HEADER TRANSCRIPTION REGULATOR 15-JAN-08 3BY6 TITLE CRYSTAL STRUCTURE OF A TRANSCRIPTIONAL REGULATOR FROM OENOCOCCUS OENI COMPND MOL_ID: 1; COMPND 2 MOLECULE: PREDICTED TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A, B, C, D, E; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: OENOCOCCUS OENI; SOURCE 3 ORGANISM_TAXID: 203123; SOURCE 4 STRAIN: PSU-1; SOURCE 5 ATCC: BAA-331; SOURCE 6 GENE: GI:116491763, OEOE_1803; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PDM68 KEYWDS TRANSCRIPTIONAL REGULATOR, STRUCTURAL GENOMICS, PSI-2, MCSG, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, DNA- KEYWDS 3 BINDING, TRANSCRIPTION REGULATION, TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR R.ZHANG,L.VOLKART,M.GU,A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (MCSG) REVDAT 4 21-FEB-24 3BY6 1 REMARK SEQADV REVDAT 3 13-JUL-11 3BY6 1 VERSN REVDAT 2 24-FEB-09 3BY6 1 VERSN REVDAT 1 19-FEB-08 3BY6 0 JRNL AUTH R.ZHANG,L.VOLKART,M.GU,A.JOACHIMIAK JRNL TITL THE CRYSTAL STRUCTURE OF A TRANSCRIPTIONAL REGULATOR FROM JRNL TITL 2 OENOCOCCUS OENI. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 51521 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) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2778 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3412 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2890 REMARK 3 BIN FREE R VALUE SET COUNT : 169 REMARK 3 BIN FREE R VALUE : 0.3680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4630 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 144 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 40.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.93000 REMARK 3 B22 (A**2) : 0.61000 REMARK 3 B33 (A**2) : -4.79000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.82000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.207 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.191 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.176 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.781 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4658 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3209 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6280 ; 1.515 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7950 ; 0.987 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 597 ; 6.008 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 192 ;36.524 ;26.042 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 935 ;17.403 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.060 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 772 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5055 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 767 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1121 ; 0.228 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3133 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2352 ; 0.170 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2378 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 161 ; 0.164 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.547 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 26 ; 0.179 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 75 ; 0.218 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.234 ; 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): 3162 ; 0.889 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1214 ; 0.160 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4853 ; 1.442 