HEADER TRANSCRIPTION/DNA 15-JUN-00 1F5T TITLE DIPHTHERIA TOX REPRESSOR (C102D MUTANT) COMPLEXED WITH NICKEL AND DTXR TITLE 2 CONSENSUS BINDING SEQUENCE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 43MER DNA CONTAINING DXTR CONSENSUS BINDING SEQUENCE; COMPND 3 CHAIN: E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 43MER DNA CONTAINING DXTR CONSENSUS BINDING SEQUENCE; COMPND 7 CHAIN: F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DIPHTHERIA TOXIN REPRESSOR; COMPND 11 CHAIN: A, B, C, D; COMPND 12 SYNONYM: IRON-DEPENDENT DIPHTHERIA TOXREGULATORY ELEMENT, TOX COMPND 13 REGULATORY FACTOR, TOX REGULON TRANSCRIPTION REGULATOR DTXR; COMPND 14 ENGINEERED: YES; COMPND 15 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES; SOURCE 5 MOL_ID: 3; SOURCE 6 ORGANISM_SCIENTIFIC: CORYNEBACTERIUM DIPHTHERIAE; SOURCE 7 ORGANISM_TAXID: 1717; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IRON-REGULATED REPRESSOR, DNA-PROTEIN COMPLEX, HELIX-TURN-HELIX KEYWDS 2 MOTIF, TRANSCRIPTION REGULATOR, DIPHTHERIA TOX REPRESSOR, DNA- KEYWDS 3 BINDING REGULATORY PROTEIN, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.CHEN,A.WHITE,J.LOVE,J.R.MURPHY,D.RINGE REVDAT 5 07-FEB-24 1F5T 1 REMARK REVDAT 4 03-NOV-21 1F5T 1 REMARK SEQADV LINK REVDAT 3 24-FEB-09 1F5T 1 VERSN REVDAT 2 01-APR-03 1F5T 1 JRNL REVDAT 1 25-SEP-00 1F5T 0 JRNL AUTH C.S.CHEN,A.WHITE,J.LOVE,J.R.MURPHY,D.RINGE JRNL TITL METHYL GROUPS OF THYMINE BASES ARE IMPORTANT FOR NUCLEIC JRNL TITL 2 ACID RECOGNITION BY DTXR. JRNL REF BIOCHEMISTRY V. 39 10397 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10956029 JRNL DOI 10.1021/BI0009284 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.83 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 377523.150 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 36454 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) : 0.245 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1827 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5365 REMARK 3 BIN R VALUE (WORKING SET) : 0.3920 REMARK 3 BIN FREE R VALUE : 0.4170 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 294 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.024 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3852 REMARK 3 NUCLEIC ACID ATOMS : 1757 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 4 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.12000 REMARK 3 B22 (A**2) : -0.12000 REMARK 3 B33 (A**2) : 0.24000 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) : 0.42 REMARK 3 ESD FROM SIGMAA (A) : 0.71 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) : 0.48 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.76 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.090 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : GROUP 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 : 0.34 REMARK 3 BSOL : 29.50 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_REP.PA REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PA REMARK 3 PARAMETER FILE 3 : 4 REMARK 3 PARAMETER FILE 4 : 4 REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : AMORE REMARK 3 TOPOLOGY FILE 4 : AMORE REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1F5T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY NDB. REMARK 100 THE DEPOSITION ID IS D_1000011278. