HEADER APOPTOSIS 31-AUG-10 2XPX TITLE CRYSTAL STRUCTURE OF BHRF1:BAK BH3 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: APOPTOSIS REGULATOR BHRF1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BCL-2, RESIDUES 1-160; COMPND 5 SYNONYM: BHRF1, EARLY ANTIGEN PROTEIN R, EA-R, NUCLEAR ANTIGEN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BCL-2 HOMOLOGOUS ANTAGONIST/KILLER; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: RESIDUES 67-92; COMPND 11 SYNONYM: BAK, APOPTOSIS REGULATOR BAK, BCL-2-LIKE PROTEIN 7, COMPND 12 BCL2-L-7; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HUMAN HERPESVIRUS 4; SOURCE 3 ORGANISM_TAXID: 10376; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VARIANT: PLYZS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PDUET; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_VARIANT: PLYZS; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PDUET KEYWDS APOPTOSIS, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.KVANSAKUL,D.C.S.HUANG,P.M.COLMAN REVDAT 2 28-DEC-11 2XPX 1 JRNL REMARK VERSN REVDAT 1 26-JAN-11 2XPX 0 JRNL AUTH M.KVANSAKUL,A.H.WEI,J.I.FLETCHER,S.N.WILLIS,L.CHEN, JRNL AUTH 2 A.W.ROBERTS,D.C.S.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 1236 2010 JRNL REFN ISSN 1553-7366 JRNL PMID 21203485 JRNL DOI 10.1371/JOURNAL.PPAT.1001236 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 99.56 REMARK 3 NUMBER OF REFLECTIONS : 12943 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) : 0.18505 REMARK 3 R VALUE (WORKING SET) : 0.18352 REMARK 3 FREE R VALUE : 0.21696 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.9 REMARK 3 FREE R VALUE TEST SET COUNT : 668 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) : 2.053 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.106 REMARK 3 REFLECTION IN BIN (WORKING SET) : 889 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.41 REMARK 3 BIN R VALUE (WORKING SET) : 0.248 REMARK 3 BIN FREE R VALUE SET COUNT : 56 REMARK 3 BIN FREE R VALUE : 0.332 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1437 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 73 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.774 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00 REMARK 3 B22 (A**2) : 0.00 REMARK 3 B33 (A**2) : 0.00 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.179 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.155 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.364 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 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): 1457 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1972 ; 1.843 ; 1.941 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 179 ; 7.646 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 68 ;33.010 ;22.206 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 236 ;17.682 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;19.759 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 223 ; 0.138 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1098 ; 0.011 ; 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): 891 ; 1.138 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1417 ; 1.948 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 566 ; 3.074 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 552 ; 4.548 ; 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 : 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 3 A 157 REMARK 3 ORIGIN FOR THE GROUP (A): -31.4998 10.6644 -20.8262 REMARK 3 T TENSOR REMARK 3 T11: 0.1751 T22: 0.1840 REMARK 3 T33: 0.1773 T12: 0.0190 REMARK 3 T13: 0.0016 T23: -0.0245 REMARK 3 L TENSOR REMARK 3 L11: 1.3537 L22: 2.2797 REMARK 3 L33: 2.6404 L12: -0.2667 REMARK 3 L13: 0.0206 L23: 0.8398 REMARK 3 S TENSOR REMARK 3 S11: -0.0089 S12: 0.0209 S13: 0.0096 REMARK 3 S21: 0.0427 S22: 0.1326 S23: -0.1468 REMARK 3 S31: -0.1170 S32: 0.1694 S33: -0.1237 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 