PDB Short entry for 3VU7 HEADER REPLICATION 20-JUN-12 3VU7 TITLE CRYSTAL STRUCTURE OF REV1-REV7-REV3 TERNARY COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA REPAIR PROTEIN REV1; COMPND 3 CHAIN: H; COMPND 4 FRAGMENT: UNP RESIDUES 1140-1251; COMPND 5 SYNONYM: ALPHA INTEGRIN-BINDING PROTEIN 80, AIBP80, REV1-LIKE COMPND 6 TERMINAL DEOXYCYTIDYL TRANSFERASE; COMPND 7 EC: 2.7.7.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: MITOTIC SPINDLE ASSEMBLY CHECKPOINT PROTEIN MAD2B; COMPND 11 CHAIN: C; COMPND 12 SYNONYM: MITOTIC ARREST DEFICIENT 2-LIKE PROTEIN 2, MAD2-LIKE PROTEIN COMPND 13 2, REV7 HOMOLOG, HREV7; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: DNA POLYMERASE ZETA CATALYTIC SUBUNIT; COMPND 17 CHAIN: Z; COMPND 18 FRAGMENT: UNP RESIDUES 1847-1898; COMPND 19 SYNONYM: PROTEIN REVERSIONLESS 3-LIKE, REV3-LIKE, HREV3; COMPND 20 EC: 2.7.7.7; COMPND 21 ENGINEERED: YES; COMPND 22 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: REV1, REV1L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: MAD2L2, MAD2B, REV7; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 17 ORGANISM_COMMON: HUMAN; SOURCE 18 ORGANISM_TAXID: 9606; SOURCE 19 GENE: REV3L, POLZ, REV3; SOURCE 20 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 21 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA POLYMERASE, DNA REPLICATION, TRANSLESION DNA SYNTHESIS, DNA KEYWDS 2 DAMAGE TOLERANCE, DNA REPAIR, REPLICATION EXPDTA X-RAY DIFFRACTION AUTHOR S.KIKUCHI,K.HARA,T.SHIMIZU,M.SATO,H.HASHIMOTO REVDAT 3 08-NOV-23 3VU7 1 SEQADV REVDAT 2 13-FEB-13 3VU7 1 JRNL REVDAT 1 08-AUG-12 3VU7 0 JRNL AUTH S.KIKUCHI,K.HARA,T.SHIMIZU,M.SATO,H.HASHIMOTO JRNL TITL STRUCTURAL BASIS OF RECRUITMENT OF DNA POLYMERASE [ZETA] BY JRNL TITL 2 INTERACTION BETWEEN REV1 AND REV7 PROTEINS JRNL REF J.BIOL.CHEM. V. 287 33847 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22859296 JRNL DOI 10.1074/JBC.M112.396838 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 9795 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 493 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 640 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.4010 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.4760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2516 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 94.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.11000 REMARK 3 B22 (A**2) : -3.11000 REMARK 3 B33 (A**2) : 4.67000 REMARK 3 B12 (A**2) : -1.56000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.345 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.270 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 31.343 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2564 ; 0.014 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3479 ; 1.797 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 307 ; 7.869 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 115 ;40.592 ;25.304 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 479 ;19.934 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;16.388 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 415 ; 0.131 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1866 ; 0.008 ; 0.021 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 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 : C 10 C 208 REMARK 3 ORIGIN FOR THE GROUP (A): -16.1427 13.1984 7.4649 REMARK 3 T TENSOR REMARK 3 T11: 0.4096 T22: 0.4788 REMARK 3 T33: 0.4360 T12: -0.0968 REMARK 3 T13: 0.1013 T23: -0.0357 