HEADER METAL BINDING PROTEIN 17-NOV-06 2NXF TITLE CRYSTAL STRUCTURE OF A DIMETAL PHOSPHATASE FROM DANIO RERIO LOC 393393 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE DIMETAL PHOSPHATASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: DR.12833, LOC 393393; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL834 P(RARE2); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PVP 16K KEYWDS DINUCLEAR METAL CENTER PHOSPHATASE, METALLOPROTEIN, KEYWDS 2 METALLOPHOSPHOESTERASE, PROTEIN STRUCTURE INITIATIVE, CENTER FOR KEYWDS 3 EUKARYOTIC STRUCTURAL GENOMICS, CESG, PSI-2, METAL BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR E.BITTO,G.E.WESENBERG,G.N.PHILLIPS JR.,J.G.MCCOY,C.A.BINGMAN,CENTER AUTHOR 2 FOR EUKARYOTIC STRUCTURAL GENOMICS (CESG) REVDAT 5 27-DEC-23 2NXF 1 REMARK SEQADV LINK REVDAT 4 18-OCT-17 2NXF 1 REMARK REVDAT 3 13-JUL-11 2NXF 1 VERSN REVDAT 2 24-FEB-09 2NXF 1 VERSN REVDAT 1 12-DEC-06 2NXF 0 JRNL AUTH E.BITTO,G.E.WESENBERG,G.N.PHILLIPS JR.,J.G.MCCOY,C.A.BINGMAN JRNL TITL CRYSTAL STRUCTURE OF A DIMETAL PHOSPHATASE FROM DANIO RERIO JRNL TITL 2 LOC 393393 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.28 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 47258 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.013 REMARK 3 FREE R VALUE TEST SET COUNT : 2369 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3205 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 178 REMARK 3 BIN FREE R VALUE : 0.2770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2524 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 354 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.33800 REMARK 3 B22 (A**2) : 0.71100 REMARK 3 B33 (A**2) : -1.04800 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): 0.083 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.080 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.878 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2647 ; 0.011 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3607 ; 1.241 ; 1.931 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 5.089 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;36.837 ;23.172 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 420 ;11.915 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;17.009 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 387 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2099 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1267 ; 0.197 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1828 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 285 ; 0.145 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.028 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 31 ; 0.195 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.151 ; 0.200 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): 1634 ; 0.710 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2582 ; 1.156 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1131 ; 2.026 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1021 ; 3.138 ; 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 : 3 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 3 A 114 REMARK 3 ORIGIN FOR THE GROUP (A): 26.0078 17.1146 9.4275 REMARK 3 T TENSOR REMARK 3 T11: -0.1148 T22: -0.1757 REMARK 3 T33: -0.1356 T12: 0.0073 REMARK 3 T13: -0.0031 T23: -0.0016 REMARK 3 L TENSOR REMARK 3 L11: 3.0926 L22: 0.8713 REMARK 3 L33: 2.6500 L12: -0.3570 REMARK 3 L13: 0.5280 L23: 0.1922 