69 B 91 REMARK 3 ORIGIN FOR THE GROUP (A): -32.9072 26.1778 -22.1560 REMARK 3 T TENSOR REMARK 3 T11: 0.4049 T22: 0.0183 REMARK 3 T33: 0.2372 T12: 0.0023 REMARK 3 T13: 0.0653 T23: 0.0286 REMARK 3 L TENSOR REMARK 3 L11: 14.9108 L22: 8.3738 REMARK 3 L33: 25.0160 L12: 4.9471 REMARK 3 L13: 17.6067 L23: 7.6261 REMARK 3 S TENSOR REMARK 3 S11: -0.9382 S12: 0.2801 S13: 1.3377 REMARK 3 S21: -1.0029 S22: -0.0777 S23: -0.0629 REMARK 3 S31: -1.5368 S32: 0.2840 S33: 1.0159 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1158 A 1163 REMARK 3 RESIDUE RANGE : A 2001 A 2065 REMARK 3 RESIDUE RANGE : B 2001 B 2008 REMARK 3 ORIGIN FOR THE GROUP (A): -32.4956 10.3165 -19.9510 REMARK 3 T TENSOR REMARK 3 T11: 0.4116 T22: 0.4376 REMARK 3 T33: 0.4279 T12: 0.0418 REMARK 3 T13: 0.0346 T23: -0.0224 REMARK 3 L TENSOR REMARK 3 L11: 2.0152 L22: 2.2506 REMARK 3 L33: 2.4111 L12: 0.6379 REMARK 3 L13: 0.3609 L23: 0.5560 REMARK 3 S TENSOR REMARK 3 S11: -0.0872 S12: -0.0872 S13: -0.0405 REMARK 3 S21: 0.1007 S22: 0.1273 S23: -0.0991 REMARK 3 S31: -0.0666 S32: 0.1512 S33: -0.0400 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. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B REMARK 3 FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U FACTORS. REMARK 4 REMARK 4 2XPX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-AUG-10. REMARK 100 THE PDBE ID CODE IS EBI-45224. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.4 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) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12945 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.05 REMARK 200 RESOLUTION RANGE LOW (A) : 50.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 10 REMARK 200 R MERGE (I) : 0.06 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.90 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.1 REMARK 200 R MERGE FOR SHELL (I) : 0.50 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.20 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 (%): 47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M NANO3, 50 MM MALIC ACID REMARK 280 PH 4.4 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 62.48600 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 31.24300 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 31.24300 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 62.48600 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: 2910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.9 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 ALA A 2 REMARK 465 GLY A 94 REMARK 465 ASP A 95 REMARK 465 ILE A 158 REMARK 465 PRO A 159 REMARK 465 GLY A 160 REMARK 465 PRO B 67 REMARK 465 SER B 68 REMARK 465 GLU B 92 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 TYR A 3 CB CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 ARG A 39 CG CD NE CZ NH1 NH2 REMARK 480 GLU A 43 OE2 REMARK 480 ASN A 70 OD1 REMARK 480 GLU A 77 OE1 OE2 REMARK 480 GLN A 119 CG CD OE1 NE2 REMARK 480 GLN A 146 CG CD OE1 NE2 REMARK 480 ASN A 157 CG OD1 ND2 REMARK 480 GLN B 73 OE1 NE2 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 NE ARG A 39 O HOH A 2020 1.06 REMARK 500 CD1 TYR A 3 O HOH A 2002 1.22 REMARK 500 CG TYR A 3 O HOH A 2002 1.50 REMARK 500 CD ARG A 39 O HOH A 2020 1.59 REMARK 500 CG ARG A 39 O HOH A 2020 1.83 REMARK 500 CB TYR A 3 O HOH A 2002 1.86 REMARK 500 NE2 GLN B 77 O HOH B 2004 1.92 REMARK 500 O HOH A 2008 O HOH A 2054 1.95 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 TYR A 3 CA TYR A 3 CB 0.207 REMARK 500 ARG A 39 CB ARG A 39 CG -0.168 REMARK 500 GLU A 77 CD GLU A 77 OE1 -0.397 REMARK 500 GLU A 77 CD GLU A 77 OE2 0.219 REMARK 500 ASN A 84 CB ASN A 84 CG 0.149 REMARK 500 GLN A 119 CB GLN A 119 CG -0.369 REMARK 500 GLN A 146 CB GLN A 146 CG -0.217 REMARK 500 ASN A 157 CB ASN A 157 CG -0.138 REMARK 500 GLN B 73 CD GLN B 73 OE1 0.291 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 TYR