HEADER HYDROLASE 23-AUG-18 6M9G TITLE BBVCI B2 DIMER WITH TA6BR14 CLUSTERS COMPND MOL_ID: 1; COMPND 2 MOLECULE: BBVCI ENDONUCLEASE SUBUNIT 2; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BREVIBACILLUS BREVIS; SOURCE 3 ORGANISM_TAXID: 1393; SOURCE 4 GENE: BBVCIR-2; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ENDONUCLEASE, DNA BINDING PROTEIN, TYPE IIT RESTRICTION ENZYME, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR B.W.SHEN,B.L.STODDARD REVDAT 5 28-JUN-23 6M9G 1 REMARK LINK REVDAT 4 18-DEC-19 6M9G 1 REMARK REVDAT 3 23-JAN-19 6M9G 1 JRNL REVDAT 2 21-NOV-18 6M9G 1 JRNL REVDAT 1 14-NOV-18 6M9G 0 JRNL AUTH B.W.SHEN,L.DOYLE,P.BRADLEY,D.F.HEITER,K.D.LUNNEN,G.G.WILSON, JRNL AUTH 2 B.L.STODDARD JRNL TITL STRUCTURE, SUBUNIT ORGANIZATION AND BEHAVIOR OF THE JRNL TITL 2 ASYMMETRIC TYPE IIT RESTRICTION ENDONUCLEASE BBVCI. JRNL REF NUCLEIC ACIDS RES. V. 47 450 2019 JRNL REFN ESSN 1362-4962 JRNL PMID 30395313 JRNL DOI 10.1093/NAR/GKY1059 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0230 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 31535 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 : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1699 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) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1990 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.09 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.2850 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4392 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 198 REMARK 3 SOLVENT ATOMS : 21 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 60.63 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 10.55000 REMARK 3 B22 (A**2) : -34.17000 REMARK 3 B33 (A**2) : 23.61000 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): 0.060 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.047 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.123 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.003 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4891 ; 0.012 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7997 ; 2.055 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 544 ; 7.206 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 247 ;36.126 ;22.874 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 791 ;19.921 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;16.854 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 577 ; 0.153 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3406 ; 0.010 ; 0.020 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): 2183 ; 3.133 ; 4.226 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2724 ; 4.955 ; 6.324 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2707 ; 4.355 ; 5.007 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 18291 ;10.325 ;78.154 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 9 273 B 9 273 8172 0.13 0.05 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 4 A 283 REMARK 3 ORIGIN FOR THE GROUP (A): 17.4603 49.3774 17.7245 