HEADER METAL BINDING PROTEIN 14-JUN-17 5W56 TITLE STRUCTURE OF APO AZTC 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 (STRAIN PD 1222); 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_CELL_LINE: BL21(DE3) KEYWDS SOLUTE BINDING PROTEIN, ZINC, ABC TRANSPORTER, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.AVALOS,E.T.YUKL REVDAT 4 04-OCT-23 5W56 1 REMARK LINK REVDAT 3 01-JAN-20 5W56 1 REMARK REVDAT 2 01-NOV-17 5W56 1 JRNL REVDAT 1 20-SEP-17 5W56 0 JRNL AUTH D.P.NEUPANE,D.AVALOS,S.FULLAM,H.ROYCHOWDHURY,E.T.YUKL JRNL TITL MECHANISMS OF ZINC BINDING TO THE SOLUTE-BINDING PROTEIN JRNL TITL 2 AZTC AND TRANSFER FROM THE METALLOCHAPERONE AZTD. JRNL REF J. BIOL. CHEM. V. 292 17496 2017 JRNL REFN ESSN 1083-351X JRNL PMID 28887302 JRNL DOI 10.1074/JBC.M117.804799 REMARK 2 REMARK 2 RESOLUTION. 2.03 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.03 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.83 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 45559 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) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.200 REMARK 3 FREE R VALUE TEST SET COUNT : 2008 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) : 2.03 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3377 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.69 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 150 REMARK 3 BIN FREE R VALUE : 0.3440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3981 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 136 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.40000 REMARK 3 B22 (A**2) : 1.95000 REMARK 3 B33 (A**2) : -1.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.49000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.125 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.255 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.966 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4105 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3873 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5597 ; 1.899 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8829 ; 0.956 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 542 ; 7.225 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 186 ;38.087 ;23.548 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 571 ;15.911 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;17.710 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 644 ; 0.130 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4826 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 953 ; 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): 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 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 25 A 309 REMARK 3 ORIGIN FOR THE GROUP (A): 8.9420 42.0446 9.7161 REMARK 3 T TENSOR REMARK 3 T11: 0.0752 T22: 0.0965 REMARK 3 T33: 0.0725 T12: 0.0668 REMARK 3 T13: 0.0138 T23: -0.0036 REMARK 3 L TENSOR REMARK 3 L11: 0.3043 L22: 0.5890 REMARK 3 L33: 0.7412 L12: -0.1998 REMARK 3 L13: -0.3175 L23: 0.2539 REMARK 3 S TENSOR REMARK 3 S11: -0.0439 S12: -0.0024 S13: 0.0712 REMARK 3 S21: 0.0622 S22: 0.0075 S23: 0.0479 REMARK 3 S31: 0.1730 S32: 0.0589 S33: 0.0364 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 