HEADER TRANSFERASE 25-MAR-14 4PXW TITLE CRYSTAL STRUCTURE OF HUMAN DCAF1 WD40 REPEATS (Q1250L) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN VPRBP; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DDB1- AND CUL4-ASSOCIATED FACTOR 1, HIV-1 VPR-BINDING COMPND 5 PROTEIN, VPRBP, SERINE/THREONINE-PROTEIN KINASE VPRBP, VPR- COMPND 6 INTERACTING PROTEIN; COMPND 7 EC: 2.7.11.1; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: VPRBP, DCAF1, KIAA0800, RIP; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PFBOH-MHL KEYWDS STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.XU,W.TEMPEL,H.HE,Y.LI,J.R.WALKER,C.BOUNTRA,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,J.MIN,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 3 20-SEP-23 4PXW 1 SEQADV REVDAT 2 10-MAY-17 4PXW 1 AUTHOR REVDAT 1 16-APR-14 4PXW 0 JRNL AUTH C.XU,W.TEMPEL,H.HE,A.SEITOVA,Y.LI,J.R.WALKER,C.BOUNTRA, JRNL AUTH 2 C.H.ARROWSMITH,A.M.EDWARDS,J.MIN, JRNL AUTH 3 STRUCTURAL GENOMICS CONSORTIUM (SGC) JRNL TITL CRYSTAL STRUCTURE OF HUMAN DCAF1 WD40 REPEATS (Q1250L) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.72 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.72 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 67936 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.300 REMARK 3 FREE R VALUE TEST SET COUNT : 2264 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) : 1.72 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4715 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 243 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4609 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 413 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.92000 REMARK 3 B22 (A**2) : -1.25000 REMARK 3 B33 (A**2) : -0.67000 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): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.107 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.906 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4807 ; 0.016 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4391 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6539 ; 1.683 ; 1.927 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10069 ; 0.861 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 598 ; 7.093 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 239 ;34.048 ;23.933 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 775 ;12.020 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;16.762 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 730 ; 0.114 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5527 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1205 ; 0.001 ; 0.020 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): 2354 ; 2.054 ; 1.526 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2353 ; 2.050 ; 1.525 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2939 ; 2.971 ; 2.274 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 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 : NULL 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: ARP/WARP WAS USED FOR AUTOMATED MODEL REMARK 3 BUILDING. COOT WAS USED FOR INTERACTIVE MODEL BUILDING. MODEL REMARK 3 GEOMETRY WAS EVALUATED WITH MOLPROBITY. REMARK 4 REMARK 4 4PXW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000085356. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.2.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67989 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.720 REMARK 200 RESOLUTION RANGE LOW (A) : 48.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.13100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.72 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.01200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 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 4CC9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM HEPES, 0.2 M LITHIUM REMARK 280 SULFATE, 25% PEG3350, PH 7.5, VAPOR DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 37.44400 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.71100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.44400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 49.71100 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 300 REMARK: AUTHORS HAVE INDICATED THAT THE BIOLOGICAL UNIT IS UNKNOWN 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 1021 REMARK 465 HIS A 1022 REMARK 465 HIS A 1023 REMARK 465 HIS A 1024 REMARK 465 HIS A 1025 REMARK 465 HIS A 1026 REMARK 465 HIS A 1027 REMARK 465 SER A 1028 REMARK 465 SER A 1029 REMARK 465 GLY A 1030 REMARK 465 ARG A 1031 REMARK 465 GLU A 1032 REMARK 465 ASN A 1033 REMARK 465 LEU A 1034 REMARK 465 TYR A 1035 REMARK 465 PHE A 1036 REMARK 465 GLN A 1037 REMARK 465 GLY A 1038 REMARK 465 GLU A 1039 REMARK 465 PRO A 1040 REMARK 465 LYS A 1041 REMARK 465 GLN A 1042 REMARK 465 ARG A 1043 REMARK 465 ARG A 1044 REMARK 465 GLN A 1045 REMARK 465 ALA A 1046 REMARK 465 PRO A 1047 REMARK 465 ILE A 1048 REMARK 465 ASN A 1049 REMARK 465 PHE A 1050 REMARK 465 THR A 1051 REMARK 465 SER A 1052 REMARK 465 ARG A 1053 REMARK 465 LEU A 1054 REMARK 465 ASN A 1055 REMARK 465 ARG A 1056 REMARK 465 ARG A 1057 REMARK 465 ALA A 1058 REMARK 465 SER A 1059 REMARK 465 PHE A 1060 REMARK 465 PRO A 1061 REMARK 465 LYS A 1062 REMARK 465 TYR A 1063 REMARK 465 GLY A 1064 REMARK 465 GLY A 1065 REMARK 465 VAL A 1066 REMARK 465 ASP A 1067 REMARK 465 GLY A 1068 REMARK 465 GLY A 1069 REMARK 465 CYS A 1070 REMARK 465 PHE A 1071 REMARK 465 ASP A 1072 REMARK 465 ARG A 1073 REMARK 465 HIS A 1074 REMARK 465 LEU A 1075 REMARK 465 ILE A 1076 REMARK 465 PHE A 1077 REMARK 465 SER A 1078 REMARK 465 ARG A 1079 REMARK 465 ALA A 1315 REMARK 465 ASP A 1316 REMARK 465 ASP A 1317 REMARK 465 GLU A 1318 REMARK 465 ASP A 1319 REMARK 465 ASP A 1320 REMARK 465 LEU A 1321 REMARK 465 MET A 1322 