HEADER TRANSCRIPTION 31-JUL-07 2QSX TITLE CRYSTAL STRUCTURE OF PUTATIVE TRANSCRIPTIONAL REGULATOR LYSR FROM TITLE 2 VIBRIO PARAHAEMOLYTICUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE TRANSCRIPTIONAL REGULATOR, LYSR FAMILY; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 82-296; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PARAHAEMOLYTICUS; SOURCE 3 ORGANISM_TAXID: 223926; SOURCE 4 STRAIN: RIMD 2210633; SOURCE 5 GENE: VP0635; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PDM68 KEYWDS THE PUTATIVE TRANSCRIPTIONAL REGULATOR, LYSR FAMILY, PSI-2, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, MCSG, STRUCTURAL GENOMICS, MIDWEST CENTER FOR KEYWDS 3 STRUCTURAL GENOMICS, DNA-BINDING, TRANSCRIPTION REGULATION, KEYWDS 4 TRANSCRIPTION EXPDTA X-RAY DIFFRACTION AUTHOR R.WU,J.ABDULLAH,T.A.BINKOWSKI,A.JOACHIMIAK,MIDWEST CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS (MCSG) REVDAT 3 13-JUL-11 2QSX 1 VERSN REVDAT 2 24-FEB-09 2QSX 1 VERSN REVDAT 1 04-SEP-07 2QSX 0 JRNL AUTH R.WU,J.ABDULLAH,T.A.BINKOWSKI,A.JOACHIMIAK JRNL TITL THE CRYSTAL STRUCTURE OF PUTATIVE TRANSCRIPTIONAL REGULATOR JRNL TITL 2 LYSR FROM VIBRIO PARAHAEMOLYTICUS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.64 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 WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 62.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 44335 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2367 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) : 1.64 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3158 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.38 REMARK 3 BIN R VALUE (WORKING SET) : 0.2710 REMARK 3 BIN FREE R VALUE SET COUNT : 173 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2982 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 257 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 20.53 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.52000 REMARK 3 B22 (A**2) : -0.43000 REMARK 3 B33 (A**2) : 0.96000 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): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.110 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.078 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.355 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3161 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4311 ; 1.526 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 375 ; 8.562 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;38.317 ;23.766 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 520 ;14.933 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;17.288 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 476 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2422 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1440 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2138 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 251 ; 0.200 ; 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): 53 ; 0.233 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 12 ; 0.139 ; 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): 