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1739 ; 2.113 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1427 ; 3.367 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 15 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -1 A 40 REMARK 3 RESIDUE RANGE : A 41 A 80 REMARK 3 RESIDUE RANGE : A 81 A 117 REMARK 3 RESIDUE RANGE : B 0 B 40 REMARK 3 RESIDUE RANGE : B 41 B 80 REMARK 3 RESIDUE RANGE : B 81 B 117 REMARK 3 RESIDUE RANGE : C 0 C 40 REMARK 3 RESIDUE RANGE : C 41 C 80 REMARK 3 RESIDUE RANGE : C 81 C 117 REMARK 3 RESIDUE RANGE : D 0 D 40 REMARK 3 RESIDUE RANGE : D 41 D 80 REMARK 3 RESIDUE RANGE : D 81 D 117 REMARK 3 RESIDUE RANGE : E -1 E 40 REMARK 3 RESIDUE RANGE : E 41 E 80 REMARK 3 RESIDUE RANGE : E 81 E 119 REMARK 3 ORIGIN FOR THE GROUP (A): 20.8360 58.8940 26.8560 REMARK 3 T TENSOR REMARK 3 T11: 0.0626 T22: 0.0554 REMARK 3 T33: -0.1045 T12: -0.0305 REMARK 3 T13: -0.0741 T23: 0.0060 REMARK 3 L TENSOR REMARK 3 L11: 0.1834 L22: 0.1857 REMARK 3 L33: 0.7867 L12: -0.1054 REMARK 3 L13: 0.3037 L23: 0.0138 REMARK 3 S TENSOR REMARK 3 S11: -0.0732 S12: 0.0687 S13: 0.0285 REMARK 3 S21: 0.0272 S22: 0.0131 S23: 0.0567 REMARK 3 S31: -0.0207 S32: 0.1967 S33: 0.0601 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 3BY6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JAN-08. REMARK 100 THE DEPOSITION ID IS D_1000046103. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-07 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 : 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) : 0.9794, 0.9796 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 : 51521 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 64.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.07300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.4800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.30900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.260 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M NACL, 0.1M TRIS-HCL, 30% PEG REMARK 280 3000, PH 7.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 41.71700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.94650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 41.71700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 51.94650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: 3700 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3900 ANGSTROM**2 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 350 APPLY THE FOLLOWING TO CHAINS: E REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 41.71700 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 51.94650 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 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: 3430 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 BIOMT1 2 -1.000000 0.000000 0.000000 54.21228 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 128.10235 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 PHE A -2 REMARK 465 GLY A 118 REMARK 465 LYS A 119 REMARK 465 ASN A 120 REMARK 465 ALA A 121 REMARK 465 GLU A 122 REMARK 465 ASN A 123 REMARK 465 PHE B -2 REMARK 465 GLN B -1 REMARK 465 GLY B 118 REMARK 465 LYS B 119 REMARK 465 ASN B 120 REMARK 465 ALA B 121 REMARK 465 GLU B 122 REMARK 465 ASN B 123 REMARK 465 GLY C 118 REMARK 465 LYS C 119 REMARK 465 ASN C 120 REMARK 465 ALA C 121 REMARK 465 GLU C 122 REMARK 465 ASN C 123 REMARK 465 PHE D -2 REMARK 465 ASN D 120 REMARK 465 ALA D 121 REMARK 465 GLU D 122 REMARK 465 ASN D 123 REMARK 465 PHE E -2 REMARK 465 ASN E 123 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 ARG A 36 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 LEU A 56 CA - CB - CG ANGL. DEV. = 15.3 DEGREES REMARK 500 LEU B 56 CA - CB - CG ANGL. DEV. = 15.2 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 THR A 73 158.07 -45.37 REMARK 500 ALA C 28 127.16 -36.86 REMARK 500 THR D 73 153.34 -48.08 REMARK 500 ASN D 75 51.43 -90.31 REMARK 500 THR E 73 163.83 -41.63 REMARK 500 ALA E 96 -70.04 -52.55 REMARK 500 SER E 101 38.32 -144.