HEADER HYDROLASE, METAL BINDING PROTEIN 23-FEB-11 3QU1 TITLE PEPTIDE DEFORMYLASE FROM VIBRIO CHOLERAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE DEFORMYLASE 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PDF 2, POLYPEPTIDE DEFORMYLASE 2; COMPND 5 EC: 3.5.1.88; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 3 ORGANISM_TAXID: 666; SOURCE 4 STRAIN: O1 BIOVAR ELTOR STR. N16961; SOURCE 5 GENE: DEF, DEF2, VC_A0150; 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: PMCSG7 KEYWDS STRUCTURAL GENOMICS, CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS KEYWDS 2 DISEASES, CSGID, PEPTIDE DEFORMYLASE, METAL BINDING, HYDROLASE, KEYWDS 3 METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,R.MULLIGAN,L.PAPAZISI,W.F.ANDERSON,A.JOACHIMIAK,CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 3 13-SEP-23 3QU1 1 REMARK SEQADV LINK REVDAT 2 08-NOV-17 3QU1 1 REMARK REVDAT 1 09-MAR-11 3QU1 0 JRNL AUTH J.OSIPIUK,R.MULLIGAN,L.PAPAZISI,W.F.ANDERSON,A.JOACHIMIAK JRNL TITL PEPTIDE DEFORMYLASE FROM VIBRIO CHOLERAE. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 33662 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1708 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2346 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.1910 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.2390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2610 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 306 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : 0.70000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.122 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.116 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.074 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.306 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2850 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1937 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3907 ; 1.625 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4817 ; 0.944 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 389 ; 5.590 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 134 ;36.548 ;25.522 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 552 ;14.500 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;13.063 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 464 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3206 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 502 ; 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): 1774 ; 0.949 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 701 ; 0.301 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2924 ; 1.636 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1076 ; 2.746 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 958 ; 4.292 ; 4.500 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -10 A 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 5.6204 27.3507 15.9926 REMARK 3 T TENSOR REMARK 3 T11: 0.0245 T22: 0.0140 REMARK 3 T33: 0.0360 T12: 0.0048 REMARK 3 T13: 0.0208 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 1.1909 L22: 1.8821 REMARK 3 L33: 0.8438 L12: -0.4704 REMARK 3 L13: -0.2789 L23: 0.3004 REMARK 3 S TENSOR REMARK 3 S11: 0.0542 S12: -0.0483 S13: 0.0746 REMARK 3 S21: -0.1298 S22: -0.0093 S23: -0.2348 REMARK 3 S31: 0.0613 S32: -0.0057 S33: -0.0449 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B -10 B 9999 REMARK 3 ORIGIN FOR THE GROUP (A): -25.1160 33.3514 14.0432 REMARK 3 T TENSOR REMARK 3 T11: 0.0471 T22: 0.0282 REMARK 3 T33: 0.0278 T12: 0.0048 REMARK 3 T13: 0.0001 T23: 0.0070 REMARK 3 L TENSOR REMARK 3 L11: 0.6241 L22: 0.6549 REMARK 3 L33: 0.4392 L12: -0.0868 REMARK 3 L13: -0.0289 L23: -0.1648 REMARK 3 S TENSOR REMARK 3 S11: -0.0110 S12: 0.0348 S13: -0.0195 REMARK 3 S21: 0.0127 S22: 0.0525 S23: 0.0445 REMARK 3 S31: 0.0100 S32: -0.0352 S33: -0.0415 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 3QU1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000064102. