PDB Short entry for 2LSK HEADER PROTEIN BINDING/PROTEIN BINDING 01-MAY-12 2LSK TITLE C-TERMINAL DOMAIN OF HUMAN REV1 IN COMPLEX WITH DNA-POLYMERASE H (ETA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA REPAIR PROTEIN REV1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN; COMPND 5 SYNONYM: ALPHA INTEGRIN-BINDING PROTEIN 80, AIBP80, REV1-LIKE COMPND 6 TERMINAL DEOXYCYTIDYL TRANSFERASE; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA POLYMERASE ETA; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: RAD30 HOMOLOG A, XERODERMA PIGMENTOSUM VARIANT TYPE PROTEIN; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28B; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 16 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS DNA POLYMERASE, TRANSLESION SYNTHESIS, DNA REPAIR, PROTEIN BINDING- KEYWDS 2 PROTEIN BINDING COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.POZHIDAEVA,Y.PUSTOVALOVA,I.BEZSONOVA,D.KORZHNEV REVDAT 3 14-JUN-23 2LSK 1 REMARK SEQADV REVDAT 2 19-JUN-13 2LSK 1 JRNL REVDAT 1 27-JUN-12 2LSK 0 JRNL AUTH A.POZHIDAEVA,Y.PUSTOVALOVA,S.D'SOUZA,I.BEZSONOVA,G.C.WALKER, JRNL AUTH 2 D.M.KORZHNEV JRNL TITL NMR STRUCTURE AND DYNAMICS OF THE C-TERMINAL DOMAIN FROM JRNL TITL 2 HUMAN REV1 AND ITS COMPLEX WITH REV1 INTERACTING REGION OF JRNL TITL 3 DNA POLYMERASE ETA. JRNL REF BIOCHEMISTRY V. 51 5506 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22691049 JRNL DOI 10.1021/BI300566Z REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, CNS REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LSK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000102780. 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 : 0.9 MM [U-99% 13C; U-99% 15N] REMARK 210 PROTEIN, 0.9 MM PEPTIDE, 50 MM REMARK 210 SODIUM PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 0.25 MM EDTA, 5 MM DTT, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCA; 3D HNCACB; 3D HNCO; 3D REMARK 210 HBHA(CO)NH; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, TALOS, CARA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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: 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 1 PRO A1182 C - N - CA ANGL. DEV. = 9.8 DEGREES REMARK 500 2 PRO A1182 C - N - CA ANGL. DEV. = 10.1 DEGREES REMARK 500 9 PRO A1182 C - N - CA ANGL. DEV. = 9.2 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 1 SER A1180 21.98 -70.86 REMARK 500 1 PRO A1182 177.71 -26.71 REMARK 500 1 GLU A1184 -8.31 -57.83 REMARK 500 1 ASP A1202 41.28 -98.24 REMARK 500 1 VAL A1221 93.48 -60.11 REMARK 500 1 SER A1223 -86.55 48.86 REMARK 500 1 SER B 525 88.19 61.45 REMARK 500 2 SER A1180 21.01 -64.92 REMARK 500 2 ASP A1181 109.05 -44.91 REMARK 500 2 PRO A1182 179.97 -24.53 REMARK 500 2 MET A1183 171.95 -52.31 REMARK 500 2 VAL A1224 -29.90 -170.76 REMARK 500 2 LEU B 538 -70.73 -79.83 REMARK 500 3 ASN A1158 96.99 62.25 REMARK 500 3 LEU A1159 87.30 -69.21 REMARK 500 3 SER A1180 