A 3 N - CA - CB ANGL. DEV. = -21.3 DEGREES REMARK 500 PRO A 37 C - N - CA ANGL. DEV. = 20.0 DEGREES REMARK 500 PRO A 37 C - N - CD ANGL. DEV. = -27.0 DEGREES REMARK 500 GLU A 77 OE1 - CD - OE2 ANGL. DEV. = 22.9 DEGREES REMARK 500 GLU A 77 CG - CD - OE2 ANGL. DEV. = -14.2 DEGREES REMARK 500 GLN A 119 CA - CB - CG ANGL. DEV. = 16.9 DEGREES REMARK 500 ARG A 131 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 GLN A 146 CA - CB - CG ANGL. DEV. = 18.3 DEGREES REMARK 500 GLN B 73 CG - CD - OE1 ANGL. DEV. = -15.9 DEGREES REMARK 500 GLN B 73 CG - CD - NE2 ANGL. DEV. = 15.5 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 PRO A 37 83.36 34.91 REMARK 500 HIS A 78 83.66 -155.86 REMARK 500 HIS A 92 -73.16 19.06 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 -123.60 REMARK 500 GLU A 155 ASP A 156 -146.27 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 GLU A 43 0.11 SIDE CHAIN REMARK 500 GLN B 73 0.12 SIDE CHAIN 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 TYR A 3 45.6 L L OUTSIDE RANGE REMARK 500 VAL A 86 24.2 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 NO3 A1158 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A1159 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A1160 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A1161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A1162 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A1163 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1BXL RELATED DB: PDB REMARK 900 STRUCTURE OF BCL-XL/BAK PEPTIDE COMPLEX, REMARK 900 NMR, MINIMIZED AVERAGE STRUCTURE REMARK 900 RELATED ID: 2JCN RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF BAK1 - A REMARK 900 MITOCHONDRIAL APOPTOSIS REGULATOR REMARK 900 RELATED ID: 2JBY RELATED DB: PDB REMARK 900 A VIRAL PROTEIN UNEXPECTEDLY MIMICS THE REMARK 900 STRUCTURE AND FUNCTION OF PRO-SURVIVAL BCL-2 REMARK 900 RELATED ID: 1Q59 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE BHRF1 PROTEIN FROM REMARK 900 EPSTEIN-BARRVIRUS, A HOMOLOG OF HUMAN BCL-2 DBREF 2XPX A 1 160 UNP P03182 EAR_EBVB9 1 160 DBREF 2XPX B 67 92 UNP Q16611 BAK_HUMAN 67 92 SEQADV 2XPX MET A -12 UNP P03182 EXPRESSION TAG SEQADV 2XPX GLY A -11 UNP P03182 EXPRESSION TAG SEQADV 2XPX SER A -10 UNP P03182 EXPRESSION TAG SEQADV 2XPX HIS A -9 UNP P03182 EXPRESSION TAG SEQADV 2XPX HIS A -8 UNP P03182 EXPRESSION TAG SEQADV 2XPX HIS A -7 UNP P03182 EXPRESSION TAG SEQADV 2XPX HIS A -6 UNP P03182 EXPRESSION TAG SEQADV 2XPX HIS A -5 UNP P03182 EXPRESSION TAG SEQADV 2XPX HIS A -4 UNP P03182 EXPRESSION TAG SEQADV 2XPX SER A -3 UNP P03182 EXPRESSION TAG SEQADV 2XPX GLN A -2 UNP P03182 EXPRESSION TAG SEQADV 2XPX ASP A -1 UNP P03182 EXPRESSION TAG SEQADV 2XPX 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 PRO SER SER THR MET GLY GLN VAL GLY ARG GLN LEU ALA SEQRES 2 B 26 ILE ILE GLY ASP ASP ILE ASN ARG ARG TYR ASP SER GLU HET NO3 A1158 4 HET NO3 A1159 4 HET NO3 A1160 4 HET NO3 A1161 4 HET EDO A1162 4 HET EDO A1163 4 HETNAM NO3 NITRATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NO3 4(N O3 1-) FORMUL 4 EDO 2(C2 H6 O2) FORMUL 5 HOH *73(H2 O) HELIX 1 1 SER A 4 GLY A 21 1 18 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 149 ASP A 156 1 8 HELIX 10 10 SER B 69 ASP B 90 1 22 SITE 1 AC1 8 SER A 17 ARG A 18 GLY A 21 ASN A 22 SITE 2 AC1 8 GLY A 23 THR A 24 LEU A 25 HOH A2065 SITE 1 AC2 5 ILE A 57 ARG A 60 ASN A 61 ILE B 85 SITE 2 AC2 5 ARG B 88 SITE 1 AC3 5 ARG A 15 ARG A 18 PRO A 42 GLU A 43 SITE 2 AC3 5 GLU A 67 SITE 1 AC4 5 ASP A 16 SER A 17 GLY A 21 ARG A 113 SITE 2 AC4 5 CYS A 117 SITE 1 AC5 4 HIS A 26 HIS A 78 THR A 121 TYR A 123 SITE 1 AC6 5 GLU A 77 HIS A 78 VAL A 79 TYR A 123 SITE 2 AC6 5 TYR A 124 CRYST1 62.387 62.387 93.729 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 0.016029 0.009254 0.000000 0.00000 SCALE2 0.000000 0.018509 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010669 0.00000 MASTER 524 0 6 10 0 0 11 6 0 0 0 16 END