HEADER TRANSCRIPTION REGULATOR 05-OCT-09 3K4H TITLE CRYSTAL STRUCTURE OF PUTATIVE TRANSCRIPTIONAL REGULATOR LACI FROM TITLE 2 BACILLUS CEREUS SUBSP. CYTOTOXIS NVH 391-98 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE TRANSCRIPTIONAL REGULATOR; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS CYTOTOXICUS NVH 391-98; SOURCE 3 ORGANISM_TAXID: 315749; SOURCE 4 STRAIN: CYTOTOXIS NVH 391-98; SOURCE 5 GENE: BCER98_2711, Q2E7G6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 2 STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, DNA-BINDING, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION REGULATION, PSI-2, NEW YORK SGX KEYWDS 4 RESEARCH CENTER FOR STRUCTURAL GENOMICS, TRANSCRIPTION REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,R.TORO,C.MORANO,J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW AUTHOR 2 YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 7 10-FEB-21 3K4H 1 AUTHOR JRNL HETSYN REVDAT 6 29-JUL-20 3K4H 1 COMPND REMARK HET HETNAM REVDAT 6 2 1 FORMUL LINK SITE ATOM REVDAT 5 21-NOV-18 3K4H 1 AUTHOR REVDAT 4 01-NOV-17 3K4H 1 REMARK REVDAT 3 24-OCT-12 3K4H 1 AUTHOR REVDAT 2 13-JUL-11 3K4H 1 VERSN REVDAT 1 10-NOV-09 3K4H 0 JRNL AUTH V.N.MALASHKEVICH,R.TORO,C.MORANO,J.M.SAUDER,S.K.BURLEY, JRNL AUTH 2 S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE TRANSCRIPTIONAL REGULATOR LACI JRNL TITL 2 FROM BACILLUS CEREUS SUBSP. CYTOTOXIS NVH 391-98 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0089 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 22103 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1191 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1501 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.25 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 92 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4347 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 24 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) : 58.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.77000 REMARK 3 B22 (A**2) : -0.77000 REMARK 3 B33 (A**2) : 1.54000 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): 0.123 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.066 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.181 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 21.107 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.911 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4477 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6062 ; 1.548 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 558 ; 6.271 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 193 ;37.574 ;24.922 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 779 ;22.301 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;23.816 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 710 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3296 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2781 ; 1.073 ; 3.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4490 ; 4.825 ;50.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1694 ;11.287 ;50.