 REMARK 3 BIN R VALUE (WORKING SET) : 0.3010 REMARK 3 BIN FREE R VALUE : 0.3080 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 11.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 577 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.013 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4098 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 165 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.00 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) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.32 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) : 0.32 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.31 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.280 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) : 1.310 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.190 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.250 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.570 ; 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 : PROTEIN.PARM REMARK 3 PARAMETER FILE 2 : WAT.PARM REMARK 3 PARAMETER FILE 3 : PARAM.SO4 REMARK 3 PARAMETER FILE 4 : PARAM19.ION REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WAT.TOP REMARK 3 TOPOLOGY FILE 3 : TOP.SO4 REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 1BS6 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_1000007207. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-97 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 3 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 : 37363 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 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 (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.7100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.33900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 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 (%): 57.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.84 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 71.90000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.05000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.90000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.05000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, F 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 HIS A 54 64.73 -102.49 REMARK 500 ARG A 167 -54.21 -157.10 REMARK 500 PRO B 509 43.66 -104.61 REMARK 500 GLU B 522 125.65 -176.99 REMARK 500 HIS B 554 67.82 -101.07 REMARK 500 ARG B 663 -71.94 -85.35 REMARK 500 LYS B 665 -104.40 -62.68 REMARK 500 ALA B 666 102.54 -50.76 REMARK 500 HIS C1054 63.03 -100.97 REMARK 500 ASP C1067 25.98 -143.12 REMARK 500 LEU C1164 31.40 -68.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ALA A 166 ARG A 167 -114.96 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 167 0.19 SIDE CHAIN REMARK 500 ARG C1155 0.08 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 GLN A 156 -10.13 REMARK 500 ARG A 163 -10.52 REMARK 500 ARG A 167 16.62 REMARK 500 GLU B 583 10.79 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 120.9 REMARK 620 3 HIS A 136 NE2 105.0 97.5 REMARK 620 4 HOH A2041 O 157.1 80.9 76.6 REMARK 620 5 HOH A2042 O 93.8 110.5 131.5 70.1 REMARK 620 N 1 2 3 4 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 121.6 REMARK 620 3 HIS B 636 NE2 110.7 99.9 REMARK 620 4 HOH E3005 O 142.2 87.8 84.0 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 115.2 REMARK 620 3 HIS C1136 NE2 98.3 102.5 REMARK 620 4 HOH C3006 O 154.7 89.1 82.2 REMARK 620 5 HOH C3007 O 94.8 112.3 132.8 67.9 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: NIA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ONE TRIPEPTIDE