1920 ; 0.958 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3051 ; 1.506 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1404 ; 2.086 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1260 ; 3.130 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 16 A 80 REMARK 3 RESIDUE RANGE : A 81 A 160 REMARK 3 RESIDUE RANGE : A 161 A 212 REMARK 3 RESIDUE RANGE : B 17 B 80 REMARK 3 RESIDUE RANGE : B 81 B 160 REMARK 3 RESIDUE RANGE : B 161 B 212 REMARK 3 ORIGIN FOR THE GROUP (A): 29.9159 40.7337 18.8210 REMARK 3 T TENSOR REMARK 3 T11: -0.0478 T22: -0.0675 REMARK 3 T33: -0.0629 T12: 0.0098 REMARK 3 T13: 0.0326 T23: 0.0188 REMARK 3 L TENSOR REMARK 3 L11: 1.3759 L22: 0.8325 REMARK 3 L33: 0.5665 L12: 0.1027 REMARK 3 L13: 0.0183 L23: 0.2012 REMARK 3 S TENSOR REMARK 3 S11: 0.0549 S12: 0.0315 S13: 0.0329 REMARK 3 S21: 0.1142 S22: 0.0104 S23: 0.0190 REMARK 3 S31: -0.0093 S32: 0.0232 S33: -0.0653 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 2QSX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-AUG-07. REMARK 100 THE RCSB ID CODE IS RCSB044014. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-FEB-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97980 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS 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 : 45578 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 62.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 8.600 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 8.70 REMARK 200 R MERGE FOR SHELL (I) : 0.39000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES NA PH 6.5, 0.8 M MAGNESIUM REMARK 280 SULFATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.64550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.75450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.55500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.75450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.64550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.55500 REMARK 290 SMTRY3 4 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 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: 3110 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 REMARK 465 ILE A 1 REMARK 465 GLN A 2 REMARK 465 HIS A 3 REMARK 465 ALA A 4 REMARK 465 THR A 5 REMARK 465 ALA A 6 REMARK 465 SER A 7 REMARK 465 LEU A 8 REMARK 465 ILE A 9 REMARK 465 GLN A 10 REMARK 465 THR A 11 REMARK 465 ASN A 12 REMARK 465 THR A 13 REMARK 465 ASP A 14 REMARK 465 GLN A 15 REMARK 465 LYS A 57 REMARK 465 ASN A 58 REMARK 465 ILE A 59 REMARK 465 HIS A 60 REMARK 465 GLY A 61 REMARK 465 LYS A 97 REMARK 465 LEU A 98 REMARK 465 SER A 99 REMARK 465 ASP A 100 REMARK 465 ASN A 101 REMARK 465 GLN A 102 REMARK 465 ALA A 103 REMARK 465 ASP A 127 REMARK 465 LEU A 128 REMARK 465 GLU A 129 REMARK 465 CYS A 130 REMARK 465 PRO A 131 REMARK 465 HIS A 213 REMARK 465 HIS A 214 REMARK 465 THR A 215 REMARK 465 SER B -2 REMARK 465 ASN B -1 REMARK 465 ALA B 0 REMARK 465 ILE B 1 REMARK 465 GLN B 2 REMARK 465 HIS B 3 REMARK 465 ALA B 4 REMARK 465 THR B 5 REMARK 465 ALA B 6 REMARK 465 SER B 7 REMARK 465 LEU B 8 REMARK 465 ILE B 9 REMARK 465 GLN B 10 REMARK 