PDB Short entry for 3DCG HEADER LIGASE/VIRAL PROTEIN 03-JUN-08 3DCG TITLE CRYSTAL STRUCTURE OF THE HIV VIF BC-BOX IN COMPLEX WITH HUMAN ELONGINB TITLE 2 AND ELONGINC COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 2; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: ELONGINB, RNA POLYMERASE II TRANSCRIPTION FACTOR SIII COMPND 5 SUBUNIT B, SIII P18, ELONGIN-B, ELOB, ELONGIN 18 KDA SUBUNIT; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TRANSCRIPTION ELONGATION FACTOR B POLYPEPTIDE 1; COMPND 9 CHAIN: B, D; COMPND 10 FRAGMENT: UNP RESIDUES 17-112; COMPND 11 SYNONYM: ELONGINC, RNA POLYMERASE II TRANSCRIPTION FACTOR SIII COMPND 12 SUBUNIT C, SIII P15, ELONGIN-C, ELOC, ELONGIN 15 KDA SUBUNIT; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: VIRION INFECTIVITY FACTOR; COMPND 16 CHAIN: E, F; COMPND 17 FRAGMENT: UNP RESIDUES 139-176; COMPND 18 SYNONYM: VIF, SOR PROTEIN, VIRION INFECTIVITY FACTOR P17, VIRION COMPND 19 INFECTIVITY FACTOR P7; COMPND 20 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ELONGINB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PACYCDUET-1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: ELONGINC; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PACYCDUET-1; SOURCE 21 MOL_ID: 3; SOURCE 22 ORGANISM_SCIENTIFIC: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 (NEW YORK-5 SOURCE 23 ISOLATE); SOURCE 24 ORGANISM_COMMON: HIV-1; SOURCE 25 ORGANISM_TAXID: 11698; SOURCE 26 STRAIN: HXB3; SOURCE 27 GENE: VIRION INFECTIVITY FACTOR; SOURCE 28 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 29 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 30 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 31 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 32 EXPRESSION_SYSTEM_PLASMID: PETDUET-1 KEYWDS HIV, VIF, AIDS, HOST-VIRUS INTERACTION, MEMBRANE, PHOSPHOPROTEIN, KEYWDS 2 RNA-BINDING, UBL CONJUGATION PATHWAY, VIRION, NUCLEUS, KEYWDS 3 TRANSCRIPTION, TRANSCRIPTION REGULATION, LIGASE-VIRAL PROTEIN KEYWDS 4 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.J.STANLEY,E.S.EHRLICH,L.SHORT,Y.YU,Z.XIAO,X.-F.YU,Y.XIONG REVDAT 6 01-NOV-23 3DCG 1 SEQADV REVDAT 5 13-JUL-11 3DCG 1 VERSN REVDAT 4 02-MAR-11 3DCG 1 COMPND REVDAT 3 24-FEB-09 3DCG 1 VERSN REVDAT 2 26-AUG-08 3DCG 1 JRNL REMARK REVDAT 1 08-JUL-08 3DCG 0 JRNL AUTH B.J.STANLEY,E.S.EHRLICH,L.SHORT,Y.YU,Z.XIAO,X.-F.YU,Y.XIONG JRNL TITL STRUCTURAL INSIGHT INTO THE HUMAN IMMUNODEFICIENCY VIRUS VIF JRNL TITL 2 SOCS BOX AND ITS ROLE IN HUMAN E3 UBIQUITIN LIGASE ASSEMBLY JRNL REF J.VIROL. V. 82 8656 2008 JRNL REFN ISSN 0022-538X JRNL PMID 18562529 JRNL DOI 10.1128/JVI.00767-08 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 17246 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 895 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1216 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.1920 REMARK 3 BIN FREE R VALUE SET COUNT : 65 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3154 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 150 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) : 41.