HEADER APOPTOSIS 01-MAY-09 2WH6 TITLE CRYSTAL STRUCTURE OF ANTI-APOPTOTIC BHRF1 IN COMPLEX WITH THE BIM BH3 TITLE 2 DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: EARLY ANTIGEN PROTEIN R; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BCL-2, RESIDUES 1-160; COMPND 5 SYNONYM: NUCLEAR ANTIGEN, EA-R, BHRF1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BCL-2-LIKE PROTEIN 11; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: BH3, RESIDUES 51-72; COMPND 11 SYNONYM: BCL2-L-11, BCL2-INTERACTING MEDIATOR OF CELL DEATH, BIM; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EPSTEIN-BARR VIRUS STRAIN AG876; SOURCE 3 ORGANISM_TAXID: 82830; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PDUET; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS MITOCHONDRION, EARLY PROTEIN, TRANSMEMBRANE, VIRAL PROTEIN, APOPTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR M.KVANSAKUL,D.C.S.HUANG,P.M.COLMAN REVDAT 5 13-DEC-23 2WH6 1 REMARK REVDAT 4 28-MAR-18 2WH6 1 SOURCE JRNL REMARK REVDAT 3 13-JUL-11 2WH6 1 VERSN REVDAT 2 16-FEB-11 2WH6 1 JRNL REMARK REVDAT 1 26-MAY-10 2WH6 0 JRNL AUTH M.KVANSAKUL,A.H.WEI,J.I.FLETCHER,S.N.WILLIS,L.CHEN, JRNL AUTH 2 A.W.ROBERTS,D.C.HUANG,P.M.COLMAN JRNL TITL STRUCTURAL BASIS FOR APOPTOSIS INHIBITION BY EPSTEIN-BARR JRNL TITL 2 VIRUS BHRF1. JRNL REF PLOS PATHOG. V. 6 01236 2010 JRNL REFN ESSN 1553-7374 JRNL PMID 21203485 JRNL DOI 10.1371/JOURNAL.PPAT.1001236 REMARK 2 REMARK 2 RESOLUTION. 1.50 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 32170 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) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1705 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2169 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3360 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1457 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 115 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) : 27.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.076 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.875 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1504 ; 0.015 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2046 ; 1.685 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 183 ;11.678 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 75 ;29.789 ;23.067 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 246 ;15.402 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;22.297 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 228 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1145 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 810 ; 0.253 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1040 ; 0.313 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 91 ; 0.262 ; 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): 48 ; 0.201 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 18 ; 0.324 ; 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): 918 ; 1.430 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1455 ; 2.371 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 670 ; 3.404 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 588 ; 4.668 ; 6.000 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 : 3 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 1 A 159 REMARK 3 ORIGIN FOR THE GROUP (A): -31.2863 10.8281 4.9905 REMARK 3 T TENSOR REMARK 3 T11: -0.0182 T22: -0.0602 REMARK 3 T33: -0.0487 T12: -0.0351 REMARK 3 T13: -0.0121 T23: 0.0172 REMARK 3 L TENSOR REMARK 3 L11: 0.3053 L22: 1.0312 REMARK 3 L33: 1.5152 L12: 0.3420 REMARK 3 L13: -0.2875 L23: -0.5980 REMARK 3 S TENSOR REMARK 3 S11: -0.0555 S12: 0.0472 S13: -0.0333 REMARK 3 S21: -0.0507 S22: 0.0960 S23: 0.0569 REMARK 3 S31: -0.1177 S32: -0.0378 S33: -0.0404 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 51 B 76 REMARK 3 ORIGIN FOR THE GROUP (A): -27.1692 24.9296 9.2571 REMARK 3 T TENSOR REMARK 3 T11: 0.1921 T22: -0.1638 REMARK 3 T33: -0.0635 T12: -0.0904 REMARK 3 T13: 0.1041 T23: -0.0042 REMARK 3 L TENSOR REMARK 3 L11: 7.5978 L22: 