HEADER TRANSCRIPTION REGULATOR 08-DEC-09 3KZ9 TITLE CRYSTAL STRUCTURE OF THE MASTER TRANSCRIPTIONAL REGULATOR, SMCR, IN TITLE 2 VIBRIO VULNIFICUS PROVIDES INSIGHT INTO ITS DNA RECOGNITION MECHANISM COMPND MOL_ID: 1; COMPND 2 MOLECULE: SMCR; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: SMCR-LIKE PROTEIN, VVPR; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO VULNIFICUS; SOURCE 3 ORGANISM_TAXID: 672; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: B834 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PHIS-PARALLEL1 KEYWDS VIBRIO VULNIFICUS, SMCR, TRANSCRIPTIONAL REGULATOR, QUORUM SENSING, KEYWDS 2 DNA-BINDING, TRANSCRIPTION REGULATION, TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR M.H.KIM,Y.KIM,W.-C.CHOI,J.HWANG REVDAT 3 13-JUL-11 3KZ9 1 VERSN REVDAT 2 05-MAY-10 3KZ9 1 JRNL REVDAT 1 16-MAR-10 3KZ9 0 JRNL AUTH Y.KIM,B.S.KIM,Y.J.PARK,W.-C.CHOI,J.HWANG,B.S.KANG,T.-K.OH, JRNL AUTH 2 S.H.CHOI,M.H.KIM JRNL TITL THE CRYSTAL STRUCTURE OF SMCR, A QUORUM-SENSING MASTER JRNL TITL 2 REGULATOR OF VIBRIO VULNIFICUS, PROVIDES INSIGHT INTO ITS JRNL TITL 3 REGULATION OF TRANSCRIPTION JRNL REF J.BIOL.CHEM. V. 285 14020 2010 JRNL REFN ISSN 0021-9258 JRNL PMID 20178981 JRNL DOI 10.1074/JBC.M109.100248 REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 56004 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2979 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3923 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 193 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6560 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 453 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) : 35.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.94000 REMARK 3 B22 (A**2) : 2.63000 REMARK 3 B33 (A**2) : -0.69000 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): 0.217 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.193 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.137 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.047 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 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): 6883 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9361 ; 1.329 ; 1.936 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 838 ; 5.284 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 362 ;36.816 ;24.033 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1209 ;16.342 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 59 ;16.911 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1043 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5283 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3395 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4801 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 416 ; 0.185 ; 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): 88 ; 0.282 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 35 ; 0.172 ; 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): 4270 ; 0.978 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6725 ; 1.484 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2959 ; 2.471 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2636 ; 3.629 ; 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 5 A 205 REMARK 3 ORIGIN FOR THE GROUP (A): 15.4800 34.8710 55.8950 REMARK 3 T TENSOR REMARK 3 T11: -0.0133 T22: -0.0540 REMARK 3 T33: 0.0362 T12: 0.0313 REMARK 3 T13: 0.0370 T23: 0.0572 REMARK 3 L TENSOR REMARK 3 L11: 1.2514 L22: 0.6393 REMARK 3 L33: 0.8417 L12: 0.7163 REMARK 3 L13: -0.5848 L23: -0.4177 REMARK 3 S TENSOR REMARK 3 S11: -0.0368 S12: 0.0427 S13: -0.2106 REMARK 3 S21: 0.0661 S22: -0.0619 S23: -0.1274 REMARK 3 S31: 0.1604 S32: -0.0014 S33: 0.0987 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 0 B 202 REMARK 3 ORIGIN FOR THE GROUP (A): 1.4650 49.8660 42.6500 REMARK 3 T TENSOR REMARK 3 T11: -0.0306 T22: 0.0502 REMARK 3 T33: -0.0704 T12: -0.0034 REMARK 3 T13: 0.0126 T23: 0.0146 REMARK 3 L TENSOR REMARK 3 L11: 2.1133 L22: 0.5349 REMARK 3 L33: 0.0110 L12: 0.2081 REMARK 3 L13: 0.1286 L23: 0.0529 REMARK 3 S TENSOR REMARK 3 S11: 0.0079 S12: 0.1647 S13: -0.0820 REMARK 3 S21: -0.0213 S22: -0.0673 S23: -0.0049 REMARK 3 S31: 0.0259 S32: -0.1313 S33: 0.0594 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 : C 3 C 205 REMARK 3 ORIGIN FOR THE GROUP (A): 33.7320 85.4200 57.1610 REMARK 3 T TENSOR REMARK 3 T11: -0.0180 T22: -0.0339 REMARK 3 T33: -0.0308 T12: -0.0251 REMARK 3 T13: 0.0030 T23: 0.0215 REMARK 3 L TENSOR REMARK 3 L11: 0.7928 L22: 0.7114 REMARK 3 L33: 0.3509 L12: 0.3786 REMARK 3 L13: -0.2599 L23: -0.4996 REMARK 3 S TENSOR REMARK 3 S11: 0.0519 S12: 0.0038 S13: -0.0532 REMARK 3 S21: 0.0021 S22: -0.0496 S23: 0.0059 REMARK 3 S31: 0.0844 S32: -0.0221 S33: -0.0023 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 5 D 203 REMARK 3 ORIGIN FOR THE GROUP (A): 20.3130 100.6670 43.0930 REMARK 3 T TENSOR REMARK 3 T11: -0.0569 T22: 0.0469 REMARK 3 T33: -0.0974 T12: 0.0114 REMARK 3 T13: -0.0061 T23: 0.0241 REMARK 3 L TENSOR REMARK 3 L11: 2.1124 L22: 0.5584 REMARK 3 L33: 0.1028 L12: 0.1972 REMARK 3 L13: 0.1652 L23: -0.0851 REMARK 3 S TENSOR REMARK 3 S11: 0.0279 S12: 0.0170 S13: 0.0048 REMARK 3 S21: -0.0146 S22: -0.0332 S23: 0.0413 REMARK 3 S31: -0.0012 S32: -0.1784 S33: 0.0053 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: PARTIALLY REFINED SEMET_SMCR MODEL REMARK 4 REMARK 4 3KZ9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-DEC-09. REMARK 100 THE RCSB ID CODE IS RCSB056633. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-SEP-06 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 : PAL/PLS REMARK 200 BEAMLINE : 6C1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.23985 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56004 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : 0.04700 REMARK 200 FOR THE DATA SET : 26.9700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.47500 REMARK 200 R SYM FOR SHELL (I) : 0.39300 REMARK 200 FOR SHELL : 3.280 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M LITHIUM SULFATE, 7% PEG 3000, REMARK 280 0.1M IMIDAZOLE, PH 8.