22.45 -49.44 REMARK 500 3 ASP A1202 51.67 -97.53 REMARK 500 3 SER A1220 -75.30 -67.36 REMARK 500 3 SER A1223 161.66 63.17 REMARK 500 3 VAL A1224 -77.74 59.27 REMARK 500 4 SER A1180 25.98 -55.39 REMARK 500 4 MET A1183 178.06 -52.16 REMARK 500 4 ASP A1202 74.88 -107.11 REMARK 500 4 SER A1223 -162.65 175.61 REMARK 500 4 VAL A1224 32.89 -94.67 REMARK 500 5 ASN A1158 83.99 57.97 REMARK 500 5 LEU A1159 92.56 -63.87 REMARK 500 5 ASP A1181 76.48 -152.58 REMARK 500 5 PRO B 530 -171.49 -68.62 REMARK 500 5 LEU B 537 -65.63 -91.66 REMARK 500 6 ASN A1158 75.92 -112.29 REMARK 500 6 ASP A1181 76.75 -162.72 REMARK 500 6 GLU A1222 -165.50 -72.44 REMARK 500 7 SER A1180 26.01 -49.67 REMARK 500 7 ASP A1202 41.46 -104.09 REMARK 500 7 SER A1220 -158.47 -80.63 REMARK 500 7 SER A1223 -89.38 -90.11 REMARK 500 7 SER B 525 99.04 -64.74 REMARK 500 7 THR B 528 -150.16 -90.63 REMARK 500 7 GLU B 529 104.49 -59.00 REMARK 500 7 PHE B 531 -84.91 -85.62 REMARK 500 8 ASP A1202 44.36 -105.35 REMARK 500 8 GLU A1222 106.37 -50.31 REMARK 500 8 SER A1223 -152.35 -139.81 REMARK 500 9 SER A1180 23.24 -72.02 REMARK 500 9 ASP A1181 103.37 -36.88 REMARK 500 9 PRO A1182 -172.27 -21.88 REMARK 500 9 GLU A1184 1.24 -69.69 REMARK 500 9 GLU B 529 85.65 51.79 REMARK 500 10 VAL A1224 -55.81 77.00 REMARK 500 REMARK 500 THIS ENTRY HAS 106 RAMACHANDRAN OUTLIERS. 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 SER A 1180 ASP A 1181 1 -135.63 REMARK 500 SER A 1180 ASP A 1181 2 -135.57 REMARK 500 SER A 1180 ASP A 1181 3 -136.26 REMARK 500 SER A 1180 ASP A 1181 4 -141.80 REMARK 500 SER A 1180 ASP A 1181 7 -142.18 REMARK 500 SER A 1180 ASP A 1181 9 -131.83 REMARK 500 SER A 1180 ASP A 1181 13 -146.16 REMARK 500 SER A 1180 ASP A 1181 14 -135.10 REMARK 500 SER A 1180 ASP A 1181 15 -138.00 REMARK 500 THR A 1178 ILE A 1179 19 -146.13 REMARK 500 SER A 1180 ASP A 1181 19 -138.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18434 RELATED DB: BMRB REMARK 900 RELATED ID: 2LSY RELATED DB: PDB DBREF 2LSK A 1158 1251 UNP Q9UBZ9 REV1_HUMAN 1158 1251 DBREF 2LSK B 524 539 UNP Q9Y253 POLH_HUMAN 524 539 SEQADV 2LSK GLY A 1157 UNP Q9UBZ9 EXPRESSION TAG SEQRES 1 A 95 GLY ASN LEU ALA GLY ALA VAL GLU PHE ASN ASP VAL LYS SEQRES 2 A 95 THR LEU LEU ARG GLU TRP ILE THR THR ILE SER ASP PRO SEQRES 3 A 95 MET GLU GLU ASP ILE LEU GLN VAL VAL LYS TYR CYS THR SEQRES 4 A 95 ASP LEU ILE GLU GLU LYS ASP LEU GLU LYS LEU ASP LEU SEQRES 5 A 95 VAL ILE LYS TYR MET LYS ARG LEU MET GLN GLN SER VAL SEQRES 6 A 95 GLU SER VAL TRP ASN MET ALA PHE ASP PHE ILE LEU ASP SEQRES 7 A 95 ASN VAL GLN VAL VAL LEU GLN GLN THR TYR GLY SER THR SEQRES 8 A 95 LEU LYS VAL THR SEQRES 1 B 16 GLN SER THR GLY THR GLU PRO PHE PHE LYS GLN LYS SER SEQRES 2 B 16 LEU LEU LEU HELIX 1 1 GLU A 1164 THR A 1178 1 15 HELIX 2 2 GLU A 1184 LYS A 1201 1 18 HELIX 3 3 ASP A 1202 SER A 1220 1 19 HELIX 4 4 SER A 1223 TYR A 1244 1 22 HELIX 5 5 PHE B 531 LEU B 539 1 9 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