REMARK 3 L TENSOR REMARK 3 L11: 1.5363 L22: 2.3721 REMARK 3 L33: 1.0074 L12: 0.1049 REMARK 3 L13: 0.2917 L23: -0.8561 REMARK 3 S TENSOR REMARK 3 S11: 0.1383 S12: 0.2244 S13: -0.0965 REMARK 3 S21: -0.0941 S22: 0.0133 S23: 0.0195 REMARK 3 S31: 0.0033 S32: 0.1024 S33: -0.1516 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 : Z 1873 Z 1893 REMARK 3 ORIGIN FOR THE GROUP (A): -14.4745 24.6811 1.0171 REMARK 3 T TENSOR REMARK 3 T11: 0.6735 T22: 0.6184 REMARK 3 T33: 0.3956 T12: -0.4363 REMARK 3 T13: 0.1159 T23: 0.1565 REMARK 3 L TENSOR REMARK 3 L11: 20.2915 L22: 10.6329 REMARK 3 L33: 3.3787 L12: -12.0841 REMARK 3 L13: -4.5980 L23: -0.0878 REMARK 3 S TENSOR REMARK 3 S11: -0.7140 S12: 0.3688 S13: 1.8133 REMARK 3 S21: -0.8105 S22: 1.0086 S23: -1.1143 REMARK 3 S31: 1.2320 S32: -1.0199 S33: -0.2945 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 : H 1157 H 1250 REMARK 3 ORIGIN FOR THE GROUP (A): -24.5464 -13.1457 -2.8863 REMARK 3 T TENSOR REMARK 3 T11: 0.4774 T22: 0.3799 REMARK 3 T33: 0.5095 T12: -0.0128 REMARK 3 T13: 0.0778 T23: -0.1956 REMARK 3 L TENSOR REMARK 3 L11: 2.3900 L22: 3.2024 REMARK 3 L33: 0.2364 L12: 0.4911 REMARK 3 L13: 0.6290 L23: -0.1941 REMARK 3 S TENSOR REMARK 3 S11: -0.1322 S12: 0.0656 S13: -0.3779 REMARK 3 S21: -0.1083 S22: 0.1358 S23: -0.2651 REMARK 3 S31: -0.0816 S32: -0.0099 S33: -0.0037 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3VU7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1000095505. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL32XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10306 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 65.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 3ABD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 41.10233 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 82.20467 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 82.20467 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 41.10233 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, C, Z 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 H 1128 REMARK 465 ARG H 1129 REMARK 465 GLY H 1130 REMARK 465 SER H 1131 REMARK 465 HIS H 1132 REMARK 465 HIS H 1133 REMARK 465 HIS H 1134 REMARK 465 HIS H 1135 REMARK 465 HIS H 1136 REMARK 465 HIS H 1137 REMARK 465 GLY H 1138 REMARK 465 SER H 1139 REMARK 465 GLY H 1140 REMARK 465 LEU H 1141 REMARK 465 SER H 1142 REMARK 465 SER H 1143 REMARK 465 LEU H 1144 REMARK 465 GLN H 1145 REMARK 465 SER H 1146 REMARK 465 ASP H 1147 REMARK 465 PRO H 1148 REMARK 465 ALA H 1149 REMARK 465 GLY H 1150 REMARK 465 CYS H 1151 REMARK 465 VAL H 1152 REMARK 465 ARG H 1153 REMARK 465 PRO H 1154 REMARK 465 PRO H 1155 REMARK 465 ALA H 1156 REMARK 465 THR H 1251 REMARK 465 MET C -15 REMARK 465 GLY C -14 REMARK 465 SER C -13 REMARK 465 SER C -12 REMARK 465 HIS C -11 REMARK 465 HIS C -10 REMARK 465 HIS C -9 REMARK 465 HIS C -8 REMARK 465 HIS C -7 REMARK 465 HIS C -6 REMARK 465 SER C -5 REMARK 465 GLN C -4 REMARK 465 ASP C -3 REMARK 465 PRO C -2 REMARK 465 ASN C -1 REMARK 465 SER C 0 REMARK 465 MET C 1 REMARK 465 THR C 2 REMARK 465 THR C 3 REMARK 465 LEU C 4 REMARK 465 THR C 5 REMARK 465 ARG C 6 REMARK 465 GLN C 7 REMARK 465 ASP C 8 REMARK 465 LEU C 9 REMARK 465 LEU C 107 REMARK 465 LEU C 108 REMARK 465 SER C 109 REMARK 465 LYS C 209 REMARK 465 GLY C 210 REMARK 465 SER C 211 REMARK 465 MET Z 1847 REMARK 465 LEU Z 1848 REMARK 465 THR Z 1849 REMARK 465 PRO Z 1850 REMARK 465 THR Z 1851 REMARK 465 PRO Z 1852 REMARK 465 ASP Z 1853 REMARK 