HEADER METAL BINDING PROTEIN 21-JAN-15 4XRV OBSLTE 20-SEP-17 4XRV 5W57 TITLE STRUCTURE OF A ZN ABC TRANSPORTER SUBSTRATE BINDING PROTEIN FROM TITLE 2 PARACOCCUS DENITRIFICANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PERIPLASMIC SOLUTE BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARACOCCUS DENITRIFICANS; SOURCE 3 ORGANISM_TAXID: 318586; SOURCE 4 STRAIN: PD 1222; SOURCE 5 GENE: PDEN_1597; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS ZINC, SUBSTRATE BINDING PROTEIN, PERIPLASM, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.T.YUKL REVDAT 5 20-SEP-17 4XRV 1 OBSLTE REVDAT 4 06-SEP-17 4XRV 1 SOURCE JRNL REMARK REVDAT 3 20-MAY-15 4XRV 1 JRNL REVDAT 2 01-APR-15 4XRV 1 JRNL REVDAT 1 25-MAR-15 4XRV 0 JRNL AUTH M.HANDALI,D.P.NEUPANE,H.ROYCHOWDHURY,E.T.YUKL JRNL TITL TRANSCRIPTIONAL REGULATION, METAL BINDING PROPERTIES AND JRNL TITL 2 STRUCTURE OF PDEN1597, AN UNUSUAL ZINC TRANSPORT PROTEIN JRNL TITL 3 FROM PARACOCCUS DENITRIFICANS. JRNL REF J.BIOL.CHEM. V. 290 11878 2015 JRNL REFN ESSN 1083-351X JRNL PMID 25787075 JRNL DOI 10.1074/JBC.M115.645853 REMARK 2 REMARK 2 RESOLUTION. 2.72 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 19708 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) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.267 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1055 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) : 2.72 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1448 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.3130 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3821 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 17 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.16 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.13000 REMARK 3 B22 (A**2) : -3.46000 REMARK 3 B33 (A**2) : 5.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.550 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.328 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.278 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 28.488 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 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): 3908 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5335 ; 2.082 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 516 ; 7.325 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 176 ;32.664 ;23.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 551 ;17.973 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;22.577 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 620 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3079 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 27 307 B 27 307 290 0.20 0.05 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 : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 26 A 307 REMARK 3 RESIDUE RANGE : A 401 A 401 REMARK 3 RESIDUE RANGE : A 501 A 510 REMARK 3 ORIGIN FOR THE GROUP (A): 75.1641 35.2813 6.7305 REMARK 3 T TENSOR REMARK 3 T11: 0.0244 T22: 0.3350 REMARK 3 T33: 0.0516 T12: -0.0369 REMARK 3 T13: 0.0074 T23: -0.0792 REMARK 3 L TENSOR REMARK 3 L11: 4.1852 L22: 2.6817 REMARK 3 L33: 4.2672 L12: -0.5663 REMARK 3 L13: 2.0471 L23: 0.6613 REMARK 3 S TENSOR REMARK 3 S11: -0.0140 S12: 0.0572 S13: 0.1743 REMARK 3 S21: 0.0457 S22: -0.2985 S23: 0.2400 REMARK 3 S31: -0.1051 S32: 0.0351 S33: 0.3124 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 27 B 307 REMARK 3 RESIDUE RANGE : B 401 B 401 REMARK 3 RESIDUE RANGE : B 501 B 507 REMARK 3 ORIGIN FOR THE GROUP (A): 69.7472 48.3884 45.4458 REMARK 3 T TENSOR REMARK 3 T11: 0.1393 T22: 0.3762 REMARK 3 T33: 0.1627 T12: 0.1088 REMARK 3 T13: -0.0550 T23: -0.0912 REMARK 3 L TENSOR REMARK 3 L11: 3.8224 L22: 4.0961 REMARK 3 L33: 3.4729 L12: 1.3254 REMARK 3 L13: -1.4425 L23: 0.5691 REMARK 3 S TENSOR REMARK 3 S11: 0.0309 S12: -0.1897 S13: 0.2435 REMARK 3 S21: -0.4209 S22: -0.4064 S23: 0.7105 REMARK 3 S31: -0.0828 S32: 0.1187 S33: 0.3755 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: NULL REMARK 4 REMARK 4 4XRV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000206222. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20812 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.720 REMARK 200 RESOLUTION RANGE LOW (A) : 58.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.9 M SODIUM FORMATE, 0.1 M BIS-TRIS REMARK 280 PROPANE, PH 7.0, BATCH MODE 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 51.81000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.89000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.81000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.89000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 MET A 1 REMARK 465 LYS A 2 REMARK 465 ASP A 3 REMARK 465 TRP A 4 REMARK 465 LEU A 5 REMARK 465 PHE A 6 REMARK 465 ARG A 7 REMARK 465 ILE A 8 REMARK 465 ALA A 9 REMARK 465 THR A 10 REMARK 465 CYS A 11 REMARK 465 SER A 12 REMARK 465 ILE A 13 REMARK 465 MET A 14 REMARK 465 THR A 15 REMARK 465 PHE A 16 REMARK 465 SER A 17 REMARK 465 SER A 18 REMARK 465 LEU A 19 REMARK 465 ALA A 20 REMARK 465 ALA A 21 REMARK 465 ALA A 22 REMARK 465 GLN A 23 REMARK 465 ALA A 24 REMARK 465 GLU A 25 REMARK 465 PRO A 116 REMARK 465 GLY A 117 REMARK 465 GLY A 118 REMARK 465 GLY A 119 REMARK 465 HIS A 120 REMARK 465 TYR A 121 REMARK 465 HIS A 122 REMARK 465 TYR A 123 REMARK 465 ILE A 124 REMARK 465 ASP A 125 REMARK 465 GLY A 126 REMARK 465 LYS A 127 REMARK 465 ALA A 128 REMARK 465 VAL A 129 REMARK 465 PHE A 130 REMARK 465 HIS A 131 REMARK 465 ALA A 132 REMARK 465 GLY A 133 REMARK 465 ALA A 134 REMARK 465 GLU A 227 REMARK 465 SER A 228 REMARK 465 GLU A 229 REMARK 465 ALA A 230 REMARK 465 ALA A 231 REMARK 465 ALA A 232 REMARK 465 ALA A 233 REMARK 465 ASP A 234 REMARK 465 ALA A 308 REMARK 465 ARG A 309 