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 294K 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 39.24700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.53000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.51250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.53000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 39.24700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.51250 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 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: 2960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 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 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: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ALA A 0 REMARK 465 MSE A 1 REMARK 465 ASP A 2 REMARK 465 SER A 3 REMARK 465 ILE A 4 REMARK 465 GLU B 203 REMARK 465 HIS B 204 REMARK 465 GLU B 205 REMARK 465 ALA C 0 REMARK 465 MSE C 1 REMARK 465 ASP C 2 REMARK 465 ALA D 0 REMARK 465 MSE D 1 REMARK 465 ASP D 2 REMARK 465 SER D 3 REMARK 465 ILE D 4 REMARK 465 HIS D 204 REMARK 465 GLU D 205 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 NH1 ARG D 134 OE1 GLN D 137 1.97 REMARK 500 OD1 ASN D 158 OE1 GLU D 160 1.99 REMARK 500 O HOH C 341 O HOH C 427 2.06 REMARK 500 NH2 ARG B 73 O HOH B 244 2.13 REMARK 500 OD1 ASP C 123 O HOH C 261 2.17 REMARK 500 O HOH D 219 O HOH D 250 2.19 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 VAL A 125 -52.29 -121.49 REMARK 500 CYS A 198 69.97 -109.67 REMARK 500 VAL C 125 -51.80 -124.55 REMARK 500 ASN C 182 105.45 -52.23 REMARK 500 CYS C 198 68.92 -112.41 REMARK 500 ASP D 123 -34.55 -38.92 REMARK 500 ASN D 182 91.89 -66.53 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 TRP C 126 24.6 L L OUTSIDE RANGE 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 SO4 C 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 D 207 DBREF 3KZ9 A 1 205 UNP Q9L8G8 Q9L8G8_VIBVU 1 205 DBREF 3KZ9 B 1 205 UNP Q9L8G8 Q9L8G8_VIBVU 1 205 DBREF 3KZ9 C 1 205 UNP Q9L8G8 Q9L8G8_VIBVU 1 205 DBREF 3KZ9 D 1 205 UNP Q9L8G8 Q9L8G8_VIBVU 1 205 SEQADV 3KZ9 ALA A 0 UNP Q9L8G8 CLONING ARTIFACT SEQADV 3KZ9 ALA B 0 UNP Q9L8G8 CLONING ARTIFACT SEQADV 3KZ9 ALA C 0 UNP Q9L8G8 CLONING ARTIFACT SEQADV 3KZ9 ALA D 0 UNP Q9L8G8 CLONING ARTIFACT SEQRES 1 A 206 ALA MSE ASP SER ILE ALA LYS ARG PRO ARG THR ARG LEU SEQRES 2 A 206 SER PRO LEU LYS ARG LYS GLN GLN LEU MSE GLU ILE ALA SEQRES 3 A 206 LEU GLU VAL PHE ALA ARG ARG GLY ILE GLY ARG GLY GLY SEQRES 4 A 206 HIS ALA ASP ILE ALA GLU ILE ALA GLN VAL SER VAL ALA SEQRES 5 A 206 THR VAL PHE ASN TYR PHE PRO THR ARG GLU ASP LEU VAL SEQRES 6 A 206 ASP GLU VAL LEU ASN HIS VAL VAL ARG GLN PHE SER ASN SEQRES 7 A 206 PHE LEU SER ASP ASN ILE ASP LEU ASP LEU HIS ALA LYS SEQRES 8 A 206 GLU ASN ILE ALA ASN ILE THR ASN ALA MSE ILE GLU LEU SEQRES 9 A 206 VAL VAL GLN ASP ASN HIS TRP LEU LYS VAL TRP PHE GLU SEQRES 10 A 206 TRP SER ALA SER THR ARG ASP GLU VAL