PDB Short entry for 4MTD HEADER DNA BINDING PROTEIN/DNA 19-SEP-13 4MTD TITLE ZINC UPTAKE REGULATOR COMPLEXED WITH ZINC AND DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC UPTAKE REGULATION PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: ZINC UPTAKE REGULATOR; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ZNUABC OPERATOR DNA; COMPND 8 CHAIN: Y; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: ZNUABC OPERATOR DNA; COMPND 12 CHAIN: Z; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: B4046, JW5714, YJBK, ZUR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24D; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS PROTEIN-DNA COMPLEX, WINGED-HELIX, DNA-BINDING REGULATORY PROTEIN, KEYWDS 2 HELIX-TURN-HELIX, WINGED HELIX, ZINC REGULATED REPRESSOR, DNA KEYWDS 3 BINDING, DNA BINDING PROTEIN-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.A.GILSTON,A.MONDRAGON,T.V.O'HALLORAN REVDAT 3 28-FEB-24 4MTD 1 REMARK LINK REVDAT 2 12-NOV-14 4MTD 1 JRNL REVDAT 1 05-NOV-14 4MTD 0 JRNL AUTH B.A.GILSTON,S.WANG,M.D.MARCUS,M.A.CANALIZO-HERNANDEZ, JRNL AUTH 2 E.P.SWINDELL,Y.XUE,A.MONDRAGON,T.V.O'HALLORAN JRNL TITL STRUCTURAL AND MECHANISTIC BASIS OF ZINC REGULATION ACROSS JRNL TITL 2 THE E. COLI ZUR REGULON. JRNL REF PLOS BIOL. V. 12 01987 2014 JRNL REFN ISSN 1544-9173 JRNL PMID 25369000 JRNL DOI 10.1371/JOURNAL.PBIO.1001987 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 43139 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2290 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3120 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.34 REMARK 3 BIN R VALUE (WORKING SET) : 0.3090 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4632 REMARK 3 NUCLEIC ACID ATOMS : 1355 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 64.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.20000 REMARK 3 B22 (A**2) : -2.84000 REMARK 3 B33 (A**2) : -1.45000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.06000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.334 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.258 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.198 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.890 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6263 ; 0.006 ; 0.017 REMARK 3 BOND LENGTHS OTHERS (A): 5328 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8742 ; 1.117 ; 1.763 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12290 ; 0.896 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 596 ; 6.342 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 218 ;32.824 ;24.404 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 832 ;14.167 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;12.306 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 948 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6175 