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC89087 RELATED DB: TARGETDB DBREF 3BY6 A 1 123 UNP Q04D30 Q04D30_OENOB 1 123 DBREF 3BY6 B 1 123 UNP Q04D30 Q04D30_OENOB 1 123 DBREF 3BY6 C 1 123 UNP Q04D30 Q04D30_OENOB 1 123 DBREF 3BY6 D 1 123 UNP Q04D30 Q04D30_OENOB 1 123 DBREF 3BY6 E 1 123 UNP Q04D30 Q04D30_OENOB 1 123 SEQADV 3BY6 PHE A -2 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 GLN A -1 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 ALA A 0 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 PHE B -2 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 GLN B -1 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 ALA B 0 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 PHE C -2 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 GLN C -1 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 ALA C 0 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 PHE D -2 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 GLN D -1 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 ALA D 0 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 PHE E -2 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 GLN E -1 UNP Q04D30 EXPRESSION TAG SEQADV 3BY6 ALA E 0 UNP Q04D30 EXPRESSION TAG SEQRES 1 A 126 PHE GLN ALA MET ALA ILE THR GLN LYS ARG PRO VAL TYR SEQRES 2 A 126 LEU GLN LEU VAL ASP ARG ILE LYS ASN GLU VAL ALA THR SEQRES 3 A 126 ASP VAL LEU SER ALA ASN ASP GLN LEU PRO SER VAL ARG SEQRES 4 A 126 GLU THR ALA LEU GLN GLU LYS ILE ASN PRO ASN THR VAL SEQRES 5 A 126 ALA LYS ALA TYR LYS GLU LEU GLU ALA GLN LYS VAL ILE SEQRES 6 A 126 ARG THR ILE PRO GLY LYS GLY THR PHE ILE THR GLY ASN SEQRES 7 A 126 THR ALA SER VAL LYS ASN SER ASN GLN ASN ARG LEU LEU SEQRES 8 A 126 ALA ASP LEU SER GLN VAL ILE ALA GLU LEU ILE LYS SER SEQRES 9 A 126 GLY VAL LYS GLY GLU ARG ILE LYS LYS ILE VAL ASN ASP SEQRES 10 A 126 ILE LEU GLY GLY LYS ASN ALA GLU ASN SEQRES 1 B 126 PHE GLN ALA MET ALA ILE THR GLN LYS ARG PRO VAL TYR SEQRES 2 B 126 LEU GLN LEU VAL ASP ARG ILE LYS ASN GLU VAL ALA THR SEQRES 3 B 126 ASP VAL LEU SER ALA ASN ASP GLN LEU PRO SER VAL ARG SEQRES 4 B 126 GLU THR ALA LEU GLN GLU LYS ILE ASN PRO ASN THR VAL SEQRES 5 B 126 ALA LYS ALA TYR LYS GLU LEU GLU ALA GLN LYS VAL ILE SEQRES 6 B 126 ARG THR ILE PRO GLY LYS GLY THR PHE ILE THR GLY ASN SEQRES 7 B 126 THR ALA SER VAL LYS ASN SER ASN GLN ASN ARG LEU LEU SEQRES 8 B 126 ALA ASP LEU SER GLN VAL ILE ALA GLU LEU ILE LYS SER SEQRES 9 B 126 GLY VAL LYS GLY GLU ARG ILE LYS LYS ILE VAL ASN ASP SEQRES 10 B 126 ILE LEU GLY GLY LYS ASN ALA GLU ASN SEQRES 1 C 126 PHE GLN ALA MET ALA ILE THR GLN LYS ARG PRO VAL TYR SEQRES 2 C 126 LEU GLN LEU VAL ASP ARG ILE LYS ASN GLU VAL ALA THR SEQRES 3 C 126 ASP VAL LEU SER ALA ASN ASP GLN LEU PRO SER VAL ARG SEQRES 4 C 126 GLU THR ALA LEU GLN GLU LYS ILE ASN PRO ASN THR VAL SEQRES 5 C 126 ALA LYS ALA TYR LYS GLU LEU GLU ALA GLN LYS VAL ILE SEQRES 6 C 126 ARG THR ILE PRO GLY LYS GLY THR PHE ILE THR GLY ASN SEQRES 7 C 126 THR ALA SER VAL LYS ASN SER ASN GLN ASN ARG LEU LEU