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1572 ; 0.968 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 99999 A 99999 1 REMARK 3 1 B 99999 B 99999 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 2165 ; 0.92 ; 5.00 REMARK 3 TIGHT THERMAL 1 A (A**2): 2165 ; 8.86 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 7 A 288 REMARK 3 RESIDUE RANGE : A 501 A 501 REMARK 3 RESIDUE RANGE : A 503 A 529 REMARK 3 ORIGIN FOR THE GROUP (A): 67.5988 13.2441 107.6666 REMARK 3 T TENSOR REMARK 3 T11: 0.0182 T22: 0.0333 REMARK 3 T33: 0.0428 T12: -0.0007 REMARK 3 T13: 0.0179 T23: -0.0132 REMARK 3 L TENSOR REMARK 3 L11: 2.0724 L22: 2.0199 REMARK 3 L33: 1.0338 L12: 0.8480 REMARK 3 L13: 0.1226 L23: -0.0449 REMARK 3 S TENSOR REMARK 3 S11: -0.0171 S12: 0.2599 S13: -0.0916 REMARK 3 S21: -0.0194 S22: 0.1054 S23: -0.1258 REMARK 3 S31: 0.0053 S32: 0.0385 S33: -0.0883 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 5 B 282 REMARK 3 RESIDUE RANGE : B 501 B 501 REMARK 3 RESIDUE RANGE : B 503 B 513 REMARK 3 ORIGIN FOR THE GROUP (A): 69.6807 5.8652 77.6464 REMARK 3 T TENSOR REMARK 3 T11: 0.0763 T22: 0.0560 REMARK 3 T33: 0.0623 T12: -0.0195 REMARK 3 T13: 0.0524 T23: -0.0375 REMARK 3 L TENSOR REMARK 3 L11: 4.1447 L22: 2.1606 REMARK 3 L33: 1.7927 L12: 0.6760 REMARK 3 L13: 0.6554 L23: 0.5669 REMARK 3 S TENSOR REMARK 3 S11: 0.1906 S12: 0.1895 S13: 0.1803 REMARK 3 S21: -0.0894 S22: 0.0503 S23: -0.1159 REMARK 3 S31: -0.2173 S32: 0.2695 S33: -0.2410 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. THE MALTOSE REMARK 3 BINDING IS ONLY SUGGESTED BASED A) ON THE SHAPE OF ELECTRON REMARK 3 DENSITY, B) THE FACT THAT OTHER MEMBERS OF THIS GROUP OF PROTEINS REMARK 3 BIND MALTOSE OR LACTOSE, C) SUGGESTED INHIBITOR MAKES MULTIPLE REMARK 3 FAVORABLE CONTACTS IN THE BINDING SITE. LACTOSE DOES NOT FIT THE REMARK 3 DENSITY, BUT WE CAN NOT EXCLUDE THAT SOME OTHER SIMILAR SUGAR IS REMARK 3 BOUND. REMARK 3 PLEASE REMOVE "COMPLEXED WITH MALTOSE" FROM THE TITLE, AND JUST REMARK 3 ADD REMARK THAT MALTOSE BINDING IS SUGGESTED. REMARK 4 REMARK 4 3K4H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055534. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48261 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG8000, 0.1M MES, 0.2M CA(OAC)2, REMARK 280 PH 6.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 93.37450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.30350 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.30350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 46.68725 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.30350 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.30350 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 140.06175 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.30350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.30350 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 46.68725 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.30350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.30350 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 140.06175 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 93.37450 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 300 REMARK: AUTHORS STATE THAT THE BIOLOGICAL UNIT IS THE SAME AS REMARK 300 ASYMMETRIC UNIT. 