REMARK 3 S TENSOR REMARK 3 S11: -0.0201 S12: 0.1233 S13: -0.1338 REMARK 3 S21: -0.1113 S22: 0.0150 S23: 0.0840 REMARK 3 S31: 0.2324 S32: -0.0600 S33: 0.0051 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 : A 115 A 207 REMARK 3 ORIGIN FOR THE GROUP (A): 23.1150 33.1898 21.0867 REMARK 3 T TENSOR REMARK 3 T11: -0.1422 T22: -0.1492 REMARK 3 T33: -0.1347 T12: 0.0331 REMARK 3 T13: -0.0008 T23: -0.0285 REMARK 3 L TENSOR REMARK 3 L11: 2.1784 L22: 2.6716 REMARK 3 L33: 3.1026 L12: -1.2103 REMARK 3 L13: 0.3293 L23: -1.3235 REMARK 3 S TENSOR REMARK 3 S11: 0.0608 S12: -0.0988 S13: 0.1575 REMARK 3 S21: -0.0108 S22: 0.0512 S23: 0.1526 REMARK 3 S31: -0.2337 S32: -0.1860 S33: -0.1120 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 208 A 322 REMARK 3 ORIGIN FOR THE GROUP (A): 38.9925 25.8152 19.7243 REMARK 3 T TENSOR REMARK 3 T11: -0.1393 T22: -0.0862 REMARK 3 T33: -0.1305 T12: 0.0196 REMARK 3 T13: -0.0078 T23: 0.0112 REMARK 3 L TENSOR REMARK 3 L11: 0.9147 L22: 0.6755 REMARK 3 L33: 2.7127 L12: -0.0949 REMARK 3 L13: -0.3089 L23: 0.2694 REMARK 3 S TENSOR REMARK 3 S11: 0.0083 S12: -0.0762 S13: 0.1133 REMARK 3 S21: 0.0013 S22: 0.0100 S23: -0.1646 REMARK 3 S31: -0.0717 S32: 0.4790 S33: -0.0183 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 2NXF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040421. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97923, 0.96400 REMARK 200 MONOCHROMATOR : SI(111) DOUBLE CRYSTAL REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : ADJUSTABLE FOCUSING MIRRORS IN K REMARK 200 -B GEOMETRY REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47311 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 48.276 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.60 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3480 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 0.43100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.077 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP, DM 5.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN SOLUTION (10 MG/ML PROTEIN, REMARK 280 0.050 M SODIUM CHLORIDE, 0.0031 M SODIUM AZIDE, 0.0003 M TCEP, REMARK 280 0.005 M BISTRIS PH 7.0) MIXED IN A 1:1 RATIO WITH THE WELL REMARK 280 SOLUTION (10.4% PEG 4K, 0.40 M SODIUM CHLORIDE, 0.10 M HEPES PH REMARK 280 7.5) CRYOPROTECTED WITH: 15% PEG 8K, 0.30 M AMMONIUM THIOCYANATE, REMARK 280 0.010 M SODIUM DIHYDROGEN PHOSPHATE, 0.0005 M ZINC SULFATE, REMARK 280 0.10 M HEPPS PH 8.5 SUPPLEMENTED WITH UP TO 20% ETHYLENE GLYCOL, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 78.65750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 78.65750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 31.29200 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.29650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 31.29200 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.29650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 78.65750 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 31.29200 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.29650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 78.65750 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 31.29200 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 43.29650 REMARK 290 SMTRY3 8 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: THE BIOLOGICAL UNIT IS A MONOMER 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 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 1 REMARK 