PDB entry 2gya

View 2gya on RCSB PDB site
Description: Structure of the 50S subunit of a pre-translocational E. coli ribosome obtained by fitting atomic models for RNA and protein components into cryo-EM map EMD-1056
Class: ribosome
Keywords: SecM; nascent chain; signal transduction; RNA world; polypeptide exit tunnel; translocation; ribosome; elongation arrest
Deposited on 2006-05-09, released 2006-09-26
The last revision prior to the SCOP 1.75 freeze date was dated 2006-09-26, with a file datestamp of 2007-06-04.
Experiment type: EM
Resolution: 2 Å
R-factor: N/A
AEROSPACI score: 0.32 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '0':
    Compound: 23S ribosomal RNA
    Species: Escherichia coli
  • Chain '1':
    Compound: 50S ribosomal protein L33
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gya11
  • Chain '2':
    Compound: 50s ribosomal protein l1
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain '3':
    Compound: 50S ribosomal protein L7/L12
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gya31, d2gya32
  • Chain '5':
    Compound: 50S ribosomal protein L7/L12
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gya51, d2gya52
  • Chain '9':
    Compound: 5S ribosomal RNA
    Species: Escherichia coli
  • Chain 'A':
    Compound: 50S ribosomal protein L2
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: 50S ribosomal protein L3
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyab1
  • Chain 'C':
    Compound: 50S ribosomal protein L4
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyac1
  • Chain 'D':
    Compound: 50S ribosomal protein L5
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyad1
  • Chain 'E':
    Compound: 50S ribosomal protein L6
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: 50S ribosomal protein L9
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyaf1, d2gyaf2
  • Chain 'G':
    Compound: 50S ribosomal protein L11
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyag1, d2gyag2
  • Chain 'H':
    Compound: 50S ribosomal protein L13
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyah1
  • Chain 'I':
    Compound: 50S ribosomal protein L14
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyai1
  • Chain 'J':
    Compound: 50S ribosomal protein L15
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyaj1
  • Chain 'K':
    Compound: 50S ribosomal protein L16
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyak1
  • Chain 'L':
    Compound: 50S ribosomal protein L17
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'M':
    Compound: 50S ribosomal protein L18
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyam1
  • Chain 'N':
    Compound: 50S ribosomal protein L19
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyan1
  • Chain 'O':
    Compound: 50S ribosomal protein L20
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyao1
  • Chain 'Q':
    Compound: 50S ribosomal protein L22
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyaq1
  • Chain 'R':
    Compound: 50S ribosomal protein L23
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'S':
    Compound: 50S ribosomal protein L24
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyas1
  • Chain 'T':
    Compound: 50S ribosomal protein L25
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyat1
  • Chain 'U':
    Compound: 50S ribosomal protein L27
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyau1
  • Chain 'W':
    Compound: 50S ribosomal protein L29
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyaw1
  • Chain 'X':
    Compound: 50S ribosomal protein L30
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d2gyax1
  • Chain 'Z':
    Compound: 50S ribosomal protein L32
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):

PDB Chain Sequences:

  • Chain '0':
    No sequence available.

  • Chain '1':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gya1 (1:)
    akgirekiklvssagtghfytttknkrtkpeklelkkfdpvvrqhviykeak
    

  • Chain '2':
    No sequence available.

  • Chain '3':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gya3 (3:)
    itkdqiieavaamsvmdvvelisameekfgvsaaaavavaagpveaaeektefdvilkaa
    gankvavikavrgatglglkeakdlvesapaalkegvskddaealkkaleeagaevevk
    

  • Chain '5':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gya5 (5:)
    itkdqiieavaamsvmdvvelisameekfgvsaaaavavaagpveaaeektefdvilkaa
    gankvavikavrgatglglkeakdlvesapaalkegvskddaealkkaleeagaevevk
    

  • Chain '9':
    No sequence available.

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaB (B:)
    miglvgkkvgmtriftedgvsipvtvieveanrvtqvkdlandgyraiqvttgakkanrv
    tkpeaghfakagveagrglwefrlaegeeftvgqsisvelfadvkkvdvtgtskgkgfag
    tvkrwnfrtqdathgnslshrvpgsigqnqtpgkvfkgkkmagqmgnervtvqsldvvrv
    daernlllvkgavpgatgsdlivkpavka
    

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaC (C:)
    melvlkdaqsaltvsettfgrdfnealvhqvvvayaagarqgtraqktraevtgsgkkpw
    rqkgtgrarsgsikspiwrsggvtfaarpqdhsqkvnkkmyrgalksilselvrqdrliv
    vekfsveapktkllaqklkdmaledvliitgeldenlflaarnlhkvdvrdatgidpvsl
    iafdkvvmtadavkqvee
    

