eF-site ID 4r65-A PDB Code 4r65 Chain A click to enlarge Title Ternary complex crystal structure of R258A mutant of DNA polymerase Beta Classification Transferase/DNA Compound DNA polymerase beta Source Homo sapiens (Human) (4R65) Sequence A:  TLNGGITDMLTELANFEKNVSQAIHKYNAYRKAASVIAKY PHKIKSGAEAKKLPGVGTKIAEKIDEFLATGKLRKLEKIR QDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLEDLRKNE DKLNHHQRIGLKYFGDFEKRIPREEMLQMQDIVLNEVKKV DSEYIATVCGSFRRGAESSGDMDVLLTHPSFTSESTKQPK LLHQVVEQLQKVHFITDTLSKGETKFMGVCQLPSKNDEKE YPHRRIDIALIPKDQYYCGVLYFTGSDIFNKNMRAHALEK GFTINEYTIRPLGVTGVAGEPLPVDSEKDIFDYIQWKYRE PKDRSE Description Functional site 1) chain A residue 179 type sequence G description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 2) chain A residue 180 type sequence S description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 3) chain A residue 183 type sequence R description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 4) chain A residue 188 type sequence S description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 5) chain A residue 189 type sequence G description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 6) chain A residue 190 type sequence D description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 7) chain A residue 192 type sequence D description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 8) chain A residue 271 type sequence Y description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 9) chain A residue 272 type sequence F description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 10) chain A residue 273 type sequence T description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 11) chain A residue 274 type sequence G description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 12) chain A residue 276 type sequence D description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 13) chain A residue 279 type sequence N description BINDING SITE FOR RESIDUE DUP A 401 source : AC1 14) chain A residue 190 type sequence D description BINDING SITE FOR RESIDUE MG A 402 source : AC2 15) chain A residue 192 type sequence D description BINDING SITE FOR RESIDUE MG A 402 source : AC2 16) chain A residue 190 type sequence D description BINDING SITE FOR RESIDUE MG A 403 source : AC3 17) chain A residue 192 type sequence D description BINDING SITE FOR RESIDUE MG A 403 source : AC3 18) chain A residue 256 type sequence D description BINDING SITE FOR RESIDUE MG A 403 source : AC3 19) chain A residue 101 type sequence T description BINDING SITE FOR RESIDUE NA A 404 source : AC4 20) chain A residue 103 type sequence V description BINDING SITE FOR RESIDUE NA A 404 source : AC4 21) chain A residue 106 type sequence I description BINDING SITE FOR RESIDUE NA A 404 source : AC4 22) chain A residue 60 type sequence K description BINDING SITE FOR RESIDUE NA A 405 source : AC5 23) chain A residue 62 type sequence L description BINDING SITE FOR RESIDUE NA A 405 source : AC5 24) chain A residue 65 type sequence V description BINDING SITE FOR RESIDUE NA A 405 source : AC5 25) chain A residue 330 type sequence P description BINDING SITE FOR RESIDUE CL A 406 source : AC6 26) chain A residue 331 type sequence K description BINDING SITE FOR RESIDUE CL A 406 source : AC6 27) chain A residue 32 type sequence A description BINDING SITE FOR RESIDUE CL A 407 source : AC7 28) chain A residue 34 type sequence H description BINDING SITE FOR RESIDUE CL A 407 source : AC7 29) chain A residue 35 type sequence K description BINDING SITE FOR RESIDUE CL A 407 source : AC7 30) chain A residue 159 type sequence Q description BINDING SITE FOR RESIDUE CL A 408 source : AC8 31) chain A residue 177 type sequence V description BINDING SITE FOR RESIDUE CL A 408 source : AC8 32) chain A residue 294 type sequence N description BINDING SITE FOR RESIDUE CL A 409 source : AC9 33) chain A residue 297 type sequence T description BINDING SITE FOR RESIDUE CL A 409 source : AC9 34) chain A residue 82 type sequence L description BINDING SITE FOR RESIDUE CL A 410 source : BC1 35) chain A residue 89 type sequence R description BINDING SITE FOR RESIDUE CL A 410 source : BC1 36) chain A residue 84 type sequence K description BINDING SITE FOR RESIDUE CL A 411 source : BC2 37) chain A residue 72 type MOD_RES sequence