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1339 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2390 ; 2.748 ; 6.306 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2389 ; 2.748 ; 6.304 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2981 ; 4.637 ; 9.446 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3873 ; 3.181 ; 6.693 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 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 4MTD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-13. REMARK 100 THE DEPOSITION ID IS D_1000082340. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 78 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : BERYLLIUM LENSES REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS, SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45429 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.480 REMARK 200 RESOLUTION RANGE LOW (A) : 36.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : 0.05400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.48 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.29000 REMARK 200 R SYM FOR SHELL (I) : 0.33100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M AMMONIUM SULFATE, 0.1 M CITRATE, REMARK 280 PH 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K 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 96.66200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.23500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 96.66200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.23500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: A DIMER OF DIMERS IS COMPLEXED WITH THE DUPLEX DNA MOLECULE. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 15130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, Y, Z 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 1 REMARK 465 GLU A 2 REMARK 465 LYS A 3 REMARK 465 ARG A 153 REMARK 465 HIS A 154 REMARK 465 PRO A 155 REMARK 465 GLU A 156 REMARK 465 GLN A 157 REMARK 465 CYS A 158 REMARK 465 GLN A 159 REMARK 465 HIS A 160 REMARK 465 ASP A 161 REMARK 465 HIS A 162 REMARK 465 SER A 163 REMARK 465 VAL A 164 REMARK 465 GLN A 165 REMARK 465 VAL A 166 REMARK 465 LYS A 167 REMARK 465 LYS A 168 REMARK 465 LYS A 169 REMARK 465 PRO A 170 REMARK 465 ARG A 171 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 ARG B 153 REMARK 465 HIS B 154 REMARK 465 PRO B 155 REMARK 465 GLU B 156 REMARK 465 GLN B 157 REMARK 465 CYS B 158 REMARK 465 GLN B 159 REMARK 465 HIS B 160 REMARK 465 ASP B 161 REMARK 465 HIS B 162 REMARK 465 SER B 163 REMARK 465 VAL B 164 REMARK 465 GLN B 165 REMARK 465 VAL B 166 REMARK 465 LYS B 167 REMARK 465 LYS B 168 REMARK 465 LYS B 169 REMARK 465 PRO B 170 REMARK 465 ARG B 171 REMARK 465 MET C 1 REMARK 465 GLU C 2 REMARK 465 LYS C 3 REMARK 465 THR C 4 REMARK 465 ARG C 153 REMARK 465 HIS C 154 REMARK 465 PRO C 155 REMARK 465 GLU C 