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : 0.74000 REMARK 3 B33 (A**2) : -0.58000 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): 0.414 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.250 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.172 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.777 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.924 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3211 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4331 ; 1.132 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 388 ; 6.903 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;37.849 ;23.824 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 579 ;18.130 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;15.182 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 501 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2356 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1386 ; 0.191 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2159 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 168 ; 0.157 ; 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): 38 ; 0.189 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.213 ; 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): 2046 ; 1.900 ; 4.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3229 ; 2.556 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1283 ; 3.048 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1102 ; 4.485 ; 9.000 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 : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 80 6 REMARK 3 1 C 1 C 80 6 REMARK 3 2 A 85 A 98 6 REMARK 3 2 C 85 C 98 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 747 ; 0.370 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 747 ; 2.100 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 4 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 17 B 46 6 REMARK 3 1 D 17 D 46 6 REMARK 3 2 B 59 B 83 6 REMARK 3 2 D 59 D 83 6 REMARK 3 3 B 89 B 112 6 REMARK 3 3 D 89 D 112 6 REMARK 3 4 B 46 B 58 6 REMARK 3 4 D 47 D 58 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 2 B (A): 647 ; 0.420 ; 5.000 REMARK 3 LOOSE THERMAL 2 B (A**2): 647 ; 1.580 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : E F REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 E 140 E 155 6 REMARK 3 1 F 140 F 155 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 3 E (A): 119 ; 0.580 ; 5.000 REMARK 3 LOOSE THERMAL 3 E (A**2): 119 ; 1.330 ;10.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 98 REMARK 3 ORIGIN FOR THE GROUP (A): 23.3970 7.0640 2.0590 REMARK 3 T TENSOR REMARK 3 T11: -0.1976 T22: -0.1248 REMARK 3 T33: -0.0725 T12: -0.0117 REMARK 3 T13: -0.0055 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 2.3527 L22: 2.8224 REMARK 3 L33: 5.8068 L12: 0.2471 REMARK 3 L13: -0.5268 L23: -1.1686 REMARK 3 S TENSOR REMARK 3 S11: -0.0208 S12: 0.0490 S13: 0.0357 REMARK 3 S21: -0.0717 S22: -0.0102 S23: -0.1326 REMARK 3 S31: -0.0297 S32: 0.3098 S33: 0.0310 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 17 B 112 REMARK 3 RESIDUE RANGE : F 140 F 155 REMARK 3 ORIGIN FOR THE GROUP (A): 21.0620 2.2850 21.9620 REMARK 3 T TENSOR REMARK 3 T11: -0.1472 T22: -0.0332 REMARK 3 T33: -0.1545 T12: 0.0004 REMARK 3 T13: -0.0341 T23: 0.0266 REMARK 3 L TENSOR REMARK 3 L11: 3.7510 L22: 3.8927 REMARK 3 L33: 6.0630 L12: 0.0055 REMARK 3 L13: -1.2164 L23: -0.6844 REMARK 3 S TENSOR REMARK 3 S11: 0.0395 S12: -0.1565 S13: 0.0821 REMARK 3 S21: 0.2402 S22: -0.1023 S23: -0.1046 REMARK 3 S31: 0.0141 S32: 0.3021 S33: 0.0628 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 98 REMARK 3 ORIGIN FOR THE GROUP (A): 14.7040 -10.8660 0.2000 REMARK 3 T TENSOR REMARK 3 T11: 0.0001 T22: -0.1252 REMARK 3 T33: -0.0236 T12: -0.0290 REMARK 3 T13: 0.0299 T23: -0.0051 REMARK 3 L TENSOR REMARK 3 L11: 3.1263 L22: 2.0978 REMARK 3 L33: 4.9249 L12: 0.7147 REMARK 3 L13: -1.9147 L23: -0.8502 REMARK 3 S TENSOR REMARK 3 S11: -0.1841 S12: -0.1041 S13: -0.3053 REMARK 3 S21: 0.0109 S22: -0.0506 S23: 0.0054 REMARK 3 S31: 0.7121 S32: 0.0857 S33: 0.2347 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 17 D 112 REMARK 3 RESIDUE RANGE : E 140 E 156 REMARK 3 ORIGIN FOR THE GROUP (A): 15.6560 -5.6140 -19.9220 REMARK 3 T TENSOR REMARK 3 T11: -0.0550 T22: -0.0712 REMARK 3 T33: -0.1363 T12: -0.0237 REMARK 3 T13: 0.0154 T23: -0.0557 REMARK 3 L TENSOR REMARK 3 L11: 3.1242 L22: 3.7505 REMARK 3 L33: 6.8736 L12: -0.2621 REMARK 3 L13: -0.2768 L23: -0.7845 REMARK 3 S TENSOR REMARK 3 S11: -0.1267 S12: 0.1471 S13: -0.1258 REMARK 3 S21: -0.1094 S22: 0.0949 S23: 0.1460 REMARK 3 S31: 0.4068 S32: -0.1949 S33: 0.0319 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 : 1.00 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DCG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000047864. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18219 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 29.370 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : 0.09600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.44100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 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 1VCB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS HCL PH 7.0, 40% PEG 350 MME, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 27.75700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 61.32100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.45650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 61.32100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.75700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.45650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -27.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3380 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, E 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 ASP A 82 REMARK 465 ASP A 101 REMARK 465 VAL A 102 REMARK 465 MET A 103 REMARK 465 LYS A 104 REMARK 465 PRO A 105 REMARK 465 GLN A 106 REMARK 465 ASP A 107 REMARK 465 SER A 108 REMARK 465 GLY A 109 REMARK 465 SER A 110 REMARK 465 SER A 111 REMARK 465 ALA A 112 REMARK 465 ASN A 113 REMARK 465 GLU A 114 REMARK 465 GLN A 115 REMARK 465 ALA A 116 REMARK 465 VAL A 117 REMARK 465 GLN A 118 REMARK 465 MET B 16 REMARK 465 SER B 47 REMARK 465 GLY B 48 REMARK 465 PRO B 49 REMARK 465 GLY B 50 REMARK 465 GLN B 51 REMARK 465 PHE B 52 REMARK 465 ALA B 53 REMARK 465 GLU B 54 REMARK 465 ASN B 55 REMARK 465 GLU B 56 REMARK 465 SER B 87 REMARK 465 THR B 88 REMARK 465 ASP C 83 REMARK 465 LEU C 99 REMARK 465 PRO C 100 REMARK 465 ASP C 101 REMARK 465 VAL C 102 REMARK 465 MET C 103 REMARK 465 LYS C 104 REMARK 465 PRO C 105 REMARK 465 GLN C 106 REMARK 465 ASP C 107 REMARK 465 SER C 108 