TRP PRO LEU PHE SEQRES 11 A 206 VAL THR THR ASN ARG THR ASN GLN LEU LEU VAL GLN ASN SEQRES 12 A 206 MSE PHE ILE LYS ALA ILE GLU ARG GLY GLU VAL CYS ASP SEQRES 13 A 206 GLN HIS ASN PRO GLU ASP LEU ALA ASN LEU PHE HIS GLY SEQRES 14 A 206 ILE CYS TYR SER LEU PHE VAL GLN ALA ASN ARG THR ASN SEQRES 15 A 206 ASN THR ALA GLU LEU SER LYS LEU VAL SER SER TYR LEU SEQRES 16 A 206 ASP MSE LEU CYS ILE TYR LYS ARG GLU HIS GLU SEQRES 1 B 206 ALA MSE ASP SER ILE ALA LYS ARG PRO ARG THR ARG LEU SEQRES 2 B 206 SER PRO LEU LYS ARG LYS GLN GLN LEU MSE GLU ILE ALA SEQRES 3 B 206 LEU GLU VAL PHE ALA ARG ARG GLY ILE GLY ARG GLY GLY SEQRES 4 B 206 HIS ALA ASP ILE ALA GLU ILE ALA GLN VAL SER VAL ALA SEQRES 5 B 206 THR VAL PHE ASN TYR PHE PRO THR ARG GLU ASP LEU VAL SEQRES 6 B 206 ASP GLU VAL LEU ASN HIS VAL VAL ARG GLN PHE SER ASN SEQRES 7 B 206 PHE LEU SER ASP ASN ILE ASP LEU ASP LEU HIS ALA LYS SEQRES 8 B 206 GLU ASN ILE ALA ASN ILE THR ASN ALA MSE ILE GLU LEU SEQRES 9 B 206 VAL VAL GLN ASP ASN HIS TRP LEU LYS VAL TRP PHE GLU SEQRES 10 B 206 TRP SER ALA SER THR ARG ASP GLU VAL TRP PRO LEU PHE SEQRES 11 B 206 VAL THR THR ASN ARG THR ASN GLN LEU LEU VAL GLN ASN SEQRES 12 B 206 MSE PHE ILE LYS ALA ILE GLU ARG GLY GLU VAL CYS ASP SEQRES 13 B 206 GLN HIS ASN PRO GLU ASP LEU ALA ASN LEU PHE HIS GLY SEQRES 14 B 206 ILE CYS TYR SER LEU PHE VAL GLN ALA ASN ARG THR ASN SEQRES 15 B 206 ASN THR ALA GLU LEU SER LYS LEU VAL SER SER TYR LEU SEQRES 16 B 206 ASP MSE LEU CYS ILE TYR LYS ARG GLU HIS GLU SEQRES 1 C 206 ALA MSE ASP SER ILE ALA LYS ARG PRO ARG THR ARG LEU SEQRES 2 C 206 SER PRO LEU LYS ARG LYS GLN GLN LEU MSE GLU ILE ALA SEQRES 3 C 206 LEU GLU VAL PHE ALA ARG ARG GLY ILE GLY ARG GLY GLY SEQRES 4 C 206 HIS ALA ASP ILE ALA GLU ILE ALA GLN VAL SER VAL ALA SEQRES 5 C 206 THR VAL PHE ASN TYR PHE PRO THR ARG GLU ASP LEU VAL SEQRES 6 C 206 ASP GLU VAL LEU ASN HIS VAL VAL ARG GLN PHE SER ASN SEQRES 7 C 206 PHE LEU SER ASP ASN ILE ASP LEU ASP LEU HIS ALA LYS SEQRES 8 C 206 GLU ASN ILE ALA ASN ILE THR ASN ALA MSE ILE GLU LEU SEQRES 9 C 206 VAL VAL GLN ASP ASN HIS TRP LEU LYS VAL TRP PHE GLU SEQRES 10 C 206 TRP SER ALA SER THR ARG ASP GLU VAL TRP PRO LEU PHE SEQRES 11 C 206 VAL THR THR ASN ARG THR ASN GLN LEU LEU VAL GLN ASN SEQRES 12 C 206 MSE PHE ILE LYS ALA ILE GLU ARG GLY GLU VAL CYS ASP SEQRES 13 C 206 GLN HIS ASN PRO GLU ASP LEU ALA ASN LEU PHE HIS GLY SEQRES 14 C 206 ILE CYS TYR SER LEU PHE VAL GLN ALA ASN ARG THR ASN SEQRES 15 C 206 ASN THR ALA GLU LEU SER LYS LEU VAL SER SER TYR LEU SEQRES 16 C 206 ASP MSE LEU CYS ILE TYR LYS ARG GLU HIS GLU SEQRES 1 D 206 ALA MSE ASP SER ILE ALA LYS ARG PRO ARG THR ARG LEU SEQRES 2 D 206 SER PRO LEU LYS ARG LYS GLN GLN LEU MSE GLU ILE ALA SEQRES 3 D 206 LEU GLU VAL PHE ALA ARG ARG GLY ILE GLY ARG GLY GLY SEQRES 4 D 206 HIS ALA ASP ILE ALA GLU ILE ALA GLN VAL SER VAL ALA SEQRES 5 D 206 THR VAL PHE ASN TYR PHE PRO THR ARG GLU ASP LEU VAL SEQRES 6 D 206 ASP GLU VAL LEU ASN HIS VAL VAL ARG GLN PHE SER ASN SEQRES 7 D 206 PHE LEU SER ASP ASN