156 REMARK 465 GLN C 157 REMARK 465 CYS C 158 REMARK 465 GLN C 159 REMARK 465 HIS C 160 REMARK 465 ASP C 161 REMARK 465 HIS C 162 REMARK 465 SER C 163 REMARK 465 VAL C 164 REMARK 465 GLN C 165 REMARK 465 VAL C 166 REMARK 465 LYS C 167 REMARK 465 LYS C 168 REMARK 465 LYS C 169 REMARK 465 PRO C 170 REMARK 465 ARG C 171 REMARK 465 MET D 1 REMARK 465 ARG D 153 REMARK 465 HIS D 154 REMARK 465 PRO D 155 REMARK 465 GLU D 156 REMARK 465 GLN D 157 REMARK 465 CYS D 158 REMARK 465 GLN D 159 REMARK 465 HIS D 160 REMARK 465 ASP D 161 REMARK 465 HIS D 162 REMARK 465 SER D 163 REMARK 465 VAL D 164 REMARK 465 GLN D 165 REMARK 465 VAL D 166 REMARK 465 LYS D 167 REMARK 465 LYS D 168 REMARK 465 LYS D 169 REMARK 465 PRO D 170 REMARK 465 ARG D 171 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DA Y 1 P DA Y 1 OP3 -0.122 REMARK 500 DT Z 1 P DT Z 1 OP3 -0.121 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 ASN A 83 83.24 -68.24 REMARK 500 PHE A 91 -80.36 -67.32 REMARK 500 PRO B 94 -142.97 -75.98 REMARK 500 ALA B 114 77.89 -168.60 REMARK 500 ASP C 39 54.28 -98.71 REMARK 500 GLN C 73 -159.88 -72.94 REMARK 500 THR C 95 111.98 -38.87 REMARK 500 ASN D 21 67.28 -108.40 REMARK 500 ASP D 39 37.73 -92.32 REMARK 500 LEU D 90 25.41 -145.19 REMARK 500 THR D 95 150.87 -49.75 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 ZN A 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 77 NE2 REMARK 620 2 CYS A 88 SG 104.4 REMARK 620 3 HIS A 96 NE2 107.4 114.4 REMARK 620 4 GLU A 111 OE1 99.7 136.2 91.8 REMARK 620 5 GLU A 111 OE2 90.4 89.2 144.6 54.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 103 SG REMARK 620 2 CYS A 106 SG 101.3 REMARK 620 3 CYS A 143 SG 122.0 114.3 REMARK 620 4 CYS A 146 SG 102.4 106.6 108.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 77 NE2 REMARK 620 2 CYS B 88 SG 107.0 REMARK 620 3 HIS B 96 NE2 107.7 111.3 REMARK 620 4 GLU B 111 OE1 88.3 145.5 92.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 103 SG REMARK 620 2 CYS B 106 SG 98.6 REMARK 620 3 CYS B 143 SG 119.6 105.4 REMARK 620 4 CYS B 146 SG 85.8 111.8 130.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 77 NE2 REMARK 620 2 CYS C 88 SG 110.8 REMARK 620 3 HIS C 96 NE2 104.3 101.9 REMARK 620 4 GLU C 111 OE1 102.2 140.9 89.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 103 SG REMARK 620 2 CYS C 106 SG 108.2 REMARK 620 3 CYS C 143 SG 110.1 109.7 REMARK 620 4 CYS C 146 SG 97.6 121.8 108.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D 77 NE2 REMARK 620 2 CYS D 88 SG 105.8 REMARK 620 3 HIS D 96 NE2 109.3 107.4 REMARK 620 4 GLU D 111 OE1 95.6 144.8 90.8 REMARK 620 5 GLU D 111 OE2 106.2 92.7 131.9 54.