HEADER TRANSCRIPTION REGULATOR 23-MAY-08 3D8U TITLE THE CRYSTAL STRUCTURE OF A PURR FAMILY TRANSCRIPTIONAL REGULATOR FROM TITLE 2 VIBRIO PARAHAEMOLYTICUS RIMD 2210633 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PURR TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PARAHAEMOLYTICUS; SOURCE 3 ORGANISM_TAXID: 670; SOURCE 4 STRAIN: RIMD 2210633; SOURCE 5 GENE: VPA0232; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMCSG8 KEYWDS APC91343.1, PURR, TRANSCRIPTIONAL REGULATOR, VIBRIO PARAHAEMOLYTICUS KEYWDS 2 RIMD 2210633, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE KEYWDS 3 INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, MCSG, DNA- KEYWDS 4 BINDING, TRANSCRIPTION, TRANSCRIPTION REGULATION, TRANSCRIPTION KEYWDS 5 REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR K.TAN,C.HATZOS,S.MOY,A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (MCSG) REVDAT 3 13-JUL-11 3D8U 1 VERSN REVDAT 2 24-FEB-09 3D8U 1 VERSN REVDAT 1 22-JUL-08 3D8U 0 JRNL AUTH K.TAN,C.HATZOS,S.MOY,A.JOACHIMIAK JRNL TITL THE CRYSTAL STRUCTURE OF A PURR FAMILY TRANSCRIPTIONAL JRNL TITL 2 REGULATOR FROM VIBRIO PARAHAEMOLYTICUS RIMD 2210633 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 16601 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 891 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) : 2.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1054 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.2600 REMARK 3 BIN FREE R VALUE SET COUNT : 53 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3930 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 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) : 77.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.28000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 0.42000 REMARK 3 B12 (A**2) : -0.14000 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): 1.345 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.405 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.290 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 32.729 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.886 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4011 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5437 ; 1.654 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 531 ; 7.059 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 159 ;40.667 ;23.836 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 622 ;22.726 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;21.292 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 628 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3018 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2029 ; 0.265 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2734 ; 0.321 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 147 ; 0.159 ; 0.200 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): 34 ; 0.312 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.304 ; 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): 2685 ; 0.524 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4165 ; 0.952 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1446 ; 1.644 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1271 ; 2.616 ; 4.500 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 71 A 169 REMARK 3 RESIDUE RANGE : A 302 A 321 REMARK 3 ORIGIN FOR THE GROUP (A): 65.1050 78.8530 26.3330 REMARK 3 T TENSOR REMARK 3 T11: 0.2094 T22: 0.3447 REMARK 3 T33: 0.4827 T12: -0.1352 REMARK 3 T13: 0.0957 T23: -0.3309 REMARK 3 L TENSOR REMARK 3 L11: 8.4026 L22: 1.0588 REMARK 3 L33: 4.3852 L12: -0.1407 REMARK 3 L13: 1.8062 L23: -2.0851 REMARK 3 S TENSOR REMARK 3 S11: -0.7859 S12: -0.1035 S13: 0.9516 REMARK 3 S21: -0.2386 S22: 1.0512 S23: -0.6778 REMARK 3 S31: -0.7658 S32: 0.1363 S33: -0.2653 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 170 A 301 REMARK 3 RESIDUE RANGE : A 328 A 340 REMARK 3 ORIGIN FOR THE GROUP (A): 70.0150 49.4070 28.6470 REMARK 3 T TENSOR REMARK 3 T11: -0.5697 T22: 0.2080 REMARK 3 T33: -0.3700 T12: 0.0525 REMARK 3 T13: 0.0261 T23: 0.0231 REMARK 3 L TENSOR REMARK 3 L11: 9.1962 L22: 3.6923 REMARK 3 L33: 3.4444 L12: 0.3190 REMARK 3 L13: 1.7538 L23: -1.3533 REMARK 3 S TENSOR REMARK 3 S11: -0.2336 S12: -1.7464 S13: -0.0339 REMARK 3 S21: -0.0117 S22: 0.3237 S23: -0.1207 REMARK 3 S31: -0.2219 S32: -0.4877 S33: -0.0901 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 71 B 169 REMARK 3 RESIDUE RANGE : B 302 B 324 REMARK 3 ORIGIN FOR THE GROUP (A): 43.1610 76.4340 18.7750 REMARK 3 T TENSOR REMARK 3 T11: 0.1722 T22: 0.3555 REMARK 3 T33: 0.3336 T12: -0.1525 REMARK 3 T13: -0.0329 T23: 0.3766 REMARK 3 L TENSOR REMARK 3 L11: 7.4207 L22: 6.5790 REMARK 3 L33: 4.9849 L12: 1.1214 REMARK 3 L13: 1.8882 L23: 3.4325 REMARK 3 S TENSOR REMARK 3 S11: -0.7233 S12: 0.6488 S13: 1.5124 REMARK 3 S21: -0.1817 S22: 0.4618 S23: 0.7536 REMARK 3 S31: -0.9865 S32: 0.0580 S33: 0.2615 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 170 B 301 REMARK 3 RESIDUE RANGE : B 326 B 342 REMARK 3 ORIGIN FOR THE GROUP (A): 39.4820 49.1370 29.0470 REMARK 3 T TENSOR REMARK 3 T11: -0.5916 T22: -0.0865 REMARK 3 T33: -0.4143 T12: -0.0245 REMARK 3 T13: 0.0503 T23: 0.0148 REMARK 3 L TENSOR REMARK 3 L11: 6.6177 L22: 4.9941 REMARK 3 L33: 3.6184 L12: -1.3494 REMARK 3 L13: 2.2913 L23: -0.8915 REMARK 3 S TENSOR REMARK 3 S11: -0.2010 S12: 0.7415 S13: 0.1318 REMARK 3 S21: 0.1287 S22: 0.1286 S23: 0.2988 REMARK 3 S31: -0.0385 S32: -0.0133 S33: 0.0723 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 3D8U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUN-08. REMARK 100 THE RCSB ID CODE IS RCSB047737. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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) : 0.97945, 0.97959 REMARK 200 MONOCHROMATOR : SI 111 CRYSTAL REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17527 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.880 REMARK 200 RESOLUTION RANGE LOW (A) : 41.