465 SER Z 1854 REMARK 465 SER Z 1855 REMARK 465 PRO Z 1856 REMARK 465 ARG Z 1857 REMARK 465 SER Z 1858 REMARK 465 THR Z 1859 REMARK 465 SER Z 1860 REMARK 465 SER Z 1861 REMARK 465 PRO Z 1862 REMARK 465 SER Z 1863 REMARK 465 GLN Z 1864 REMARK 465 SER Z 1865 REMARK 465 LYS Z 1866 REMARK 465 ASN Z 1867 REMARK 465 GLY Z 1868 REMARK 465 SER Z 1869 REMARK 465 PHE Z 1870 REMARK 465 THR Z 1871 REMARK 465 PRO Z 1872 REMARK 465 LEU Z 1894 REMARK 465 LEU Z 1895 REMARK 465 ASP Z 1896 REMARK 465 HIS Z 1897 REMARK 465 ASP Z 1898 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 HIS C 28 CG HIS C 28 CD2 0.063 REMARK 500 HIS C 118 CG HIS C 118 CD2 0.056 REMARK 500 HIS C 139 CG HIS C 139 CD2 0.057 REMARK 500 TRP C 171 CE2 TRP C 171 CD2 0.080 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 VAL H1163 N - CA - C ANGL. DEV. = 16.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN H1158 -70.60 -153.18 REMARK 500 LEU H1159 126.63 46.11 REMARK 500 ALA H1160 -78.33 -85.10 REMARK 500 ALA H1162 110.93 -167.76 REMARK 500 VAL H1163 -108.46 80.41 REMARK 500 TRP H1175 -74.39 -62.61 REMARK 500 ASP H1202 66.79 -118.04 REMARK 500 SER H1220 -112.20 146.34 REMARK 500 VAL H1221 56.91 73.44 REMARK 500 GLU H1222 -100.98 74.27 REMARK 500 SER H1223 -15.62 -171.64 REMARK 500 LEU H1248 -137.61 -71.57 REMARK 500 PHE C 11 -6.59 -29.33 REMARK 500 SER C 111 122.21 97.86 REMARK 500 ASP C 113 155.45 51.28 REMARK 500 SER C 114 35.09 32.04 REMARK 500 GLN C 164 66.14 -69.34 REMARK 500 ASP C 168 -7.90 81.69 REMARK 500 ASP C 183 83.80 71.97 REMARK 500 THR Z1874 179.68 54.36 REMARK 500 ALA Z1875 62.78 -152.21 REMARK 500 ALA Z1892 36.95 -63.04 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 ALA H 1162 VAL H 1163 133.61 REMARK 500 REMARK 500 REMARK: NULL DBREF 3VU7 H 1140 1251 UNP Q9UBZ9 REV1_HUMAN 1140 1251 DBREF 3VU7 C 1 211 UNP Q9UI95 MD2L2_HUMAN 1 211 DBREF 3VU7 Z 1847 1898 UNP O60673 DPOLZ_HUMAN 1847 1898 SEQADV 3VU7 MET H 1128 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 ARG H 1129 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 GLY H 1130 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 SER H 1131 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 HIS H 1132 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 HIS H 1133 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 HIS H 1134 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 HIS H 1135 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 HIS H 1136 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 HIS H 1137 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 GLY H 1138 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 SER H 1139 UNP Q9UBZ9 EXPRESSION TAG SEQADV 3VU7 MET C -15 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 GLY C -14 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 SER C -13 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 SER C -12 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 HIS C -11 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 HIS C -10 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 HIS C -9 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 HIS C -8 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 HIS C -7 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 HIS C -6 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 SER C -5 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 GLN C -4 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 ASP C -3 