SEQRES 8 C 126 ALA ASP LEU SER GLN VAL ILE ALA GLU LEU ILE LYS SER SEQRES 9 C 126 GLY VAL LYS GLY GLU ARG ILE LYS LYS ILE VAL ASN ASP SEQRES 10 C 126 ILE LEU GLY GLY LYS ASN ALA GLU ASN SEQRES 1 D 126 PHE GLN ALA MET ALA ILE THR GLN LYS ARG PRO VAL TYR SEQRES 2 D 126 LEU GLN LEU VAL ASP ARG ILE LYS ASN GLU VAL ALA THR SEQRES 3 D 126 ASP VAL LEU SER ALA ASN ASP GLN LEU PRO SER VAL ARG SEQRES 4 D 126 GLU THR ALA LEU GLN GLU LYS ILE ASN PRO ASN THR VAL SEQRES 5 D 126 ALA LYS ALA TYR LYS GLU LEU GLU ALA GLN LYS VAL ILE SEQRES 6 D 126 ARG THR ILE PRO GLY LYS GLY THR PHE ILE THR GLY ASN SEQRES 7 D 126 THR ALA SER VAL LYS ASN SER ASN GLN ASN ARG LEU LEU SEQRES 8 D 126 ALA ASP LEU SER GLN VAL ILE ALA GLU LEU ILE LYS SER SEQRES 9 D 126 GLY VAL LYS GLY GLU ARG ILE LYS LYS ILE VAL ASN ASP SEQRES 10 D 126 ILE LEU GLY GLY LYS ASN ALA GLU ASN SEQRES 1 E 126 PHE GLN ALA MET ALA ILE THR GLN LYS ARG PRO VAL TYR SEQRES 2 E 126 LEU GLN LEU VAL ASP ARG ILE LYS ASN GLU VAL ALA THR SEQRES 3 E 126 ASP VAL LEU SER ALA ASN ASP GLN LEU PRO SER VAL ARG SEQRES 4 E 126 GLU THR ALA LEU GLN GLU LYS ILE ASN PRO ASN THR VAL SEQRES 5 E 126 ALA LYS ALA TYR LYS GLU LEU GLU ALA GLN LYS VAL ILE SEQRES 6 E 126 ARG THR ILE PRO GLY LYS GLY THR PHE ILE THR GLY ASN SEQRES 7 E 126 THR ALA SER VAL LYS ASN SER ASN GLN ASN ARG LEU LEU SEQRES 8 E 126 ALA ASP LEU SER GLN VAL ILE ALA GLU LEU ILE LYS SER SEQRES 9 E 126 GLY VAL LYS GLY GLU ARG ILE LYS LYS ILE VAL ASN ASP SEQRES 10 E 126 ILE LEU GLY GLY LYS ASN ALA GLU ASN HET CA A 203 1 HET CA B 201 1 HET CA C 202 1 HETNAM CA CALCIUM ION FORMUL 6 CA 3(CA 2+) FORMUL 9 HOH *144(H2 O) HELIX 1 1 PRO A 8 THR A 23 1 16 HELIX 2 2 SER A 34 LYS A 43 1 10 HELIX 3 3 ASN A 45 GLN A 59 1 15 HELIX 4 4 ASN A 75 SER A 101 1 27 HELIX 5 5 LYS A 104 GLY A 117 1 14 HELIX 6 6 PRO B 8 THR B 23 1 16 HELIX 7 7 SER B 34 LYS B 43 1 10 HELIX 8 8 ASN B 45 GLN B 59 1 15 HELIX 9 9 ASN B 75 SER B 101 1 27 HELIX 10 10 LYS B 104 GLY B 117 1 14 HELIX 11 11 PRO C 8 THR C 23 1 16 HELIX 12 12 SER C 34 LYS C 43 1 10 HELIX 13 13 ASN C 45 GLN C 59 1 15 HELIX 14 14 ASN C 75 SER C 101 1 27 HELIX 15 15 LYS C 104 GLY C 117 1 14 HELIX 16 16 PRO D 8 THR D 23 1 16 HELIX 17 17 SER D 34 LYS D 43 1 10 HELIX 18 18 ASN D 45 GLN D 59 1 15 HELIX 19 19 ASN D 75 SER D 101 1 27 HELIX 20 20 LYS D 104 GLY D 117 1 14 HELIX 21 21 PRO E 8 THR E 23 1 16 HELIX 22 22 SER E 34 GLU E 42 1 9 HELIX 23 23 ASN E 45 GLN E 59 1 15 HELIX 24 24 ASN E 75 LYS E 100 1 26 HELIX 25 25 LYS E 104 GLU E 122 1 19 SHEET 1 A 3 GLN A 31 LEU A 32 0 SHEET 2 A 3 GLY A 69 ILE A 72 -1 O THR A 70 N LEU A 32 SHEET 3 A 3 ILE A 62 ILE A 65 -1 N ILE A 65 O GLY A 69 SHEET 1 B 3 GLN B 31 LEU B 32 0 SHEET 2 B 3 GLY B 69 ILE B 72 -1 O THR B 70 N LEU B 32 SHEET 3 B 3 ILE B 62 ILE B 65 -1 N ARG B 63 O PHE B 71 SHEET 1 C 2 ILE C 62 ILE C 65 0 SHEET 2 C 2 GLY C 69 ILE C 72 -1 O GLY C 69 N ILE C 65 SHEET 1 D 3 GLN D 31 LEU D 32 0 SHEET 2 D 3 GLY D 69 ILE D 72 -1 O THR D 70 N LEU D 32 SHEET 3 D 3 ILE D 62 ILE D 65 -1 N ARG D 63 O PHE D 71 SHEET 1 E 3 GLN E 31 LEU E 32 0 SHEET 2 E 3 GLY E 69 ILE E 72 -1 O THR E 70 N LEU E 32 SHEET 3 E 3 ILE E 62 ILE E 65 -1 N ILE E 65 O GLY E 69 CISPEP 1 SER E 101 GLY E 102 0 -5.46 SITE 1 AC1 3 SER A 34 ARG A 36 LYS B 43 SITE 1 AC2 1 TYR B 10 SITE 1 AC3 1 SER C 34 CRYST1 83.434 103.893 131.393 90.00 102.85 90.00 C 1 2 1 20 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 0.011986 0.000000 0.002734 0.00000 SCALE2 0.000000 0.009625 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007806 0.00000