REMARK 3 T TENSOR REMARK 3 T11: 0.1029 T22: 0.1270 REMARK 3 T33: 0.0162 T12: 0.0079 REMARK 3 T13: 0.0321 T23: 0.0179 REMARK 3 L TENSOR REMARK 3 L11: 2.1468 L22: 2.7635 REMARK 3 L33: 0.5772 L12: 2.0147 REMARK 3 L13: 0.4515 L23: 0.1444 REMARK 3 S TENSOR REMARK 3 S11: 0.1501 S12: -0.3561 S13: 0.0468 REMARK 3 S21: 0.3987 S22: -0.1686 S23: 0.1343 REMARK 3 S31: -0.0876 S32: -0.0111 S33: 0.0185 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 9 B 274 REMARK 3 ORIGIN FOR THE GROUP (A): 10.3842 13.0575 38.5979 REMARK 3 T TENSOR REMARK 3 T11: 0.1403 T22: 0.0293 REMARK 3 T33: 0.0655 T12: 0.0543 REMARK 3 T13: 0.0725 T23: 0.0295 REMARK 3 L TENSOR REMARK 3 L11: 2.0100 L22: 3.4698 REMARK 3 L33: 0.2730 L12: -1.8093 REMARK 3 L13: -0.0315 L23: 0.3266 REMARK 3 S TENSOR REMARK 3 S11: 0.1550 S12: 0.1821 S13: 0.0725 REMARK 3 S21: -0.5010 S22: -0.2664 S23: -0.1024 REMARK 3 S31: 0.0523 S32: 0.0201 S33: 0.1113 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: NULL REMARK 4 REMARK 4 6M9G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-AUG-18. REMARK 100 THE DEPOSITION ID IS D_1000236320. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0060 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 X 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 V7.2 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 V7.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33287 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 47.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 21.20 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.16000 REMARK 200 FOR THE DATA SET : 23.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 11.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.70300 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: BUCCANEER V1.5 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.8 M (NH4)2SO4, 100 MM NAOAC PH4.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 53.52700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.52700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 43.05300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 86.65200 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.05300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 86.65200 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 53.52700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.05300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 86.65200 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 53.52700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.05300 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 86.65200 REMARK 290 SMTRY3 8 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: 7450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 53.52700 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 TA4 TBR B 302 LIES ON A SPECIAL POSITION. 