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-11 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9195 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33867 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 33.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.40 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.70 REMARK 200 R MERGE FOR SHELL (I) : 0.87900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.430 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, HKL-3000 REMARK 200 STARTING MODEL: 1BS6 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MAGNESIUM CHLORIDE, 0.1 M TRIS REMARK 280 -HCL BUFFER, 25% PEG-3350, 10 MM ZINC SULFATE, PH 8.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -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 -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 63.60950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 37.14800 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 37.14800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.80475 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 37.14800 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 37.14800 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 95.41425 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 37.14800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 37.14800 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 31.80475 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 37.14800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 37.14800 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 95.41425 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 63.60950 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: 3490 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -310.0 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 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 MET B 1 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 O HOH B 235 O HOH B 333 2.10 REMARK 500 NE2 HIS B 162 O HOH B 171 2.11 REMARK 500 O HOH A 256 O HOH B 229 2.16 REMARK 500 NE2 HIS A 162 O HOH A 224 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 ASN A 43 31.36 -152.99 REMARK 500 ASN B 83 65.43 64.42 REMARK 500 ASN B 83 73.40 55.19 REMARK 500 ASP B 96 4.26 84.47 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 505 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 46 O REMARK 620 2 GLU A 134 OE2 97.0 REMARK 620 3 HOH A 219 O 111.2 117.2 REMARK 620 4 ARG B 168 OXT 115.7 120.1 96.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 91 SG REMARK 620 2 HIS A 133 NE2 116.3 REMARK 620 3 HIS A 137 NE2 103.9 108.7 REMARK 620 4 HOH A 219 O 119.1 108.7 97.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 503 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 96 OD2 REMARK 620 2 HIS A 162 ND1 101.6 REMARK 620 3 TYR B 98 OH 113.6 110.0 REMARK 620 4 HOH B 215 O 109.9 114.8 107.