REMARK 465 GLY C 109 REMARK 465 SER C 110 REMARK 465 SER C 111 REMARK 465 ALA C 112 REMARK 465 ASN C 113 REMARK 465 GLU C 114 REMARK 465 GLN C 115 REMARK 465 ALA C 116 REMARK 465 VAL C 117 REMARK 465 GLN C 118 REMARK 465 MET D 16 REMARK 465 GLY D 48 REMARK 465 PRO D 49 REMARK 465 GLY D 50 REMARK 465 GLN D 51 REMARK 465 PHE D 52 REMARK 465 ALA D 53 REMARK 465 GLU D 54 REMARK 465 ASN D 55 REMARK 465 GLU D 56 REMARK 465 THR D 57 REMARK 465 SER E 138 REMARK 465 HIS E 139 REMARK 465 LYS E 157 REMARK 465 GLN E 158 REMARK 465 ILE E 159 REMARK 465 LYS E 160 REMARK 465 PRO E 161 REMARK 465 PRO E 162 REMARK 465 LEU E 163 REMARK 465 PRO E 164 REMARK 465 SER E 165 REMARK 465 VAL E 166 REMARK 465 ARG E 167 REMARK 465 LYS E 168 REMARK 465 LEU E 169 REMARK 465 THR E 170 REMARK 465 GLU E 171 REMARK 465 ASP E 172 REMARK 465 ARG E 173 REMARK 465 TRP E 174 REMARK 465 ASN E 175 REMARK 465 LYS E 176 REMARK 465 SER F 138 REMARK 465 HIS F 139 REMARK 465 PRO F 156 REMARK 465 LYS F 157 REMARK 465 GLN F 158 REMARK 465 ILE F 159 REMARK 465 LYS F 160 REMARK 465 PRO F 161 REMARK 465 PRO F 162 REMARK 465 LEU F 163 REMARK 465 PRO F 164 REMARK 465 SER F 165 REMARK 465 VAL F 166 REMARK 465 ARG F 167 REMARK 465 LYS F 168 REMARK 465 LEU F 169 REMARK 465 THR F 170 REMARK 465 GLU F 171 REMARK 465 ASP F 172 REMARK 465 ARG F 173 REMARK 465 TRP F 174 REMARK 465 ASN F 175 REMARK 465 LYS F 176 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 THR B 57 OG1 REMARK 470 SER D 47 OG 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 HIS A 10 -111.59 47.78 REMARK 500 HIS C 10 -117.07 49.76 REMARK 500 ALA C 18 -157.64 -151.29 REMARK 500 ALA C 71 73.96 -161.40 REMARK 500 LYS E 141 110.95 -172.12 REMARK 500 LYS E 155 108.14 -57.90 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 ASN E 140 LYS E 141 -75.95 REMARK 500 REMARK 500 REMARK: NULL DBREF 3DCG A 1 118 UNP Q15370 ELOB_HUMAN 1 118 DBREF 3DCG B 17 112 UNP Q15369 ELOC_HUMAN 17 112 DBREF 3DCG C 1 118 UNP Q15370 ELOB_HUMAN 1 118 DBREF 3DCG D 17 112 UNP Q15369 ELOC_HUMAN 17 112 DBREF 3DCG E 139 176 UNP P12504 VIF_HV1N5 139 176 DBREF 3DCG F 139 176 UNP P12504 VIF_HV1N5 139 176 SEQADV 3DCG MET B 16 UNP Q15369 INITIATING METHIONINE SEQADV 3DCG MET D 16 UNP Q15369 INITIATING METHIONINE SEQADV 3DCG SER E 138 UNP P12504 EXPRESSION TAG SEQADV 3DCG SER F 138 UNP P12504 EXPRESSION TAG SEQRES 1 A 118 MET ASP VAL PHE LEU MET ILE ARG ARG HIS LYS THR THR SEQRES 2 A 118 ILE PHE THR ASP ALA LYS GLU SER SER THR VAL PHE GLU SEQRES 3 A 118 LEU LYS ARG ILE VAL GLU GLY ILE LEU LYS ARG PRO PRO SEQRES 4 A 118 ASP GLU GLN ARG LEU TYR LYS ASP ASP GLN LEU LEU ASP SEQRES 5 A 118 ASP GLY LYS THR LEU GLY GLU CYS GLY PHE THR SER GLN SEQRES 6 A 118 THR ALA ARG PRO GLN ALA PRO ALA THR VAL GLY LEU ALA SEQRES 7 A 118 PHE ARG ALA ASP ASP THR PHE GLU ALA LEU CYS ILE GLU SEQRES 8 A 118 PRO PHE SER SER PRO PRO GLU LEU PRO ASP VAL MET LYS SEQRES 9 A 118 PRO GLN ASP SER GLY SER SER ALA ASN GLU GLN ALA VAL SEQRES 10 A 118 GLN SEQRES 1 B 97 MET MET TYR VAL LYS LEU ILE SER SER ASP GLY HIS GLU SEQRES 2 B 97 PHE ILE VAL LYS ARG GLU HIS ALA LEU THR SER GLY THR SEQRES 3 B 97 ILE LYS ALA MET LEU SER GLY PRO GLY GLN PHE ALA GLU SEQRES 4 B 97 ASN GLU THR ASN GLU VAL ASN PHE ARG GLU ILE PRO SER SEQRES 5 B 97 HIS VAL LEU SER LYS VAL CYS MET TYR PHE