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9200 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37719 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 13.80 REMARK 200 R MERGE (I) : 0.14900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 79.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM CACODYLATE PH7.3, 10 MM REMARK 280 MGCL2, 2 MM SPERMINE, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 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 71.45950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 35.72975 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 107.18925 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, A, B, 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 MET A 1001 REMARK 465 MET B 2001 REMARK 465 MET C 3001 REMARK 465 MET D 4001 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 OE1 GLU D 4083 ND1 HIS D 4098 1.93 REMARK 500 OE1 GLU B 2083 ND1 HIS B 2098 1.99 REMARK 500 OE1 GLU A 1083 ND1 HIS A 1098 1.99 REMARK 500 OE1 GLU C 3083 ND1 HIS C 3098 2.03 REMARK 500 OD1 ASP A 1102 OE2 GLU A 1105 2.07 REMARK 500 O ASP D 4102 OE2 GLU D 4105 2.17 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 VAL A1005 -65.38 66.64 REMARK 500 ALA A1057 179.63 -58.13 REMARK 500 ASP A1093 120.83 -38.46 REMARK 500 LYS A1118 -70.05 -78.27 REMARK 500 VAL A1119 -37.35 -38.14 REMARK 500 VAL B2005 -55.33 63.19 REMARK 500 PRO B2025 96.14 -67.94 REMARK 500 ASP B2088 -82.91 -94.06 REMARK 500 ASN B2095 3.34 -67.68 REMARK 500 VAL B2097 -73.15 -54.30 REMARK 500 VAL B2107 24.24 -140.24 REMARK 500 LEU B2120 -79.33 -47.27 REMARK 500 VAL C3005 -60.52 66.79 REMARK 500 ALA C3057 -172.52 -57.10 REMARK 500 ASP C3093 114.96 -34.97 REMARK 500 VAL C3119 22.27 -68.90 REMARK 500 VAL D4005 -54.51 63.38 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 DG E 310 0.05 SIDE CHAIN REMARK 500 DG E 311 0.07 SIDE CHAIN REMARK 500 DC E 316 0.08 SIDE CHAIN REMARK 500 DC E 317 0.07 SIDE CHAIN REMARK 500 DC E 321 0.09 SIDE CHAIN REMARK 500 DC E 322 0.06 SIDE CHAIN REMARK 500 DG F 413 0.06 SIDE CHAIN REMARK 500 DG F 414 0.05 SIDE CHAIN REMARK 500 DG F 419 0.07 SIDE CHAIN REMARK 500 DC F 424 0.10 SIDE CHAIN 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 251 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 201 O REMARK 620 2 MET A1010 SD 90.0 REMARK 620 3 ASP A1102 O 94.8 162.0 REMARK 620 4 ASP A1102 OD1 82.6 86.1 77.4 REMARK 620 5 GLU A1105 OE2 159.2 79.6 90.2 78.8 REMARK 620 6 HIS A1106 NE2 101.3 87.4 108.5 172.4 96.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 252 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1079 NE2 REMARK 620 2 GLU A1083 OE1 63.5 REMARK 620 3 GLU A1083 OE2 74.5 54.3 REMARK 620 4 HIS A1098 ND1 77.9 58.7 113.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 253 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 202 O REMARK 620 2 MET B2010 SD 90.5 REMARK 620 3 ASP B2102 OD1 77.0 88.2 REMARK 620 4 ASP B2102 O 92.3 167.4 80.4 REMARK 620 5 GLU B2105 OE2 172.1 89.9 95.2 85.7 REMARK 620 6 HIS B2106 NE2 100.0 90.5 176.7 101.2 87.