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaD (D:)
    klhdyykdevvkklmtefnynsvmqvprvekitlnmgvgeaiadkklldnaaadlaaisg
    qkplitkarksvagfkirqgypigckvtlrgermwefferlitiavprirdfrglsaksf
    dgrgnysmgvreqiifpeidydkvdrvrgldititttaksdeegrallaafdfpfrk
    

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaF (F:)
    mqvilldkvanlgslgdqvnvkagyarnflvpqgkavpatkknieffearraeleaklae
    vlaaanaraekinaletvtiaskagdegklfgsigtrdiadavtaagvevaksevrlpng
    vlrttgehevsfqvhsevfakvivnvvae
    

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaG (G:)
    kkvqayvklqvaagmanpsppvgpalgqqgvnimefckafnaktdsiekglpipvvitvy
    adrsftfvtktppaavllkkaagiksgsgkpnkdkvgkisraqlqeiaqtkaadmtgadi
    eamtrsiegtarsmglvve
    

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaH (H:)
    mktftakpetvkrdwyvvdatgktlgrlatelarrlrgkhkaeytphvdtgdyiivlnad
    kvavtgnkrtdkvyyhhtghiggikqatfeemiarrpervieiavkgmlpkgplgramfr
    klkvyagnehnhaaqqpqvldi
    

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaI (I:)
    iqeqtmlnvadnsgarrvmcikvlggshrryagvgdiikitikeaiprgkvkkgdvlkav
    vvrtkkgvrrpdgsvirfdgnacvllnnnseqpigtrifgpvtrelrsekfmkiislape
    vl
    

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaJ (J:)
    ntlspaegskkagkrlgrgigsglgktggrghkgqksrsgggvrrgfeggqmplyrrlpk
    fgftsrkaaitaeirlsdlakveggvvdlntlkaaniigiqiefakvilagevttpvtvr
    glrvtkgaraaieaaggkie
    

  • Chain 'K':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaK (K:)
    qpkrtkfrkmhkgrnrglaqgtdvsfgsfglkavgrgrltarqieaarramtravkrqgk
    iwirvfpdkpitekplavrmgkgkgnveywvaliqpgkvlyemdgvpeelareafklaaa
    klpikttfvtk
    

  • Chain 'L':
    No sequence available.

  • Chain 'M':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaM (M:)
    kksarirratrarrklqelgatrlvvhrtprhiyaqviapngsevlvaastvekaiaeql
    kytgnkdaaaavgkavaeralekgikdvsfdrsgfqyhgrvqaladaareagl
    

  • Chain 'N':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaN (N:)
    sniikqleqeqmkqdvpsfrpgdtvevkvwvvegskkrlqafegvviairnrglhsaftv
    rkisngegvervfqthspvvdsisvkrrgavrkaklyylrertgkaarikerln
    

  • Chain 'O':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaO (O:)
    rvkrgviararhkkilkqakgyygarsrvyrvafqavikagqyayrdrrqrkrqfrqlwi
    arinaaarqngisyskfinglkkasveidrkiladiavfdkvaftalvekakaal
    

  • Chain 'Q':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaQ (Q:)
    akhrharssaqkvrlvadlirgkkvsqaldiltytnkkaavlvkkvlesaianaehndga
    diddlkvtkifvdegpsmkrimprakgradrilkrtshitvvvsdr
    

  • Chain 'R':
    No sequence available.

  • Chain 'S':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaS (S:)
    kirrddevivltgkdkgkrgkvknvlssgkviveginlvkkhqkpvpalnqpggivekea
    aiqvsnvaifnaatgkadrvgfrfedgkkvrffksnset
    

  • Chain 'T':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaT (T:)
    mftinaevrkeqgkgasrrlraankfpaiiyggkeaplaieldhdkvmnmqakaefysev
    ltivvdgkeikvkaqdvqrhpykpklqhidfvra
    

  • Chain 'U':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaU (U:)
    ahkkaggstrngrdseakrlgvkrfggesvlagsiivrqrgtkfhaganvgcgrdhtlfa
    kadgkvkfevkgpknrkfisieae
    

  • Chain 'W':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaW (W:)
    mkakelreksveelntellnllreqfnlrmqaasgqlqqshllkqvrrdvarvktllnek
    

  • Chain 'X':
    Sequence; same for both SEQRES and ATOM records: (download)
    >2gyaX (X:)
    tikitqtrsaigrlpkhkatllglglrrightveredtpairgminavsfmvkvee
    

  • Chain 'Z':
    No sequence available.