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 507 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 96 OD1 REMARK 620 2 HOH A 217 O 90.4 REMARK 620 3 HOH A 257 O 90.7 86.0 REMARK 620 4 ASP B 96 OD1 85.6 90.6 175.0 REMARK 620 5 HOH B 215 O 92.6 176.9 93.4 90.1 REMARK 620 6 HOH B 216 O 176.4 89.0 92.8 90.8 88.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 98 OH REMARK 620 2 HOH A 217 O 106.8 REMARK 620 3 ASP B 96 OD2 112.2 105.5 REMARK 620 4 HIS B 162 ND1 112.4 113.0 106.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 506 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 168 O REMARK 620 2 GLY B 46 O 107.7 REMARK 620 3 GLU B 134 OE2 107.6 103.2 REMARK 620 4 HOH B 223 O 120.7 105.6 110.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 504 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 91 SG REMARK 620 2 HIS B 133 NE2 115.6 REMARK 620 3 HIS B 137 NE2 102.2 109.0 REMARK 620 4 HOH B 223 O 118.9 108.9 100.4 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 511 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: IDP01482 RELATED DB: TARGETDB DBREF 3QU1 A 1 168 UNP Q9KN16 DEF2_VIBCH 1 168 DBREF 3QU1 B 1 168 UNP Q9KN16 DEF2_VIBCH 1 168 SEQADV 3QU1 SER A -2 UNP Q9KN16 EXPRESSION TAG SEQADV 3QU1 ASN A -1 UNP Q9KN16 EXPRESSION TAG SEQADV 3QU1 ALA A 0 UNP Q9KN16 EXPRESSION TAG SEQADV 3QU1 SER B -2 UNP Q9KN16 EXPRESSION TAG SEQADV 3QU1 ASN B -1 UNP Q9KN16 EXPRESSION TAG SEQADV 3QU1 ALA B 0 UNP Q9KN16 EXPRESSION TAG SEQRES 1 A 171 SER ASN ALA MET ALA VAL LEU GLU ILE LEU THR ALA PRO SEQRES 2 A 171 ASP PRO ARG LEU ARG VAL GLN SER LYS GLN VAL THR ASP SEQRES 3 A 171 VAL ALA SER VAL GLN THR LEU ILE ASP ASP LEU LEU ASP SEQRES 4 A 171 THR LEU TYR ALA THR ASP ASN GLY ILE GLY LEU ALA ALA SEQRES 5 A 171 PRO GLN VAL GLY ARG GLU GLU ALA ILE VAL VAL ILE ASP SEQRES 6 A 171 LEU SER ASP ASN ARG ASP GLN PRO LEU VAL LEU ILE ASN SEQRES 7 A 171 PRO LYS VAL VAL SER GLY SER ASN LYS GLU MET GLY GLN SEQRES 8 A 171 GLU GLY CYS LEU SER VAL PRO ASP TYR TYR ALA ASP VAL SEQRES 9 A 171 GLU ARG TYR THR SER VAL VAL VAL GLU ALA LEU ASP ARG SEQRES 10 A 171 GLU GLY LYS PRO LEU ARG ILE GLU THR SER ASP PHE LEU SEQRES 11 A 171 ALA ILE VAL MET GLN HIS GLU ILE ASP HIS LEU SER GLY SEQRES 12 A 171 ASN LEU PHE ILE ASP TYR LEU SER PRO LEU LYS GLN GLN SEQRES 13 A 171 MET ALA MET LYS LYS VAL LYS LYS HIS VAL LYS ASN ARG SEQRES 14 A 171 ALA ARG SEQRES 1 B 171 SER ASN ALA MET ALA VAL LEU GLU ILE LEU THR ALA PRO SEQRES 2 B 171 ASP PRO ARG LEU ARG VAL GLN SER LYS GLN VAL THR ASP SEQRES 3 B 171 VAL ALA SER VAL GLN THR LEU ILE ASP ASP LEU LEU ASP SEQRES 4 B 171 THR LEU TYR ALA THR ASP ASN GLY ILE GLY LEU ALA ALA SEQRES 5 B 171 PRO GLN VAL GLY ARG GLU GLU ALA ILE VAL VAL ILE ASP SEQRES 6 B 171 LEU SER ASP ASN ARG ASP GLN PRO LEU VAL LEU ILE ASN SEQRES 7 B 171 PRO LYS VAL VAL SER GLY SER ASN LYS GLU MET GLY GLN SEQRES 8 B 171 GLU GLY CYS LEU SER VAL PRO ASP TYR TYR ALA ASP VAL SEQRES 9 B 171 GLU ARG TYR THR SER VAL VAL VAL GLU ALA LEU ASP ARG SEQRES 10 B 171 GLU GLY LYS PRO LEU ARG ILE GLU THR SER ASP PHE LEU SEQRES 11 B 171 ALA ILE VAL MET GLN HIS GLU ILE ASP HIS LEU SER GLY SEQRES 12 B 171 ASN LEU PHE ILE ASP TYR LEU SER PRO LEU LYS GLN GLN SEQRES 13 B 171 MET ALA MET LYS LYS VAL LYS LYS HIS VAL LYS ASN ARG SEQRES 14 B 171 ALA ARG HET ZN A 501 1 HET ZN A 503 1 HET ZN A 505 1 HET ZN A 507 1 HET CL A 508 1 HET ZN B 502 1 HET ZN B 504 1 HET ZN B 506 1 HET CL B 509 1 HET SO4 B 511 5 HETNAM ZN ZINC ION HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION FORMUL 3 ZN 7(ZN 2+) FORMUL 7 CL 2(CL 1-) FORMUL 12 SO4 