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN D 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS D 103 SG REMARK 620 2 CYS D 106 SG 102.4 REMARK 620 3 CYS D 143 SG 120.2 105.8 REMARK 620 4 CYS D 146 SG 86.1 105.6 132.6 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 ZN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN D 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4MTE RELATED DB: PDB DBREF 4MTD A 1 171 UNP P0AC51 ZUR_ECOLI 1 171 DBREF 4MTD B 1 171 UNP P0AC51 ZUR_ECOLI 1 171 DBREF 4MTD C 1 171 UNP P0AC51 ZUR_ECOLI 1 171 DBREF 4MTD D 1 171 UNP P0AC51 ZUR_ECOLI 1 171 DBREF 4MTD Y 1 33 PDB 4MTD 4MTD 1 33 DBREF 4MTD Z 1 33 PDB 4MTD 4MTD 1 33 SEQRES 1 A 171 MET GLU LYS THR THR THR GLN GLU LEU LEU ALA GLN ALA SEQRES 2 A 171 GLU LYS ILE CYS ALA GLN ARG ASN VAL ARG LEU THR PRO SEQRES 3 A 171 GLN ARG LEU GLU VAL LEU ARG LEU MET SER LEU GLN ASP SEQRES 4 A 171 GLY ALA ILE SER ALA TYR ASP LEU LEU ASP LEU LEU ARG SEQRES 5 A 171 GLU ALA GLU PRO GLN ALA LYS PRO PRO THR VAL TYR ARG SEQRES 6 A 171 ALA LEU ASP PHE LEU LEU GLU GLN GLY PHE VAL HIS LYS SEQRES 7 A 171 VAL GLU SER THR ASN SER TYR VAL LEU CYS HIS LEU PHE SEQRES 8 A 171 ASP GLN PRO THR HIS THR SER ALA MET PHE ILE CYS ASP SEQRES 9 A 171 ARG CYS GLY ALA VAL LYS GLU GLU CYS ALA GLU GLY VAL SEQRES 10 A 171 GLU ASP ILE MET HIS THR LEU ALA ALA LYS MET GLY PHE SEQRES 11 A 171 ALA LEU ARG HIS ASN VAL ILE GLU ALA HIS GLY LEU CYS SEQRES 12 A 171 ALA ALA CYS VAL GLU VAL GLU ALA CYS ARG HIS PRO GLU SEQRES 13 A 171 GLN CYS GLN HIS ASP HIS SER VAL GLN VAL LYS LYS LYS SEQRES 14 A 171 PRO ARG SEQRES 1 B 171 MET GLU LYS THR THR THR GLN GLU LEU LEU ALA GLN ALA SEQRES 2 B 171 GLU LYS ILE CYS ALA GLN ARG ASN VAL ARG LEU THR PRO SEQRES 3 B 171 GLN ARG LEU GLU VAL LEU ARG LEU MET SER LEU GLN ASP SEQRES 4 B 171 GLY ALA ILE SER ALA TYR ASP LEU LEU ASP LEU LEU ARG SEQRES 5 B 171 GLU ALA GLU PRO GLN ALA LYS PRO PRO THR VAL TYR ARG SEQRES 6 B 171 ALA LEU ASP PHE LEU LEU GLU GLN GLY PHE VAL HIS LYS SEQRES 7 B 171 VAL GLU SER THR ASN SER TYR VAL LEU CYS HIS LEU PHE SEQRES 8 B 171 ASP GLN PRO THR HIS THR SER ALA MET PHE ILE CYS ASP SEQRES 9 B 171 ARG CYS GLY ALA VAL LYS GLU GLU CYS ALA GLU GLY VAL SEQRES 10 B 171 GLU ASP ILE MET HIS THR LEU ALA ALA LYS MET GLY PHE SEQRES 11 B 171 ALA LEU ARG HIS ASN VAL ILE GLU ALA HIS GLY LEU CYS SEQRES 12 B 171 ALA ALA CYS VAL GLU VAL GLU ALA CYS ARG HIS PRO GLU SEQRES 13 B 171 GLN CYS GLN HIS ASP HIS SER VAL GLN VAL LYS LYS LYS SEQRES 14 B 171 PRO ARG SEQRES 1 C 171 MET GLU LYS THR THR THR GLN GLU LEU LEU ALA GLN ALA SEQRES 2 C 171 GLU LYS ILE CYS ALA GLN ARG ASN VAL ARG LEU THR PRO SEQRES 3 C 171 GLN ARG LEU GLU VAL LEU ARG LEU MET SER LEU GLN ASP SEQRES 4 C 171 GLY ALA ILE SER ALA TYR ASP LEU LEU ASP LEU LEU ARG SEQRES 5 C 171 GLU ALA GLU PRO GLN ALA LYS PRO PRO THR VAL TYR ARG SEQRES 6 C 171 ALA LEU ASP PHE LEU LEU GLU GLN GLY PHE VAL HIS LYS SEQRES 7 C 171 VAL GLU SER THR ASN SER TYR VAL LEU CYS HIS LEU PHE SEQRES 8 C 171 ASP GLN PRO THR HIS THR SER ALA MET PHE ILE CYS ASP SEQRES 9 C 171 ARG CYS GLY ALA VAL LYS GLU GLU CYS