465 THR B 11 REMARK 465 ASN B 12 REMARK 465 THR B 13 REMARK 465 ASP B 14 REMARK 465 GLN B 15 REMARK 465 GLU B 16 REMARK 465 LYS B 57 REMARK 465 ASN B 58 REMARK 465 ILE B 59 REMARK 465 HIS B 60 REMARK 465 LEU B 98 REMARK 465 SER B 99 REMARK 465 ASP B 100 REMARK 465 LEU B 128 REMARK 465 GLU B 129 REMARK 465 CYS B 130 REMARK 465 PRO B 131 REMARK 465 HIS B 213 REMARK 465 HIS B 214 REMARK 465 THR B 215 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 261 O HOH A 353 1.59 REMARK 500 O HOH B 252 O HOH B 335 1.76 REMARK 500 O HOH A 253 O HOH A 353 1.95 REMARK 500 OE1 GLU B 84 O HOH B 323 2.07 REMARK 500 ND2 ASN A 94 O HOH A 348 2.12 REMARK 500 OD1 ASN B 36 O HOH B 304 2.19 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 GLY A 138 N GLY A 138 CA 0.092 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 GLU B 77 N - CA - C ANGL. DEV. = -27.7 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 TRP A 30 -51.16 -126.39 REMARK 500 ASP A 53 14.64 -146.00 REMARK 500 THR A 133 89.70 68.84 REMARK 500 TRP B 30 -52.04 -128.51 REMARK 500 ASN B 126 -147.62 -155.23 REMARK 500 ASN B 177 25.53 49.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 VAL A 137 GLY A 138 148.73 REMARK 500 TYR B 76 GLU B 77 -105.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 301 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH B 310 DISTANCE = 5.06 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC90902.1 RELATED DB: TARGETDB DBREF 2QSX A 1 215 UNP Q87RY9 Q87RY9_VIBPA 82 296 DBREF 2QSX B 1 215 UNP Q87RY9 Q87RY9_VIBPA 82 296 SEQADV 2QSX SER A -2 UNP Q87RY9 EXPRESSION TAG SEQADV 2QSX ASN A -1 UNP Q87RY9 EXPRESSION TAG SEQADV 2QSX ALA A 0 UNP Q87RY9 EXPRESSION TAG SEQADV 2QSX SER B -2 UNP Q87RY9 EXPRESSION TAG SEQADV 2QSX ASN B -1 UNP Q87RY9 EXPRESSION TAG SEQADV 2QSX ALA B 0 UNP Q87RY9 EXPRESSION TAG SEQRES 1 A 218 SER ASN ALA ILE GLN HIS ALA THR ALA SER LEU ILE GLN SEQRES 2 A 218 THR ASN THR ASP GLN GLU LEU LEU VAL VAL ASP VAL THR SEQRES 3 A 218 PRO SER PHE ALA SER LEU TRP LEU VAL PRO ASN ILE ASN SEQRES 4 A 218 ASP PHE HIS GLN ARG HIS PRO ASN ILE ARG VAL LYS ILE SEQRES 5 A 218 LEU THR GLY ASP GLY ALA VAL LYS ASN ILE HIS GLY GLU SEQRES 6 A 218 SER ASP LEU HIS VAL ARG CYS LEU PRO LEU SER THR HIS SEQRES 7 A 218 TYR GLU TYR SER GLN LEU LEU CYS GLU GLU THR LEU LEU SEQRES 8 A 218 LEU ILE GLY ASN THR ASN LEU PRO LYS LEU SER ASP ASN SEQRES 9 A 218 GLN ALA ILE SER HIS TYR PRO PHE ILE PRO GLN THR THR SEQRES 10 A 218 ARG PRO GLN LEU TRP GLU GLN PHE LYS GLN GLU ASN ASP SEQRES 11 A 218 LEU GLU CYS PRO ILE THR TYR HIS SER VAL GLY PHE GLU SEQRES 12 A 218 HIS PHE TYR LEU ALA CYS GLU ALA VAL ARG MSE GLU LYS SEQRES 13 A 218 GLY LEU ALA LEU LEU PRO ASP PHE MSE ALA GLN PHE SER SEQRES 14 A 218 ILE LEU ARG GLY ASP ILE GLN HIS ILE GLY ASN LEU LYS SEQRES 15 A 218 LEU HIS SER GLY TYR GLY TYR TYR VAL VAL ILE PRO ASN SEQRES 16 A 218 PHE ARG LEU THR SER ARG LYS VAL ALA LEU PHE HIS ASP SEQRES 17 A 218 TRP LEU LYS ASP LYS LEU THR HIS HIS THR SEQRES 1 B 218 SER ASN ALA ILE GLN HIS ALA THR ALA SER LEU ILE GLN SEQRES 2 B 218 THR ASN THR ASP GLN GLU LEU LEU VAL VAL ASP VAL THR SEQRES 3 B 218 PRO SER PHE ALA SER LEU