eF-site ID 4dhj-ABCDEFGHIJKLMN PDB Code 4dhj Chain A, B, C, D, E, F, G, H, I, J, K, L, M, N click to enlarge Title The structure of a ceOTUB1 ubiquitin aldehyde UBC13~Ub complex Classification HYDROLASE/SIGNALING PROTEIN/LIGASE Compound Ubiquitin thioesterase otubain-like Source Caenorhabditis elegans (UBE2N_HUMAN) Sequence A:  DQQLKTIEDEQKSVPLVATLAPFSILCAEYDNETSAAFLS KATELSEVYGEIRYIRGDGNCFYRAILVGLIEIMLKDRAR LEKFIASSRDWTRTLVELGFPDWTCTDFCDFFIEFLEKIH SGVHTEEAVYTILNDDGSANYILMFFRLITSAFLKQNSEE YAPFIDEGMTVAQYCEQEIEPMWKDADHLAINSLIKAAGT RVRIEYMDRTAAPNGGWHYDIPSDDQQIAPEITLLYRPGH YDVIYKKD B:  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGX C:  GLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGP QDSPFEGGTFKLELFLPEEYPMAAPKVRFMTKIYHPNVDK LGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLA NDVAEQWKTNEAQAIETARAWTRLYAMNN D:  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVL E:  LKTIEDEQKSVPLVATLAPFSILCAEYDNETSAAFLSKAT ELSEVYGEIRYIRGDGNCFYRAILVGLIEIMLKDRARLEK FIASSRDWTRTLVELGFPDWTCTDFCDFFIEFLEKIHSGV HTEEAVYTILNDDGSANYILMFFRLITSAFLKQNSEEYAP FIDEGMTVAQYCEQEIEPMWKDADHLAINSLIKAAGTRVR IEYMDRTAAPNGGWHYDIPSDDQQIAPEITLLYRPGHYDV IYKKD F:  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGX G:  GLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGP QDSPFEGGTFKLELFLPEEYPMAAPKVRFMTKIYHPNVDK LGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLA NDVAEQWKTNEAQAIETARAWTRLYAMN H:  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVL I:  DEQKSVPLVATLAPFSILCAEYDNETSAAFLSKATELSEV YGEIRYIRGDGNCFYRAILVGLIEIMLKDRARLEKFIASS RDWTRTLVELGFPDWTCTDFCDFFIEFLEKIHSGVHTEEA VYTILNDDGSANYILMFFRLITSAFLKQNSEEYAPFIDEG MTVAQYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMD RTAAPNGGWHYDIPSDDQQIAPEITLLYRPGHYDVIYKKD S J:  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGX K:  GLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAGP QDSPFEGGTFKLELFLPEEYPMAAPKVRFMTKIYHPNVDK LGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPLA NDVAEQWKTNEAQAIETARAWTRLYAMN L:  QKSVPLVATLAPFSILCAEYDNETSAAFLSKATELSEVYG EIRYIRGDGNCFYRAILVGLIEIMLKDRARLEKFIASSRD WTRTLVELGFPDWTCTDFCDFFIEFLEKIHSGVHTEEAVY TILNDDGSANYILMFFRLITSAFLKQNSEEYAPFIDEGMT VAQYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRT AAPNGGWHYDIPSDDQQIAPEITLLYRPGHYDVIYKKDS M:  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGX N:  AGLPRRIIKETQRLLAEPVPGIKAEPDESNARYFHVVIAG PQDSPFEGGTFKLELFLPEEYPMAAPKVRFMTKIYHPNVD KLGRICLDILKDKWSPALQIRTVLLSIQALLSAPNPDDPL ANDVAEQWKTNEAQAIETARAWTRLYAMNN Description (1)  Ubiquitin thioesterase otubain-like (E.C.3.4.19.12), Ubiquitin aldehyde, Ubiquitin-conjugating enzyme E2 N (E.C.6.3.2.19) Functional site 1) chain B residue 527-552 type prosite sequence KAKIQDKEGIPPDQQRLIFAGKQLED description UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD source prosite : PS00299 2) chain D residue 527-552 type prosite sequence KAKIQDKEGIPPDQQRLIFAGKQLED description UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD source prosite : PS00299 3) chain C residue 76-91 type prosite sequence YHPNVDKLGRICLDIL description UBC_1 Ubiquitin-conjugating (UBC) active site signature. YHPNVdkl.GrICLdiL source prosite : PS00183 4) chain B residue 527 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 source Swiss-Prot : SWS_FT_FI9 5) chain F residue 527 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 source Swiss-Prot : SWS_FT_FI9 6) chain J residue 527 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 source Swiss-Prot : SWS_FT_FI9 7) chain M residue 527 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000305|PubMed:15466860 source Swiss-Prot : SWS_FT_FI9 8) chain B residue 529 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127 source Swiss-Prot : SWS_FT_FI10 9) chain F residue 529 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127 source Swiss-Prot : SWS_FT_FI10 10) chain J residue 529 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127 source Swiss-Prot : SWS_FT_FI10 11) chain M residue 529 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:25752573, ECO:0000269|PubMed:25752577, ECO:0000269|PubMed:34239127 source Swiss-Prot : SWS_FT_FI10 12) chain B residue 533 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 source Swiss-Prot : SWS_FT_FI11 13) chain F residue 533 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 source Swiss-Prot : SWS_FT_FI11 14) chain J residue 533 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 source Swiss-Prot : SWS_FT_FI11 15) chain M residue 533 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:25752577 source Swiss-Prot : SWS_FT_FI11 16) chain B residue 563 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106 source Swiss-Prot : SWS_FT_FI12 17) chain F residue 563 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106 source Swiss-Prot : SWS_FT_FI12 18) chain J residue 563 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106 source Swiss-Prot : SWS_FT_FI12 19) chain M residue 563 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16543144, ECO:0000269|PubMed:18719106 source Swiss-Prot : SWS_FT_FI12 