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 10.400 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.82200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXD/MLPHARE/DM/RESOLVE/HKL3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M SODIUM CITRATE 0.1M IMIDAZOLE, REMARK 280 PH 8.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.92000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 55.84000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 55.84000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 27.92000 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: AUTHORS STATE THAT THE BIOLOGICAL ASSEMBLY IS REMARK 300 EXPERIMENTALLY UNKNOWN. THE CHAINS A AND B ARE PREDICTED TO FORM A REMARK 300 DIMER. 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: 2550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 68 REMARK 465 ASN A 69 REMARK 465 ALA A 70 REMARK 465 PRO A 322 REMARK 465 GLU A 323 REMARK 465 GLU A 324 REMARK 465 ARG A 325 REMARK 465 PRO A 326 REMARK 465 THR A 327 REMARK 465 ILE A 341 REMARK 465 ASN A 342 REMARK 465 SER B 68 REMARK 465 ASN B 69 REMARK 465 ALA B 70 REMARK 465 GLY B 320 REMARK 465 ARG B 325 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 TYR A 71 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 PHE A 81 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 98 CG CD CE NZ REMARK 470 TYR A 101 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 102 CG CD OE1 NE2 REMARK 470 ARG A 126 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 139 CG CD OE1 NE2 REMARK 470 ARG A 140 CG CD NE CZ NH1 NH2 REMARK 470 THR A 141 OG1 CG2 REMARK 470 LEU A 144 CG CD1 CD2 REMARK 470 LEU A 145 CG CD1 CD2 REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 GLU A 154 CG CD OE1 OE2 REMARK 470 LYS A 161 CG CD CE NZ REMARK 470 ILE A 167 CG1 CG2 CD1 REMARK 470 LYS A 309 CG CD CE NZ REMARK 470 LYS A 319 CG CD CE NZ REMARK 470 GLU A 321 CG CD OE1 OE2 REMARK 470 LYS A 332 CG CD CE NZ REMARK 470 TYR B 71 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LEU B 80 CG CD1 CD2 REMARK 470 PHE B 81 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN B 102 CG CD OE1 NE2 REMARK 470 LEU B 104 CG CD1 CD2 REMARK 470 GLU B 113 CG CD OE1 OE2 REMARK 470 GLN B 114 CG CD OE1 NE2 REMARK 470 LYS B 117 CG CD CE NZ REMARK 470 LEU B 118 CG CD1 CD2 REMARK 470 LEU B 119 CG CD1 CD2 REMARK 470 SER B 120 OG REMARK 470 LEU B 123 CG CD1 CD2 REMARK 470 GLU B 124 CG CD OE1 OE2 REMARK 470 ARG B 126 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 136 CG CD OE1 OE2 REMARK 470 GLN B 139 CG CD OE1 NE2 REMARK 470 ARG B 140 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 143 CG CD OE1 NE2 REMARK 470 LEU B 144 CG CD1 CD2 REMARK 470 LEU B 145 CG CD1 CD2 REMARK 470 GLU B 146 CG CD OE1 OE2 REMARK 470 ASN B 149 CG OD1 REMARK 470 LYS B 161 CG CD CE NZ REMARK 470 LEU B 165 CG CD1 CD2 REMARK 470 GLU B 304 CG CD OE1 OE2 REMARK 470 LYS B 313 CG CD CE NZ REMARK 470 LEU B 315 CG CD1 CD2 REMARK 470 HIS B 316 CG ND1 CD2 CE1 NE2 REMARK 470 ILE B 318 CG1 CG2 CD1 REMARK 470 LYS B 319 CG CD CE NZ REMARK 470 GLU B 321 CG CD OE1 OE2 REMARK 