TRP LEU VAL PRO ASN ILE ASN SEQRES 4 B 218 ASP PHE HIS GLN ARG HIS PRO ASN ILE ARG VAL LYS ILE SEQRES 5 B 218 LEU THR GLY ASP GLY ALA VAL LYS ASN ILE HIS GLY GLU SEQRES 6 B 218 SER ASP LEU HIS VAL ARG CYS LEU PRO LEU SER THR HIS SEQRES 7 B 218 TYR GLU TYR SER GLN LEU LEU CYS GLU GLU THR LEU LEU SEQRES 8 B 218 LEU ILE GLY ASN THR ASN LEU PRO LYS LEU SER ASP ASN SEQRES 9 B 218 GLN ALA ILE SER HIS TYR PRO PHE ILE PRO GLN THR THR SEQRES 10 B 218 ARG PRO GLN LEU TRP GLU GLN PHE LYS GLN GLU ASN ASP SEQRES 11 B 218 LEU GLU CYS PRO ILE THR TYR HIS SER VAL GLY PHE GLU SEQRES 12 B 218 HIS PHE TYR LEU ALA CYS GLU ALA VAL ARG MSE GLU LYS SEQRES 13 B 218 GLY LEU ALA LEU LEU PRO ASP PHE MSE ALA GLN PHE SER SEQRES 14 B 218 ILE LEU ARG GLY ASP ILE GLN HIS ILE GLY ASN LEU LYS SEQRES 15 B 218 LEU HIS SER GLY TYR GLY TYR TYR VAL VAL ILE PRO ASN SEQRES 16 B 218 PHE ARG LEU THR SER ARG LYS VAL ALA LEU PHE HIS ASP SEQRES 17 B 218 TRP LEU LYS ASP LYS LEU THR HIS HIS THR MODRES 2QSX MSE A 151 MET SELENOMETHIONINE MODRES 2QSX MSE A 162 MET SELENOMETHIONINE MODRES 2QSX MSE B 151 MET SELENOMETHIONINE MODRES 2QSX MSE B 162 MET SELENOMETHIONINE HET MSE A 151 8 HET MSE A 162 8 HET MSE B 151 8 HET MSE B 162 8 HET SO4 B 216 5 HET SO4 A 216 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 3 SO4 2(O4 S 2-) FORMUL 5 HOH *257(H2 O) HELIX 1 1 THR A 23 TRP A 30 1 8 HELIX 2 2 TRP A 30 HIS A 42 1 13 HELIX 3 3 GLN A 117 GLN A 124 1 8 HELIX 4 4 HIS A 141 MSE A 151 1 11 HELIX 5 5 ASP A 160 ARG A 169 1 10 HELIX 6 6 SER A 197 THR A 212 1 16 HELIX 7 7 THR B 23 TRP B 30 1 8 HELIX 8 8 TRP B 30 HIS B 42 1 13 HELIX 9 9 GLN B 102 TYR B 107 5 6 HELIX 10 10 PRO B 116 ASN B 126 1 11 HELIX 11 11 HIS B 141 MSE B 151 1 11 HELIX 12 12 ASP B 160 ARG B 169 1 10 HELIX 13 13 PRO B 191 LEU B 195 5 5 HELIX 14 14 SER B 197 THR B 212 1 16 SHEET 1 A 7 ALA A 156 PRO A 159 0 SHEET 2 A 7 SER A 79 ASN A 92 -1 N LEU A 88 O LEU A 158 SHEET 3 A 7 ILE A 172 VAL A 189 -1 O TYR A 186 N LEU A 82 SHEET 4 A 7 LEU A 65 PRO A 71 -1 N ARG A 68 O TYR A 187 SHEET 5 A 7 LEU A 17 VAL A 22 1 N ASP A 21 O LEU A 65 SHEET 6 A 7 ARG A 46 THR A 51 1 O LEU A 50 N VAL A 20 SHEET 7 A 7 VAL B 137 PHE B 139 1 O GLY B 138 N ILE A 49 SHEET 1 B 6 VAL B 47 THR B 51 0 SHEET 2 B 6 LEU B 18 VAL B 22 1 N VAL B 20 O LEU B 50 SHEET 3 B 6 LEU B 65 PRO B 71 1 O VAL B 67 N ASP B 21 SHEET 4 B 6 GLN B 173 VAL B 189 -1 O TYR B 187 N ARG B 68 SHEET 5 B 6 SER B 79 GLY B 91 -1 N LEU B 82 O TYR B 186 SHEET 6 B 6 ALA B 156 PRO B 159 -1 O ALA B 156 N ILE B 90 LINK C ARG A 150 N MSE A 151 1555 1555 1.33 LINK C MSE A 151 N GLU A 152 1555 1555 1.33 LINK C PHE A 161 N MSE A 162 1555 1555 1.33 LINK C MSE A 162 N ALA A 163 1555 1555 1.32 LINK C ARG B 150 N MSE B 151 1555 1555 1.34 LINK C MSE B 151 N GLU B 152 1555 1555 1.33 LINK C PHE B 161 N MSE B 162 1555 1555 1.34 LINK C MSE B 162 N ALA B 163 1555 1555 1.33 CISPEP 1 GLY A 138 PHE A 139 0 9.31 CRYST1 47.291 83.110 95.509 90.00 90.00 90.00 P 21 21 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 0.021146 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012032 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010470 0.00000