26 B 309 REMARK 3 ORIGIN FOR THE GROUP (A): 8.8044 2.3317 21.4768 REMARK 3 T TENSOR REMARK 3 T11: 0.0524 T22: 0.1180 REMARK 3 T33: 0.0714 T12: -0.0490 REMARK 3 T13: -0.0271 T23: 0.0574 REMARK 3 L TENSOR REMARK 3 L11: 0.5326 L22: 0.7326 REMARK 3 L33: 0.2375 L12: 0.3924 REMARK 3 L13: -0.0569 L23: 0.0299 REMARK 3 S TENSOR REMARK 3 S11: -0.0896 S12: 0.0530 S13: 0.0715 REMARK 3 S21: -0.0083 S22: 0.0017 S23: 0.0532 REMARK 3 S31: -0.0139 S32: 0.0162 S33: 0.0879 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 5W56 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000228459. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 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) : 1.00001 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS V0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47607 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.030 REMARK 200 RESOLUTION RANGE LOW (A) : 45.830 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.02700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.03 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.56000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4XRV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM FORMATE 4.0-4.5 M, BIS-TRIS REMARK 280 PROPANE 0.1 M, PH 7.0, BATCH MODE, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 53.13050 REMARK 290 SMTRY3 2 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 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 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 ALA A 24 REMARK 465 GLY A 223 REMARK 465 VAL A 224 REMARK 465 SER A 225 REMARK 465 THR A 226 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 B 24 REMARK 465 GLU B 25 REMARK 465 PRO B 116 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 134 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 222 CG CD OE1 NE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 VAL A 200 N CA C O CB CG1 CG2 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 531 O HOH B 560 2.19 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 ASP B 136 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 136 CB - CG - OD2 ANGL. DEV. = -5.6 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 ASP A 57 80.78 20.92 REMARK 500 VAL A 62 -84.77 68.19 REMARK 500 ASP A 100 69.51 68.32 REMARK 500 HIS A 120 141.94 92.07 REMARK 500 TYR A 123 42.72 -80.31 REMARK 500 ILE A 124 -88.37 -22.82 REMARK 500 ALA A 134 96.37 69.35 REMARK 500 HIS A 138 47.26 -87.69 REMARK 500 ASP A 161 75.31 -152.25 REMARK 500 THR A 258 -48.94 130.42 REMARK 500 ALA A 288 53.56 -142.10 REMARK 500 VAL B 62 -84.23 66.52 REMARK 500 LEU B 84 -176.05 -45.57 REMARK 500 GLU B 85 7.56 -67.67 REMARK 500 HIS B 138 47.81 -81.83 REMARK 500 ARG B 197 77.57 -111.15 REMARK 500 VAL B 224 -85.80 -114.39 REMARK 500 SER B 225 -6.67 72.04 REMARK 500 SER B 228 104.16 51.84 REMARK 500 GLU B 229 30.91 -83.63 REMARK 500 ALA B 288 51.23 -140.87 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 NA A 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 60 O REMARK 620 2 ASN A 254 OD1 128.8 REMARK 620 3 ASP A 279 OD1 139.6 77.8 REMARK 620 4 ASP A 279 OD2 88.5 113.0 51.1 REMARK 620 5 HOH A 548 O 71.2 145.2 105.0 93.