470 PRO B 322 CG CD REMARK 470 GLU B 323 CG CD OE1 OE2 REMARK 470 GLU B 324 CG CD OE1 OE2 REMARK 470 PRO B 326 CG CD 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 PRO A 78 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 PRO B 220 C - N - CA ANGL. DEV. = 14.2 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 SER A 91 -38.70 -35.73 REMARK 500 ALA A 99 58.98 -112.50 REMARK 500 TYR A 110 -2.55 77.21 REMARK 500 ARG A 126 99.80 -49.30 REMARK 500 ALA A 128 77.15 40.89 REMARK 500 ARG A 140 27.05 -68.73 REMARK 500 THR A 141 -24.62 -159.52 REMARK 500 GLU A 146 30.47 -73.19 REMARK 500 ALA A 147 -69.82 -131.83 REMARK 500 SER A 148 2.18 -57.36 REMARK 500 ASN A 149 56.19 33.20 REMARK 500 ALA A 156 169.32 169.08 REMARK 500 ALA A 162 -0.72 61.65 REMARK 500 ARG A 196 6.14 80.87 REMARK 500 ASN A 198 -4.05 73.99 REMARK 500 GLU A 215 -39.16 -35.26 REMARK 500 GLU A 284 83.15 -156.65 REMARK 500 SER A 287 -17.91 -32.88 REMARK 500 SER A 295 -179.05 -46.01 REMARK 500 LYS A 334 101.20 -57.39 REMARK 500 SER A 338 14.43 -58.03 REMARK 500 LYS B 83 -53.64 -28.90 REMARK 500 ASP B 109 81.69 -45.44 REMARK 500 TYR B 110 52.47 28.26 REMARK 500 GLU B 116 -71.22 -58.82 REMARK 500 GLU B 124 2.10 -66.81 REMARK 500 SER B 125 -67.22 -106.75 REMARK 500 PRO B 127 -103.22 -62.87 REMARK 500 ALA B 128 -140.76 47.48 REMARK 500 HIS B 137 -157.75 -144.81 REMARK 500 GLN B 143 -79.89 -68.64 REMARK 500 ASN B 149 -2.93 54.24 REMARK 500 LYS B 161 95.89 31.88 REMARK 500 ALA B 162 -50.26 -26.08 REMARK 500 SER B 163 44.68 -85.03 REMARK 500 ARG B 196 54.14 37.49 REMARK 500 PRO B 220 44.87 -98.67 REMARK 500 ASP B 246 112.86 -166.29 REMARK 500 LEU B 249 137.18 -34.84 REMARK 500 GLU B 284 69.62 -161.68 REMARK 500 ASP B 302 79.94 -115.92 REMARK 500 THR B 327 66.69 -155.44 REMARK 500 LYS B 334 101.57 -59.93 REMARK 500 ARG B 336 -157.34 -128.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 TYR A 164 24.7 L L OUTSIDE RANGE REMARK 500 THR B 179 22.5 L L OUTSIDE RANGE REMARK 500 ASN B 189 20.6 L L OUTSIDE RANGE REMARK 500 LEU B 296 24.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC91343.1 RELATED DB: TARGETDB DBREF 3D8U A 71 342 UNP Q87JL7 Q87JL7_VIBPA 71 342 DBREF 3D8U B 71 342 UNP Q87JL7 Q87JL7_VIBPA 71 342 SEQADV 3D8U SER A 68 UNP Q87JL7 EXPRESSION TAG SEQADV 3D8U ASN A 69 UNP Q87JL7 EXPRESSION TAG SEQADV 3D8U ALA A 70 UNP Q87JL7 EXPRESSION TAG SEQADV 3D8U SER B 68 UNP Q87JL7 EXPRESSION TAG SEQADV 3D8U ASN B 69 UNP Q87JL7 EXPRESSION TAG SEQADV 3D8U ALA B 70 UNP Q87JL7 EXPRESSION TAG SEQRES 1 A 275 SER ASN ALA TYR SER ILE ALA LEU ILE ILE PRO SER LEU SEQRES 2 A 275 PHE GLU LYS ALA CYS ALA HIS PHE LEU PRO SER PHE GLN SEQRES 3 A 275 GLN ALA LEU ASN LYS ALA GLY TYR GLN LEU LEU LEU GLY SEQRES 4 A 275 TYR SER ASP TYR SER ILE GLU GLN GLU GLU LYS LEU LEU SEQRES 5 A 275 SER THR PHE LEU GLU SER ARG PRO ALA GLY VAL VAL LEU SEQRES 6 A 275 PHE GLY SER GLU HIS SER GLN ARG THR HIS GLN LEU LEU SEQRES 7 A 275 GLU ALA SER ASN THR PRO VAL LEU GLU ILE ALA GLU LEU SEQRES 8 A 275 SER SER LYS ALA SER TYR LEU ASN