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 254 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B2079 NE2 REMARK 620 2 GLU B2083 OE1 66.8 REMARK 620 3 GLU B2083 OE2 82.7 54.8 REMARK 620 4 HIS B2098 ND1 83.6 58.8 112.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI C 255 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 203 O REMARK 620 2 MET C3010 SD 91.3 REMARK 620 3 ASP C3102 OD1 83.1 89.6 REMARK 620 4 ASP C3102 O 91.1 164.8 75.8 REMARK 620 5 GLU C3105 OE2 170.1 88.5 87.0 86.7 REMARK 620 6 HIS C3106 NE2 100.1 88.2 176.2 106.1 89.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI C 256 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C3079 NE2 REMARK 620 2 GLU C3083 OE1 66.1 REMARK 620 3 GLU C3083 OE2 86.7 56.6 REMARK 620 4 HIS C3098 ND1 84.5 58.5 112.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI D 257 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH D 204 O REMARK 620 2 MET D4010 SD 90.2 REMARK 620 3 ASP D4102 O 90.4 167.1 REMARK 620 4 ASP D4102 OD1 80.4 90.2 77.2 REMARK 620 5 GLU D4105 OE2 166.0 101.0 76.9 90.9 REMARK 620 6 HIS D4106 NE2 99.0 90.8 101.8 178.8 89.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI D 258 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D4079 NE2 REMARK 620 2 GLU D4083 OE1 76.1 REMARK 620 3 GLU D4083 OE2 76.1 57.7 REMARK 620 4 HIS D4098 ND1 89.7 59.0 116.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 251 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 252 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 253 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 254 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI C 255 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI C 256 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI D 257 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI D 258 DBREF 1F5T A 1001 1121 UNP P33120 DTXR_CORDI 1 121 DBREF 1F5T B 2001 2121 UNP P33120 DTXR_CORDI 1 121 DBREF 1F5T C 3001 3121 UNP P33120 DTXR_CORDI 1 121 DBREF 1F5T D 4001 4121 UNP P33120 DTXR_CORDI 1 121 DBREF 1F5T E 295 337 PDB 1F5T 1F5T 295 337 DBREF 1F5T F 396 438 PDB 1F5T 1F5T 396 438 SEQADV 1F5T ASP A 1102 UNP P33120 CYS 102 ENGINEERED MUTATION SEQADV 1F5T ASP B 2102 UNP P33120 CYS 102 ENGINEERED MUTATION SEQADV 1F5T ASP C 3102 UNP P33120 CYS 102 ENGINEERED MUTATION SEQADV 1F5T ASP D 4102 UNP P33120 CYS 102 ENGINEERED MUTATION SEQRES 1 E 43 DA DA DC DA DT DG DC DA DA DG DG DC DT SEQRES 2 E 43 DA DA DG DG DT DT DA DG DC DC DT DA DA SEQRES 3 E 43 DC DC DT DT DA DG DC DC DT DT DG DC DA SEQRES 4 E 43 DT DG DT DT SEQRES 1 F 43 DT DT DA DA DC DA DT DG DC DA DA DG DG SEQRES 2 F 43 DC DT DA DA DG DG DT DT DA DG DG DC DT SEQRES 3 F 43 DA DA DC DC DT DT DA DG DC DC DT DT DG SEQRES 4 F 43 DC DA DT DG SEQRES 1 A 121 MET LYS ASP LEU VAL ASP THR THR GLU MET TYR LEU ARG SEQRES 2 A 121 THR ILE TYR GLU LEU GLU GLU GLU GLY VAL THR PRO LEU SEQRES 3 A 121 ARG ALA ARG ILE ALA GLU ARG LEU GLU GLN SER GLY PRO SEQRES 4 A 121 THR VAL SER GLN THR VAL ALA ARG MET GLU ARG ASP GLY SEQRES 5 A 121 