PDB Short entry for 3GW7 HEADER HYDROLASE 31-MAR-09 3GW7 TITLE CRYSTAL STRUCTURE OF A METAL-DEPENDENT PHOSPHOHYDROLASE WITH CONSERVED TITLE 2 HD DOMAIN (YEDJ) FROM ESCHERICHIA COLI IN COMPLEX WITH NICKEL IONS. TITLE 3 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET ER63 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN YEDJ; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12 / MG1655; SOURCE 5 ATCC: 47076; SOURCE 6 GENE: B1962, JW1945, YEDJ; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)+MAGIC; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21 KEYWDS ALL ALPHA-HELICAL PROTEIN, STRUCTURAL GENOMICS, PSI-2, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 3 NESG, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR F.FOROUHAR,M.ABASHIDZE,J.SEETHARAMAN,J.JANJUA,R.XIAO,K.CUNNINGHAM, AUTHOR 2 L.MA,L.ZHAO,J.K.EVERETT,R.NAIR,T.B.ACTON,B.ROST,G.T.MONTELIONE, AUTHOR 3 J.F.HUNT,L.TONG,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 3 21-FEB-24 3GW7 1 REMARK SEQADV REVDAT 2 24-JUL-19 3GW7 1 REMARK REVDAT 1 14-APR-09 3GW7 0 JRNL AUTH F.FOROUHAR,M.ABASHIDZE,J.SEETHARAMAN,J.JANJUA,R.XIAO, JRNL AUTH 2 K.CUNNINGHAM,L.MA,L.ZHAO,J.K.EVERETT,R.NAIR,T.B.ACTON, JRNL AUTH 3 B.ROST,G.T.MONTELIONE,J.F.HUNT,L.TONG JRNL TITL CRYSTAL STRUCTURE OF A METAL-DEPENDENT PHOSPHOHYDROLASE WITH JRNL TITL 2 CONSERVED HD DOMAIN (YEDJ) FROM ESCHERICHIA COLI IN COMPLEX JRNL TITL 3 WITH NICKEL IONS. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM JRNL TITL 4 TARGET ER63 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 265144.250 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 83.4 REMARK 3 NUMBER OF REFLECTIONS : 18064 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) : 0.260 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1627 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.42 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 50.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1006 REMARK 3 BIN R VALUE (WORKING SET) : 0.3530 REMARK 3 BIN FREE R VALUE : 0.3460 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 95 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.036 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3398 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 91.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 121.1 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 10.69700 REMARK 3 B22 (A**2) : 10.69700 REMARK 3 B33 (A**2) : -21.39400 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) : 0.45 REMARK 3 ESD FROM SIGMAA (A) : 0.67 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.52 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.74 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.910 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.30 REMARK 3 BSOL : 87.96 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 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : CNS_TOPPAR:PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CNS_TOPPAR:DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : CNS_TOPPAR:WATER.TOP REMARK 3 TOPOLOGY FILE 4 : CNS_TOPPAR:ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: PROGRAM XTALVIEW HAS ALSO BEEN USED IN REMARK 3 REFINEMENT REMARK 4 REMARK 4 3GW7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052383. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-SEP-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1000 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21299 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : 0.04000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.1300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.33800 REMARK 200 R SYM FOR SHELL (I) : 0.29700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.320 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE, RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION: 100MM NACL, 5MM DTT, REMARK 280 0.02% NAN3, 10MM TRIS-HCL PH 7.5. RESERVOIR SOLUTION: 100MM TRIS- REMARK 280 HCL, 1M LITHIUM SULFATE, 10MM NICKEL CHLORIDE, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 291K, PH 8.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 65.31450 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.31450 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.31450 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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: 2880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.8 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 NI NI A 303 LIES ON A SPECIAL POSITION. REMARK 375 NI NI A 306 LIES ON A SPECIAL POSITION. REMARK 375 NI NI B 305 LIES ON A SPECIAL POSITION. REMARK 375 NI NI B 307 LIES ON A SPECIAL POSITION. 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 ASP A 2 REMARK 465 LEU A 3 REMARK 465 HIS A 18 REMARK 465 GLN A 19 REMARK 465 HIS A 20 REMARK 465 GLN A 21 REMARK 465 ASP A 22 REMARK 465 ALA A 23 REMARK 465 ALA A 24 REMARK 465 HIS A 25 REMARK 465 ASP A 26 REMARK 465 LEU A 63 REMARK 465 ALA A 64 REMARK 465 LYS A 65 REMARK 465 ASN A 66 REMARK 465 HIS A 67 REMARK 465 PRO A 68 REMARK 465 GLN A 69 REMARK 465 ARG A 70 REMARK 465 LYS A 167 REMARK 465 ARG A 168 REMARK 465 HIS A 234 REMARK 465 HIS A 239 REMARK 465 MET B 1 REMARK 465 ASP B 2 REMARK 465 LEU B 3 REMARK 465 HIS B 18 REMARK 465 GLN B 19 REMARK 465 HIS B 20 REMARK 465 GLN B 21 REMARK 465 ASP B 22 REMARK 465 ALA B 23 REMARK 465 ALA B 24 REMARK 465 HIS B 25 REMARK 465 ASP B 26 REMARK 465 LEU B 63 REMARK 465 ALA B 64 REMARK 465 LYS B 65 REMARK 465 ASN B 66 REMARK 465 HIS B 67 REMARK 465 PRO B 68 REMARK 465 GLN B 69 REMARK 465 ARG B 70 REMARK 465 LYS B 167 REMARK 465 ARG B 168 REMARK 465 HIS B 234 REMARK 465 HIS B 239 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 NH2 ARG B 189 OE1 GLN B 192 2.19 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 GLN A 9 0.82 -61.35 REMARK 500 ASN A 12 -83.63 -89.11 REMARK 500 LEU A 14 30.68 -74.92 REMARK 500 LYS A 15 74.73 164.18 REMARK 500 ASN A 16 -109.88 -146.94 REMARK 500 ASP A 45 76.31 51.47 REMARK 500 ASP A 47 55.42 161.90 REMARK 500 MET A 48 54.09 -66.67 REMARK 500 LEU A 49 -34.91 -142.82 REMARK 500 PHE A 57 -11.73 -140.07 REMARK 500 HIS A 58 -9.58 -47.43 REMARK 500 SER A 73 -19.24 -172.13 REMARK 500 GLU A 87 -64.85 -147.51 REMARK 500 PRO A 93 -69.76 -92.77 REMARK 500 ALA A 94 -152.32 57.43 REMARK 500 ILE A 97 -16.72 -164.70 REMARK 500 ILE A 104 39.23 -69.06 REMARK 500 ALA A 105 -15.49 -156.52 REMARK 500 HIS A 107 -35.19 -145.06 REMARK 500 PHE A 109 30.60 -72.54 REMARK 500 SER A 144 -19.89 -45.99 REMARK 500 ALA A 150 -177.64 66.73 REMARK 500 LEU A 151 6.85 -173.38 REMARK 500 PHE A 152 -178.49 -63.85 REMARK 500 ASP A 153 -20.77 -38.96 REMARK 500 PRO A 157 3.91 -57.71 REMARK 500 PHE A 158 13.22 -69.16 REMARK 500 HIS A 161 -164.88 -102.67 