ILE GLY VAL ASP HIS SEQRES 9 A 275 PHE GLU VAL GLY LYS ALA CYS THR ARG HIS LEU ILE GLU SEQRES 10 A 275 GLN GLY PHE LYS ASN VAL GLY PHE ILE GLY ALA ARG GLY SEQRES 11 A 275 ASN HIS SER THR LEU GLN ARG GLN LEU HIS GLY TRP GLN SEQRES 12 A 275 SER ALA MSE ILE GLU ASN TYR LEU THR PRO ASP HIS PHE SEQRES 13 A 275 LEU THR THR HIS GLU ALA PRO SER SER GLN LEU GLY ALA SEQRES 14 A 275 GLU GLY LEU ALA LYS LEU LEU LEU ARG ASP SER SER LEU SEQRES 15 A 275 ASN ALA LEU VAL CYS SER HIS GLU GLU ILE ALA ILE GLY SEQRES 16 A 275 ALA LEU PHE GLU CYS HIS ARG ARG VAL LEU LYS VAL PRO SEQRES 17 A 275 THR ASP ILE ALA ILE ILE CYS LEU GLU GLY SER SER MSE SEQRES 18 A 275 GLY GLU HIS ALA TYR PRO SER LEU THR SER ALA GLU PHE SEQRES 19 A 275 ASP TYR GLU ARG MSE GLY THR LYS ALA ALA GLU LYS LEU SEQRES 20 A 275 LEU HIS ALA ILE LYS GLY GLU PRO GLU GLU ARG PRO THR SEQRES 21 A 275 SER MSE GLY PHE LYS LEU LYS ARG ARG ALA SER THR ALA SEQRES 22 A 275 ILE ASN SEQRES 1 B 275 SER ASN ALA TYR SER ILE ALA LEU ILE ILE PRO SER LEU SEQRES 2 B 275 PHE GLU LYS ALA CYS ALA HIS PHE LEU PRO SER PHE GLN SEQRES 3 B 275 GLN ALA LEU ASN LYS ALA GLY TYR GLN LEU LEU LEU GLY SEQRES 4 B 275 TYR SER ASP TYR SER ILE GLU GLN GLU GLU LYS LEU LEU SEQRES 5 B 275 SER THR PHE LEU GLU SER ARG PRO ALA GLY VAL VAL LEU SEQRES 6 B 275 PHE GLY SER GLU HIS SER GLN ARG THR HIS GLN LEU LEU SEQRES 7 B 275 GLU ALA SER ASN THR PRO VAL LEU GLU ILE ALA GLU LEU SEQRES 8 B 275 SER SER LYS ALA SER TYR LEU ASN ILE GLY VAL ASP HIS SEQRES 9 B 275 PHE GLU VAL GLY LYS ALA CYS THR ARG HIS LEU ILE GLU SEQRES 10 B 275 GLN GLY PHE LYS ASN VAL GLY PHE ILE GLY ALA ARG GLY SEQRES 11 B 275 ASN HIS SER THR LEU GLN ARG GLN LEU HIS GLY TRP GLN SEQRES 12 B 275 SER ALA MSE ILE GLU ASN TYR LEU THR PRO ASP HIS PHE SEQRES 13 B 275 LEU THR THR HIS GLU ALA PRO SER SER GLN LEU GLY ALA SEQRES 14 B 275 GLU GLY LEU ALA LYS LEU LEU LEU ARG ASP SER SER LEU SEQRES 15 B 275 ASN ALA LEU VAL CYS SER HIS GLU GLU ILE ALA ILE GLY SEQRES 16 B 275 ALA LEU PHE GLU CYS HIS ARG ARG VAL LEU LYS VAL PRO SEQRES 17 B 275 THR ASP ILE ALA ILE ILE CYS LEU GLU GLY SER SER MSE SEQRES 18 B 275 GLY GLU HIS ALA TYR PRO SER LEU THR SER ALA GLU PHE SEQRES 19 B 275 ASP TYR GLU ARG MSE GLY THR LYS ALA ALA GLU LYS LEU SEQRES 20 B 275 LEU HIS ALA ILE LYS GLY GLU PRO GLU GLU ARG PRO THR SEQRES 21 B 275 SER MSE GLY PHE LYS LEU LYS ARG ARG ALA SER THR ALA SEQRES 22 B 275 ILE ASN MODRES 3D8U MSE A 213 MET SELENOMETHIONINE MODRES 3D8U MSE A 288 MET SELENOMETHIONINE MODRES 3D8U MSE A 306 MET SELENOMETHIONINE MODRES 3D8U MSE A 329 MET SELENOMETHIONINE MODRES 3D8U MSE B 213 MET SELENOMETHIONINE MODRES 3D8U MSE B 288 MET SELENOMETHIONINE MODRES 3D8U MSE B 306 MET SELENOMETHIONINE MODRES 3D8U MSE B 329 MET SELENOMETHIONINE HET MSE A 213 8 HET MSE A 288 8 HET MSE A 306 8 HET MSE A 329 8 HET MSE B 213 8 HET MSE B 288 8 HET MSE B 306 8 HET MSE B 329 13 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 8(C5 H11 N O2 SE) HELIX 1 1 GLU A 82 ALA A 99 1 18 HELIX 2 2 SER A 111 GLU A 124 1 14 HELIX 3 3 SER A 138 ASN A 