LEU VAL VAL VAL ALA SER ASP ARG SER LEU GLN MET THR SEQRES 6 A 121 PRO THR GLY ARG THR LEU ALA THR ALA VAL MET ARG LYS SEQRES 7 A 121 HIS ARG LEU ALA GLU ARG LEU LEU THR ASP ILE ILE GLY SEQRES 8 A 121 LEU ASP ILE ASN LYS VAL HIS ASP GLU ALA ASP ARG TRP SEQRES 9 A 121 GLU HIS VAL MET SER ASP GLU VAL GLU ARG ARG LEU VAL SEQRES 10 A 121 LYS VAL LEU LYS SEQRES 1 B 121 MET LYS ASP LEU VAL ASP THR THR GLU MET TYR LEU ARG SEQRES 2 B 121 THR ILE TYR GLU LEU GLU GLU GLU GLY VAL THR PRO LEU SEQRES 3 B 121 ARG ALA ARG ILE ALA GLU ARG LEU GLU GLN SER GLY PRO SEQRES 4 B 121 THR VAL SER GLN THR VAL ALA ARG MET GLU ARG ASP GLY SEQRES 5 B 121 LEU VAL VAL VAL ALA SER ASP ARG SER LEU GLN MET THR SEQRES 6 B 121 PRO THR GLY ARG THR LEU ALA THR ALA VAL MET ARG LYS SEQRES 7 B 121 HIS ARG LEU ALA GLU ARG LEU LEU THR ASP ILE ILE GLY SEQRES 8 B 121 LEU ASP ILE ASN LYS VAL HIS ASP GLU ALA ASP ARG TRP SEQRES 9 B 121 GLU HIS VAL MET SER ASP GLU VAL GLU ARG ARG LEU VAL SEQRES 10 B 121 LYS VAL LEU LYS SEQRES 1 C 121 MET LYS ASP LEU VAL ASP THR THR GLU MET TYR LEU ARG SEQRES 2 C 121 THR ILE TYR GLU LEU GLU GLU GLU GLY VAL THR PRO LEU SEQRES 3 C 121 ARG ALA ARG ILE ALA GLU ARG LEU GLU GLN SER GLY PRO SEQRES 4 C 121 THR VAL SER GLN THR VAL ALA ARG MET GLU ARG ASP GLY SEQRES 5 C 121 LEU VAL VAL VAL ALA SER ASP ARG SER LEU GLN MET THR SEQRES 6 C 121 PRO THR GLY ARG THR LEU ALA THR ALA VAL MET ARG LYS SEQRES 7 C 121 HIS ARG LEU ALA GLU ARG LEU LEU THR ASP ILE ILE GLY SEQRES 8 C 121 LEU ASP ILE ASN LYS VAL HIS ASP GLU ALA ASP ARG TRP SEQRES 9 C 121 GLU HIS VAL MET SER ASP GLU VAL GLU ARG ARG LEU VAL SEQRES 10 C 121 LYS VAL LEU LYS SEQRES 1 D 121 MET LYS ASP LEU VAL ASP THR THR GLU MET TYR LEU ARG SEQRES 2 D 121 THR ILE TYR GLU LEU GLU GLU GLU GLY VAL THR PRO LEU SEQRES 3 D 121 ARG ALA ARG ILE ALA GLU ARG LEU GLU GLN SER GLY PRO SEQRES 4 D 121 THR VAL SER GLN THR VAL ALA ARG MET GLU ARG ASP GLY SEQRES 5 D 121 LEU VAL VAL VAL ALA SER ASP ARG SER LEU GLN MET THR SEQRES 6 D 121 PRO THR GLY ARG THR LEU ALA THR ALA VAL MET ARG LYS SEQRES 7 D 121 HIS ARG LEU ALA GLU ARG LEU LEU THR ASP ILE ILE GLY SEQRES 8 D 121 LEU ASP ILE ASN LYS VAL HIS ASP GLU ALA ASP ARG TRP SEQRES 9 D 121 GLU HIS VAL MET SER ASP GLU VAL GLU ARG ARG LEU VAL SEQRES 10 D 121 LYS VAL LEU LYS HET NI A 251 1 HET NI A 252 1 HET NI B 253 1 HET NI B 254 1 HET NI C 255 1 HET NI C 256 1 HET NI D 257 1 HET NI D 258 1 HETNAM NI NICKEL (II) ION FORMUL 7 NI 8(NI 2+) FORMUL 15 HOH *4(H2 O) HELIX 1 1 ASP A 1006 GLU A 1021 1 16 HELIX 2 2 LEU A 1026 GLU A 1035 1 10 HELIX 3 3 SER A 1037 ASP A 1051 1 15 HELIX 4 4 THR A 1065 ASP A 1088 1 24 HELIX 5 5 ASP A 1093 ASN A 1095 5 3 HELIX 6 6 LYS A 1096 GLU A 1105 1 10 HELIX 7 7 SER A 1109 LEU A 1120 1 12 HELIX 8 8 ASP B 2006 GLU B 2021 1 16 HELIX 9 9 LEU B 2026 LEU B 2034 1 9 HELIX 10 10 SER B 2037 ASP B 2051 1 15 HELIX 11 11 THR B 2065 ASP B 2088 1 24 HELIX 12 12 ASP B 2093 GLU B 2105 1 13 HELIX 13 13 SER B 2109 LYS B 2121 1 13 HELIX 14 14 ASP C 3006 GLU C 3021 1 16 HELIX 15 15 LEU C 3026 GLU C 3035 1 10 HELIX 16 16 SER C 3037 ASP C 3051 1 15 HELIX 17 17 THR C 3065 ILE C 3089 1 25 HELIX 18 18 ASP C 3093 ASN C 3095 5 