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 58 O REMARK 620 2 SER B 58 O 2.4 REMARK 620 3 SER B 58 OG 65.3 63.9 REMARK 620 4 THR B 60 O 79.8 77.6 76.7 REMARK 620 5 ASN B 254 OD1 85.4 87.6 138.5 128.2 REMARK 620 6 ASP B 279 OD1 135.4 137.2 104.5 142.8 75.5 REMARK 620 7 ASP B 279 OD2 162.8 160.9 98.1 92.6 111.2 50.2 REMARK 620 8 HOH B 509 O 51.6 53.3 68.0 128.1 70.9 83.9 128.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5W57 RELATED DB: PDB DBREF 5W56 A 24 309 UNP A1B2F3 A1B2F3_PARDP 24 309 DBREF 5W56 B 24 309 UNP A1B2F3 A1B2F3_PARDP 24 309 SEQRES 1 A 286 ALA GLU PRO LEU ASP VAL VAL ALA THR PHE SER ILE ILE SEQRES 2 A 286 GLY ASP PHE ALA ALA LYS VAL GLY GLY ASP ARG ILE ARG SEQRES 3 A 286 LEU ASN VAL LEU VAL GLY PRO ASP SER ASP THR HIS VAL SEQRES 4 A 286 TYR GLU PRO ARG PRO ALA ASP ALA ILE ALA LEU ALA GLY SEQRES 5 A 286 ALA ASP VAL VAL LEU THR ASN GLY LEU GLU PHE GLU GLY SEQRES 6 A 286 PHE LEU THR ARG LEU ILE ALA ALA SER GLY THR ASP ALA SEQRES 7 A 286 ALA VAL ALA THR LEU THR ASP GLY VAL GLU THR MET GLU SEQRES 8 A 286 GLU PRO GLY GLY GLY HIS TYR HIS TYR ILE ASP GLY LYS SEQRES 9 A 286 ALA VAL PHE HIS ALA GLY ALA HIS ASP PRO HIS ALA TRP SEQRES 10 A 286 GLN ALA VAL PRO ASN ALA LYS VAL TYR VAL GLN ASN ILE SEQRES 11 A 286 ALA ALA ALA PHE CYS ALA ALA ASP ALA GLU GLY CYS ALA SEQRES 12 A 286 ALA TYR GLN ALA ASN ALA ALA ARG TYR ILE GLY GLU LEU SEQRES 13 A 286 ASP ALA LEU ASP THR GLU ILE ARG ALA ALA ILE ALA ALA SEQRES 14 A 286 LEU PRO GLN ASP ARG ARG THR VAL VAL VAL ALA HIS ASN SEQRES 15 A 286 ALA PHE ARG TYR PHE GLU ALA ALA TYR GLY VAL HIS PHE SEQRES 16 A 286 LEU SER PRO GLN GLY VAL SER THR GLU SER GLU ALA ALA SEQRES 17 A 286 ALA ALA ASP VAL ALA GLY LEU ILE ARG GLU ILE ARG ALA SEQRES 18 A 286 ARG ASN ALA SER ALA ILE PHE ALA GLU ASN ILE SER ASP SEQRES 19 A 286 THR ARG LEU LEU GLU GLN ILE ALA ARG GLU ALA GLY LEU SEQRES 20 A 286 PRO LEU ALA GLY THR LEU TYR SER ASP ALA LEU SER GLY SEQRES 21 A 286 PRO ASP GLY PRO ALA SER ASN TYR ILE ALA MET MET ARG SEQRES 22 A 286 HIS ASN ALA GLY ALA ILE ALA ALA ALA LEU ALA ALA ARG SEQRES 1 B 286 ALA GLU PRO LEU ASP VAL VAL ALA THR PHE SER ILE ILE SEQRES 2 B 286 GLY ASP PHE ALA ALA LYS VAL GLY GLY ASP ARG ILE ARG SEQRES 3 B 286 LEU ASN VAL LEU VAL GLY PRO ASP SER ASP THR HIS VAL SEQRES 4 B 286 TYR GLU PRO ARG PRO ALA ASP ALA ILE ALA LEU ALA GLY SEQRES 5 B 286 ALA ASP VAL VAL LEU THR ASN GLY LEU GLU PHE GLU GLY SEQRES 6 B 286 PHE LEU THR ARG LEU ILE ALA ALA SER GLY THR ASP ALA SEQRES 7 B 286 ALA VAL ALA THR LEU THR ASP GLY VAL GLU THR MET GLU SEQRES 8 B 286 GLU PRO GLY GLY GLY HIS TYR HIS TYR ILE ASP GLY LYS SEQRES 9 B 286 ALA VAL PHE HIS ALA GLY ALA HIS ASP PRO HIS ALA TRP SEQRES 10 B 286 GLN ALA VAL PRO ASN ALA LYS VAL TYR VAL GLN ASN ILE SEQRES 11 B 286 ALA ALA ALA PHE CYS ALA ALA ASP ALA GLU GLY CYS ALA SEQRES 12 B 286 ALA TYR GLN ALA ASN ALA ALA ARG TYR ILE GLY GLU LEU SEQRES 13 B 286 ASP ALA LEU ASP THR GLU ILE ARG ALA ALA ILE ALA ALA SEQRES 14 B 286 LEU PRO GLN ASP ARG ARG THR VAL VAL VAL ALA HIS ASN SEQRES 15 B 286 ALA PHE ARG TYR PHE GLU ALA ALA TYR GLY VAL HIS PHE SEQRES 16 B 286 LEU SER PRO GLN GLY VAL SER THR GLU SER GLU ALA ALA SEQRES 17 B 286 ALA ALA ASP VAL ALA GLY LEU ILE ARG GLU ILE ARG ALA SEQRES 18 B 286 ARG ASN ALA SER ALA ILE PHE ALA