MET-ALA-SER IS LOCATED IN ACTIVE REMARK 800 SITE NEAR NICKEL ION FOR CHAIN A REMARK 800 REMARK 800 SITE_IDENTIFIER: NIB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ONE TRIPEPTIDE MET-ALA-SER IS LOCATED IN ACTIVE REMARK 800 SITE NEAR NICKEL ION FOR CHAIN B REMARK 800 REMARK 800 SITE_IDENTIFIER: NIC REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ONE TRIPEPTIDE MET-ALA-SER IS LOCATED IN ACTIVE REMARK 800 SITE NEAR NICKEL ION 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 C 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: 1BS7 RELATED DB: PDB REMARK 900 RELATED ID: 1BS8 RELATED DB: PDB REMARK 900 RELATED ID: 1BSZ RELATED DB: PDB DBREF 1BS6 A 1 168 UNP P0A6K3 DEF_ECOLI 1 168 DBREF 1BS6 B 501 668 UNP P0A6K3 DEF_ECOLI 1 168 DBREF 1BS6 C 1001 1168 UNP P0A6K3 DEF_ECOLI 1 168 DBREF 1BS6 D 1 3 PDB 1BS6 1BS6 1 3 DBREF 1BS6 E 1 3 PDB 1BS6 1BS6 1 3 DBREF 1BS6 F 1 3 PDB 1BS6 1BS6 1 3 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 SEQRES 1 D 3 MET ALA SER SEQRES 1 E 3 MET ALA SER SEQRES 1 F 3 MET ALA SER HET NI A2001 1 HET SO4 B3001 5 HET NI B2001 1 HET SO4 C3002 5 HET NI C2001 1 HETNAM NI NICKEL (II) ION HETNAM SO4 SULFATE ION FORMUL 7 NI 3(NI 2+) FORMUL 8 SO4 2(O4 S 2-) FORMUL 12 HOH *165(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 LEU B 664 1 17 HELIX 13 13 GLU C 1011 ARG C 1014 5 4 HELIX 14 14 ALA C 1025 ALA C 1040 1 16 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 LYS C 1165 1 18 SHEET 1 A 3 GLY A 45 ALA A 47 0 SHEET 2 A 3 ILE A 57 ASP A 61 -1 N VAL A 59 O LEU A 46 SHEET 3 A 3 ARG A 69 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 2 GLU A 87 CYS A 90 0 SHEET 2 C 2 ILE A 93 LEU A 99 -1 N ALA A 98 O GLU A 88 SHEET 1 D 3 GLY B 545 ALA B 547 0 SHEET 2 D 3 ILE B 557 ILE B 560 -1 N VAL B 559 O LEU B 546 SHEET 3 D 3 LEU B 570 ILE B 573 -1 N LEU B 572 O ILE B 558 SHEET 1 E 3 PRO B 617 ASP B 623 0 SHEET 2 E 3 LYS B 605 LEU B 611 -1 N ALA B 610 O PHE B 618 SHEET 3 E 3 GLU B 576 SER B 581 -1 N SER B 581 O LYS B 605 SHEET 1 F 3 GLY C1045 ALA C1047 0 SHEET 2 F 3 ILE C1057 ILE C1060 -1 N VAL C1059 O LEU C1046 SHEET 3 F 3 LEU C1070 ILE C1073 -1 N LEU C1072 O ILE C1058 SHEET 1 G 3 PRO C1117 ASP C1123 0 SHEET 2 G 3 LYS C1105 LEU C1111 -1 N ALA C1110 O PHE C1118 SHEET 3 G 3 GLU C1076 SER C1081 -1 N SER C1081 O LYS C1105 LINK SG CYS A 90 NI NI A2001 1555 1555 2.41 LINK NE2 HIS A 132 NI NI A2001 1555 1555 2.19 LINK NE2 HIS A 136 NI NI A2001 1555 1555 2.34 LINK NI NI A2001 O HOH A2041 1555 1555 2.17 LINK NI NI A2001 O HOH A2042 1555 1555 2.30 LINK SG CYS B 590 NI NI B2001 1555 1555 2.26 LINK NE2 HIS B 632 NI NI B2001 1555 1555 2.17 LINK NE2 HIS B 636 NI NI B2001 1555 1555 2.23 LINK NI NI B2001 O HOH E3005 1555 1555 1.92 LINK SG CYS C1090 NI NI C2001 1555 1555 2.44 LINK NE2 HIS C1132 NI NI C2001 1555 1555 2.17 LINK NE2 HIS C1136 NI NI C2001 1555 1555 2.23 LINK NI NI C2001 O HOH C3006 1555 1555 2.05 LINK NI NI C2001 O HOH C3007 1555 1555 2.69 CISPEP 1 ILE A 8 PRO A 9 0 18.17 CISPEP 2 ILE B 508 PRO B 509 0 16.34 CISPEP 3 ILE C 1008 PRO C 1009 0 16.49 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 3 HIS B 554 GLN B 555 ARG C1029 SITE 1 AC2 4 ARG B 529 ILE C1053 HIS C1054 GLN C1055 SITE 1 AC3 5 CYS A 90 HIS A 132 HIS A 136 HOH A2041 SITE 2 AC3 5 HOH A2042 SITE 1 AC4 6 GLN B 550 CYS B 590 HIS B 632 HIS B 636 SITE 2 AC4 6 MET E 1 HOH E3005 SITE 1 AC5 6 GLN C1050 CYS C1090 HIS C1132 HIS C1136 SITE 2 AC5 6 HOH C3006 HOH C3007 CRYST1 143.800 64.100 85.100 90.00 123.30 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 0.006954 0.000000 0.004568 0.00000 SCALE2 0.000000 0.015601 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014059 0.00000