ALA GLU GLY VAL SEQRES 10 C 171 GLU ASP ILE MET HIS THR LEU ALA ALA LYS MET GLY PHE SEQRES 11 C 171 ALA LEU ARG HIS ASN VAL ILE GLU ALA HIS GLY LEU CYS SEQRES 12 C 171 ALA ALA CYS VAL GLU VAL GLU ALA CYS ARG HIS PRO GLU SEQRES 13 C 171 GLN CYS GLN HIS ASP HIS SER VAL GLN VAL LYS LYS LYS SEQRES 14 C 171 PRO ARG SEQRES 1 D 171 MET GLU LYS THR THR THR GLN GLU LEU LEU ALA GLN ALA SEQRES 2 D 171 GLU LYS ILE CYS ALA GLN ARG ASN VAL ARG LEU THR PRO SEQRES 3 D 171 GLN ARG LEU GLU VAL LEU ARG LEU MET SER LEU GLN ASP SEQRES 4 D 171 GLY ALA ILE SER ALA TYR ASP LEU LEU ASP LEU LEU ARG SEQRES 5 D 171 GLU ALA GLU PRO GLN ALA LYS PRO PRO THR VAL TYR ARG SEQRES 6 D 171 ALA LEU ASP PHE LEU LEU GLU GLN GLY PHE VAL HIS LYS SEQRES 7 D 171 VAL GLU SER THR ASN SER TYR VAL LEU CYS HIS LEU PHE SEQRES 8 D 171 ASP GLN PRO THR HIS THR SER ALA MET PHE ILE CYS ASP SEQRES 9 D 171 ARG CYS GLY ALA VAL LYS GLU GLU CYS ALA GLU GLY VAL SEQRES 10 D 171 GLU ASP ILE MET HIS THR LEU ALA ALA LYS MET GLY PHE SEQRES 11 D 171 ALA LEU ARG HIS ASN VAL ILE GLU ALA HIS GLY LEU CYS SEQRES 12 D 171 ALA ALA CYS VAL GLU VAL GLU ALA CYS ARG HIS PRO GLU SEQRES 13 D 171 GLN CYS GLN HIS ASP HIS SER VAL GLN VAL LYS LYS LYS SEQRES 14 D 171 PRO ARG SEQRES 1 Y 33 DA DG DA DA DG DT DG DT DG DA DT DA DT SEQRES 2 Y 33 DT DA DT DA DA DC DA DT DT DT DC DA DT SEQRES 3 Y 33 DG DA DC DT DA DT DG SEQRES 1 Z 33 DT DA DG DT DC DA DT DG DA DA DA DT DG SEQRES 2 Z 33 DT DT DA DT DA DA DT DA DT DC DA DC DA SEQRES 3 Z 33 DC DT DT DC DT DC DA HET ZN A 201 1 HET ZN A 202 1 HET ZN B 201 1 HET ZN B 202 1 HET ZN C 201 1 HET ZN C 202 1 HET ZN D 201 1 HET ZN D 202 1 HETNAM ZN ZINC ION FORMUL 7 ZN 8(ZN 2+) HELIX 1 1 THR A 4 ARG A 20 1 17 HELIX 2 2 THR A 25 GLN A 38 1 14 HELIX 3 3 SER A 43 GLU A 55 1 13 HELIX 4 4 LYS A 59 GLN A 73 1 15 HELIX 5 5 ALA A 114 MET A 128 1 15 HELIX 6 6 CYS A 143 CYS A 152 1 10 HELIX 7 7 THR B 4 ARG B 20 1 17 HELIX 8 8 THR B 25 GLN B 38 1 14 HELIX 9 9 SER B 43 GLU B 55 1 13 HELIX 10 10 LYS B 59 GLN B 73 1 15 HELIX 11 11 ALA B 114 MET B 128 1 15 HELIX 12 12 CYS B 143 CYS B 152 1 10 HELIX 13 13 THR C 6 ARG C 20 1 15 HELIX 14 14 THR C 25 GLN C 38 1 14 HELIX 15 15 SER C 43 GLU C 55 1 13 HELIX 16 16 LYS C 59 GLN C 73 1 15 HELIX 17 17 GLU C 80 ASN C 83 5 4 HELIX 18 18 ALA C 114 MET C 128 1 15 HELIX 19 19 CYS C 143 CYS C 152 1 10 HELIX 20 20 THR D 5 ARG D 20 1 16 HELIX 21 21 THR D 25 LEU D 37 1 13 HELIX 22 22 SER D 43 GLU D 55 1 13 HELIX 23 23 LYS D 59 GLN D 73 1 15 HELIX 24 24 ALA D 114 MET D 128 1 15 HELIX 25 25 CYS D 143 ALA D 151 1 9 SHEET 1 A 2 VAL A 76 VAL A 79 0 SHEET 2 A 2 SER A 84 LEU A 87 -1 O SER A 84 N VAL A 79 SHEET 1 B 6 VAL A 109 GLU A 112 0 SHEET 2 B 6 ALA A 99 CYS A 103 -1 N ALA A 99 O GLU A 112 SHEET 3 B 6 ALA A 131 LEU A 142 1 O ALA A 139 N MET A 100 SHEET 4 B 6 ALA D 131 LEU D 142 -1 O HIS D 134 N HIS A 140 SHEET 5 B 6 ALA D 99 CYS D 103 1 