O4 S 2- FORMUL 13 HOH *306(H2 O) HELIX 1 1 ASP A 11 VAL A 16 5 6 HELIX 2 2 ASP A 23 SER A 26 5 4 HELIX 3 3 VAL A 27 THR A 41 1 15 HELIX 4 4 PRO A 50 GLY A 53 5 4 HELIX 5 5 PHE A 126 SER A 139 1 14 HELIX 6 6 LEU A 142 LEU A 147 5 6 HELIX 7 7 SER A 148 ASN A 165 1 18 HELIX 8 8 ASP B 11 ARG B 15 5 5 HELIX 9 9 ASP B 23 SER B 26 5 4 HELIX 10 10 VAL B 27 THR B 41 1 15 HELIX 11 11 PRO B 50 GLY B 53 5 4 HELIX 12 12 ASP B 125 LEU B 138 1 14 HELIX 13 13 LEU B 142 LEU B 147 5 6 HELIX 14 14 SER B 148 ASN B 165 1 18 SHEET 1 A 5 GLY A 46 ALA A 48 0 SHEET 2 A 5 ILE A 58 ILE A 61 -1 O VAL A 60 N LEU A 47 SHEET 3 A 5 LEU A 71 GLU A 89 -1 O LEU A 71 N ILE A 61 SHEET 4 A 5 ALA A 99 LEU A 112 -1 O VAL A 108 N SER A 80 SHEET 5 A 5 PRO A 118 THR A 123 -1 O ILE A 121 N VAL A 109 SHEET 1 B 5 GLY B 46 ALA B 48 0 SHEET 2 B 5 ILE B 58 ILE B 61 -1 O VAL B 60 N LEU B 47 SHEET 3 B 5 LEU B 71 GLU B 89 -1 O LEU B 73 N VAL B 59 SHEET 4 B 5 ALA B 99 LEU B 112 -1 O LEU B 112 N ILE B 74 SHEET 5 B 5 PRO B 118 THR B 123 -1 O ILE B 121 N VAL B 109 LINK O GLY A 46 ZN ZN A 505 1555 1555 2.10 LINK SG CYS A 91 ZN ZN A 501 1555 1555 2.29 LINK OD2 ASP A 96 ZN ZN A 503 1555 1555 1.91 LINK OD1 ASP A 96 ZN ZN A 507 1555 1555 2.13 LINK OH TYR A 98 ZN ZN B 502 1555 1555 1.78 LINK NE2 HIS A 133 ZN ZN A 501 1555 1555 2.10 LINK OE2 GLU A 134 ZN ZN A 505 1555 1555 1.90 LINK NE2 HIS A 137 ZN ZN A 501 1555 1555 2.03 LINK ND1 HIS A 162 ZN ZN A 503 1555 1555 2.05 LINK O ARG A 168 ZN ZN B 506 1555 1555 1.89 LINK O HOH A 217 ZN ZN A 507 1555 1555 2.16 LINK O HOH A 217 ZN ZN B 502 1555 1555 1.92 LINK O HOH A 219 ZN ZN A 501 1555 1555 1.96 LINK O HOH A 219 ZN ZN A 505 1555 1555 1.94 LINK O HOH A 257 ZN ZN A 507 1555 1555 2.19 LINK ZN ZN A 503 OH TYR B 98 1555 1555 1.91 LINK ZN ZN A 503 O HOH B 215 1555 1555 1.94 LINK ZN ZN A 505 OXT ARG B 168 1555 1555 1.98 LINK ZN ZN A 507 OD1 ASP B 96 1555 1555 2.05 LINK ZN ZN A 507 O HOH B 215 1555 1555 2.04 LINK ZN ZN A 507 O HOH B 216 1555 1555 2.16 LINK O GLY B 46 ZN ZN B 506 1555 1555 2.25 LINK SG CYS B 91 ZN ZN B 504 1555 1555 2.27 LINK OD2 ASP B 96 ZN ZN B 502 1555 1555 1.94 LINK NE2 HIS B 133 ZN ZN B 504 1555 1555 2.03 LINK OE2 GLU B 134 ZN ZN B 506 1555 1555 1.74 LINK NE2 HIS B 137 ZN ZN B 504 1555 1555 2.07 LINK ND1 HIS B 162 ZN ZN B 502 1555 1555 2.02 LINK O HOH B 223 ZN ZN B 504 1555 1555 2.09 LINK O HOH B 223 ZN ZN B 506 1555 1555 1.86 CISPEP 1 ALA A 9 PRO A 10 0 3.73 CISPEP 2 ALA B 9 PRO B 10 0 2.73 SITE 1 AC1 6 GLN A 51 CYS A 91 HIS A 133 HIS A 137 SITE 2 AC1 6 HOH A 219 ZN A 505 SITE 1 AC2 5 TYR A 98 HOH A 217 ZN A 507 ASP B 96 SITE 2 AC2 5 HIS B 162 SITE 1 AC3 5 ASP A 96 HIS A 162 ZN A 507 TYR B 98 SITE 2 AC3 5 HOH B 215 SITE 1 AC4 6 GLN B 51 CYS B 91 HIS B 133 HIS B 137 SITE 2 AC4 6 HOH B 223 ZN B 506 SITE 1 AC5 5 GLY A 46 GLU A 134 HOH A 219 ZN A 501 SITE 2 AC5 5 ARG B 168 SITE 1 AC6 6 ARG A 168 GLY B 46 GLU B 134 HOH B 223 SITE 2 AC6 6 HOH B 318 ZN B 504 SITE 1 AC7 8 ASP A 96 HOH A 217 HOH A 257 ZN A 503 SITE 2 AC7 8 ASP B 96 HOH B 215 HOH B 216 ZN B 502 SITE 1 AC8 4 PRO A 10 ASP A 11 ARG A 15 HOH A 231 SITE 1 AC9 4 PRO B 10 ASP B 11 ARG B 15 HOH B 308 SITE 1 BC1 9 ARG A 13 GLY A 53 THR B 8 PRO B 10 SITE 2 BC1 9 ASP B 11 HOH B 230 HOH B 268 HOH B 269 SITE 3 BC1 9 HOH B 306 CRYST1 74.296 74.296 127.219 90.00 90.00 90.00 P 41 21 2 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 0.013460 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013460 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007860 0.00000