PDB Short entry for 2JW5 HEADER PROTEIN BINDING 05-OCT-07 2JW5 TITLE POLYMERASE LAMBDA BRCT DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE LAMBDA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: BRCT DOMAIN (RESIDUES 34-135); COMPND 5 SYNONYM: POL LAMBDA, DNA POLYMERASE KAPPA, DNA POLYMERASE BETA-2, POL COMPND 6 BETA2; COMPND 7 EC: 2.7.7.7, 4.2.99.-; COMPND 8 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: POLL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET KEYWDS BRCT DOMAIN, FAMILY X POLYMERASE, NONHOMOLOGOUS END JOINING (NHEJ), KEYWDS 2 DNA DAMAGE, DNA REPAIR, DNA REPLICATION, DNA SYNTHESIS, DNA-BINDING, KEYWDS 3 DNA-DIRECTED DNA POLYMERASE, LYASE, MANGANESE, METAL-BINDING, KEYWDS 4 NUCLEOTIDYLTRANSFERASE, NUCLEUS, PHOSPHORYLATION, POLYMORPHISM, KEYWDS 5 TRANSFERASE, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 12 AUTHOR G.A.MUELLER,A.F.MOON,E.F.DEROSE,L.C.PEDERSEN,R.E.LONDON REVDAT 4 16-MAR-22 2JW5 1 REMARK SEQADV REVDAT 3 24-FEB-09 2JW5 1 VERSN REVDAT 2 22-JUL-08 2JW5 1 AUTHOR REVDAT 1 23-OCT-07 2JW5 0 JRNL AUTH G.A.MUELLER,A.F.MOON,E.F.DEROSE,B.J.DAVIS,D.A.RAMSDEN, JRNL AUTH 2 L.C.PEDERSEN,R.E.LONDON JRNL TITL POLYMERASE LAMBDA BRCT DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, X-PLOR NIH REMARK 3 AUTHORS : DELAGLIO, F. ET AL. (NMRPIPE), SCHWIETERS, C.D. ET REMARK 3 AL. (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: INITIAL STRUCTURES CALCULATED WITH REMARK 3 CYANA, NO RDCS. FINAL 24 STRUCTURES (12 SUBMITTED) CALCULATED REMARK 3 WITH XPLOR-NIH AND RDC RESTRAINTS REMARK 4 REMARK 4 2JW5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-OCT-07. REMARK 100 THE DEPOSITION ID IS D_1000100365. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 0.075 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 10 UM DSS, 25 MM TRIS, 75 MM REMARK 210 SODIUM CHLORIDE, 1 MM [U-2H] DTT, REMARK 210 0.2 MM EDTA, 90% H2O/10% D2O; REMARK 210 10 UM DSS, 25 MM TRIS, 75 MM REMARK 210 SODIUM CHLORIDE, 1 MM [U-2H] DTT, REMARK 210 0.2 MM EDTA, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D C(CO)NH; 3D REMARK 210 HNCO; 3D HNCACB; 3D H(CCO)NH; 3D REMARK 210 HCCH-TOCSY; 3D HNHA; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW, VNMRJ, TALOS, CYANA, REMARK 210 PROCHECKNMR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 24 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 12 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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: MONOMERIC 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 O PRO A 74 H GLY A 77 1.54 REMARK 500 O ILE A 132 H ILE A 134 1.58 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 ASN A 32 55.77 -117.96 REMARK 500 1 ALA A 37 2.78 57.24 REMARK 500 1 GLU A 38 -3.15 56.77 REMARK 500 1 GLU A 39 75.27 37.45 REMARK 500 1 SER A 42 -14.71 -48.02 REMARK 500 1 ILE A 53 -94.18 -61.90 REMARK 500 1 ALA A 56 -53.69 170.72 REMARK 500 1 LEU A 60 -17.03 -41.27 REMARK 500 1 PRO A 74 -153.68 -62.95 REMARK 500 1 ASP A 86 18.06 -68.92 REMARK 500 1 GLU A 87 -20.10 68.87 REMARK 500 1 GLN A 102 140.68 -179.85 REMARK 500 1 PRO A 104 -173.68 -59.34 REMARK 500 1 ALA A 107 129.71 -17.80 REMARK 500 1 ARG A 122 53.45 25.09 REMARK 500 1 ALA A 128 -19.31 -44.44 REMARK 500 1 ILE A 132 -71.85 -72.65 REMARK 500 1 PHE A 133 -36.55 65.74 REMARK 500 1 ILE A 134 -55.51 156.30 REMARK 500 2 GLU A 35 80.63 -171.47 REMARK 500 2 GLU A 38 -120.58 -76.80 REMARK 500 2 ILE A 53 78.76 -53.23 REMARK 500 2 ALA A 56 -81.64 -179.32 REMARK 500 2 LEU A 60 -19.35 -46.20 REMARK 500 2 GLN A 71 149.05 171.98 REMARK 500 2 PRO A 74 -162.73 -52.37 REMARK 500 2 VAL A 80 162.29 80.41 REMARK 500 2 THR A 81 -41.93 -134.69 REMARK 500 2 ASP A 86 43.41 -74.45 REMARK 500 2 GLU A 87 22.19 40.66 REMARK 500 2 GLN A 102 135.64 -173.69 REMARK 500 2 PRO A 104 -174.49 -50.49 REMARK 500 2 ALA A 107 125.68 -13.42 REMARK 500 2 ARG A 123 -175.50 -172.36 REMARK 500 2 ALA A 128 67.54 -64.35 REMARK 500 2 ILE A 132 -72.46 -92.27 REMARK 500 2 PHE A 133 -36.13 64.77 REMARK 500 2 ILE A 134 -55.43 155.17 REMARK 500 3 SER A 33 67.82 38.54 REMARK 500 3 ALA A 37 28.42 40.51 REMARK 500 3 GLU A 38 4.50 57.09 REMARK 500 3 GLU A 39 75.17 -104.77 REMARK 500 3 SER A 42 -14.17 -48.13 REMARK 500 3 ILE A 53 -6.47 115.28 REMARK 500 3 ALA A 56 -67.44 179.74 REMARK 500 3 LEU A 60 -17.51 -41.67 REMARK 500 3 PRO A 74 -159.71 -55.21 REMARK 500 3 ALA A 75 -0.60 -54.61 REMARK 500 3 VAL A 80 74.43 10.60 REMARK 500 3 GLU A 87 -2.91 64.81 REMARK 500 REMARK 500 THIS ENTRY HAS 202 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2JW5 A 34 135 UNP Q9UGP5 DPOLL_HUMAN 34 135 SEQADV 2JW5 GLY A 30 UNP Q9UGP5 EXPRESSION TAG SEQADV 2JW5 SER A 31 UNP Q9UGP5 EXPRESSION TAG SEQADV 2JW5 ASN A 32 UNP Q9UGP5 EXPRESSION TAG SEQADV 2JW5 SER A 33 UNP Q9UGP5 EXPRESSION TAG SEQRES 1 A 106 GLY SER ASN SER GLY GLU GLU ALA GLU GLU TRP LEU SER SEQRES 2 A 106 SER LEU ARG ALA HIS VAL VAL ARG THR GLY ILE GLY ARG SEQRES 3 A 106 ALA ARG ALA GLU LEU PHE GLU LYS GLN ILE VAL GLN HIS SEQRES 4 A 106 GLY GLY GLN LEU CYS PRO ALA GLN GLY PRO GLY VAL THR SEQRES 5 A 106 HIS ILE VAL VAL ASP GLU GLY MET ASP TYR GLU ARG ALA SEQRES 6 A 106 LEU ARG LEU LEU ARG LEU PRO GLN LEU PRO PRO GLY ALA SEQRES 7 A 106 GLN LEU VAL LYS SER ALA TRP LEU SER LEU CYS LEU GLN SEQRES 8 A 106 GLU ARG ARG LEU VAL ASP VAL ALA GLY PHE SER ILE PHE SEQRES 9 A 106 ILE PRO HELIX 1 1 GLU A 36 LEU A 44 5 9 HELIX 2 2 GLU A 59 HIS A 68 1 10 HELIX 3 3 ASP A 90 LEU A 98 1 9 HELIX 4 4 SER A 112 GLU A 121 1 10 HELIX 5 5 ASP A 126 PHE A 130 5 5 SHEET 1 A 2 HIS A 82 VAL A 85 0 SHEET 2 A 2 GLN A 108 LYS A 111 1 O VAL A 110 N ILE A 83 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