149 1 12 HELIX 4 4 ASP A 170 GLU A 184 1 15 HELIX 5 5 HIS A 199 ASN A 216 1 18 HELIX 6 6 SER A 231 LEU A 244 1 14 HELIX 7 7 HIS A 256 ARG A 270 1 15 HELIX 8 8 SER A 286 HIS A 291 1 6 HELIX 9 9 ASP A 302 LYS A 319 1 18 HELIX 10 10 GLU B 82 GLY B 100 1 19 HELIX 11 11 SER B 111 GLU B 124 1 14 HELIX 12 12 SER B 138 SER B 148 1 11 HELIX 13 13 ASP B 170 GLN B 185 1 16 HELIX 14 14 HIS B 199 ASN B 216 1 18 HELIX 15 15 SER B 231 ASP B 246 1 16 HELIX 16 16 HIS B 256 VAL B 271 1 16 HELIX 17 17 SER B 286 HIS B 291 1 6 HELIX 18 18 ASP B 302 LYS B 319 1 18 HELIX 19 19 ARG B 336 ALA B 340 5 5 SHEET 1 A 3 GLN A 102 LEU A 103 0 SHEET 2 A 3 SER A 72 ILE A 77 1 N ILE A 73 O GLN A 102 SHEET 3 A 3 GLY A 106 TYR A 107 1 O GLY A 106 N ILE A 77 SHEET 1 B 5 GLN A 102 LEU A 103 0 SHEET 2 B 5 SER A 72 ILE A 77 1 N ILE A 73 O GLN A 102 SHEET 3 B 5 VAL A 130 PHE A 133 1 O VAL A 131 N ALA A 74 SHEET 4 B 5 VAL A 152 ILE A 155 1 O ILE A 155 N LEU A 132 SHEET 5 B 5 LEU A 165 ILE A 167 1 O ILE A 167 N GLU A 154 SHEET 1 C 6 PHE A 223 THR A 225 0 SHEET 2 C 6 VAL A 190 GLY A 194 1 N PHE A 192 O LEU A 224 SHEET 3 C 6 ALA A 251 CYS A 254 1 O VAL A 253 N ILE A 193 SHEET 4 C 6 ALA A 279 CYS A 282 1 O ILE A 281 N LEU A 252 SHEET 5 C 6 THR A 297 GLU A 300 1 O THR A 297 N CYS A 282 SHEET 6 C 6 LYS A 332 LYS A 334 -1 O LYS A 332 N GLU A 300 SHEET 1 D 5 LEU B 103 TYR B 107 0 SHEET 2 D 5 ILE B 73 ILE B 77 1 N ILE B 77 O GLY B 106 SHEET 3 D 5 VAL B 130 PHE B 133 1 O VAL B 131 N ALA B 74 SHEET 4 D 5 VAL B 152 ILE B 155 1 O ILE B 155 N LEU B 132 SHEET 5 D 5 LEU B 165 ILE B 167 1 O LEU B 165 N GLU B 154 SHEET 1 E 4 PHE B 223 THR B 226 0 SHEET 2 E 4 VAL B 190 ALA B 195 1 N GLY B 194 O LEU B 224 SHEET 3 E 4 ALA B 251 CYS B 254 1 O ALA B 251 N GLY B 191 SHEET 4 E 4 ALA B 279 CYS B 282 1 O ILE B 281 N CYS B 254 SHEET 1 F 2 SER B 298 GLU B 300 0 SHEET 2 F 2 LYS B 332 LYS B 334 -1 O LYS B 332 N GLU B 300 LINK C ALA A 212 N MSE A 213 1555 1555 1.33 LINK C MSE A 213 N ILE A 214 1555 1555 1.32 LINK C SER A 287 N MSE A 288 1555 1555 1.32 LINK C MSE A 288 N GLY A 289 1555 1555 1.33 LINK C ARG A 305 N MSE A 306 1555 1555 1.33 LINK C MSE A 306 N GLY A 307 1555 1555 1.34 LINK C SER A 328 N MSE A 329 1555 1555 1.33 LINK C MSE A 329 N GLY A 330 1555 1555 1.33 LINK C ALA B 212 N MSE B 213 1555 1555 1.35 LINK C MSE B 213 N ILE B 214 1555 1555 1.33 LINK C SER B 287 N MSE B 288 1555 1555 1.33 LINK C MSE B 288 N GLY B 289 1555 1555 1.33 LINK C ARG B 305 N MSE B 306 1555 1555 1.33 LINK C MSE B 306 N GLY B 307 1555 1555 1.33 LINK C SER B 328 N MSE B 329 1555 1555 1.33 LINK C MSE B 329 N GLY B 330 1555 1555 1.33 CISPEP 1 VAL A 274 PRO A 275 0 21.86 CISPEP 2 TYR A 293 PRO A 294 0 -7.50 CISPEP 3 VAL B 274 PRO B 275 0 8.37 CISPEP 4 TYR B 293 PRO B 294 0 -9.69 CRYST1 126.264 126.264 83.760 90.00 90.00 120.00 P 31 2 1 12 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 0.007920 0.004573 0.000000 0.00000 SCALE2 0.000000 0.009145 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011939 0.00000 MASTER 509 0 8 19 25 0 0 6 0 0 0 44 END