REMARK 500 ASP A 165 -169.57 47.68 REMARK 500 LEU A 171 -11.64 -47.94 REMARK 500 HIS A 173 -16.42 -49.67 REMARK 500 GLN A 175 34.45 -88.31 REMARK 500 LYS A 177 -59.89 -125.27 REMARK 500 ALA A 188 -84.08 -11.99 REMARK 500 ASN A 216 -6.38 58.33 REMARK 500 GLU A 217 -87.83 -123.42 REMARK 500 ASP A 220 86.75 -65.21 REMARK 500 HIS A 221 52.84 -68.17 REMARK 500 LYS A 222 -27.63 -142.07 REMARK 500 GLN B 9 1.02 -61.52 REMARK 500 ASN B 12 -83.65 -89.15 REMARK 500 LEU B 14 30.52 -74.75 REMARK 500 LYS B 15 74.54 164.44 REMARK 500 ASN B 16 -109.84 -146.76 REMARK 500 ASP B 45 76.52 51.57 REMARK 500 ASP B 47 55.35 162.23 REMARK 500 MET B 48 53.77 -66.51 REMARK 500 LEU B 49 -34.47 -142.63 REMARK 500 PHE B 57 -11.72 -140.28 REMARK 500 HIS B 58 -9.80 -47.55 REMARK 500 REMARK 500 THIS ENTRY HAS 79 RAMACHANDRAN OUTLIERS. 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 A 303 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 235 NE2 REMARK 620 2 HIS A 237 NE2 90.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 305 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 235 NE2 REMARK 620 2 HIS B 237 NE2 90.2 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 307 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: ER63 RELATED DB: TARGETDB DBREF 3GW7 A 1 231 UNP P46144 YEDJ_ECOLI 1 231 DBREF 3GW7 B 1 231 UNP P46144 YEDJ_ECOLI 1 231 SEQADV 3GW7 LEU A 232 UNP P46144 EXPRESSION TAG SEQADV 3GW7 GLU A 233 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS A 234 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS A 235 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS A 236 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS A 237 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS A 238 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS A 239 UNP P46144 EXPRESSION TAG SEQADV 3GW7 LEU B 232 UNP P46144 EXPRESSION TAG SEQADV 3GW7 GLU B 233 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS B 234 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS B 235 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS B 236 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS B 237 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS B 238 UNP P46144 EXPRESSION TAG SEQADV 3GW7 HIS B 239 UNP P46144 EXPRESSION TAG SEQRES 1 A 239 MET ASP LEU GLN HIS TRP GLN ALA GLN PHE GLU ASN TRP SEQRES 2 A 239 LEU LYS ASN HIS HIS GLN HIS GLN ASP ALA ALA HIS ASP SEQRES 3 A 239 VAL CYS HIS PHE ARG ARG VAL TRP ALA THR ALA GLN LYS SEQRES 4 A 239 LEU ALA ALA ASP ASP ASP VAL ASP MET LEU VAL ILE LEU SEQRES 5 A 239 THR ALA CYS TYR PHE HIS ASP ILE VAL SER LEU ALA LYS SEQRES 6 A 239 ASN HIS PRO GLN ARG GLN ARG SER SER ILE LEU ALA ALA SEQRES 7 A 239 GLU GLU THR ARG ARG LEU LEU ARG GLU GLU PHE GLU GLN SEQRES 8 A 239 PHE PRO ALA GLU LYS ILE GLU ALA VAL CYS HIS ALA ILE SEQRES 9 A 239 ALA ALA HIS SER PHE SER ALA GLN ILE ALA PRO LEU THR SEQRES 10 A 239 THR GLU ALA LYS ILE VAL GLN ASP ALA ASP ARG LEU GLU SEQRES 11 A 239 ALA LEU GLY ALA ILE GLY LEU ALA ARG VAL PHE ALA VAL SEQRES 12 A 239 SER GLY ALA LEU GLY VAL ALA LEU PHE ASP GLY GLU ASP SEQRES 13 A 239 PRO PHE ALA GLN HIS ARG PRO LEU ASP ASP LYS ARG TYR SEQRES 14 A 239 ALA LEU ASP HIS PHE GLN THR LYS LEU LEU LYS LEU PRO SEQRES 15 A 239 GLN THR MET GLN THR ALA ARG GLY LYS GLN LEU ALA GLN SEQRES 16 A 239 HIS ASN ALA HIS PHE LEU VAL GLU PHE MET ALA LYS LEU SEQRES 17 A 239 SER ALA GLU LEU ALA GLY