20) chain B residue 554 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 21) chain B residue 572 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 22) chain F residue 554 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 23) chain F residue 572 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 24) chain J residue 554 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 25) chain J residue 572 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 26) chain M residue 554 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 27) chain M residue 572 type SITE sequence R description Interacts with activating enzyme source Swiss-Prot : SWS_FT_FI1 28) chain B residue 568 type SITE sequence H description Essential for function source Swiss-Prot : SWS_FT_FI2 29) chain F residue 568 type SITE sequence H description Essential for function source Swiss-Prot : SWS_FT_FI2 30) chain J residue 568 type SITE sequence H description Essential for function source Swiss-Prot : SWS_FT_FI2 31) chain M residue 568 type SITE sequence H description Essential for function source Swiss-Prot : SWS_FT_FI2 32) chain B residue 506 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 source Swiss-Prot : SWS_FT_FI6 33) chain F residue 506 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 source Swiss-Prot : SWS_FT_FI6 34) chain J residue 506 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 source Swiss-Prot : SWS_FT_FI6 35) chain M residue 506 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603 source Swiss-Prot : SWS_FT_FI6 36) chain B residue 576 type CROSSLNK sequence X description Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) source Swiss-Prot : SWS_FT_FI7 37) chain F residue 576 type CROSSLNK sequence X description Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) source Swiss-Prot : SWS_FT_FI7 38) chain J residue 576 type CROSSLNK sequence X description Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) source Swiss-Prot : SWS_FT_FI7 39) chain M residue 576 type CROSSLNK sequence X description Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) source Swiss-Prot : SWS_FT_FI7 40) chain B residue 511 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 41) chain B residue 548 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 42) chain F residue 511 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 43) chain F residue 548 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 44) chain J residue 511 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 45) chain J residue 548 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 46) chain M residue 511 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 47) chain M residue 548 type CROSSLNK sequence K description Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:16443603, ECO:0000269|PubMed:16543144 source Swiss-Prot : SWS_FT_FI8 48) chain B residue 576 type MOD_RES sequence X description ADP-ribosylglycine => ECO:0000269|PubMed:28525742 source Swiss-Prot : SWS_FT_FI5 49) chain F residue 576 type MOD_RES sequence X description ADP-ribosylglycine => ECO:0000269|PubMed:28525742 source Swiss-Prot : SWS_FT_FI5 50) chain J residue 576 type MOD_RES sequence X description ADP-ribosylglycine => ECO:0000269|PubMed:28525742 source Swiss-Prot : SWS_FT_FI5 51) chain M residue 576 type MOD_RES sequence X description ADP-ribosylglycine => ECO:0000269|PubMed:28525742 source Swiss-Prot : SWS_FT_FI5 52) chain B residue 566 type MOD_RES sequence T description (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 source Swiss-Prot : SWS_FT_FI4 53) chain F residue 566 type MOD_RES sequence T description (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 source Swiss-Prot : SWS_FT_FI4 54) chain J residue 566 type MOD_RES sequence T description (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 source Swiss-Prot : SWS_FT_FI4 55) chain M residue 566 type MOD_RES sequence T description (Microbial infection) ADP-ribosylthreonine => ECO:0000269|PubMed:32330457 source Swiss-Prot : SWS_FT_FI4 56) chain B residue 565 type MOD_RES sequence S description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 source Swiss-Prot : SWS_FT_FI3 57) chain F residue 565 type MOD_RES sequence S description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 source Swiss-Prot : SWS_FT_FI3 58) chain J residue 565 type MOD_RES sequence S description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 source Swiss-Prot : SWS_FT_FI3 59) chain M residue 565 type MOD_RES sequence S description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 source Swiss-Prot : SWS_FT_FI3 60) chain G residue 92 type MOD_RES sequence K description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 source Swiss-Prot : SWS_FT_FI3 61) chain N residue 92 type MOD_RES sequence K description Phosphoserine; by PINK1 => ECO:0000269|PubMed:24660806, ECO:0000269|PubMed:24751536, ECO:0000269|PubMed:24784582, ECO:0000269|PubMed:25527291 source Swiss-Prot : SWS_FT_FI3

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