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 ASP B 3 REMARK 465 TRP B 4 REMARK 465 LEU B 5 REMARK 465 PHE B 6 REMARK 465 ARG B 7 REMARK 465 ILE B 8 REMARK 465 ALA B 9 REMARK 465 THR B 10 REMARK 465 CYS B 11 REMARK 465 SER B 12 REMARK 465 ILE B 13 REMARK 465 MET B 14 REMARK 465 THR B 15 REMARK 465 PHE B 16 REMARK 465 SER B 17 REMARK 465 SER B 18 REMARK 465 LEU B 19 REMARK 465 ALA B 20 REMARK 465 ALA B 21 REMARK 465 ALA B 22 REMARK 465 GLN B 23 REMARK 465 ALA B 24 REMARK 465 GLU B 25 REMARK 465 PRO B 26 REMARK 465 GLY B 117 REMARK 465 GLY B 118 REMARK 465 GLY B 119 REMARK 465 HIS B 120 REMARK 465 TYR B 121 REMARK 465 HIS B 122 REMARK 465 TYR B 123 REMARK 465 ILE B 124 REMARK 465 ASP B 125 REMARK 465 GLY B 126 REMARK 465 LYS B 127 REMARK 465 ALA B 128 REMARK 465 VAL B 129 REMARK 465 PHE B 130 REMARK 465 HIS B 131 REMARK 465 ALA B 132 REMARK 465 GLY B 133 REMARK 465 ALA B 308 REMARK 465 ARG B 309 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 OG1 THR A 32 OE2 GLU A 87 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 279 CG ASP A 279 OD2 0.180 REMARK 500 ASP B 279 CG ASP B 279 OD2 0.168 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 HIS A 61 CE1 - NE2 - CD2 ANGL. DEV. = 4.3 DEGREES REMARK 500 PRO A 65 C - N - CA ANGL. DEV. = 11.0 DEGREES REMARK 500 PRO A 65 C - N - CD ANGL. DEV. = -15.3 DEGREES REMARK 500 ASP A 279 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 PRO B 65 C - N - CA ANGL. DEV. = 12.5 DEGREES REMARK 500 PRO B 65 C - N - CD ANGL. DEV. = -12.8 DEGREES REMARK 500 ASP B 279 CB - CG - OD1 ANGL. DEV. = 6.9 DEGREES 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 GLU A 87 31.00 88.49 REMARK 500 ILE A 94 -56.23 -24.55 REMARK 500 THR A 99 -165.42 -79.88 REMARK 500 ASP A 100 -60.24 76.35 REMARK 500 ASP A 108 115.57 -36.81 REMARK 500 GLU A 114 -169.52 -105.26 REMARK 500 HIS A 138 48.94 -72.71 REMARK 500 CYS A 165 -46.46 -29.63 REMARK 500 LEU A 193 126.29 -34.27 REMARK 500 SER A 278 -72.36 -98.76 REMARK 500 ASP A 285 -1.23 77.05 REMARK 500 ALA A 288 51.42 -145.18 REMARK 500 SER B 97 -61.69 -146.78 REMARK 500 THR B 99 168.56 -35.38 REMARK 500 ASP B 100 -32.16 74.13 REMARK 500 HIS B 138 48.46 -68.70 REMARK 500 GLN B 141 -1.81 -56.30 REMARK 500 CYS B 165 -57.43 -13.24 REMARK 500 ARG B 198 30.94 -165.18 REMARK 500 ASN B 246 52.83 35.98 REMARK 500 SER B 278 -72.33 -97.70 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 61 NE2 REMARK 620 2 HIS A 138 NE2 116.6 REMARK 620 3 HIS A 204 NE2 114.9 111.2 REMARK 620 4 ASP A 279 OD2 92.1 127.3 91.