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: 2830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 APPLY THE FOLLOWING TO CHAINS: B, D REMARK 350 BIOMT1 2 0.000000 -1.000000 0.000000 49.30350 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -49.30350 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 46.68725 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 MSE A 1 REMARK 465 SER A 2 REMARK 465 LEU A 3 REMARK 465 ALA A 4 REMARK 465 ASN A 5 REMARK 465 GLN A 6 REMARK 465 HIS A 289 REMARK 465 HIS A 290 REMARK 465 HIS A 291 REMARK 465 HIS A 292 REMARK 465 MSE B 1 REMARK 465 SER B 2 REMARK 465 LEU B 3 REMARK 465 ALA B 4 REMARK 465 THR B 283 REMARK 465 CYS B 284 REMARK 465 GLU B 285 REMARK 465 GLY B 286 REMARK 465 HIS B 287 REMARK 465 HIS B 288 REMARK 465 HIS B 289 REMARK 465 HIS B 290 REMARK 465 HIS B 291 REMARK 465 HIS B 292 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 NE2 HIS B 131 O THR B 194 1.96 REMARK 500 NE2 GLN B 133 OH TYR B 168 2.03 REMARK 500 OD1 ASP A 201 OG SER A 226 2.06 REMARK 500 OD1 ASP A 173 OG SER A 178 2.10 REMARK 500 O ILE B 127 N GLY B 130 2.11 REMARK 500 NE2 GLN A 282 O HOH A 522 2.13 REMARK 500 NZ LYS B 9 O GLU B 42 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 CYS A 284 CB CYS A 284 SG -0.137 REMARK 500 LEU B 240 CA LEU B 240 C -0.445 REMARK 500 LEU B 240 C LEU B 240 O -0.276 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 A 266 N - CA - C ANGL. DEV. = -16.6 DEGREES REMARK 500 LYS B 9 N - CA - C ANGL. DEV. = 19.2 DEGREES REMARK 500 PRO B 101 C - N - CD ANGL. DEV. = -12.8 DEGREES REMARK 500 GLY B 139 N - CA - C ANGL. DEV. = -15.8 DEGREES REMARK 500 ILE B 169 CB - CA - C ANGL. DEV. = -12.9 DEGREES REMARK 500 ASP B 173 N - CA - C ANGL. DEV. = 16.4 DEGREES REMARK 500 PRO B 192 C - N - CD ANGL. DEV. = -18.6 DEGREES REMARK 500 PRO B 239 C - N - CD ANGL. DEV. = -17.1 DEGREES REMARK 500 LEU B 240 N - CA - C ANGL. DEV. = 22.9 DEGREES REMARK 500 LEU B 240 CA - C - O ANGL. DEV. = -15.6 DEGREES REMARK 500 LEU B 240 O - C - N ANGL. DEV. = 11.0 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 17 -176.29 -170.79 REMARK 500 ARG A 68 19.15 52.94 REMARK 500 ASN A 228 -8.79 93.27 REMARK 500 ALA A 265 -0.59 80.10 REMARK 500 ARG A 281 -114.86 -103.73 REMARK 500 ARG B 68 1.57 81.81 REMARK 500 ASN B 81 18.80 58.26 REMARK 500 ASP B 161 4.35 87.50 REMARK 500 LYS B 166 -8.67 91.51 REMARK 500 THR B 194 3.10 80.21 REMARK 500 ASN B 228 -10.41 90.71 REMARK 500 LEU B 231 1.46 86.31 REMARK 500 SER B 237 -139.24 177.40 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 LEU B 231 LEU B 232 148.70 REMARK 500 PRO B 239 LEU B 240 -147.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 SER B 237 13.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11007J RELATED DB: TARGETDB DBREF 3K4H A 1 292 PDB 3K4H 3K4H 1 292 DBREF 3K4H B 1 292 PDB 3K4H 3K4H 1 292 SEQRES 1 A 292 MSE SER LEU ALA ASN GLN THR THR LYS THR LEU GLY LEU SEQRES 2 A 292 VAL MSE PRO SER SER ALA SER LYS ALA PHE GLN ASN PRO SEQRES 3 A 292 PHE PHE PRO GLU VAL ILE ARG GLY ILE SER SER PHE ALA SEQRES 4 A 292 HIS VAL GLU GLY TYR ALA LEU TYR MSE SER THR GLY GLU SEQRES 5 A 292 THR GLU GLU GLU ILE PHE ASN GLY VAL VAL LYS MSE VAL SEQRES 6 A 292 GLN GLY ARG GLN ILE GLY GLY ILE ILE LEU LEU TYR SER SEQRES 7 A 292 ARG GLU ASN ASP ARG ILE ILE GLN TYR LEU HIS GLU GLN SEQRES 8 A 292 ASN PHE PRO PHE VAL LEU ILE GLY LYS PRO TYR ASP ARG SEQRES 9 A 292 LYS ASP GLU ILE THR TYR VAL ASP ASN ASP ASN TYR THR SEQRES 10 A 292 ALA ALA ARG GLU VAL ALA GLU TYR LEU ILE SER LEU GLY SEQRES 11 A 292 HIS LYS GLN ILE ALA PHE ILE GLY GLY GLY SER ASP LEU SEQRES 