REMARK 465 GLU A 1323 REMARK 465 GLU A 1324 REMARK 465 ARG A 1325 REMARK 465 MET A 1326 REMARK 465 SER A 1374 REMARK 465 MET A 1375 REMARK 465 ASP A 1376 REMARK 465 ALA A 1377 REMARK 465 LEU A 1378 REMARK 465 ASN A 1379 REMARK 465 GLY A 1390 REMARK 465 ARG A 1391 REMARK 465 GLN A 1392 REMARK 465 ARG A 1393 REMARK 465 LEU A 1394 REMARK 465 ALA A 1395 REMARK 465 GLU A 1396 REMARK 465 ASP A 1397 REMARK 465 GLU A 1398 REMARK 465 ASP A 1399 REMARK 465 GLU A 1400 REMARK 465 GLU A 1401 REMARK 465 MET B 1021 REMARK 465 HIS B 1022 REMARK 465 HIS B 1023 REMARK 465 HIS B 1024 REMARK 465 HIS B 1025 REMARK 465 HIS B 1026 REMARK 465 HIS B 1027 REMARK 465 SER B 1028 REMARK 465 SER B 1029 REMARK 465 GLY B 1030 REMARK 465 ARG B 1031 REMARK 465 GLU B 1032 REMARK 465 ASN B 1033 REMARK 465 LEU B 1034 REMARK 465 TYR B 1035 REMARK 465 PHE B 1036 REMARK 465 GLN B 1037 REMARK 465 GLY B 1038 REMARK 465 GLU B 1039 REMARK 465 PRO B 1040 REMARK 465 LYS B 1041 REMARK 465 GLN B 1042 REMARK 465 ARG B 1043 REMARK 465 ARG B 1044 REMARK 465 GLN B 1045 REMARK 465 ALA B 1046 REMARK 465 PRO B 1047 REMARK 465 ILE B 1048 REMARK 465 ASN B 1049 REMARK 465 PHE B 1050 REMARK 465 THR B 1051 REMARK 465 SER B 1052 REMARK 465 ARG B 1053 REMARK 465 LEU B 1054 REMARK 465 ASN B 1055 REMARK 465 ARG B 1056 REMARK 465 ARG B 1057 REMARK 465 ALA B 1058 REMARK 465 SER B 1059 REMARK 465 PHE B 1060 REMARK 465 PRO B 1061 REMARK 465 LYS B 1062 REMARK 465 TYR B 1063 REMARK 465 GLY B 1064 REMARK 465 GLY B 1065 REMARK 465 VAL B 1066 REMARK 465 ASP B 1067 REMARK 465 GLY B 1068 REMARK 465 GLY B 1069 REMARK 465 CYS B 1070 REMARK 465 PHE B 1071 REMARK 465 ASP B 1072 REMARK 465 ARG B 1073 REMARK 465 HIS B 1074 REMARK 465 LEU B 1075 REMARK 465 ILE B 1076 REMARK 465 PHE B 1077 REMARK 465 SER B 1078 REMARK 465 ARG B 1079 REMARK 465 ALA B 1315 REMARK 465 ASP B 1316 REMARK 465 ASP B 1317 REMARK 465 GLU B 1318 REMARK 465 ASP B 1319 REMARK 465 ASP B 1320 REMARK 465 LEU B 1321 REMARK 465 MET B 1322 REMARK 465 GLU B 1323 REMARK 465 GLU B 1324 REMARK 465 ARG B 1325 REMARK 465 MET B 1326 REMARK 465 SER B 1374 REMARK 465 MET B 1375 REMARK 465 ASP B 1376 REMARK 465 ALA B 1377 REMARK 465 LEU B 1378 REMARK 465 GLY B 1390 REMARK 465 ARG B 1391 REMARK 465 GLN B 1392 REMARK 465 ARG B 1393 REMARK 465 LEU B 1394 REMARK 465 ALA B 1395 REMARK 465 GLU B 1396 REMARK 465 ASP B 1397 REMARK 465 GLU B 1398 REMARK 465 ASP B 1399 REMARK 465 GLU B 1400 REMARK 465 GLU B 1401 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 ARG A1106 CG CD NE CZ NH1 NH2 REMARK 470 LYS A1167 CD CE NZ REMARK 470 GLN A1206 CD OE1 NE2 REMARK 470 LYS A1224 CE NZ REMARK 470 ARG A1247 NE CZ NH1 NH2 REMARK 470 LYS A1327 CG CD CE NZ REMARK 470 LYS A1343 CE NZ REMARK 470 LYS A1351 NZ REMARK 470 LYS A1362 NZ REMARK 470 ARG B1106 CG CD NE CZ NH1 NH2 REMARK 470 LYS B1167 CD CE NZ REMARK 470 GLU B1178 CD OE1 OE2 REMARK 470 GLN B1206 CG CD OE1 NE2 REMARK 470 LYS B1327 N