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 61 NE2 REMARK 620 2 HIS B 138 NE2 116.4 REMARK 620 3 HIS B 204 NE2 111.6 109.7 REMARK 620 4 ASP B 279 OD2 93.7 130.5 92.2 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 401 DBREF 4XRV A 1 309 UNP A1B2F3 A1B2F3_PARDP 1 309 DBREF 4XRV B 1 309 UNP A1B2F3 A1B2F3_PARDP 1 309 SEQRES 1 A 309 MET LYS ASP TRP LEU PHE ARG ILE ALA THR CYS SER ILE SEQRES 2 A 309 MET THR PHE SER SER LEU ALA ALA ALA GLN ALA GLU PRO SEQRES 3 A 309 LEU ASP VAL VAL ALA THR PHE SER ILE ILE GLY ASP PHE SEQRES 4 A 309 ALA ALA LYS VAL GLY GLY ASP ARG ILE ARG LEU ASN VAL SEQRES 5 A 309 LEU VAL GLY PRO ASP SER ASP THR HIS VAL TYR GLU PRO SEQRES 6 A 309 ARG PRO ALA ASP ALA ILE ALA LEU ALA GLY ALA ASP VAL SEQRES 7 A 309 VAL LEU THR ASN GLY LEU GLU PHE GLU GLY PHE LEU THR SEQRES 8 A 309 ARG LEU ILE ALA ALA SER GLY THR ASP ALA ALA VAL ALA SEQRES 9 A 309 THR LEU THR ASP GLY VAL GLU THR MET GLU GLU PRO GLY SEQRES 10 A 309 GLY GLY HIS TYR HIS TYR ILE ASP GLY LYS ALA VAL PHE SEQRES 11 A 309 HIS ALA GLY ALA HIS ASP PRO HIS ALA TRP GLN ALA VAL SEQRES 12 A 309 PRO ASN ALA LYS VAL TYR VAL GLN ASN ILE ALA ALA ALA SEQRES 13 A 309 PHE CYS ALA ALA ASP ALA GLU GLY CYS ALA ALA TYR GLN SEQRES 14 A 309 ALA ASN ALA ALA ARG TYR ILE GLY GLU LEU ASP ALA LEU SEQRES 15 A 309 ASP THR GLU ILE ARG ALA ALA ILE ALA ALA LEU PRO GLN SEQRES 16 A 309 ASP ARG ARG THR VAL VAL VAL ALA HIS ASN ALA PHE ARG SEQRES 17 A 309 TYR PHE GLU ALA ALA TYR GLY VAL HIS PHE LEU SER PRO SEQRES 18 A 309 GLN GLY VAL SER THR GLU SER GLU ALA ALA ALA ALA ASP SEQRES 19 A 309 VAL ALA GLY LEU ILE ARG GLU ILE ARG ALA ARG ASN ALA SEQRES 20 A 309 SER ALA ILE PHE ALA GLU ASN ILE SER ASP THR ARG LEU SEQRES 21 A 309 LEU GLU GLN ILE ALA ARG GLU ALA GLY LEU PRO LEU ALA SEQRES 22 A 309 GLY THR LEU TYR SER ASP ALA LEU SER GLY PRO ASP GLY SEQRES 23 A 309 PRO ALA SER ASN TYR ILE ALA MET MET ARG HIS ASN ALA SEQRES 24 A 309 GLY ALA ILE ALA ALA ALA LEU ALA ALA ARG SEQRES 1 B 309 MET LYS ASP TRP LEU PHE ARG ILE ALA THR CYS SER ILE SEQRES 2 B 309 MET THR PHE SER SER LEU ALA ALA ALA GLN ALA GLU PRO SEQRES 3 B 309 LEU ASP VAL VAL ALA THR PHE SER ILE ILE GLY ASP PHE SEQRES 4 B 309 ALA ALA LYS VAL GLY GLY ASP ARG ILE ARG LEU ASN VAL SEQRES 5 B 309 LEU VAL GLY PRO ASP SER ASP THR HIS VAL TYR GLU PRO SEQRES 6 B 309 ARG PRO ALA ASP ALA ILE ALA LEU ALA GLY ALA ASP VAL SEQRES 7 B 309 VAL LEU THR ASN GLY LEU GLU PHE GLU GLY PHE LEU THR SEQRES 8 B 309 ARG LEU ILE ALA ALA SER GLY THR ASP ALA ALA VAL ALA SEQRES 9 B 309 THR LEU THR ASP GLY VAL GLU THR MET GLU GLU PRO GLY SEQRES 10 B 309 GLY GLY HIS TYR HIS TYR ILE ASP GLY LYS ALA VAL PHE SEQRES 11 B 309 HIS ALA GLY ALA HIS ASP PRO HIS ALA TRP GLN ALA VAL SEQRES 12 B 309 PRO ASN ALA LYS VAL TYR VAL GLN ASN ILE ALA ALA ALA SEQRES 13 B 309 PHE CYS ALA ALA ASP ALA GLU GLY CYS ALA ALA TYR GLN SEQRES 14 B 309 ALA ASN ALA ALA ARG TYR ILE GLY GLU LEU ASP ALA LEU SEQRES 15 B 309 ASP THR GLU ILE ARG ALA ALA ILE ALA ALA LEU PRO GLN SEQRES 16 B 309 ASP ARG ARG THR VAL VAL VAL ALA HIS ASN ALA PHE ARG SEQRES 17 B 309 TYR PHE GLU ALA ALA TYR GLY VAL HIS PHE LEU SER PRO SEQRES 18 B 309 GLN GLY VAL SER THR GLU SER GLU ALA ALA ALA ALA ASP SEQRES 19 B 309 VAL ALA GLY LEU ILE ARG GLU ILE ARG ALA ARG ASN