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 MET A 1 REMARK 465 PHE A 2 REMARK 465 ASN A 3 REMARK 465 ARG A 284 REMARK 465 PRO A 285 REMARK 465 MET B 1 REMARK 465 PHE B 2 REMARK 465 ASN B 3 REMARK 465 GLN B 4 REMARK 465 PHE B 5 REMARK 465 ASN B 6 REMARK 465 PRO B 7 REMARK 465 LEU B 8 REMARK 465 ALA B 275 REMARK 465 LEU B 276 REMARK 465 GLN B 277 REMARK 465 ARG B 278 REMARK 465 GLY B 279 REMARK 465 LYS B 280 REMARK 465 VAL B 281 REMARK 465 PHE B 282 REMARK 465 ASN B 283 REMARK 465 ARG B 284 REMARK 465 PRO B 285 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN A 283 CG OD1 ND2 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 CG ARG B 196 BRB TBR B 302 1.80 REMARK 500 ND2 ASN B 263 O HOH B 401 2.17 REMARK 500 CG2 THR A 131 OE1 GLU A 137 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HIS A 127 O ILE B 268 3555 1.98 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 ARG A 101 CG - CD - NE ANGL. DEV. = 12.8 DEGREES REMARK 500 ARG B 184 CG - CD - NE ANGL. DEV. = 13.8 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 ASN A 6 108.78 -163.20 REMARK 500 LEU A 79 -52.54 -129.85 REMARK 500 ASN A 80 -102.45 77.64 REMARK 500 GLU A 84 -122.02 50.35 REMARK 500 ARG A 113 68.28 -154.70 REMARK 500 SER A 135 77.75 -166.58 REMARK 500 LYS A 214 53.47 -145.24 REMARK 500 SER A 237 -19.56 -154.51 REMARK 500 TYR B 10 80.90 65.89 REMARK 500 ASN B 80 -111.63 -83.44 REMARK 500 ARG B 113 54.97 -162.52 REMARK 500 SER B 135 82.93 -162.06 REMARK 500 LYS B 214 52.35 -143.84 REMARK 500 LEU B 222 57.95 -113.54 REMARK 500 THR B 223 -106.11 -65.85 REMARK 500 PRO B 242 -103.05 -21.83 REMARK 500 TRP B 269 -85.36 78.00 REMARK 500 ASN B 273 -50.93 -146.09 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 GLY A 162 GLU A 163 -145.27 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 113 0.12 SIDE CHAIN REMARK 500 ARG B 18 0.09 SIDE CHAIN REMARK 500 ARG B 239 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 TBR B 303 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BR A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BR A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BR A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TBR B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BR B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BR B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BR B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide TBR B 302 and ARG B REMARK 800 196 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6EG7 RELATED DB: PDB REMARK 900 CONTAIN THE SAME PROTEIN WITH I3C DBREF 6M9G A 1 285 UNP Q5D6Y4 Q5D6Y4_BREBE 1 285 DBREF 6M9G B 1 285 UNP Q5D6Y4 Q5D6Y4_BREBE 1 285 SEQRES 1 A 285 MET PHE ASN GLN PHE ASN PRO LEU VAL TYR THR HIS GLY SEQRES 2 A 285 GLY LYS LEU GLU ARG LYS SER LYS LYS ASP LYS THR ALA SEQRES 3 A 285 SER LYS VAL PHE GLU GLU PHE GLY VAL MET GLU ALA TYR SEQRES 4 A 285 ASN CYS TRP LYS GLU ALA SER LEU CYS ILE GLN GLN ARG SEQRES 5 A 285 ASP LYS ASP SER VAL LEU LYS LEU VAL ALA ALA LEU ASN SEQRES 6 A 285 THR TYR LYS ASP ALA VAL GLU PRO ILE PHE ASP SER ARG SEQRES 7 A 285 LEU ASN SER ALA GLN GLU VAL LEU GLN PRO SER ILE LEU SEQRES 8 A 285 GLU GLU PHE PHE GLU TYR LEU PHE SER ARG ILE ASP SER SEQRES 9 A 285 ILE