GLU ASN ILE SER ASP SEQRES 19 B 286 THR ARG LEU LEU GLU GLN ILE ALA ARG GLU ALA GLY LEU SEQRES 20 B 286 PRO LEU ALA GLY THR LEU TYR SER ASP ALA LEU SER GLY SEQRES 21 B 286 PRO ASP GLY PRO ALA SER ASN TYR ILE ALA MET MET ARG SEQRES 22 B 286 HIS ASN ALA GLY ALA ILE ALA ALA ALA LEU ALA ALA ARG HET GOL A 401 6 HET GOL A 402 6 HET NA A 403 1 HET GOL B 401 6 HET GOL B 402 6 HET NA B 403 1 HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 4(C3 H8 O3) FORMUL 5 NA 2(NA 1+) FORMUL 9 HOH *136(H2 O) HELIX 1 AA1 SER A 34 GLY A 45 1 12 HELIX 2 AA2 ALA A 68 GLY A 75 1 8 HELIX 3 AA3 PHE A 86 GLY A 98 1 13 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 ALA A 192 1 29 HELIX 7 AA7 PHE A 207 TYR A 214 1 8 HELIX 8 AA8 ASP A 234 ASN A 246 1 13 HELIX 9 AA9 THR A 258 GLY A 269 1 12 HELIX 10 AB1 ASN A 290 ARG A 309 1 20 HELIX 11 AB2 SER B 34 GLY B 45 1 12 HELIX 12 AB3 ALA B 68 ALA B 76 1 9 HELIX 13 AB4 PHE B 86 GLY B 98 1 13 HELIX 14 AB5 HIS B 138 GLN B 141 5 4 HELIX 15 AB6 ALA B 142 ASP B 161 1 20 HELIX 16 AB7 ASP B 161 ALA B 192 1 32 HELIX 17 AB8 PHE B 207 GLY B 215 1 9 HELIX 18 AB9 ALA B 231 ARG B 245 1 15 HELIX 19 AC1 ASP B 257 GLY B 269 1 13 HELIX 20 AC2 ASN B 290 ARG B 309 1 20 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 TYR A 121 HIS A 122 0 SHEET 2 AA2 2 VAL A 129 PHE A 130 -1 O VAL A 129 N HIS A 122 SHEET 1 AA3 4 HIS A 217 LEU A 219 0 SHEET 2 AA3 4 THR A 199 VAL A 202 1 N VAL A 200 O HIS A 217 SHEET 3 AA3 4 ALA A 249 ALA A 252 1 O ALA A 249 N VAL A 201 SHEET 4 AA3 4 LEU A 272 THR A 275 1 O ALA A 273 N ILE A 250 SHEET 1 AA4 4 ILE B 48 VAL B 54 0 SHEET 2 AA4 4 LEU B 27 PHE B 33 1 N VAL B 29 O ARG B 49 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 VAL B 79 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 ALA B 252 1 O ALA B 249 N VAL B 201 SHEET 4 AA5 4 LEU B 272 THR B 275 1 O ALA B 273 N ILE B 250 SSBOND 1 CYS A 158 CYS A 165 1555 1555 2.09 SSBOND 2 CYS B 158 CYS B 165 1555 1555 2.15 LINK O THR A 60 NA NA A 403 1555 1555 2.45 LINK OD1 ASN A 254 NA NA A 403 1555 1555 2.60 LINK OD1 ASP A 279 NA NA A 403 1555 1555 2.69 LINK OD2 ASP A 279 NA NA A 403 1555 1555 2.23 LINK NA NA A 403 O HOH A 548 1555 1555 2.60 LINK O ASER B 58 NA NA B 403 1555 1555 3.15 LINK O BSER B 58 NA NA B 403 1555 1555 3.00 LINK OG ASER B 58 NA NA B 403 1555 1555 2.61 LINK O THR B 60 NA NA B 403 1555 1555 2.34 LINK OD1 ASN B 254 NA NA B 403 1555 1555 2.67 LINK OD1 ASP B 279 NA NA B 403 1555 1555 2.69 LINK OD2 ASP B 279 NA NA B 403 1555 1555 2.25 LINK NA NA B 403 O HOH B 509 1555 1555 2.47 CISPEP 1 GLU A 25 PRO A 26 0 -4.69 CISPEP 2 SER B 228 GLU B 229 0 18.70 SITE 1 AC1 3 ALA A 293 ARG A 296 HOH A 505 SITE 1 AC2 6 THR A 32 ASN A 82 GLY A 83 GLU A 85 SITE 2 AC2 6 PHE A 86 HOH A 509 SITE 1 AC3 5 SER A 58 THR A 60 ASN A 254 ASP A 279 SITE 2 AC3 5 HOH A 548 SITE 1 AC4 3 ALA B 293 ARG B 296 HOH B 529 SITE 1 AC5 7 THR B 32 THR B 81 ASN B 82 GLY B 83 SITE 2 AC5 7 LEU B 84 PHE B 86 GLU B 87 SITE 1 AC6 5 SER B 58 THR B 60 ASN B 254 ASP B 279 SITE 2 AC6 5 HOH B 509 CRYST1 61.469 106.261 61.672 90.00 110.98 90.00 P 1 21 1 4 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 0.016268 0.000000 0.006238 0.00000 SCALE2 0.000000 0.009411 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017366 0.00000