PDB Short entry for 2N1G HEADER TRANSFERASE 01-APR-15 2N1G TITLE STRUCTURE OF C-TERMINAL DOMAIN OF HUMAN POLYMERASE REV1 IN COMPLEX TITLE 2 WITH POLD3 RIR-MOTIF COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA REPAIR PROTEIN REV1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HREV1-CT, UNP RESIDUES 1158-1251; 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: DNA POLYMERASE DELTA SUBUNIT 3; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: UNP RESIDUES 231-246; COMPND 13 SYNONYM: DNA POLYMERASE DELTA SUBUNIT P66; COMPND 14 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: REV1, REV1L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET28B+; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: KIAA0039, POLD3; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS REV1, POLD3, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.PUSTOVALOVA,D.KORZHNEV REVDAT 3 01-MAY-24 2N1G 1 REMARK REVDAT 2 20-APR-16 2N1G 1 JRNL REVDAT 1 13-APR-16 2N1G 0 JRNL AUTH Y.PUSTOVALOVA,M.T.MAGALHAES,S.D'SOUZA,A.A.RIZZO,G.KORZA, JRNL AUTH 2 G.C.WALKER,D.M.KORZHNEV JRNL TITL INTERACTION BETWEEN THE REV1 C-TERMINAL DOMAIN AND THE POLD3 JRNL TITL 2 SUBUNIT OF POL ZETA SUGGESTS A MECHANISM OF POLYMERASE JRNL TITL 3 EXCHANGE UPON REV1/POL ZETA-DEPENDENT TRANSLESION SYNTHESIS. JRNL REF BIOCHEMISTRY V. 55 2043 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 26982350 JRNL DOI 10.1021/ACS.BIOCHEM.5B01282 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1, ABACUS_(CNS) REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (ABACUS_(CNS)) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N1G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000104301. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 13C; U-100% 15N] REMARK 210 REV1-CT, 0.5-0.8 MM POLD3, 50 MM REMARK 210 POTASSIUM PHOSPHATE, 100 MM REMARK 210 SODIUM CHLORIDE, 2 MM DTT, 0.5 REMARK 210 MM EDTA, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCO; 3D HNCACB; 3D HBHA(CO) REMARK 210 NH; 3D HCCH-TOCSY; 3D CCH-TOCSY; REMARK 210 3D 1H-13C NOESY; 3D 1H-15N NOESY; REMARK 210 2D 1H-1H (FILT.) TOCSY; 2D 1H- REMARK 210 1H (FILT.) NOESY; 3D 1H-13C REMARK 210 (CNFILT.) NOESY; 3D 1H-15N REMARK 210 (CNFILT.) NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 5.5, CARA 1.9.0, TALOS REMARK 210 2.20 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 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 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 1 ALA A1160 -58.71 76.34 REMARK 500 1 ASP A1202 54.36 -109.03 REMARK 500 1 VAL A1221 -75.59 -65.15 REMARK 500 1 ASN B 233 -27.48 78.24 REMARK 500 1 MET B 234 -81.32 56.00 REMARK 500 1 SER B 236 84.07 60.72 REMARK 500 1 ASN B 245 109.48 -161.99 REMARK 500 2 GLU A1164 107.86 -56.97 REMARK 500 2 PRO A1182 96.31 -62.53 REMARK 500 2 VAL A1221 -72.93 -82.38 REMARK 500 2 PHE B 239 -77.54 -112.48 REMARK 500 2 ALA B 242 59.59 -93.27 REMARK 500 2 MET B 244 -73.98 62.33 REMARK 500 3 LEU A1159 97.10 -64.42 REMARK 500 3 ASP A1202 45.02 -103.98 REMARK 500 3 GLU A1222 22.12 -145.14 REMARK 500 3 VAL A1250 -72.49 -77.71 REMARK 500 3 ASN B 233 -22.45 -142.23 REMARK 500 3 MET B 234 113.98 60.95 REMARK 500 3 MET B 235 96.33 65.24 REMARK 500 3 SER B 236 43.86 -85.76 REMARK 500 3 ASN B 237 82.68 -166.31 REMARK 500 3 PHE B 239 -73.12 -89.90 REMARK 500 3 MET B 244 -43.50 -174.83 REMARK 500 3 ASN B 245 -40.94 -177.68 REMARK 500 4 ALA A1160 35.62 76.96 REMARK 500 4 PHE B 239 -82.98 -75.93 REMARK 500 4 LYS B 241 -60.13 -156.49 REMARK 500 4 MET B 244 -22.39 74.98 REMARK 500 5 ALA A1162 -165.15 -110.01 REMARK 500 5 VAL A1221 -83.83 -73.05 REMARK 500 5 GLU A1222 27.97 -147.07 REMARK 500 5 MET B 235 -20.74 167.65 REMARK 500 5 ASN B 237 112.85 -13.59 REMARK 500 5 LYS B 241 -49.38 -168.23 REMARK 500 5 MET B 244 -79.26 -179.97 REMARK 500 6 ALA A1160 11.87 80.68 REMARK 500 6 SER A1223 175.09 73.57 REMARK 500 6 ASN B 233 86.51 39.78 REMARK 500 6 MET B 235 81.26 -67.29 REMARK 500 6 SER B 236 -45.56 -157.46 REMARK 500 6 ASN B 237 136.67 166.89 REMARK 500 6 PHE B 239 -73.63 -60.91 REMARK 500 6 LYS B 241 -47.27 -168.98 REMARK 500 7 ASP A1202 42.94 -103.60 REMARK 500 7 ASN B 237 94.41 60.50 REMARK 500 7 PHE B 239 -157.17 -78.85 REMARK 500 8 ASP A1202 33.46 -97.65 REMARK 500 8 GLU A1222 -144.51 -138.50 REMARK 500 8 SER A1223 170.94 83.11 REMARK 500 REMARK 500 THIS ENTRY HAS 124 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25559 RELATED DB: BMRB DBREF 2N1G A 1158 1251 UNP Q9UBZ9 REV1_HUMAN 1158 1251 DBREF 2N1G B 231 246 UNP Q15054 DPOD3_HUMAN 231 246 SEQRES 1 A 94 ASN LEU ALA GLY ALA VAL GLU PHE ASN ASP VAL LYS THR SEQRES 2 A 94 LEU LEU ARG GLU TRP ILE THR THR ILE SER ASP PRO MET SEQRES 3 A 94 GLU GLU ASP ILE LEU GLN VAL VAL LYS TYR CYS THR ASP SEQRES 4 A 94 LEU ILE GLU GLU LYS ASP LEU GLU LYS LEU ASP LEU VAL SEQRES 5 A 94 ILE LYS TYR MET LYS ARG LEU MET GLN GLN SER VAL GLU SEQRES 6 A 94 SER VAL TRP ASN MET ALA PHE ASP PHE ILE LEU ASP ASN SEQRES 7 A 94 VAL GLN VAL VAL LEU GLN GLN THR TYR GLY SER THR LEU SEQRES 8 A 94 LYS VAL THR SEQRES 1 B 16 LYS GLY ASN MET MET SER ASN PHE PHE GLY LYS ALA ALA SEQRES 2 B 16 MET ASN LYS HELIX 1 1 GLU A 1164 ILE A 1179 1 16 HELIX 2 2 MET A 1183 GLU A 1200 1 18 HELIX 3 3 ASP A 1202 SER A 1220 1 19 HELIX 4 4 SER A 1223 TYR A 1244 1 22 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000