3 HELIX 19 19 LYS C 3096 GLU C 3105 1 10 HELIX 20 20 SER C 3109 VAL C 3119 1 11 HELIX 21 21 ASP D 4006 GLU D 4021 1 16 HELIX 22 22 LEU D 4026 LEU D 4034 1 9 HELIX 23 23 SER D 4037 ASP D 4051 1 15 HELIX 24 24 THR D 4065 ILE D 4089 1 25 HELIX 25 25 LYS D 4096 GLU D 4105 1 10 HELIX 26 26 SER D 4109 LEU D 4120 1 12 SHEET 1 A 2 VAL A1054 VAL A1056 0 SHEET 2 A 2 LEU A1062 MET A1064 -1 N GLN A1063 O VAL A1055 SHEET 1 B 2 VAL B2054 VAL B2056 0 SHEET 2 B 2 LEU B2062 MET B2064 -1 N GLN B2063 O VAL B2055 SHEET 1 C 2 VAL C3054 VAL C3056 0 SHEET 2 C 2 LEU C3062 MET C3064 -1 N GLN C3063 O VAL C3055 LINK O HOH A 201 NI NI A 251 1555 1555 1.88 LINK NI NI A 251 SD MET A1010 1555 1555 2.11 LINK NI NI A 251 O ASP A1102 1555 1555 1.76 LINK NI NI A 251 OD1 ASP A1102 1555 1555 1.72 LINK NI NI A 251 OE2 GLU A1105 1555 1555 1.54 LINK NI NI A 251 NE2 HIS A1106 1555 1555 1.71 LINK NI NI A 252 NE2 HIS A1079 1555 1555 2.69 LINK NI NI A 252 OE1 GLU A1083 1555 1555 1.91 LINK NI NI A 252 OE2 GLU A1083 1555 1555 2.65 LINK NI NI A 252 ND1 HIS A1098 1555 1555 2.14 LINK O HOH B 202 NI NI B 253 1555 1555 2.03 LINK NI NI B 253 SD MET B2010 1555 1555 2.04 LINK NI NI B 253 OD1 ASP B2102 1555 1555 1.69 LINK NI NI B 253 O ASP B2102 1555 1555 1.80 LINK NI NI B 253 OE2 GLU B2105 1555 1555 1.69 LINK NI NI B 253 NE2 HIS B2106 1555 1555 1.71 LINK NI NI B 254 NE2 HIS B2079 1555 1555 2.42 LINK NI NI B 254 OE1 GLU B2083 1555 1555 2.01 LINK NI NI B 254 OE2 GLU B2083 1555 1555 2.58 LINK NI NI B 254 ND1 HIS B2098 1555 1555 2.04 LINK O HOH C 203 NI NI C 255 1555 1555 1.86 LINK NI NI C 255 SD MET C3010 1555 1555 2.04 LINK NI NI C 255 OD1 ASP C3102 1555 1555 1.71 LINK NI NI C 255 O ASP C3102 1555 1555 1.79 LINK NI NI C 255 OE2 GLU C3105 1555 1555 1.60 LINK NI NI C 255 NE2 HIS C3106 1555 1555 1.66 LINK NI NI C 256 NE2 HIS C3079 1555 1555 2.43 LINK NI NI C 256 OE1 GLU C3083 1555 1555 1.95 LINK NI NI C 256 OE2 GLU C3083 1555 1555 2.53 LINK NI NI C 256 ND1 HIS C3098 1555 1555 2.19 LINK O HOH D 204 NI NI D 257 1555 1555 2.06 LINK NI NI D 257 SD MET D4010 1555 1555 1.98 LINK NI NI D 257 O ASP D4102 1555 1555 1.85 LINK NI NI D 257 OD1 ASP D4102 1555 1555 1.77 LINK NI NI D 257 OE2 GLU D4105 1555 1555 1.63 LINK NI NI D 257 NE2 HIS D4106 1555 1555 1.68 LINK NI NI D 258 NE2 HIS D4079 1555 1555 2.26 LINK NI NI D 258 OE1 GLU D4083 1555 1555 1.87 LINK NI NI D 258 OE2 GLU D4083 1555 1555 2.48 LINK NI NI D 258 ND1 HIS D4098 1555 1555 2.04 SITE 1 AC1 5 HOH A 201 MET A1010 ASP A1102 GLU A1105 SITE 2 AC1 5 HIS A1106 SITE 1 AC2 3 HIS A1079 GLU A1083 HIS A1098 SITE 1 AC3 5 HOH B 202 MET B2010 ASP B2102 GLU B2105 SITE 2 AC3 5 HIS B2106 SITE 1 AC4 3 HIS B2079 GLU B2083 HIS B2098 SITE 1 AC5 5 HOH C 203 MET C3010 ASP C3102 GLU C3105 SITE 2 AC5 5 HIS C3106 SITE 1 AC6 3 HIS C3079 GLU C3083 HIS C3098 SITE 1 AC7 5 HOH D 204 MET D4010 ASP D4102 GLU D4105 SITE 2 AC7 5 HIS D4106 SITE 1 AC8 3 HIS D4079 GLU D4083 HIS D4098 CRYST1 116.178 116.178 142.919 90.00 90.00 90.00 P 41 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008607 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008607 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006997 0.00000