3.2718 REMARK 3 L33: 3.3341 L12: 0.6473 REMARK 3 L13: 2.5020 L23: 1.2713 REMARK 3 S TENSOR REMARK 3 S11: 0.0839 S12: -0.2723 S13: 0.5385 REMARK 3 S21: -0.4480 S22: 0.2327 S23: 0.0050 REMARK 3 S31: -0.4916 S32: 0.3781 S33: -0.3166 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2001 A 2099 REMARK 3 RESIDUE RANGE : B 2001 B 2016 REMARK 3 RESIDUE RANGE : A 1159 A 1167 REMARK 3 RESIDUE RANGE : A 1168 A 1169 REMARK 3 ORIGIN FOR THE GROUP (A): -30.6051 12.5791 5.2648 REMARK 3 T TENSOR REMARK 3 T11: 0.0402 T22: 0.0284 REMARK 3 T33: 0.0625 T12: -0.0183 REMARK 3 T13: -0.0006 T23: 0.0005 REMARK 3 L TENSOR REMARK 3 L11: 1.5328 L22: 1.2257 REMARK 3 L33: 2.4635 L12: 0.2994 REMARK 3 L13: -0.3345 L23: -0.6295 REMARK 3 S TENSOR REMARK 3 S11: 0.0016 S12: -0.0351 S13: 0.0229 REMARK 3 S21: 0.0583 S22: 0.0496 S23: -0.0564 REMARK 3 S31: -0.1638 S32: -0.0246 S33: -0.0512 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2WH6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1290036537. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-SEP-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.987 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32170 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 40.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.57000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2V6Q REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MALIC ACID PH 4 1.25 M NABR, PH REMARK 280 4.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.58867 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 30.79433 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 30.79433 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 61.58867 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: 3410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.5 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 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 -12 REMARK 465 GLY A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 SER A -3 REMARK 465 GLN A -2 REMARK 465 ASP A -1 REMARK 465 PRO A 0 REMARK 465 MET A 1 REMARK 465 PRO A 159 REMARK 465 GLY A 160 REMARK 465 TYR B 73 REMARK 465 ALA B 74 REMARK 465 ARG B 75 REMARK 465 ARG B 76 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 HIS A 92 ND1 CE1 NE2 REMARK 480 ASP A 95 CG OD1 OD2 REMARK 480 GLN A 146 OE1 NE2 REMARK 480 ARG B 53 CD NE CZ NH1 NH2 REMARK 480 ARG B 64 NH1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 2054 O HOH A 2080 1.95 REMARK 500 O HOH B 2012 O HOH B 2013 1.97 REMARK 500 O ILE A 158 O HOH A 2097 2.03 REMARK 500 O HOH A 2030 O HOH A 2031 2.10 REMARK 500 NE2 HIS A 92 O HOH A 2062 2.13 REMARK 500 O GLY A 94 O HOH A 2067 2.14 REMARK 500 O HOH B 2008 O HOH B 2009 2.14 REMARK 500 O GLU A 155 O HOH A 2095 2.16 REMARK 500 NH1 ARG A 60 BR BR A 1166 2.18 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 HOH A 2021 O HOH A 2055 5555 2.07 REMARK 500 OE1 GLU A 59 ND2 ASN A 84 2564 2.08 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 GLU A 55 CD GLU A 55 OE2 0.071 REMARK 500 HIS A 92 NE2 HIS A 92 CD2 -0.076 REMARK 500 GLN A 146 CD GLN A 146 OE1 0.200 REMARK 500 ARG B 53 CG ARG B 53 CD -0.245 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 HIS A 92 ND1 - CG - CD2 ANGL. DEV. = -11.5 DEGREES REMARK 500 HIS A 92 CB - CG - ND1 ANGL. DEV. = -8.8 DEGREES REMARK 500 ASP A 95 CA - CB - CG ANGL. DEV. = -22.4 DEGREES REMARK 500 ASP A 95 CB - CG - OD1 ANGL. DEV. = 35.0 DEGREES REMARK 500 ASP A 95 CB - CG - OD2 ANGL. DEV. = -31.9 DEGREES REMARK 500 ARG B 53 CB - CG - CD ANGL. DEV. = 19.7 DEGREES REMARK 500 ARG B 64 NH1 - CZ - NH2 ANGL. DEV. = -9.8 DEGREES REMARK 500 ARG B 64 NE - CZ - NH1 ANGL. DEV. = 9.5 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 36 -75.52 -60.70 REMARK 500 HIS A 78 89.76 -158.60 REMARK 500 ARG A 93 67.48 -112.78 REMARK 500 ASN B 70 -7.16 -51.38 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 THR A 36 PRO A 37 35.54 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 HIS A 92 0.17 SIDE CHAIN REMARK 500 GLN A 146 0.11 SIDE CHAIN 