THR TYR LYS SEQRES 6 B 97 VAL ARG TYR THR ASN SER SER THR GLU ILE PRO GLU PHE SEQRES 7 B 97 PRO ILE ALA PRO GLU ILE ALA LEU GLU LEU LEU MET ALA SEQRES 8 B 97 ALA ASN PHE LEU ASP CYS SEQRES 1 C 118 MET ASP VAL PHE LEU MET ILE ARG ARG HIS LYS THR THR SEQRES 2 C 118 ILE PHE THR ASP ALA LYS GLU SER SER THR VAL PHE GLU SEQRES 3 C 118 LEU LYS ARG ILE VAL GLU GLY ILE LEU LYS ARG PRO PRO SEQRES 4 C 118 ASP GLU GLN ARG LEU TYR LYS ASP ASP GLN LEU LEU ASP SEQRES 5 C 118 ASP GLY LYS THR LEU GLY GLU CYS GLY PHE THR SER GLN SEQRES 6 C 118 THR ALA ARG PRO GLN ALA PRO ALA THR VAL GLY LEU ALA SEQRES 7 C 118 PHE ARG ALA ASP ASP THR PHE GLU ALA LEU CYS ILE GLU SEQRES 8 C 118 PRO PHE SER SER PRO PRO GLU LEU PRO ASP VAL MET LYS SEQRES 9 C 118 PRO GLN ASP SER GLY SER SER ALA ASN GLU GLN ALA VAL SEQRES 10 C 118 GLN SEQRES 1 D 97 MET MET TYR VAL LYS LEU ILE SER SER ASP GLY HIS GLU SEQRES 2 D 97 PHE ILE VAL LYS ARG GLU HIS ALA LEU THR SER GLY THR SEQRES 3 D 97 ILE LYS ALA MET LEU SER GLY PRO GLY GLN PHE ALA GLU SEQRES 4 D 97 ASN GLU THR ASN GLU VAL ASN PHE ARG GLU ILE PRO SER SEQRES 5 D 97 HIS VAL LEU SER LYS VAL CYS MET TYR PHE THR TYR LYS SEQRES 6 D 97 VAL ARG TYR THR ASN SER SER THR GLU ILE PRO GLU PHE SEQRES 7 D 97 PRO ILE ALA PRO GLU ILE ALA LEU GLU LEU LEU MET ALA SEQRES 8 D 97 ALA ASN PHE LEU ASP CYS SEQRES 1 E 39 SER HIS ASN LYS VAL GLY SER LEU GLN TYR LEU ALA LEU SEQRES 2 E 39 ALA ALA LEU ILE LYS PRO LYS GLN ILE LYS PRO PRO LEU SEQRES 3 E 39 PRO SER VAL ARG LYS LEU THR GLU ASP ARG TRP ASN LYS SEQRES 1 F 39 SER HIS ASN LYS VAL GLY SER LEU GLN TYR LEU ALA LEU SEQRES 2 F 39 ALA ALA LEU ILE LYS PRO LYS GLN ILE LYS PRO PRO LEU SEQRES 3 F 39 PRO SER VAL ARG LYS LEU THR GLU ASP ARG TRP ASN LYS FORMUL 7 HOH *150(H2 O) HELIX 1 1 THR A 23 LYS A 36 1 14 HELIX 2 2 PRO A 38 ASP A 40 5 3 HELIX 3 3 ARG B 33 LEU B 37 1 5 HELIX 4 4 SER B 39 LEU B 46 1 8 HELIX 5 5 PRO B 66 THR B 84 1 19 HELIX 6 6 ILE B 99 ASP B 111 1 13 HELIX 7 7 THR C 23 LYS C 36 1 14 HELIX 8 8 PRO C 38 ASP C 40 5 3 HELIX 9 9 ARG D 33 LEU D 37 1 5 HELIX 10 10 SER D 39 LEU D 46 1 8 HELIX 11 11 PRO D 66 THR D 84 1 19 HELIX 12 12 ALA D 96 ASP D 111 1 16 HELIX 13 13 SER E 144 LYS E 155 1 12 HELIX 14 14 SER F 144 LYS F 155 1 12 SHEET 1 A 8 GLN A 49 LEU A 50 0 SHEET 2 A 8 GLN A 42 LYS A 46 -1 N LYS A 46 O GLN A 49 SHEET 3 A 8 ALA A 73 PHE A 79 -1 O GLY A 76 N TYR A 45 SHEET 4 A 8 ASP A 2 ARG A 9 1 N ARG A 8 O VAL A 75 SHEET 5 A 8 THR A 12 LYS A 19 -1 O THR A 16 N LEU A 5 SHEET 6 A 8 GLU B 28 LYS B 32 1 O ILE B 30 N THR A 13 SHEET 7 A 8 TYR B 18 ILE B 22 -1 N VAL B 19 O VAL B 31 SHEET 8 A 8 GLU B 59 ASN B 61 1 O VAL B 60 N LYS B 20 SHEET 1 B 8 GLN C 49 LEU C 50 0 SHEET 2 B 8 GLN C 42 LYS C 46 -1 N LYS C 46 O GLN C 49 SHEET 3 B 8 ALA C 73 PHE C 79 -1 O GLY C 76 N TYR C 45 SHEET 4 B 8 ASP C 2 ARG C 9 1 N ARG C 8 O VAL C 75 SHEET 5 B 8 THR C 12 LYS C 19 -1 O THR C 12 N ARG C 9 SHEET 6 B 8 GLU D 28 LYS D 32 1 O ILE D 30 N THR C 13 SHEET 7 B 8 TYR D 18 ILE D 22 -1 N VAL D 19 O VAL D 31 SHEET 8 B 8 GLU D 59 ASN D 61 1 O VAL D 60 N ILE D 22 CRYST1 55.514 66.913 122.642 90.00 90.00 90.00 P 21 21 21 8 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 0.018013 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014945 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008154 0.00000