ALA SEQRES 20 B 309 SER ALA ILE PHE ALA GLU ASN ILE SER ASP THR ARG LEU SEQRES 21 B 309 LEU GLU GLN ILE ALA ARG GLU ALA GLY LEU PRO LEU ALA SEQRES 22 B 309 GLY THR LEU TYR SER ASP ALA LEU SER GLY PRO ASP GLY SEQRES 23 B 309 PRO ALA SER ASN TYR ILE ALA MET MET ARG HIS ASN ALA SEQRES 24 B 309 GLY ALA ILE ALA ALA ALA LEU ALA ALA ARG HET ZN A 401 1 HET ZN B 401 1 HETNAM ZN ZINC ION FORMUL 3 ZN 2(ZN 2+) FORMUL 5 HOH *17(H2 O) HELIX 1 AA1 SER A 34 GLY A 45 1 12 HELIX 2 AA2 ARG A 66 GLY A 75 1 10 HELIX 3 AA3 PHE A 89 ALA A 96 1 8 HELIX 4 AA4 HIS A 138 GLN A 141 5 4 HELIX 5 AA5 ALA A 142 ASP A 161 1 20 HELIX 6 AA6 GLY A 164 LEU A 193 1 30 HELIX 7 AA7 PHE A 207 GLY A 215 1 9 HELIX 8 AA8 ALA A 236 ARG A 245 1 10 HELIX 9 AA9 THR A 258 GLY A 269 1 12 HELIX 10 AB1 ASN A 290 ALA A 307 1 18 HELIX 11 AB2 SER B 34 GLY B 45 1 12 HELIX 12 AB3 ASP B 46 ILE B 48 5 3 HELIX 13 AB4 ASP B 59 TYR B 63 5 5 HELIX 14 AB5 ARG B 66 GLY B 75 1 10 HELIX 15 AB6 PHE B 89 SER B 97 1 9 HELIX 16 AB7 HIS B 138 GLN B 141 5 4 HELIX 17 AB8 ALA B 142 ASP B 161 1 20 HELIX 18 AB9 GLY B 164 ALA B 192 1 29 HELIX 19 AC1 PHE B 207 GLY B 215 1 9 HELIX 20 AC2 ALA B 231 ARG B 245 1 15 HELIX 21 AC3 THR B 258 ALA B 268 1 11 HELIX 22 AC4 ASN B 290 LEU B 306 1 17 SHEET 1 AA1 4 ILE A 48 VAL A 54 0 SHEET 2 AA1 4 LEU A 27 PHE A 33 1 N LEU A 27 O ARG A 49 SHEET 3 AA1 4 VAL A 78 THR A 81 1 O LEU A 80 N VAL A 30 SHEET 4 AA1 4 ALA A 102 THR A 105 1 O ALA A 104 N VAL A 79 SHEET 1 AA2 2 THR A 199 VAL A 201 0 SHEET 2 AA2 2 HIS A 217 LEU A 219 1 O LEU A 219 N VAL A 200 SHEET 1 AA3 2 ILE A 250 GLU A 253 0 SHEET 2 AA3 2 LEU A 272 LEU A 276 1 O GLY A 274 N ALA A 252 SHEET 1 AA4 4 ARG B 49 VAL B 54 0 SHEET 2 AA4 4 ASP B 28 PHE B 33 1 N THR B 32 O VAL B 54 SHEET 3 AA4 4 VAL B 78 THR B 81 1 O LEU B 80 N VAL B 30 SHEET 4 AA4 4 ALA B 102 THR B 105 1 O ALA B 104 N THR B 81 SHEET 1 AA5 4 HIS B 217 LEU B 219 0 SHEET 2 AA5 4 THR B 199 VAL B 201 1 N VAL B 200 O HIS B 217 SHEET 3 AA5 4 ALA B 249 GLU B 253 1 O ALA B 249 N VAL B 201 SHEET 4 AA5 4 LEU B 272 LEU B 276 1 O LEU B 276 N ALA B 252 LINK NE2 HIS A 61 ZN ZN A 401 1555 1555 2.06 LINK NE2 HIS A 138 ZN ZN A 401 1555 1555 2.12 LINK NE2 HIS A 204 ZN ZN A 401 1555 1555 2.16 LINK OD2 ASP A 279 ZN ZN A 401 1555 1555 2.00 LINK NE2 HIS B 61 ZN ZN B 401 1555 1555 2.05 LINK NE2 HIS B 138 ZN ZN B 401 1555 1555 2.14 LINK NE2 HIS B 204 ZN ZN B 401 1555 1555 2.15 LINK OD2 ASP B 279 ZN ZN B 401 1555 1555 2.03 CISPEP 1 PHE A 86 GLU A 87 0 6.62 CISPEP 2 ALA A 96 SER A 97 0 17.21 SITE 1 AC1 5 HIS A 61 HIS A 138 HIS A 204 VAL A 224 SITE 2 AC1 5 ASP A 279 SITE 1 AC2 5 HIS B 61 HIS B 138 HIS B 204 VAL B 224 SITE 2 AC2 5 ASP B 279 CRYST1 103.620 71.780 105.820 90.00 96.28 90.00 C 1 2 1 8 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 0.009651 0.000000 0.001062 0.00000 SCALE2 0.000000 0.013931 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009507 0.00000