465 GLU A 2 REMARK 465 ARG A 117 REMARK 465 THR A 118 REMARK 465 GLY A 119 REMARK 465 THR A 120 REMARK 465 ASP A 121 REMARK 465 THR A 122 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 A 574 O HOH A 618 2.18 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 TYR A 32 74.94 -101.66 REMARK 500 GLU A 160 -11.37 82.34 REMARK 500 ASN A 244 47.67 -109.44 REMARK 500 HIS A 265 -53.99 76.85 REMARK 500 SER A 293 -162.01 -123.56 REMARK 500 ALA A 295 92.14 -160.60 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 ASP A 13 OD1 REMARK 620 2 GLN A 15 OE1 104.7 REMARK 620 3 ASP A 60 OD2 83.2 96.3 REMARK 620 4 HIS A 267 NE2 91.5 95.8 167.6 REMARK 620 5 PO4 A 501 O3 169.6 85.7 96.5 86.6 REMARK 620 6 HOH A 844 O 88.7 165.6 80.0 88.8 81.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 60 OD2 REMARK 620 2 ASN A 96 OD1 100.3 REMARK 620 3 HIS A 228 NE2 89.1 93.5 REMARK 620 4 HIS A 265 ND1 163.5 96.1 88.9 REMARK 620 5 PO4 A 501 O4 89.4 82.3 175.2 93.8 REMARK 620 6 HOH A 844 O 80.8 149.3 117.2 85.6 67.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 404 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 166 NE2 REMARK 620 2 HOH A 646 O 144.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 403 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 174 NE2 REMARK 620 2 HOH A 694 O 107.6 REMARK 620 N 1 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 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EOH A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: GO.70653 RELATED DB: TARGETDB DBREF 2NXF A 2 322 UNP Q7T291 Q7T291_BRARE 2 322 SEQADV 2NXF SER A 1 UNP Q7T291 CLONING ARTIFACT SEQADV 2NXF MSE A 80 UNP Q7T291 MET 80 MODIFIED RESIDUE SEQADV 2NXF MSE A 306 UNP Q7T291 MET 306 MODIFIED RESIDUE SEQADV 2NXF MSE A 308 UNP Q7T291 MET 308 MODIFIED RESIDUE SEQRES 1 A 322 SER GLU ASP PRO VAL PHE THR PHE GLY LEU ILE ALA ASP SEQRES 2 A 322 VAL GLN TYR ALA ASP ILE GLU ASP GLY GLU ASN TYR LEU SEQRES 3 A 322 ARG THR ARG ARG ARG TYR TYR ARG GLY SER ALA ASP LEU SEQRES 4 A 322 LEU ARG ASP ALA VAL LEU GLN TRP ARG ARG GLU ARG VAL SEQRES 5 A 322 GLN CYS VAL VAL GLN LEU GLY ASP ILE ILE ASP GLY HIS SEQRES 6 A 322 ASN ARG ARG ARG ASP ALA SER ASP ARG ALA LEU ASP THR SEQRES 7 A 322 VAL MSE ALA GLU LEU ASP ALA CYS SER VAL ASP VAL HIS SEQRES 8 A 322 HIS VAL TRP GLY ASN HIS GLU PHE TYR ASN PHE SER ARG SEQRES 9 A 322 PRO SER LEU LEU SER SER ARG LEU ASN SER ALA GLN ARG SEQRES 10 A 322 THR GLY THR ASP THR GLY SER ASP LEU ILE GLY ASP ASP SEQRES 11 A 322 ILE TYR ALA TYR GLU PHE SER PRO ALA PRO ASN PHE ARG SEQRES 12 A 322 PHE VAL LEU LEU ASP ALA TYR ASP LEU SER VAL ILE GLY SEQRES 13 A 322 ARG GLU GLU GLU SER GLU LYS HIS THR HIS SER TRP ARG SEQRES 14 A 322 ILE LEU THR GLN HIS ASN HIS ASN LEU GLN ASP LEU ASN SEQRES 15 A 322 LEU PRO PRO VAL SER VAL GLY LEU GLU GLN ARG PHE VAL SEQRES 16 A 322 LYS PHE ASN GLY GLY PHE SER GLU GLN GLN LEU GLN TRP SEQRES 17 A 322 LEU ASP ALA VAL LEU THR LEU SER ASP HIS LYS GLN GLU SEQRES 18 A 322 ARG VAL LEU ILE PHE SER HIS LEU PRO VAL HIS PRO CYS SEQRES 19 A 322 ALA ALA ASP PRO ILE CYS LEU ALA TRP ASN HIS GLU ALA SEQRES 20 A 322 VAL LEU SER VAL LEU ARG SER HIS GLN SER VAL LEU CYS SEQRES 21 A 322 PHE ILE ALA GLY HIS ASP HIS ASP GLY GLY ARG CYS THR SEQRES 22 A 322 ASP SER SER GLY ALA GLN HIS ILE THR LEU GLU GLY VAL SEQRES 23 A 322 ILE GLU THR PRO PRO HIS SER HIS ALA PHE ALA THR ALA SEQRES 24 A 322 TYR LEU TYR GLU ASP ARG MSE VAL MSE LYS GLY ARG GLY SEQRES 25 A 322 ARG VAL GLU ASP LEU THR ILE