CB CG CD CE NZ REMARK 470 LYS B1343 CE NZ REMARK 470 LYS B1351 CE NZ REMARK 470 LYS B1362 NZ REMARK 470 GLY B1373 C O 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 UNK UNX A 1502 O HOH B 1705 2.03 REMARK 500 UNK UNX B 1512 UNK UNX B 1513 2.05 REMARK 500 OD2 ASP B 1235 UNK UNX B 1520 2.14 REMARK 500 UNK UNX B 1504 O HOH B 1633 2.14 REMARK 500 OE2 GLU A 1128 UNK UNX A 1511 2.18 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 ALA A1154 -165.99 -118.02 REMARK 500 TRP A1156 21.20 -141.21 REMARK 500 SER A1168 -63.70 72.80 REMARK 500 ASN A1276 -122.76 58.01 REMARK 500 ASP A1381 80.14 -157.80 REMARK 500 ALA B1154 -164.18 -113.25 REMARK 500 TRP B1156 31.00 -149.46 REMARK 500 SER B1168 -58.39 76.80 REMARK 500 ASN B1276 -119.12 57.92 REMARK 500 TYR B1342 19.37 56.02 REMARK 500 ASP B1381 81.06 -155.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CC9 RELATED DB: PDB REMARK 900 SOURCE OF MOLECULAR REPLACEMENT MODEL. DBREF 4PXW A 1039 1401 UNP Q9Y4B6 VPRBP_HUMAN 1039 1401 DBREF 4PXW B 1039 1401 UNP Q9Y4B6 VPRBP_HUMAN 1039 1401 SEQADV 4PXW MET A 1021 UNP Q9Y4B6 INITIATING METHIONINE SEQADV 4PXW HIS A 1022 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS A 1023 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS A 1024 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS A 1025 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS A 1026 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS A 1027 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW SER A 1028 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW SER A 1029 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLY A 1030 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW ARG A 1031 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLU A 1032 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW ASN A 1033 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW LEU A 1034 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW TYR A 1035 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW PHE A 1036 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLN A 1037 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLY A 1038 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW LEU A 1250 UNP Q9Y4B6 GLN 1250 ENGINEERED MUTATION SEQADV 4PXW MET B 1021 UNP Q9Y4B6 INITIATING METHIONINE SEQADV 4PXW HIS B 1022 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS B 1023 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS B 1024 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS B 1025 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS B 1026 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW HIS B 1027 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW SER B 1028 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW SER B 1029 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLY B 1030 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW ARG B 1031 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLU B 1032 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW ASN B 1033 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW LEU B 1034 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW TYR B 1035 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW PHE B 1036 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLN B 1037 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW GLY B 1038 UNP Q9Y4B6 EXPRESSION TAG SEQADV 4PXW LEU B 1250 UNP Q9Y4B6 GLN 1250 ENGINEERED MUTATION SEQRES 1 A 381 MET HIS HIS HIS HIS HIS HIS SER SER GLY ARG GLU ASN SEQRES 2 A 381 LEU TYR PHE GLN GLY GLU PRO LYS GLN ARG ARG GLN ALA SEQRES 3 A 381 PRO ILE ASN PHE THR SER ARG LEU ASN ARG ARG ALA SER SEQRES 4 A 381 PHE PRO LYS TYR GLY GLY VAL ASP GLY GLY CYS PHE ASP SEQRES 5 A 381 ARG HIS LEU ILE PHE SER ARG PHE ARG PRO ILE SER VAL SEQRES 6 A 381 PHE ARG GLU ALA ASN GLU ASP GLU SER GLY PHE THR CYS SEQRES 7 A 381 CYS ALA PHE SER ALA ARG GLU ARG PHE LEU MET LEU GLY SEQRES 8 A 381 THR CYS THR GLY GLN LEU LYS LEU TYR ASN VAL PHE SER SEQRES 9 A 381 GLY GLN GLU GLU ALA SER TYR ASN CYS HIS ASN SER ALA SEQRES 10 A 381 ILE THR HIS LEU GLU PRO SER ARG ASP GLY SER LEU LEU SEQRES 11 A 381 LEU THR SER ALA THR TRP SER GLN PRO LEU SER ALA LEU SEQRES 12 A 381 TRP GLY MET LYS SER VAL PHE ASP MET LYS HIS SER PHE SEQRES 13 A 381 THR GLU ASP HIS TYR VAL GLU PHE SER LYS HIS SER GLN SEQRES 14 A 381 ASP ARG VAL ILE GLY THR LYS GLY ASP ILE ALA HIS ILE SEQRES 15 A 381 TYR ASP ILE GLN THR GLY ASN LYS LEU LEU THR LEU PHE SEQRES 16 A 381 ASN PRO ASP LEU ALA ASN ASN TYR LYS ARG ASN CYS ALA SEQRES 17 A 381 THR PHE ASN PRO THR ASP ASP LEU VAL LEU ASN ASP GLY SEQRES 18 A 381 VAL LEU TRP ASP VAL ARG SER ALA LEU ALA ILE HIS LYS SEQRES 19 A 381 PHE ASP LYS PHE ASN MET ASN ILE SER GLY VAL PHE HIS SEQRES 20 A 381 PRO ASN GLY LEU GLU VAL ILE ILE ASN THR GLU ILE TRP SEQRES 21 A 381 ASP LEU ARG THR PHE HIS LEU LEU HIS THR VAL PRO ALA SEQRES 22 A 381 LEU ASP GLN CYS ARG VAL VAL PHE ASN HIS THR GLY THR SEQRES 23 A 381 VAL MET TYR GLY ALA MET LEU GLN ALA ASP ASP GLU ASP SEQRES 24 A 381 ASP LEU MET GLU GLU ARG MET LYS SER PRO PHE GLY SER SEQRES 25 A 381 SER PHE ARG THR PHE ASN ALA THR ASP TYR LYS PRO ILE SEQRES 26 A 381 ALA THR ILE ASP VAL LYS ARG ASN ILE PHE ASP LEU CYS SEQRES 27 A 381 THR ASP THR LYS ASP CYS TYR LEU ALA VAL ILE GLU ASN SEQRES 28 A 381 GLN GLY SER MET ASP ALA LEU ASN MET ASP THR VAL CYS SEQRES 29 A 381 ARG LEU TYR GLU VAL GLY ARG GLN ARG LEU ALA GLU ASP SEQRES 30 A 381 GLU ASP GLU GLU SEQRES 1 B 381 MET HIS HIS HIS HIS HIS HIS SER SER GLY ARG GLU ASN SEQRES 2 B 381 LEU TYR PHE GLN GLY GLU PRO LYS GLN ARG ARG GLN ALA SEQRES 3 B 381 PRO ILE ASN PHE THR SER ARG LEU ASN ARG ARG ALA SER SEQRES 4 B 381 PHE PRO LYS TYR GLY GLY VAL ASP GLY GLY CYS PHE ASP SEQRES 5 B 381 ARG HIS LEU ILE PHE SER ARG PHE ARG PRO ILE SER VAL SEQRES 6 