VAL GLY VAL ASN ILE PRO ILE ARG HIS PRO ALA LYS SEQRES 10 A 285 GLY TYR LEU SER LEU SER PHE ASN PRO HIS ASN ILE GLU SEQRES 11 A 285 THR LEU ILE GLN SER PRO GLU TYR THR VAL ARG ALA LYS SEQRES 12 A 285 ASP HIS ASP PHE ILE ILE GLY GLY SER ALA LYS LEU THR SEQRES 13 A 285 ILE GLN GLY HIS GLY GLY GLU GLY GLU THR THR ASN ILE SEQRES 14 A 285 VAL VAL PRO ALA VAL ALA ILE GLU CYS LYS ARG TYR LEU SEQRES 15 A 285 GLU ARG ASN MET LEU ASP GLU CYS ALA GLY THR ALA GLU SEQRES 16 A 285 ARG LEU LYS ARG ALA THR PRO TYR CYS LEU TYR PHE VAL SEQRES 17 A 285 VAL ALA GLU TYR LEU LYS LEU ASP ASP GLY ALA PRO GLU SEQRES 18 A 285 LEU THR GLU ILE ASP GLU ILE TYR ILE LEU ARG HIS GLN SEQRES 19 A 285 ARG ASN SER GLU ARG ASN LYS PRO GLY PHE LYS PRO ASN SEQRES 20 A 285 PRO ILE ASP GLY GLU LEU ILE TRP ASP LEU TYR GLN GLU SEQRES 21 A 285 VAL MET ASN HIS LEU GLY LYS ILE TRP TRP ASP PRO ASN SEQRES 22 A 285 SER ALA LEU GLN ARG GLY LYS VAL PHE ASN ARG PRO SEQRES 1 B 285 MET PHE ASN GLN PHE ASN PRO LEU VAL TYR THR HIS GLY SEQRES 2 B 285 GLY LYS LEU GLU ARG LYS SER LYS LYS ASP LYS THR ALA SEQRES 3 B 285 SER LYS VAL PHE GLU GLU PHE GLY VAL MET GLU ALA TYR SEQRES 4 B 285 ASN CYS TRP LYS GLU ALA SER LEU CYS ILE GLN GLN ARG SEQRES 5 B 285 ASP LYS ASP SER VAL LEU LYS LEU VAL ALA ALA LEU ASN SEQRES 6 B 285 THR TYR LYS ASP ALA VAL GLU PRO ILE PHE ASP SER ARG SEQRES 7 B 285 LEU ASN SER ALA GLN GLU VAL LEU GLN PRO SER ILE LEU SEQRES 8 B 285 GLU GLU PHE PHE GLU TYR LEU PHE SER ARG ILE ASP SER SEQRES 9 B 285 ILE VAL GLY VAL ASN ILE PRO ILE ARG HIS PRO ALA LYS SEQRES 10 B 285 GLY TYR LEU SER LEU SER PHE ASN PRO HIS ASN ILE GLU SEQRES 11 B 285 THR LEU ILE GLN SER PRO GLU TYR THR VAL ARG ALA LYS SEQRES 12 B 285 ASP HIS ASP PHE ILE ILE GLY GLY SER ALA LYS LEU THR SEQRES 13 B 285 ILE GLN GLY HIS GLY GLY GLU GLY GLU THR THR ASN ILE SEQRES 14 B 285 VAL VAL PRO ALA VAL ALA ILE GLU CYS LYS ARG TYR LEU SEQRES 15 B 285 GLU ARG ASN MET LEU ASP GLU CYS ALA GLY THR ALA GLU SEQRES 16 B 285 ARG LEU LYS ARG ALA THR PRO TYR CYS LEU TYR PHE VAL SEQRES 17 B 285 VAL ALA GLU TYR LEU LYS LEU ASP ASP GLY ALA PRO GLU SEQRES 18 B 285 LEU THR GLU ILE ASP GLU ILE TYR ILE LEU ARG HIS GLN SEQRES 19 B 285 ARG ASN SER GLU ARG ASN LYS PRO GLY PHE LYS PRO ASN SEQRES 20 B 285 PRO ILE ASP GLY GLU LEU ILE TRP ASP LEU TYR GLN GLU SEQRES 21 B 285 VAL MET ASN HIS LEU GLY LYS ILE TRP TRP ASP PRO ASN SEQRES 22 B 285 SER ALA LEU GLN ARG GLY LYS VAL PHE ASN ARG PRO HET TBR A 301 36 HET TBR A 302 18 HET TBR A 303 18 HET TBR A 304 18 HET TBR A 305 18 HET TBR A 306 18 HET TBR A 307 18 HET BR A 308 1 HET BR A 309 1 HET BR A 310 1 HET EDO A 311 4 HET SO4 A 312 5 HET ACT A 313 4 HET TBR B 301 18 HET TBR B 302 18 HET TBR B 303 12 HET BR B 304 1 HET BR B 305 1 HET BR B 306 1 HET SO4 B 307 5 HETNAM TBR HEXATANTALUM DODECABROMIDE HETNAM BR BROMIDE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM SO4 SULFATE ION HETNAM ACT ACETATE ION HETSYN TBR DODECABROMOHEXATANTALUM HETSYN EDO ETHYLENE GLYCOL FORMUL 3 TBR 10(BR12 TA6) FORMUL 10 BR 6(BR 1-) FORMUL 13 EDO C2 H6 O2 FORMUL 14 