12 A 292 LEU VAL THR ARG ASP ARG LEU ALA GLY MSE SER ASP ALA SEQRES 13 A 292 LEU LYS LEU ALA ASP ILE VAL LEU PRO LYS GLU TYR ILE SEQRES 14 A 292 LEU HIS PHE ASP PHE SER ARG GLU SER GLY GLN GLN ALA SEQRES 15 A 292 VAL GLU GLU LEU MSE GLY LEU GLN GLN PRO PRO THR ALA SEQRES 16 A 292 ILE MSE ALA THR ASP ASP LEU ILE GLY LEU GLY VAL LEU SEQRES 17 A 292 SER ALA LEU SER LYS LYS GLY PHE VAL VAL PRO LYS ASP SEQRES 18 A 292 VAL SER ILE VAL SER PHE ASN ASN ALA LEU LEU SER GLU SEQRES 19 A 292 ILE ALA SER PRO PRO LEU SER THR VAL ASP VAL ASN ILE SEQRES 20 A 292 TYR GLN LEU GLY TYR GLU ALA ALA LYS ALA LEU VAL ASP SEQRES 21 A 292 LYS VAL GLU ASN ALA GLU SER THR ALA LYS CYS ILE ILE SEQRES 22 A 292 ILE PRO HIS LYS LEU LEU LYS ARG GLN THR CYS GLU GLY SEQRES 23 A 292 HIS HIS HIS HIS HIS HIS SEQRES 1 B 292 MSE SER LEU ALA ASN GLN THR THR LYS THR LEU GLY LEU SEQRES 2 B 292 VAL MSE PRO SER SER ALA SER LYS ALA PHE GLN ASN PRO SEQRES 3 B 292 PHE PHE PRO GLU VAL ILE ARG GLY ILE SER SER PHE ALA SEQRES 4 B 292 HIS VAL GLU GLY TYR ALA LEU TYR MSE SER THR GLY GLU SEQRES 5 B 292 THR GLU GLU GLU ILE PHE ASN GLY VAL VAL LYS MSE VAL SEQRES 6 B 292 GLN GLY ARG GLN ILE GLY GLY ILE ILE LEU LEU TYR SER SEQRES 7 B 292 ARG GLU ASN ASP ARG ILE ILE GLN TYR LEU HIS GLU GLN SEQRES 8 B 292 ASN PHE PRO PHE VAL LEU ILE GLY LYS PRO TYR ASP ARG SEQRES 9 B 292 LYS ASP GLU ILE THR TYR VAL ASP ASN ASP ASN TYR THR SEQRES 10 B 292 ALA ALA ARG GLU VAL ALA GLU TYR LEU ILE SER LEU GLY SEQRES 11 B 292 HIS LYS GLN ILE ALA PHE ILE GLY GLY GLY SER ASP LEU SEQRES 12 B 292 LEU VAL THR ARG ASP ARG LEU ALA GLY MSE SER ASP ALA SEQRES 13 B 292 LEU LYS LEU ALA ASP ILE VAL LEU PRO LYS GLU TYR ILE SEQRES 14 B 292 LEU HIS PHE ASP PHE SER ARG GLU SER GLY GLN GLN ALA SEQRES 15 B 292 VAL GLU GLU LEU MSE GLY LEU GLN GLN PRO PRO THR ALA SEQRES 16 B 292 ILE MSE ALA THR ASP ASP LEU ILE GLY LEU GLY VAL LEU SEQRES 17 B 292 SER ALA LEU SER LYS LYS GLY PHE VAL VAL PRO LYS ASP SEQRES 18 B 292 VAL SER ILE VAL SER PHE ASN ASN ALA LEU LEU SER GLU SEQRES 19 B 292 ILE ALA SER PRO PRO LEU SER THR VAL ASP VAL ASN ILE SEQRES 20 B 292 TYR GLN LEU GLY TYR GLU ALA ALA LYS ALA LEU VAL ASP SEQRES 21 B 292 LYS VAL GLU ASN ALA GLU SER THR ALA LYS CYS ILE ILE SEQRES 22 B 292 ILE PRO HIS LYS LEU LEU LYS ARG GLN THR CYS GLU GLY SEQRES 23 B 292 HIS HIS HIS HIS HIS HIS MODRES 3K4H MSE A 15 MET SELENOMETHIONINE MODRES 3K4H MSE A 48 MET SELENOMETHIONINE MODRES 3K4H MSE A 64 MET SELENOMETHIONINE MODRES 3K4H MSE A 153 MET SELENOMETHIONINE MODRES 3K4H MSE A 187 MET SELENOMETHIONINE MODRES 3K4H MSE A 197 MET SELENOMETHIONINE MODRES 3K4H MSE B 15 MET SELENOMETHIONINE MODRES 3K4H MSE B 48 MET SELENOMETHIONINE MODRES 3K4H MSE B 64 MET SELENOMETHIONINE MODRES 3K4H MSE B 153 MET SELENOMETHIONINE MODRES 3K4H MSE B 187 MET SELENOMETHIONINE MODRES 3K4H MSE B 197 MET SELENOMETHIONINE HET MSE A 15 8 HET MSE A 48 8 HET MSE A 64 8 HET MSE A 153 8 HET MSE A 187 8 HET MSE A 197 8 HET MSE B 15 8 HET MSE B 48 8 HET MSE B 64 8 HET MSE B 153 8 HET MSE B 187 8 HET MSE B 197 8 HET GLC C 1 12 HET GLC C 2 11 HET GLC D 1 12 HET GLC D 2 11 HETNAM MSE SELENOMETHIONINE HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 3 GLC 4(C6 H12 O6) FORMUL 5 HOH *24(H2 O) HELIX 1 1 SER A 18 PHE A 23 1 6 HELIX 2 2 PRO A 26 GLU A 42 1 17 HELIX 3 3 THR A 53 GLY A 67 1 15 HELIX 4 4 ASP A 82 GLN A 