B 381 PHE ARG GLU ALA ASN GLU ASP GLU SER GLY PHE THR CYS SEQRES 7 B 381 CYS ALA PHE SER ALA ARG GLU ARG PHE LEU MET LEU GLY SEQRES 8 B 381 THR CYS THR GLY GLN LEU LYS LEU TYR ASN VAL PHE SER SEQRES 9 B 381 GLY GLN GLU GLU ALA SER TYR ASN CYS HIS ASN SER ALA SEQRES 10 B 381 ILE THR HIS LEU GLU PRO SER ARG ASP GLY SER LEU LEU SEQRES 11 B 381 LEU THR SER ALA THR TRP SER GLN PRO LEU SER ALA LEU SEQRES 12 B 381 TRP GLY MET LYS SER VAL PHE ASP MET LYS HIS SER PHE SEQRES 13 B 381 THR GLU ASP HIS TYR VAL GLU PHE SER LYS HIS SER GLN SEQRES 14 B 381 ASP ARG VAL ILE GLY THR LYS GLY ASP ILE ALA HIS ILE SEQRES 15 B 381 TYR ASP ILE GLN THR GLY ASN LYS LEU LEU THR LEU PHE SEQRES 16 B 381 ASN PRO ASP LEU ALA ASN ASN TYR LYS ARG ASN CYS ALA SEQRES 17 B 381 THR PHE ASN PRO THR ASP ASP LEU VAL LEU ASN ASP GLY SEQRES 18 B 381 VAL LEU TRP ASP VAL ARG SER ALA LEU ALA ILE HIS LYS SEQRES 19 B 381 PHE ASP LYS PHE ASN MET ASN ILE SER GLY VAL PHE HIS SEQRES 20 B 381 PRO ASN GLY LEU GLU VAL ILE ILE ASN THR GLU ILE TRP SEQRES 21 B 381 ASP LEU ARG THR PHE HIS LEU LEU HIS THR VAL PRO ALA SEQRES 22 B 381 LEU ASP GLN CYS ARG VAL VAL PHE ASN HIS THR GLY THR SEQRES 23 B 381 VAL MET TYR GLY ALA MET LEU GLN ALA ASP ASP GLU ASP SEQRES 24 B 381 ASP LEU MET GLU GLU ARG MET LYS SER PRO PHE GLY SER SEQRES 25 B 381 SER PHE ARG THR PHE ASN ALA THR ASP TYR LYS PRO ILE SEQRES 26 B 381 ALA THR ILE ASP VAL LYS ARG ASN ILE PHE ASP LEU CYS SEQRES 27 B 381 THR ASP THR LYS ASP CYS TYR LEU ALA VAL ILE GLU ASN SEQRES 28 B 381 GLN GLY SER MET ASP ALA LEU ASN MET ASP THR VAL CYS SEQRES 29 B 381 ARG LEU TYR GLU VAL GLY ARG GLN ARG LEU ALA GLU ASP SEQRES 30 B 381 GLU ASP GLU GLU HET UNX A1501 1 HET UNX A1502 1 HET UNX A1503 1 HET UNX A1504 1 HET UNX A1505 1 HET UNX A1506 1 HET UNX A1507 1 HET UNX A1508 1 HET UNX A1509 1 HET UNX A1510 1 HET UNX A1511 1 HET UNX A1512 1 HET UNX A1513 1 HET UNX A1514 1 HET UNX A1515 1 HET UNX A1516 1 HET UNX A1517 1 HET UNX A1518 1 HET UNX A1519 1 HET UNX A1520 1 HET UNX A1521 1 HET UNX A1522 1 HET UNX B1501 1 HET UNX B1502 1 HET UNX B1503 1 HET UNX B1504 1 HET UNX B1505 1 HET UNX B1506 1 HET UNX B1507 1 HET UNX B1508 1 HET UNX B1509 1 HET UNX B1510 1 HET UNX B1511 1 HET UNX B1512 1 HET UNX B1513 1 HET UNX B1514 1 HET UNX B1515 1 HET UNX B1516 1 HET UNX B1517 1 HET UNX B1518 1 HET UNX B1519 1 HET UNX B1520 1 HET UNX B1521 1 HET UNX B1522 1 HET UNX B1523 1 HETNAM UNX UNKNOWN ATOM OR ION FORMUL 3 UNX 45(X) FORMUL 48 HOH *413(H2 O) HELIX 1 1 PRO A 1292 ASP A 1295 5 4 HELIX 2 2 PRO B 1292 ASP B 1295 5 4 SHEET 1 A 4 ARG A1081 ARG A1087 0 SHEET 2 A 4 THR A1382 GLU A1388 -1 O LEU A1386 N ILE A1083 SHEET 3 A 4 TYR A1365 ASN A1371 -1 N LEU A1366 O TYR A1387 SHEET 4 A 4 ASN A1353 THR A1359 -1 N ASN A1353 O ASN A1371 SHEET 1 B 4 PHE A1096 PHE A1101 0 SHEET 2 B 4 PHE A1107 THR A1112 -1 O MET A1109 N ALA A1100 SHEET 3 B 4 GLN A1116 ASN A1121 -1 O LYS A1118 N LEU A1110 SHEET 4 B 4 GLU