THR TYR SER MODRES 2NXF MSE A 80 MET SELENOMETHIONINE MODRES 2NXF MSE A 306 MET SELENOMETHIONINE MODRES 2NXF MSE A 308 MET SELENOMETHIONINE HET MSE A 80 8 HET MSE A 306 8 HET MSE A 308 8 HET ZN A 401 1 HET ZN A 402 1 HET ZN A 403 1 HET ZN A 404 1 HET PO4 A 501 5 HET EOH A 502 3 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM PO4 PHOSPHATE ION HETNAM EOH ETHANOL FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 2 ZN 4(ZN 2+) FORMUL 6 PO4 O4 P 3- FORMUL 7 EOH C2 H6 O FORMUL 8 HOH *354(H2 O) HELIX 1 1 ARG A 34 GLU A 50 1 17 HELIX 2 2 GLY A 64 ARG A 69 1 6 HELIX 3 3 ALA A 71 ALA A 85 1 15 HELIX 4 4 GLY A 95 PHE A 102 1 8 HELIX 5 5 SER A 103 SER A 109 1 7 HELIX 6 6 ILE A 127 ASP A 130 5 4 HELIX 7 7 SER A 161 ASN A 175 1 15 HELIX 8 8 GLY A 189 PHE A 194 5 6 HELIX 9 9 SER A 202 GLN A 220 1 19 HELIX 10 10 ASP A 237 LEU A 241 5 5 HELIX 11 11 ASN A 244 SER A 254 1 11 HELIX 12 12 GLY A 285 THR A 289 5 5 SHEET 1 A 6 ASP A 89 HIS A 92 0 SHEET 2 A 6 CYS A 54 GLN A 57 1 N VAL A 55 O HIS A 91 SHEET 3 A 6 PHE A 6 ILE A 11 1 N GLY A 9 O VAL A 56 SHEET 4 A 6 ALA A 295 LEU A 301 -1 O ALA A 299 N PHE A 8 SHEET 5 A 6 ARG A 305 GLY A 312 -1 O LYS A 309 N THR A 298 SHEET 6 A 6 LEU A 317 THR A 320 -1 O LEU A 317 N MSE A 308 SHEET 1 B 2 GLY A 22 GLU A 23 0 SHEET 2 B 2 ARG A 30 ARG A 31 -1 O ARG A 31 N GLY A 22 SHEET 1 C 7 SER A 124 ASP A 125 0 SHEET 2 C 7 TYR A 134 ALA A 139 -1 O GLU A 135 N SER A 124 SHEET 3 C 7 PHE A 142 LEU A 146 -1 O PHE A 144 N PHE A 136 SHEET 4 C 7 ARG A 222 SER A 227 1 O PHE A 226 N VAL A 145 SHEET 5 C 7 VAL A 258 ALA A 263 1 O ILE A 262 N ILE A 225 SHEET 6 C 7 GLN A 279 THR A 282 1 O ILE A 281 N PHE A 261 SHEET 7 C 7 GLY A 270 THR A 273 -1 N CYS A 272 O HIS A 280 SSBOND 1 CYS A 234 CYS A 272 1555 1555 2.01 LINK C VAL A 79 N MSE A 80 1555 1555 1.34 LINK C MSE A 80 N ALA A 81 1555 1555 1.34 LINK C ARG A 305 N MSE A 306 1555 1555 1.33 LINK C MSE A 306 N VAL A 307 1555 1555 1.33 LINK C VAL A 307 N MSE A 308 1555 1555 1.33 LINK C MSE A 308 N LYS A 309 1555 1555 1.34 LINK OD1 ASP A 13 ZN ZN A 401 1555 1555 2.07 LINK OE1 GLN A 15 ZN ZN A 401 1555 1555 1.99 LINK OD2 ASP A 60 ZN ZN A 401 1555 1555 2.22 LINK OD2 ASP A 60 ZN ZN A 402 1555 1555 2.18 LINK OD1 ASN A 96 ZN ZN A 402 1555 1555 2.14 LINK NE2 HIS A 166 ZN ZN A 404 1555 1555 2.15 LINK NE2 HIS A 174 ZN ZN A 403 1555 1555 2.11 LINK NE2 HIS A 228 ZN ZN A 402 1555 1555 2.21 LINK ND1 HIS A 265 ZN ZN A 402 1555 1555 2.24 LINK NE2 HIS A 267 ZN ZN A 401 1555 1555 2.25 LINK ZN ZN A 401 O3 PO4 A 501 1555 1555 2.19 LINK ZN ZN A 401 O HOH A 844 1555 1555 2.14 LINK ZN ZN A 402 O4 PO4 A 501 1555 1555 2.53 LINK ZN ZN A 402 O HOH A 844 1555 1555 2.15 LINK ZN ZN A 403 O HOH A 694 1555 1555 2.13 LINK ZN ZN A 404 O HOH A 646 1555 1555 2.45 SITE 1 AC1 7 ASP A 13 GLN A 15 ASP A 60 HIS A 267 SITE 2 AC1 7 ZN A 402 PO4 A 501 HOH A 844 SITE 1 AC2 7 ASP A 60 ASN A 96 HIS A 228 HIS A 265 SITE 2 AC2 7 ZN A 401 PO4 A 501 HOH A 844 SITE 1 AC3 2 HIS A 174 HOH A 694 SITE 1 AC4 4 HIS A 166 ILE A 170 HOH A 628 HOH A 646 SITE 1 AC5 11 GLN A 15 ARG A 31 ASP A 60 ASN A 96 SITE 2 AC5 11 HIS A 97 HIS A 265 HIS A 267 ZN A 401 SITE 3 AC5 11 ZN A 402 HOH A 690 HOH A 844 SITE 1 AC6 5 ARG A 51 VAL A 52 CYS A 86 VAL A 88 SITE 2 AC6 5 HOH A 856 CRYST1 62.584 86.593 157.315 90.00 90.00 90.00 C 2 2 21 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 0.015979 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011548 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006357 0.00000