ILE ASP LEU ASP LEU HIS ALA LYS SEQRES 8 D 206 GLU ASN ILE ALA ASN ILE THR ASN ALA MSE ILE GLU LEU SEQRES 9 D 206 VAL VAL GLN ASP ASN HIS TRP LEU LYS VAL TRP PHE GLU SEQRES 10 D 206 TRP SER ALA SER THR ARG ASP GLU VAL TRP PRO LEU PHE SEQRES 11 D 206 VAL THR THR ASN ARG THR ASN GLN LEU LEU VAL GLN ASN SEQRES 12 D 206 MSE PHE ILE LYS ALA ILE GLU ARG GLY GLU VAL CYS ASP SEQRES 13 D 206 GLN HIS ASN PRO GLU ASP LEU ALA ASN LEU PHE HIS GLY SEQRES 14 D 206 ILE CYS TYR SER LEU PHE VAL GLN ALA ASN ARG THR ASN SEQRES 15 D 206 ASN THR ALA GLU LEU SER LYS LEU VAL SER SER TYR LEU SEQRES 16 D 206 ASP MSE LEU CYS ILE TYR LYS ARG GLU HIS GLU MODRES 3KZ9 MSE A 22 MET SELENOMETHIONINE MODRES 3KZ9 MSE A 100 MET SELENOMETHIONINE MODRES 3KZ9 MSE A 143 MET SELENOMETHIONINE MODRES 3KZ9 MSE A 196 MET SELENOMETHIONINE MODRES 3KZ9 MSE B 1 MET SELENOMETHIONINE MODRES 3KZ9 MSE B 22 MET SELENOMETHIONINE MODRES 3KZ9 MSE B 100 MET SELENOMETHIONINE MODRES 3KZ9 MSE B 143 MET SELENOMETHIONINE MODRES 3KZ9 MSE B 196 MET SELENOMETHIONINE MODRES 3KZ9 MSE C 22 MET SELENOMETHIONINE MODRES 3KZ9 MSE C 100 MET SELENOMETHIONINE MODRES 3KZ9 MSE C 143 MET SELENOMETHIONINE MODRES 3KZ9 MSE C 196 MET SELENOMETHIONINE MODRES 3KZ9 MSE D 22 MET SELENOMETHIONINE MODRES 3KZ9 MSE D 100 MET SELENOMETHIONINE MODRES 3KZ9 MSE D 143 MET SELENOMETHIONINE MODRES 3KZ9 MSE D 196 MET SELENOMETHIONINE HET MSE A 22 16 HET MSE A 100 8 HET MSE A 143 8 HET MSE A 196 8 HET MSE B 1 8 HET MSE B 22 16 HET MSE B 100 16 HET MSE B 143 8 HET MSE B 196 8 HET MSE C 22 16 HET MSE C 100 8 HET MSE C 143 8 HET MSE C 196 8 HET MSE D 22 8 HET MSE D 100 16 HET MSE D 143 8 HET MSE D 196 8 HET SO4 A 206 5 HET SO4 B 206 5 HET SO4 C 206 5 HET SO4 C 207 5 HET SO4 D 206 5 HET SO4 D 207 5 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION FORMUL 1 MSE 17(C5 H11 N O2 SE) FORMUL 5 SO4 6(O4 S 2-) FORMUL 11 HOH *453(H2 O) HELIX 1 1 SER A 13 ARG A 32 1 20 HELIX 2 2 GLY A 38 GLN A 47 1 10 HELIX 3 3 SER A 49 PHE A 57 1 9 HELIX 4 4 THR A 59 ILE A 83 1 25 HELIX 5 5 HIS A 88 GLN A 106 1 19 HELIX 6 6 ASN A 108 ALA A 119 1 12 HELIX 7 7 VAL A 125 ASN A 133 1 9 HELIX 8 8 ASN A 133 ARG A 150 1 18 HELIX 9 9 ASN A 158 ASN A 178 1 21 HELIX 10 10 ASN A 182 ASP A 195 1 14 HELIX 11 11 SER B 13 GLY B 33 1 21 HELIX 12 12 GLY B 38 GLN B 47 1 10 HELIX 13 13 SER B 49 PHE B 57 1 9 HELIX 14 14 THR B 59 ILE B 83 1 25 HELIX 15 15 HIS B 88 GLN B 106 1 19 HELIX 16 16 ASN B 108 ALA B 119 1 12 HELIX 17 17 VAL B 125 ASN B 133 1 9 HELIX 18 18 ASN B 133 ARG B 150 1 18 HELIX 19 19 ASN B 158 ASN B 178 1 21 HELIX 20 20 ASN B 182 MSE B 196 1 15 HELIX 21 21 SER C 13 GLY C 33 1 21 HELIX 22 22 GLY C 38 GLN C 47 1 10 HELIX 23 23 SER C 49 PHE C 57 1 9 HELIX 24 24 THR C 59 ASN C 82 1 24 HELIX 25 25 HIS C 88 GLN C 106 1 19 HELIX 26 26 ASN C 108 ALA C 119 1 12 HELIX 27 27 VAL C 125 ASN C 133 1 9 HELIX 28 28 ASN C 133 ARG C 150 1 18 HELIX 29 29 ASN C 158 ASN C 178 1 21 HELIX 30 30 ASN C 182 ASP C 195 1 14 HELIX 31 31 SER D 13 GLY D 33 1 21 HELIX 32 32 GLY D 38 GLN D 47 1 10 HELIX 