K description N6-acetyllysine => ECO:0000250|UniProtKB:Q8K409 source Swiss-Prot : SWS_FT_FI6 38) chain A residue 83 type MOD_RES sequence R description Omega-N-methylarginine; by PRMT6 => ECO:0000269|PubMed:16600869 source Swiss-Prot : SWS_FT_FI7 39) chain A residue 152 type MOD_RES sequence R description Omega-N-methylarginine; by PRMT6 => ECO:0000269|PubMed:16600869 source Swiss-Prot : SWS_FT_FI7 40) chain A residue 41 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:19713937, ECO:0000269|PubMed:21362556 source Swiss-Prot : SWS_FT_FI8 41) chain A residue 61 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:19713937, ECO:0000269|PubMed:21362556 source Swiss-Prot : SWS_FT_FI8 42) chain A residue 81 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:19713937, ECO:0000269|PubMed:21362556 source Swiss-Prot : SWS_FT_FI8 43) chain A residue 60 type BINDING sequence K description BINDING => ECO:0000269|PubMed:12517346, ECO:0000269|PubMed:8841120, ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPX, ECO:0007744|PDB:1BPZ, ECO:0007744|PDB:1MQ3, ECO:0007744|PDB:1ZQO, ECO:0007744|PDB:1ZQQ source Swiss-Prot : SWS_FT_FI2 44) chain A residue 62 type BINDING sequence L description BINDING => ECO:0000269|PubMed:12517346, ECO:0000269|PubMed:8841120, ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPX, ECO:0007744|PDB:1BPZ, ECO:0007744|PDB:1MQ3, ECO:0007744|PDB:1ZQO, ECO:0007744|PDB:1ZQQ source Swiss-Prot : SWS_FT_FI2 45) chain A residue 65 type BINDING sequence V description BINDING => ECO:0000269|PubMed:12517346, ECO:0000269|PubMed:8841120, ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPX, ECO:0007744|PDB:1BPZ, ECO:0007744|PDB:1MQ3, ECO:0007744|PDB:1ZQO, ECO:0007744|PDB:1ZQQ source Swiss-Prot : SWS_FT_FI2 46) chain A residue 101 type BINDING sequence T description BINDING => ECO:0000269|PubMed:12517346, ECO:0000269|PubMed:8841120, ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPX, ECO:0007744|PDB:1BPZ, ECO:0007744|PDB:1MQ3, ECO:0007744|PDB:1ZQO, ECO:0007744|PDB:1ZQQ source Swiss-Prot : SWS_FT_FI2 47) chain A residue 103 type BINDING sequence V description BINDING => ECO:0000269|PubMed:12517346, ECO:0000269|PubMed:8841120, ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPX, ECO:0007744|PDB:1BPZ, ECO:0007744|PDB:1MQ3, ECO:0007744|PDB:1ZQO, ECO:0007744|PDB:1ZQQ source Swiss-Prot : SWS_FT_FI2 48) chain A residue 106 type BINDING sequence I description BINDING => ECO:0000269|PubMed:12517346, ECO:0000269|PubMed:8841120, ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPX, ECO:0007744|PDB:1BPZ, ECO:0007744|PDB:1MQ3, ECO:0007744|PDB:1ZQO, ECO:0007744|PDB:1ZQQ source Swiss-Prot : SWS_FT_FI2 49) chain A residue 72 type ACT_SITE sequence K description Nucleophile; Schiff-base intermediate with DNA; for 5'-dRP lyase activity => ECO:0000269|PubMed:9572863 source Swiss-Prot : SWS_FT_FI1 50) chain A residue 149 type BINDING sequence R description BINDING => ECO:0000269|PubMed:8841119, ECO:0007744|PDB:8ICW, ECO:0007744|PDB:8ICX, ECO:0007744|PDB:8ICY source Swiss-Prot : SWS_FT_FI3 51) chain A residue 180 type BINDING sequence S description BINDING => ECO:0000269|PubMed:8841119, ECO:0007744|PDB:8ICW, ECO:0007744|PDB:8ICX, ECO:0007744|PDB:8ICY source Swiss-Prot : SWS_FT_FI3 52) chain A residue 189 type BINDING sequence G description BINDING => ECO:0000269|PubMed:8841119, ECO:0007744|PDB:8ICW, ECO:0007744|PDB:8ICX, ECO:0007744|PDB:8ICY source Swiss-Prot : SWS_FT_FI3 53) chain A residue 183 type BINDING sequence R description BINDING => ECO:0000269|PubMed:8841119, ECO:0007744|PDB:8ICX source Swiss-Prot : SWS_FT_FI4 54) chain A residue 179-198 type prosite sequence GSFRRGAESSGDMDVLLTHP description DNA_POLYMERASE_X DNA polymerase family X signature. GSFrRGaesSgDMDVLLthP source prosite : PS00522 55) chain A residue 190 type BINDING sequence D description BINDING => ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPY source Swiss-Prot : SWS_FT_FI5 56) chain A residue 192 type BINDING sequence D description BINDING => ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPY source Swiss-Prot : SWS_FT_FI5 57) chain A residue 256 type BINDING sequence D description BINDING => ECO:0000269|PubMed:9287163, ECO:0007744|PDB:1BPY source Swiss-Prot : SWS_FT_FI5

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