PDB entry 4dhj

View 4dhj on RCSB PDB site
Description: The structure of a ceOTUB1 ubiquitin aldehyde UBC13~Ub complex
Class: hydrolase/signaling protein/ligase
Keywords: ubiquitination, HYDROLASE-SIGNALING PROTEIN-LIGASE complex
Deposited on 2012-01-27, released 2012-02-22
The last revision prior to the SCOPe 2.06 freeze date was dated 2012-04-04, with a file datestamp of 2012-03-30.
Experiment type: XRAY
Resolution: 2.35 Å
R-factor: 0.204
AEROSPACI score: 0.35 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Ubiquitin thioesterase otubain-like
    Species: Caenorhabditis elegans [TaxId:6239]
    Gene: otub-1, C25D7.8
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhja_
  • Chain 'B':
    Compound: Ubiquitin aldehyde
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjb_
  • Chain 'C':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjc_
  • Chain 'D':
    Compound: Ubiquitin
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjd_
  • Chain 'E':
    Compound: Ubiquitin thioesterase otubain-like
    Species: Caenorhabditis elegans [TaxId:6239]
    Gene: otub-1, C25D7.8
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhje_
  • Chain 'F':
    Compound: Ubiquitin aldehyde
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjf_
  • Chain 'G':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjg_
  • Chain 'H':
    Compound: Ubiquitin
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjh_
  • Chain 'I':
    Compound: Ubiquitin thioesterase otubain-like
    Species: Caenorhabditis elegans [TaxId:6239]
    Gene: otub-1, C25D7.8
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhji_
  • Chain 'J':
    Compound: Ubiquitin aldehyde
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjj_
  • Chain 'K':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjk_
  • Chain 'L':
    Compound: Ubiquitin thioesterase otubain-like
    Species: Caenorhabditis elegans [TaxId:6239]
    Gene: otub-1, C25D7.8
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjl_
  • Chain 'M':
    Compound: Ubiquitin aldehyde
    Species: Homo sapiens [TaxId:9606]
    Gene: UBC
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjm_
  • Chain 'N':
    Compound: Ubiquitin-conjugating enzyme E2 N
    Species: Homo sapiens [TaxId:9606]
    Gene: UBE2N, BLU
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d4dhjn_
  • Heterogens: HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >4dhjA (A:)
manepqksddngqaaeavvtddeivlqdqqlktiedeqksvplvatlapfsilcaeydne
tsaaflskatelsevygeiryirgdgncfyrailvglieimlkdrarlekfiassrdwtr
tlvelgfpdwtctdfcdffieflekihsgvhteeavytilnddgsanyilmffrlitsaf
lkqnseeyapfidegmtvaqyceqeiepmwkdadhlainslikaagtrvrieymdrtaap
nggwhydipsddqqiapeitllyrpghydviykkdsteaseien

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjA (A:)
dqqlktiedeqksvplvatlapfsilcaeydnetsaaflskatelsevygeiryirgdgn
cfyrailvglieimlkdrarlekfiassrdwtrtlvelgfpdwtctdfcdffieflekih
sgvhteeavytilnddgsanyilmffrlitsaflkqnseeyapfidegmtvaqyceqeie
pmwkdadhlainslikaagtrvrieymdrtaapnggwhydipsddqqiapeitllyrpgh
ydviykkd

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4dhjB (B:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >4dhjC (C:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjC (C:)
glprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeey
pmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddpla
ndvaeqwktneaqaietarawtrlyamnn

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >4dhjD (D:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgc

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjD (D:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvl

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >4dhjE (E:)
manepqksddngqaaeavvtddeivlqdqqlktiedeqksvplvatlapfsilcaeydne
tsaaflskatelsevygeiryirgdgncfyrailvglieimlkdrarlekfiassrdwtr
tlvelgfpdwtctdfcdffieflekihsgvhteeavytilnddgsanyilmffrlitsaf
lkqnseeyapfidegmtvaqyceqeiepmwkdadhlainslikaagtrvrieymdrtaap
nggwhydipsddqqiapeitllyrpghydviykkdsteaseien

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjE (E:)
lktiedeqksvplvatlapfsilcaeydnetsaaflskatelsevygeiryirgdgncfy
railvglieimlkdrarlekfiassrdwtrtlvelgfpdwtctdfcdffieflekihsgv
hteeavytilnddgsanyilmffrlitsaflkqnseeyapfidegmtvaqyceqeiepmw
kdadhlainslikaagtrvrieymdrtaapnggwhydipsddqqiapeitllyrpghydv
iykkd

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4dhjF (F:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >4dhjG (G:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjG (G:)
glprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeey
pmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddpla
ndvaeqwktneaqaietarawtrlyamn

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >4dhjH (H:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgc

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjH (H:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvl

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >4dhjI (I:)
manepqksddngqaaeavvtddeivlqdqqlktiedeqksvplvatlapfsilcaeydne
tsaaflskatelsevygeiryirgdgncfyrailvglieimlkdrarlekfiassrdwtr
tlvelgfpdwtctdfcdffieflekihsgvhteeavytilnddgsanyilmffrlitsaf
lkqnseeyapfidegmtvaqyceqeiepmwkdadhlainslikaagtrvrieymdrtaap
nggwhydipsddqqiapeitllyrpghydviykkdsteaseien

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjI (I:)
deqksvplvatlapfsilcaeydnetsaaflskatelsevygeiryirgdgncfyrailv
glieimlkdrarlekfiassrdwtrtlvelgfpdwtctdfcdffieflekihsgvhteea
vytilnddgsanyilmffrlitsaflkqnseeyapfidegmtvaqyceqeiepmwkdadh
lainslikaagtrvrieymdrtaapnggwhydipsddqqiapeitllyrpghydviykkd
s

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4dhjJ (J:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >4dhjK (K:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjK (K:)
glprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpeey
pmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddpla
ndvaeqwktneaqaietarawtrlyamn

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >4dhjL (L:)
manepqksddngqaaeavvtddeivlqdqqlktiedeqksvplvatlapfsilcaeydne
tsaaflskatelsevygeiryirgdgncfyrailvglieimlkdrarlekfiassrdwtr
tlvelgfpdwtctdfcdffieflekihsgvhteeavytilnddgsanyilmffrlitsaf
lkqnseeyapfidegmtvaqyceqeiepmwkdadhlainslikaagtrvrieymdrtaap
nggwhydipsddqqiapeitllyrpghydviykkdsteaseien

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjL (L:)
qksvplvatlapfsilcaeydnetsaaflskatelsevygeiryirgdgncfyrailvgl
ieimlkdrarlekfiassrdwtrtlvelgfpdwtctdfcdffieflekihsgvhteeavy
tilnddgsanyilmffrlitsaflkqnseeyapfidegmtvaqyceqeiepmwkdadhla
inslikaagtrvrieymdrtaapnggwhydipsddqqiapeitllyrpghydviykkds

  • Chain 'M':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >4dhjM (M:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgg

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >4dhjN (N:)
maglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpe
eypmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddp
landvaeqwktneaqaietarawtrlyamnni

    Sequence, based on observed residues (ATOM records): (download) 
    >4dhjN (N:)
aglprriiketqrllaepvpgikaepdesnaryfhvviagpqdspfeggtfklelflpee
ypmaapkvrfmtkiyhpnvdklgricldilkdkwspalqirtvllsiqallsapnpddpl
andvaeqwktneaqaietarawtrlyamnn