33 33 SER D 49 PHE D 57 1 9 HELIX 34 34 THR D 59 ILE D 83 1 25 HELIX 35 35 HIS D 88 GLN D 106 1 19 HELIX 36 36 ASN D 108 ALA D 119 1 12 HELIX 37 37 VAL D 125 ASN D 133 1 9 HELIX 38 38 ASN D 133 ARG D 150 1 18 HELIX 39 39 ASN D 158 THR D 180 1 23 HELIX 40 40 ASN D 182 MSE D 196 1 15 SSBOND 1 CYS A 198 CYS B 198 1555 1555 2.05 SSBOND 2 CYS B 154 CYS D 154 1555 3645 2.69 SSBOND 3 CYS C 198 CYS D 198 1555 1555 2.04 LINK C AMSE A 22 N GLU A 23 1555 1555 1.32 LINK C BMSE A 22 N GLU A 23 1555 1555 1.33 LINK C MSE A 100 N ILE A 101 1555 1555 1.33 LINK C MSE A 143 N PHE A 144 1555 1555 1.34 LINK C MSE A 196 N LEU A 197 1555 1555 1.33 LINK C MSE B 1 N ASP B 2 1555 1555 1.34 LINK C AMSE B 22 N GLU B 23 1555 1555 1.33 LINK C BMSE B 22 N GLU B 23 1555 1555 1.33 LINK C AMSE B 100 N ILE B 101 1555 1555 1.33 LINK C BMSE B 100 N ILE B 101 1555 1555 1.33 LINK C MSE B 143 N PHE B 144 1555 1555 1.34 LINK C MSE B 196 N LEU B 197 1555 1555 1.32 LINK C AMSE C 22 N GLU C 23 1555 1555 1.33 LINK C BMSE C 22 N GLU C 23 1555 1555 1.33 LINK C MSE C 100 N ILE C 101 1555 1555 1.32 LINK C MSE C 143 N PHE C 144 1555 1555 1.33 LINK C MSE C 196 N LEU C 197 1555 1555 1.33 LINK C MSE D 22 N GLU D 23 1555 1555 1.33 LINK C AMSE D 100 N ILE D 101 1555 1555 1.33 LINK C BMSE D 100 N ILE D 101 1555 1555 1.33 LINK C MSE D 143 N PHE D 144 1555 1555 1.33 LINK C MSE D 196 N LEU D 197 1555 1555 1.33 LINK C LEU A 21 N AMSE A 22 1555 1555 1.34 LINK C LEU A 21 N BMSE A 22 1555 1555 1.32 LINK C ALA A 99 N MSE A 100 1555 1555 1.34 LINK C ASN A 142 N MSE A 143 1555 1555 1.34 LINK C ASP A 195 N MSE A 196 1555 1555 1.34 LINK C ALA B 0 N MSE B 1 1555 1555 1.33 LINK C LEU B 21 N AMSE B 22 1555 1555 1.34 LINK C LEU B 21 N BMSE B 22 1555 1555 1.34 LINK C ALA B 99 N AMSE B 100 1555 1555 1.33 LINK C ALA B 99 N BMSE B 100 1555 1555 1.34 LINK C ASN B 142 N MSE B 143 1555 1555 1.33 LINK C ASP B 195 N MSE B 196 1555 1555 1.32 LINK C LEU C 21 N AMSE C 22 1555 1555 1.34 LINK C LEU C 21 N BMSE C 22 1555 1555 1.33 LINK C ALA C 99 N MSE C 100 1555 1555 1.33 LINK C ASN C 142 N MSE C 143 1555 1555 1.33 LINK C ASP C 195 N MSE C 196 1555 1555 1.33 LINK C LEU D 21 N MSE D 22 1555 1555 1.33 LINK C ALA D 99 N AMSE D 100 1555 1555 1.33 LINK C ALA D 99 N BMSE D 100 1555 1555 1.34 LINK C ASN D 142 N MSE D 143 1555 1555 1.32 LINK C ASP D 195 N MSE D 196 1555 1555 1.34 SITE 1 AC1 5 THR C 10 ARG C 11 LYS C 146 ARG C 150 SITE 2 AC1 5 HOH C 297 SITE 1 AC2 3 ARG A 11 ARG A 150 HOH A 350 SITE 1 AC3 5 ARG B 73 HIS D 70 ARG D 73 GLN D 74 SITE 2 AC3 5 HOH D 254 SITE 1 AC4 8 ARG C 11 LEU C 85 ALA C 89 ASN C 92 SITE 2 AC4 8 MSE C 143 ALA C 147 ARG C 150 GLU C 152 SITE 1 AC5 6 THR B 180 ASN B 181 ARG C 9 LEU C 139 SITE 2 AC5 6 ASN C 142 HOH C 279 SITE 1 AC6 3 ARG C 36 ARG D 32 ARG D 36 CRYST1 78.494 99.025 129.060 90.00 90.00 90.00 P 21 21 21 16 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 0.012740 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010098 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007748 0.00000