91 1 10 HELIX 5 5 ASP A 114 LEU A 129 1 16 HELIX 6 6 LEU A 143 ALA A 160 1 18 HELIX 7 7 PRO A 165 GLU A 167 5 3 HELIX 8 8 SER A 175 GLY A 188 1 14 HELIX 9 9 ASP A 200 LYS A 214 1 15 HELIX 10 10 ALA A 230 ALA A 236 1 7 HELIX 11 11 ASN A 246 ALA A 265 1 20 HELIX 12 12 PRO B 26 HIS B 40 1 15 HELIX 13 13 THR B 53 ARG B 68 1 16 HELIX 14 14 ASP B 82 GLN B 91 1 10 HELIX 15 15 ASP B 114 GLY B 130 1 17 HELIX 16 16 LEU B 143 ASP B 161 1 19 HELIX 17 17 SER B 175 MSE B 187 1 13 HELIX 18 18 ASP B 200 LEU B 211 1 12 HELIX 19 19 ASN B 246 ALA B 265 1 20 SHEET 1 A12 ALA A 45 MSE A 48 0 SHEET 2 A12 THR A 10 VAL A 14 1 N LEU A 13 O TYR A 47 SHEET 3 A12 GLY A 72 LEU A 75 1 O ILE A 74 N GLY A 12 SHEET 4 A12 PHE A 95 ILE A 98 1 O VAL A 96 N LEU A 75 SHEET 5 A12 TYR A 110 ASP A 112 1 O VAL A 111 N LEU A 97 SHEET 6 A12 CYS A 271 ILE A 273 1 O ILE A 272 N ASP A 112 SHEET 7 A12 CYS B 271 ILE B 274 -1 O CYS B 271 N ILE A 273 SHEET 8 A12 TYR B 110 ASN B 113 1 N ASP B 112 O ILE B 274 SHEET 9 A12 PHE B 95 ILE B 98 1 N LEU B 97 O VAL B 111 SHEET 10 A12 ILE B 70 LEU B 75 1 N LEU B 75 O VAL B 96 SHEET 11 A12 THR B 10 VAL B 14 1 N GLY B 12 O ILE B 74 SHEET 12 A12 ALA B 45 MSE B 48 1 O TYR B 47 N LEU B 13 SHEET 1 B 6 ILE A 169 HIS A 171 0 SHEET 2 B 6 ILE A 134 GLY A 138 1 N GLY A 138 O LEU A 170 SHEET 3 B 6 ALA A 195 ALA A 198 1 O MSE A 197 N ALA A 135 SHEET 4 B 6 SER A 223 PHE A 227 1 O VAL A 225 N ALA A 198 SHEET 5 B 6 SER A 241 ASP A 244 1 O SER A 241 N SER A 226 SHEET 6 B 6 LYS A 277 LEU A 279 -1 O LYS A 277 N ASP A 244 SHEET 1 C 6 ILE B 169 HIS B 171 0 SHEET 2 C 6 ALA B 135 GLY B 138 1 N PHE B 136 O LEU B 170 SHEET 3 C 6 ALA B 195 ALA B 198 1 O MSE B 197 N ALA B 135 SHEET 4 C 6 SER B 223 PHE B 227 1 O SER B 223 N ILE B 196 SHEET 5 C 6 SER B 241 ASP B 244 1 O SER B 241 N SER B 226 SHEET 6 C 6 LYS B 277 LYS B 280 -1 O LYS B 277 N ASP B 244 LINK C VAL A 14 N MSE A 15 1555 1555 1.33 LINK C MSE A 15 N PRO A 16 1555 1555 1.33 LINK C TYR A 47 N MSE A 48 1555 1555 1.32 LINK C MSE A 48 N SER A 49 1555 1555 1.30 LINK C LYS A 63 N MSE A 64 1555 1555 1.33 LINK C MSE A 64 N VAL A 65 1555 1555 1.33 LINK C GLY A 152 N MSE A 153 1555 1555 1.33 LINK C MSE A 153 N SER A 154 1555 1555 1.33 LINK C LEU A 186 N MSE A 187 1555 1555 1.32 LINK C MSE A 187 N GLY A 188 1555 1555 1.33 LINK C ILE A 196 N MSE A 197 1555 1555 1.33 LINK C MSE A 197 N ALA A 198 1555 1555 1.32 LINK C VAL B 14 N MSE B 15 1555 1555 1.33 LINK C MSE B 15 N PRO B 16 1555 1555 1.33 LINK C TYR B 47 N MSE B 48 1555 1555 1.33 LINK C MSE B 48 N SER B 49 1555 1555 1.31 LINK C LYS B 63 N MSE B 64 1555 1555 1.33 LINK C MSE B 64 N VAL B 65 1555 1555 1.31 LINK C GLY B 152 N MSE B 153 1555 1555 1.33 LINK C MSE B 153 N SER B 154 1555 1555 1.33 LINK C LEU B 186 N MSE B 187 1555 1555 1.33 LINK C MSE B 187 N GLY B 188 1555 1555 1.34 LINK C ILE B 196 N MSE B 197 1555 1555 1.31 LINK C MSE B 197 N ALA B 198 1555 1555 1.33 LINK O4 GLC C 1 C1 GLC C 2 1555 1555 1.42 LINK O4 GLC D 1 C1 GLC D 2 1555 1555 1.42 CISPEP 1 VAL A 218 PRO A 219 0 4.38 CISPEP 2 SER A 237 PRO A 238 0 -12.16 CISPEP 3 VAL B 218 PRO B 219 0 -2.62 CRYST1 98.607 98.607 186.749 90.00 90.00 90.00 P 41 21 2 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 0.010141 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010141 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005355 0.00000