A1127 ASN A1132 -1 O GLU A1128 N LEU A1119 SHEET 1 C 4 HIS A1140 PRO A1143 0 SHEET 2 C 4 LEU A1149 SER A1153 -1 O LEU A1151 N GLU A1142 SHEET 3 C 4 SER A1161 GLY A1165 -1 O TRP A1164 N LEU A1150 SHEET 4 C 4 ASP A1171 PHE A1176 -1 O LYS A1173 N LEU A1163 SHEET 1 D 4 TYR A1181 PHE A1184 0 SHEET 2 D 4 ARG A1191 LYS A1196 -1 O ILE A1193 N GLU A1183 SHEET 3 D 4 ILE A1199 ASP A1204 -1 O TYR A1203 N VAL A1192 SHEET 4 D 4 LYS A1210 LEU A1214 -1 O LEU A1211 N ILE A1202 SHEET 1 E 4 THR A1229 PHE A1230 0 SHEET 2 E 4 LEU A1236 ASN A1239 -1 O LEU A1238 N THR A1229 SHEET 3 E 4 VAL A1242 ASP A1245 -1 O TRP A1244 N VAL A1237 SHEET 4 E 4 LEU A1250 LYS A1254 -1 O ILE A1252 N LEU A1243 SHEET 1 F 4 VAL A1265 PHE A1266 0 SHEET 2 F 4 GLU A1272 ILE A1275 -1 O ILE A1274 N VAL A1265 SHEET 3 F 4 GLU A1278 ASP A1281 -1 O TRP A1280 N VAL A1273 SHEET 4 F 4 LEU A1287 THR A1290 -1 O LEU A1288 N ILE A1279 SHEET 1 G 4 CYS A1297 PHE A1301 0 SHEET 2 G 4 VAL A1307 LEU A1313 -1 O TYR A1309 N VAL A1300 SHEET 3 G 4 PHE A1330 ASN A1338 -1 O ARG A1335 N GLY A1310 SHEET 4 G 4 PRO A1344 ASP A1349 -1 O ILE A1348 N PHE A1334 SHEET 1 H 4 ARG B1081 ARG B1087 0 SHEET 2 H 4 THR B1382 GLU B1388 -1 O LEU B1386 N ILE B1083 SHEET 3 H 4 TYR B1365 ASN B1371 -1 N LEU B1366 O TYR B1387 SHEET 4 H 4 ILE B1354 THR B1359 -1 N PHE B1355 O ILE B1369 SHEET 1 I 4 PHE B1096 PHE B1101 0 SHEET 2 I 4 PHE B1107 THR B1112 -1 O GLY B1111 N THR B1097 SHEET 3 I 4 GLN B1116 ASN B1121 -1 O LYS B1118 N LEU B1110 SHEET 4 I 4 GLU B1127 ASN B1132 -1 O TYR B1131 N LEU B1117 SHEET 1 J 4 HIS B1140 PRO B1143 0 SHEET 2 J 4 LEU B1149 SER B1153 -1 O LEU B1151 N GLU B1142 SHEET 3 J 4 SER B1161 GLY B1165 -1 O TRP B1164 N LEU B1150 SHEET 4 J 4 ASP B1171 PHE B1176 -1 O LYS B1173 N LEU B1163 SHEET 1 K 4 TYR B1181 PHE B1184 0 SHEET 2 K 4 ARG B1191 LYS B1196 -1 O ILE B1193 N GLU B1183 SHEET 3 K 4 ILE B1199 ASP B1204 -1 O HIS B1201 N GLY B1194 SHEET 4 K 4 LYS B1210 LEU B1214 -1 O LEU B1214 N ALA B1200 SHEET 1 L 4 THR B1229 PHE B1230 0 SHEET 2 L 4 LEU B1236 ASN B1239 -1 O LEU B1238 N THR B1229 SHEET 3 L 4 VAL B1242 ASP B1245 -1 O TRP B1244 N VAL B1237 SHEET 4 L 4 LEU B1250 LYS B1254 -1 O HIS B1253 N LEU B1243 SHEET 1 M 4 VAL B1265 PHE B1266 0 SHEET 2 M 4 GLU B1272 ILE B1275 -1 O ILE B1274 N VAL B1265 SHEET 3 M 4 GLU B1278 ASP B1281 -1 O GLU B1278 N ILE B1275 SHEET 4 M 4 LEU B1287 THR B1290 -1 O LEU B1288 N ILE B1279 SHEET 1 N 4 CYS B1297 PHE B1301 0 SHEET 2 N 4 VAL B1307 MET B1312 -1 O TYR B1309 N VAL B1300 SHEET 3 N 4 SER B1333 ASN B1338 -1 O ARG B1335 N GLY B1310 SHEET 4 N 4 PRO B1344 ASP B1349 -1 O ILE B1348 N PHE B1334 CISPEP 1 GLN A 1158 PRO A 1159 0 0.06 CISPEP 2 GLN B 1158 PRO B 1159 0 -3.20 CRYST1 74.888 99.422 84.900 90.00 90.00 90.00 P 21 21 2 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 0.013353 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010058 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011779 0.00000