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 PRO C -2 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 ASN C -1 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 SER C 0 UNP Q9UI95 EXPRESSION TAG SEQADV 3VU7 ALA C 124 UNP Q9UI95 ARG 124 ENGINEERED MUTATION SEQRES 1 H 124 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER GLY SEQRES 2 H 124 LEU SER SER LEU GLN SER ASP PRO ALA GLY CYS VAL ARG SEQRES 3 H 124 PRO PRO ALA PRO ASN LEU ALA GLY ALA VAL GLU PHE ASN SEQRES 4 H 124 ASP VAL LYS THR LEU LEU ARG GLU TRP ILE THR THR ILE SEQRES 5 H 124 SER ASP PRO MET GLU GLU ASP ILE LEU GLN VAL VAL LYS SEQRES 6 H 124 TYR CYS THR ASP LEU ILE GLU GLU LYS ASP LEU GLU LYS SEQRES 7 H 124 LEU ASP LEU VAL ILE LYS TYR MET LYS ARG LEU MET GLN SEQRES 8 H 124 GLN SER VAL GLU SER VAL TRP ASN MET ALA PHE ASP PHE SEQRES 9 H 124 ILE LEU ASP ASN VAL GLN VAL VAL LEU GLN GLN THR TYR SEQRES 10 H 124 GLY SER THR LEU LYS VAL THR SEQRES 1 C 227 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 C 227 PRO ASN SER MET THR THR LEU THR ARG GLN ASP LEU ASN SEQRES 3 C 227 PHE GLY GLN VAL VAL ALA ASP VAL LEU CYS GLU PHE LEU SEQRES 4 C 227 GLU VAL ALA VAL HIS LEU ILE LEU TYR VAL ARG GLU VAL SEQRES 5 C 227 TYR PRO VAL GLY ILE PHE GLN LYS ARG LYS LYS TYR ASN SEQRES 6 C 227 VAL PRO VAL GLN MET SER CYS HIS PRO GLU LEU ASN GLN SEQRES 7 C 227 TYR ILE GLN ASP THR LEU HIS CYS VAL LYS PRO LEU LEU SEQRES 8 C 227 GLU LYS ASN ASP VAL GLU LYS VAL VAL VAL VAL ILE LEU SEQRES 9 C 227 ASP LYS GLU HIS ARG PRO VAL GLU LYS PHE VAL PHE GLU SEQRES 10 C 227 ILE THR GLN PRO PRO LEU LEU SER ILE SER SER ASP SER SEQRES 11 C 227 LEU LEU SER HIS VAL GLU GLN LEU LEU ALA ALA PHE ILE SEQRES 12 C 227 LEU LYS ILE SER VAL CYS ASP ALA VAL LEU ASP HIS ASN SEQRES 13 C 227 PRO PRO GLY CYS THR PHE THR VAL LEU VAL HIS THR ARG SEQRES 14 C 227 GLU ALA ALA THR ARG ASN MET GLU LYS ILE GLN VAL ILE SEQRES 15 C 227 LYS ASP PHE PRO TRP ILE LEU ALA ASP GLU GLN ASP VAL SEQRES 16 C 227 HIS MET HIS ASP PRO ARG LEU ILE PRO LEU LYS THR MET SEQRES 17 C 227 THR SER ASP ILE LEU LYS MET GLN LEU TYR VAL GLU GLU SEQRES 18 C 227 ARG ALA HIS LYS GLY SER SEQRES 1 Z 52 MET LEU THR PRO THR PRO ASP SER SER PRO ARG SER THR SEQRES 2 Z 52 SER SER PRO SER GLN SER LYS ASN GLY SER PHE THR PRO SEQRES 3 Z 52 ARG THR ALA ASN ILE LEU LYS PRO LEU MET SER PRO PRO SEQRES 4 Z 52 SER ARG GLU GLU ILE MET ALA THR LEU LEU ASP HIS ASP HELIX 1 1 GLU H 1164 SER H 1180 1 17 HELIX 2 2 MET H 1183 GLU H 1200 1 18 HELIX 3 3 ASP H 1202 GLN H 1219 1 18 HELIX 4 4 SER H 1223 TYR H 1244 1 22 HELIX 5 5 PHE C 11 ARG C 34 1 24 HELIX 6 6 PRO C 38 GLY C 40 5 3 HELIX 7 7 HIS C 57 LYS C 77 1 21 HELIX 8 8 SER C 114 VAL C 132 1 19 HELIX 9 9 CYS C 133 VAL C 136 5 4 HELIX 10 10 ALA C 156 GLN C 164 1 9 HELIX 11 11 ASP C 175 HIS C 180 1 6 HELIX 12 12 SER Z 1886 ALA Z 1892 1 7 SHEET 1 A 2 PHE C 42 LYS C 47 0 SHEET 2 A 2 VAL C 50 SER C 55 -1 O VAL C 52 N ARG C 45 SHEET 1 B 7 TRP C 171 LEU C 173 0 SHEET 2 B 7 ILE Z1877 PRO Z1880 -1 O LYS Z1879 N ILE C 172 SHEET 3 B 7 THR C 145 THR C 152 -1 N VAL C 150 O LEU Z1878 SHEET 4 B 7 VAL C 80 LEU C 88 -1 N GLU C 81 O HIS C 151 SHEET 5 B 7 PRO C 94 THR C 103 -1 O GLU C 96 N ILE C 87 SHEET 6 B 7 LYS C 198 ARG C 206 -1 O TYR C 202 N VAL C 99 SHEET 7 B 7 PRO C 184 MET C 192 -1 N LEU C 189 O LEU C 201 CRYST1 75.070 75.070 123.307 90.00 90.00 120.00 P 31 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 0.013321 0.007691 0.000000 0.00000 SCALE2 0.000000 0.015382 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008110 0.00000