SO4 2(O4 S 2-) FORMUL 15 ACT C2 H3 O2 1- FORMUL 23 HOH *21(H2 O) HELIX 1 AA1 TYR A 10 ASP A 23 1 14 HELIX 2 AA2 ASP A 23 PHE A 33 1 11 HELIX 3 AA3 GLY A 34 CYS A 48 1 15 HELIX 4 AA4 ASP A 53 LEU A 79 1 27 HELIX 5 AA5 ASN A 80 GLU A 84 5 5 HELIX 6 AA6 PRO A 88 PHE A 99 1 12 HELIX 7 AA7 ILE A 102 GLY A 107 1 6 HELIX 8 AA8 ASN A 128 SER A 135 1 8 HELIX 9 AA9 GLU A 183 THR A 201 1 19 HELIX 10 AB1 ASP A 250 LYS A 267 1 18 HELIX 11 AB2 ASP A 271 ASN A 273 5 3 HELIX 12 AB3 SER A 274 GLY A 279 1 6 HELIX 13 AB4 TYR B 10 ASP B 23 1 14 HELIX 14 AB5 ASP B 23 PHE B 33 1 11 HELIX 15 AB6 GLY B 34 CYS B 48 1 15 HELIX 16 AB7 ASP B 53 LEU B 79 1 27 HELIX 17 AB8 PRO B 88 PHE B 99 1 12 HELIX 18 AB9 ARG B 101 GLY B 107 1 7 HELIX 19 AC1 ASN B 128 SER B 135 1 8 HELIX 20 AC2 GLU B 183 THR B 201 1 19 HELIX 21 AC3 SER B 237 ARG B 239 5 3 HELIX 22 AC4 ASP B 250 GLY B 266 1 17 SHEET 1 AA1 5 ILE A 112 PHE A 124 0 SHEET 2 AA1 5 TYR A 138 ILE A 157 -1 O ARG A 141 N LEU A 120 SHEET 3 AA1 5 GLU A 165 LEU A 182 -1 O ALA A 173 N ILE A 149 SHEET 4 AA1 5 LEU A 205 LEU A 213 1 O VAL A 209 N GLU A 177 SHEET 5 AA1 5 GLU A 227 ARG A 235 1 O TYR A 229 N ALA A 210 SHEET 1 AA2 6 GLU B 227 ARG B 235 0 SHEET 2 AA2 6 LEU B 205 LEU B 213 1 N ALA B 210 O TYR B 229 SHEET 3 AA2 6 GLY B 164 LEU B 182 1 N GLU B 177 O VAL B 209 SHEET 4 AA2 6 TYR B 138 GLN B 158 -1 N ILE B 149 O ALA B 173 SHEET 5 AA2 6 ILE B 112 PHE B 124 -1 N LEU B 120 O ARG B 141 SHEET 6 AA2 6 GLY B 164 LEU B 182 1 O VAL B 170 N TYR B 119 SITE 1 AC1 9 PHE A 5 PRO A 7 SER A 100 ARG A 101 SITE 2 AC1 9 ASP A 103 HIS A 127 THR A 131 GLU A 137 SITE 3 AC1 9 PRO B 272 SITE 1 AC2 4 ARG A 278 LYS A 280 GLU B 252 ASP B 256 SITE 1 AC3 2 HIS B 127 GLU B 137 SITE 1 AC4 4 LEU A 205 ASP A 226 HIS A 264 LYS A 267 SITE 1 AC5 6 ARG A 141 GLU A 195 ARG A 196 GLU A 221 SITE 2 AC5 6 TBR A 307 ARG B 199 SITE 1 AC6 5 GLU A 44 HIS A 160 SER B 27 LYS B 28 SITE 2 AC6 5 GLU B 31 SITE 1 AC7 6 GLU A 195 ARG A 199 TBR A 305 ARG B 199 SITE 2 AC7 6 TBR B 302 BR B 304 SITE 1 AC8 2 ARG A 180 ARG A 239 SITE 1 AC9 3 LEU A 8 TYR A 10 ASN A 128 SITE 1 AD1 4 ARG A 199 SER B 121 ARG B 141 TBR B 302 SITE 1 AD2 8 TYR A 119 SER A 121 LEU A 122 ARG A 199 SITE 2 AD2 8 TYR B 119 LEU B 120 SER B 121 LEU B 122 SITE 1 AD3 6 CYS A 48 ILE A 49 GLN A 50 GLN A 51 SITE 2 AD3 6 SER A 56 LYS A 59 SITE 1 AD4 4 ILE A 228 ILE A 230 HOH A 401 HOH A 408 SITE 1 AD5 7 SER B 20 GLU B 31 ASP B 103 ASN B 109 SITE 2 AD5 7 ARG B 113 BR B 305 BR B 306 SITE 1 AD6 3 HIS B 264 LYS B 267 HOH B 405 SITE 1 AD7 3 ARG A 141 ARG A 199 TBR A 307 SITE 1 AD8 2 HIS A 160 TBR B 301 SITE 1 AD9 1 TBR B 301 SITE 1 AE1 4 ILE B 49 GLN B 50 GLN B 51 SER B 56 SITE 1 AE2 11 TBR A 307 BR A 310 LEU B 120 GLY B 192 SITE 2 AE2 11 THR B 193 ALA B 194 GLU B 195 LEU B 197 SITE 3 AE2 11 LYS B 198 ARG B 199 ALA B 200 CRYST1 86.106 173.304 107.054 90.00 90.00 90.00 C 2 2 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 0.011614 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005770 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009341 0.00000