N MET D 100 O ALA D 139 SHEET 6 B 6 VAL D 109 GLU D 112 -1 O GLU D 112 N ALA D 99 SHEET 1 C 2 VAL B 76 VAL B 79 0 SHEET 2 C 2 SER B 84 LEU B 87 -1 O SER B 84 N VAL B 79 SHEET 1 D 6 VAL B 109 CYS B 113 0 SHEET 2 D 6 SER B 98 CYS B 103 -1 N ALA B 99 O GLU B 112 SHEET 3 D 6 ALA B 131 LEU B 142 1 O ALA B 139 N MET B 100 SHEET 4 D 6 ALA C 131 LEU C 142 -1 O GLU C 138 N VAL B 136 SHEET 5 D 6 SER C 98 CYS C 103 1 N MET C 100 O ALA C 139 SHEET 6 D 6 VAL C 109 CYS C 113 -1 O LYS C 110 N PHE C 101 SHEET 1 E 2 VAL C 76 VAL C 79 0 SHEET 2 E 2 SER C 84 LEU C 87 -1 O SER C 84 N VAL C 79 SHEET 1 F 2 VAL D 76 VAL D 79 0 SHEET 2 F 2 SER D 84 LEU D 87 -1 O VAL D 86 N HIS D 77 LINK NE2 HIS A 77 ZN ZN A 202 1555 1555 2.07 LINK SG CYS A 88 ZN ZN A 202 1555 1555 2.32 LINK NE2 HIS A 96 ZN ZN A 202 1555 1555 2.09 LINK SG CYS A 103 ZN ZN A 201 1555 1555 2.31 LINK SG CYS A 106 ZN ZN A 201 1555 1555 2.35 LINK OE1 GLU A 111 ZN ZN A 202 1555 1555 1.99 LINK OE2 GLU A 111 ZN ZN A 202 1555 1555 2.63 LINK SG CYS A 143 ZN ZN A 201 1555 1555 2.33 LINK SG CYS A 146 ZN ZN A 201 1555 1555 2.31 LINK NE2 HIS B 77 ZN ZN B 201 1555 1555 2.08 LINK SG CYS B 88 ZN ZN B 201 1555 1555 2.31 LINK NE2 HIS B 96 ZN ZN B 201 1555 1555 2.08 LINK SG CYS B 103 ZN ZN B 202 1555 1555 2.35 LINK SG CYS B 106 ZN ZN B 202 1555 1555 2.34 LINK OE1 GLU B 111 ZN ZN B 201 1555 1555 1.99 LINK SG CYS B 143 ZN ZN B 202 1555 1555 2.33 LINK SG CYS B 146 ZN ZN B 202 1555 1555 2.31 LINK NE2 HIS C 77 ZN ZN C 202 1555 1555 2.08 LINK SG CYS C 88 ZN ZN C 202 1555 1555 2.33 LINK NE2 HIS C 96 ZN ZN C 202 1555 1555 2.08 LINK SG CYS C 103 ZN ZN C 201 1555 1555 2.34 LINK SG CYS C 106 ZN ZN C 201 1555 1555 2.30 LINK OE1 GLU C 111 ZN ZN C 202 1555 1555 1.99 LINK SG CYS C 143 ZN ZN C 201 1555 1555 2.33 LINK SG CYS C 146 ZN ZN C 201 1555 1555 2.31 LINK NE2 HIS D 77 ZN ZN D 202 1555 1555 2.08 LINK SG CYS D 88 ZN ZN D 202 1555 1555 2.31 LINK NE2 HIS D 96 ZN ZN D 202 1555 1555 2.08 LINK SG CYS D 103 ZN ZN D 201 1555 1555 2.34 LINK SG CYS D 106 ZN ZN D 201 1555 1555 2.34 LINK OE1 GLU D 111 ZN ZN D 202 1555 1555 1.98 LINK OE2 GLU D 111 ZN ZN D 202 1555 1555 2.64 LINK SG CYS D 143 ZN ZN D 201 1555 1555 2.34 LINK SG CYS D 146 ZN ZN D 201 1555 1555 2.34 SITE 1 AC1 4 CYS A 103 CYS A 106 CYS A 143 CYS A 146 SITE 1 AC2 4 HIS A 77 CYS A 88 HIS A 96 GLU A 111 SITE 1 AC3 4 HIS B 77 CYS B 88 HIS B 96 GLU B 111 SITE 1 AC4 4 CYS B 103 CYS B 106 CYS B 143 CYS B 146 SITE 1 AC5 4 CYS C 103 CYS C 106 CYS C 143 CYS C 146 SITE 1 AC6 4 HIS C 77 CYS C 88 HIS C 96 GLU C 111 SITE 1 AC7 4 CYS D 103 CYS D 106 CYS D 143 CYS D 146 SITE 1 AC8 4 HIS D 77 CYS D 88 HIS D 96 GLU D 111 CRYST1 193.324 80.470 98.770 90.00 120.15 90.00 C 1 2 1 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 0.005173 0.000000 0.003005 0.00000 SCALE2 0.000000 0.012427 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011709 0.00000