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 THR A 36 12.36 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 BR A 1159 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1160 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1162 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1163 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1164 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1165 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 1166 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1168 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1169 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VM6 RELATED DB: PDB REMARK 900 HUMAN BCL-2A1 IN COMPLEX WITH BIM REMARK 900 RELATED ID: 1Q59 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE BHRF1 PROTEIN FROM EPSTEIN-BARRVIRUS, A REMARK 900 HOMOLOG OF HUMAN BCL -2 REMARK 900 RELATED ID: 2V6Q RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A BHRF-1 : BIM BH3 COMPLEX DBREF 2WH6 A 1 160 UNP P03182 EAR_EBV 1 160 DBREF 2WH6 B 51 76 UNP O43521 B2L11_HUMAN 51 76 SEQADV 2WH6 MET A -12 UNP P03182 EXPRESSION TAG SEQADV 2WH6 GLY A -11 UNP P03182 EXPRESSION TAG SEQADV 2WH6 SER A -10 UNP P03182 EXPRESSION TAG SEQADV 2WH6 HIS A -9 UNP P03182 EXPRESSION TAG SEQADV 2WH6 HIS A -8 UNP P03182 EXPRESSION TAG SEQADV 2WH6 HIS A -7 UNP P03182 EXPRESSION TAG SEQADV 2WH6 HIS A -6 UNP P03182 EXPRESSION TAG SEQADV 2WH6 HIS A -5 UNP P03182 EXPRESSION TAG SEQADV 2WH6 HIS A -4 UNP P03182 EXPRESSION TAG SEQADV 2WH6 SER A -3 UNP P03182 EXPRESSION TAG SEQADV 2WH6 GLN A -2 UNP P03182 EXPRESSION TAG SEQADV 2WH6 ASP A -1 UNP P03182 EXPRESSION TAG SEQADV 2WH6 PRO A 0 UNP P03182 EXPRESSION TAG SEQRES 1 A 173 MET GLY SER HIS HIS HIS HIS HIS HIS SER GLN ASP PRO SEQRES 2 A 173 MET ALA TYR SER THR ARG GLU ILE LEU LEU ALA LEU CYS SEQRES 3 A 173 ILE ARG ASP SER ARG VAL HIS GLY ASN GLY THR LEU HIS SEQRES 4 A 173 PRO VAL LEU GLU LEU ALA ALA ARG GLU THR PRO LEU ARG SEQRES 5 A 173 LEU SER PRO GLU ASP THR VAL VAL LEU ARG TYR HIS VAL SEQRES 6 A 173 LEU LEU GLU GLU ILE ILE GLU ARG ASN SER GLU THR PHE SEQRES 7 A 173 THR GLU THR TRP ASN ARG PHE ILE THR HIS THR GLU HIS SEQRES 8 A 173 VAL ASP LEU ASP PHE ASN SER VAL PHE LEU GLU ILE PHE SEQRES 9 A 173 HIS ARG GLY ASP PRO SER LEU GLY ARG ALA LEU ALA TRP SEQRES 10 A 173 MET ALA TRP CYS MET HIS ALA CYS ARG THR LEU CYS CYS SEQRES 11 A 173 ASN GLN SER THR PRO TYR TYR VAL VAL ASP LEU SER VAL SEQRES 12 A 173 ARG GLY MET LEU GLU ALA SER GLU GLY LEU ASP GLY TRP SEQRES 13 A 173 ILE HIS GLN GLN GLY GLY TRP SER THR LEU ILE GLU ASP SEQRES 14 A 173 ASN ILE PRO GLY SEQRES 1 B 26 ASP MET ARG PRO GLU ILE TRP ILE ALA GLN GLU LEU ARG SEQRES 2 B 26 ARG ILE GLY ASP GLU PHE ASN ALA TYR TYR ALA ARG ARG HET BR A1159 1 HET BR A1160 1 HET BR A1161 1 HET BR A1162 1 HET BR A1163 1 HET BR A1164 1 HET BR A1165 1 HET BR A1166 1 HET BR A1167 1 HET GOL A1168 6 HET GOL A1169 6 HETNAM BR BROMIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 BR 9(BR 1-) FORMUL 12 GOL 2(C3 H8 O3) FORMUL 14 HOH *115(H2 O) HELIX 1 1 SER A 4 VAL A 19 1 16 HELIX 2 2 HIS A 26 THR A 36 1 11 HELIX 3 3 ASP A 44 ASN A 61 1 18 HELIX 4 4 ASN A 61 THR A 76 1 16 HELIX 5 5 HIS A 78 HIS A 92 1 15 HELIX 6 6 SER A 97 ASN A 118 1 22 HELIX 7 7 PRO A 122 GLU A 138 1 17 HELIX 8 8 LEU A 140 GLN A 147 1 8 HELIX 9 9 GLY A 148 ASN A 157 1 10 HELIX 10 10 MET B 52 ASN B 70 1 19 SITE 1 AC1 2 VAL A 79 BR A1163 SITE 1 AC2 2 SER A 41 ASN A 70 SITE 1 AC3 1 SER A 62 SITE 1 AC4 2 TRP A 69 LEU A 115 SITE 1 AC5 3 TYR A 123 TYR A 124 BR A1159 SITE 1 AC6 2 ARG A 49 GLU A 155 SITE 1 AC7 4 ARG A 93 ILE B 56 GLN B 60 ARG B 63 SITE 1 AC8 2 ARG A 60 ASN A 61 SITE 1 AC9 5 ARG A 6 THR A 36 ARG A 131 GLU A 135 SITE 2 AC9 5 HOH A2081 SITE 1 BC1 6 ALA A 33 LEU A 38 SER A 62 GLU A 63 SITE 2 BC1 6 THR A 66 HOH A2043 CRYST1 62.747 62.747 92.383 90.00 90.00 120.00 P 32 2 1 6 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 0.015937 0.009201 0.000000 0.00000 SCALE2 0.000000 0.018402 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010825 0.00000