GLU ASN GLU GLY VAL ASP HIS SEQRES 18 A 239 LYS VAL ILE ASP ALA PHE SER SER ALA GLY LEU GLU HIS SEQRES 19 A 239 HIS HIS HIS HIS HIS SEQRES 1 B 239 MET ASP LEU GLN HIS TRP GLN ALA GLN PHE GLU ASN TRP SEQRES 2 B 239 LEU LYS ASN HIS HIS GLN HIS GLN ASP ALA ALA HIS ASP SEQRES 3 B 239 VAL CYS HIS PHE ARG ARG VAL TRP ALA THR ALA GLN LYS SEQRES 4 B 239 LEU ALA ALA ASP ASP ASP VAL ASP MET LEU VAL ILE LEU SEQRES 5 B 239 THR ALA CYS TYR PHE HIS ASP ILE VAL SER LEU ALA LYS SEQRES 6 B 239 ASN HIS PRO GLN ARG GLN ARG SER SER ILE LEU ALA ALA SEQRES 7 B 239 GLU GLU THR ARG ARG LEU LEU ARG GLU GLU PHE GLU GLN SEQRES 8 B 239 PHE PRO ALA GLU LYS ILE GLU ALA VAL CYS HIS ALA ILE SEQRES 9 B 239 ALA ALA HIS SER PHE SER ALA GLN ILE ALA PRO LEU THR SEQRES 10 B 239 THR GLU ALA LYS ILE VAL GLN ASP ALA ASP ARG LEU GLU SEQRES 11 B 239 ALA LEU GLY ALA ILE GLY LEU ALA ARG VAL PHE ALA VAL SEQRES 12 B 239 SER GLY ALA LEU GLY VAL ALA LEU PHE ASP GLY GLU ASP SEQRES 13 B 239 PRO PHE ALA GLN HIS ARG PRO LEU ASP ASP LYS ARG TYR SEQRES 14 B 239 ALA LEU ASP HIS PHE GLN THR LYS LEU LEU LYS LEU PRO SEQRES 15 B 239 GLN THR MET GLN THR ALA ARG GLY LYS GLN LEU ALA GLN SEQRES 16 B 239 HIS ASN ALA HIS PHE LEU VAL GLU PHE MET ALA LYS LEU SEQRES 17 B 239 SER ALA GLU LEU ALA GLY GLU ASN GLU GLY VAL ASP HIS SEQRES 18 B 239 LYS VAL ILE ASP ALA PHE SER SER ALA GLY LEU GLU HIS SEQRES 19 B 239 HIS HIS HIS HIS HIS HET NI A 301 1 HET NI A 302 1 HET NI A 303 1 HET NI A 306 1 HET NI B 301 1 HET NI B 304 1 HET NI B 305 1 HET NI B 307 1 HETNAM NI NICKEL (II) ION FORMUL 3 NI 8(NI 2+) HELIX 1 1 GLN A 7 GLU A 11 5 5 HELIX 2 2 CYS A 28 ALA A 41 1 14 HELIX 3 3 LEU A 49 HIS A 58 1 10 HELIX 4 4 SER A 74 ARG A 86 1 13 HELIX 5 5 HIS A 102 ALA A 106 5 5 HELIX 6 6 THR A 117 ASP A 127 1 11 HELIX 7 7 ARG A 128 ALA A 131 5 4 HELIX 8 8 LEU A 132 LEU A 147 1 16 HELIX 9 9 PHE A 152 GLN A 160 5 9 HELIX 10 10 TYR A 169 GLN A 175 1 7 HELIX 11 11 LYS A 177 LEU A 181 5 5 HELIX 12 12 THR A 187 ALA A 213 1 27 HELIX 13 13 VAL A 223 SER A 228 1 6 HELIX 14 14 GLN B 7 GLU B 11 5 5 HELIX 15 15 CYS B 28 ALA B 41 1 14 HELIX 16 16 LEU B 49 HIS B 58 1 10 HELIX 17 17 SER B 74 ARG B 86 1 13 HELIX 18 18 HIS B 102 ALA B 106 5 5 HELIX 19 19 THR B 117 ASP B 127 1 11 HELIX 20 20 ARG B 128 ALA B 131 5 4 HELIX 21 21 LEU B 132 LEU B 147 1 16 HELIX 22 22 PHE B 152 GLN B 160 5 9 HELIX 23 23 TYR B 169 GLN B 175 1 7 HELIX 24 24 LYS B 177 LEU B 181 5 5 HELIX 25 25 THR B 187 ALA B 213 1 27 HELIX 26 26 VAL B 223 SER B 228 1 6 LINK NE2 HIS A 29 NI NI A 301 1555 1555 2.54 LINK NE2 HIS A 196 NI NI A 302 1555 1555 2.52 LINK NE2 HIS A 235 NI NI A 303 1555 1555 2.08 LINK NE2 HIS A 237 NI NI A 303 1555 1555 2.28 LINK NE2 HIS B 196 NI NI B 304 1555 1555 2.42 LINK NE2 HIS B 235 NI NI B 305 1555 1555 2.14 LINK NE2 HIS B 237 NI NI B 305 1555 1555 2.23 SITE 1 AC1 4 HIS A 29 HIS A 58 ASP A 59 ASP A 127 SITE 1 AC2 4 HIS B 29 HIS B 58 ASP B 59 ASP B 127 SITE 1 AC3 5 ARG A 189 HIS A 196 HIS A 236 HIS A 238 SITE 2 AC3 5 GLU B 217 SITE 1 AC4 2 HIS A 235 HIS A 237 SITE 1 AC5 5 GLU A 217 ARG B 189 HIS B 196 HIS B 236 SITE 2 AC5 5 HIS B 238 SITE 1 AC6 2 HIS B 235 HIS B 237 SITE 1 AC7 1 NI B 307 SITE 1 AC8 1 NI A 306 CRYST1 99.408 99.408 130.629 90.00 90.00 120.00 P 63 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 0.010060 0.005808 0.000000 0.00000 SCALE2 0.000000 0.011616 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007655 0.00000