PDB entry 1vs8

View 1vs8 on RCSB PDB site
Description: Crystal structure of the bacterial ribosome from escherichia coli in complex with the antibiotic kasugamyin at 3.5a resolution. this file contains the 30s subunit of one 70s ribosome. the entire crystal structure contains two 70s ribosomes and is described in remark 400.
Class: ribosome
Keywords: ribosome, kasugamycin
Deposited on 2006-08-04, released 2006-09-26
The last revision prior to the SCOP 1.73 freeze date was dated 2006-11-21, with a file datestamp of 2007-06-04.
Experiment type: XRAY
Resolution: 3.46 Å
R-factor: 0.279
AEROSPACI score: 0.01 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '0':
    Compound: 50S ribosomal protein L32
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs801
  • Chain '1':
    Compound: 50S ribosomal protein L33
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs811
  • Chain '2':
    Compound: 50S ribosomal protein L34
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs821
  • Chain '3':
    Compound: 50S ribosomal protein L35
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs831
  • Chain '4':
    Compound: 50S ribosomal protein L36
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs841
  • Chain 'A':
    Compound: 5S ribosomal RNA
    Species: Escherichia coli
  • Chain 'B':
    Compound: 23S ribosomal RNA
    Species: Escherichia coli
  • Chain 'C':
    Compound: 50S ribosomal protein L2
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: 50S ribosomal protein L3
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: 50S ribosomal protein L4
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: 50S ribosomal protein L5
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: 50S ribosomal protein L6
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: 50S ribosomal protein L9
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: 50S ribosomal protein L11
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: 50S ribosomal protein L13
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'K':
    Compound: 50S ribosomal protein L14
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    Compound: 50S ribosomal protein L15
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8l1
  • Chain 'M':
    Compound: 50S ribosomal protein L16
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8m1
  • Chain 'N':
    Compound: 50S ribosomal protein L17
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'O':
    Compound: 50S ribosomal protein L18
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'P':
    Compound: 50S ribosomal protein L19
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8p1
  • Chain 'Q':
    Compound: 50S ribosomal protein L20
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'R':
    Compound: 50S ribosomal protein L21
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8r1
  • Chain 'S':
    Compound: 50S ribosomal protein L22
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'T':
    Compound: 50S ribosomal protein L23
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'U':
    Compound: 50S ribosomal protein L24
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8u1
  • Chain 'V':
    Compound: 50S ribosomal protein L25
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8v1
  • Chain 'W':
    Compound: 50S ribosomal protein L27
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'X':
    Compound: 50S ribosomal protein L29
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8x1
  • Chain 'Y':
    Compound: 50S ribosomal protein L30
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed):
  • Chain 'Z':
    Compound: 50S ribosomal protein L31
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.73: d1vs8z1
  • Heterogens: MG, HOH

PDB Chain Sequences:

  • Chain '0':
    Sequence, based on SEQRES records: (download)
    >1vs80 (0:)
    mavqqnkptrskrgmrrshdaltavtslsvdktsgekhlrhhitadgyyrgrkviak
    

    Sequence, based on observed residues (ATOM records): (download)
    >1vs80 (0:)
    avqqnkptrskrgmrrshdaltavtslsvdktsgekhlrhhitadgyyrgrkviak
    

  • Chain '1':
    Sequence, based on SEQRES records: (download)
    >1vs81 (1:)
    makgirekiklvssagtghfytttknkrtkpeklelkkfdpvvrqhviykeakik
    

    Sequence, based on observed residues (ATOM records): (download)
    >1vs81 (1:)
    akgirekiklvssagtghfytttknkrtkpeklelkkfdpvvrqhviykeakik
    

  • Chain '2':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs82 (2:)
    mkrtfqpsvlkrnrshgfrarmatkngrqvlarrrakgrarltvsk
    

  • Chain '3':
    Sequence, based on SEQRES records: (download)
    >1vs83 (3:)
    mpkiktvrgaakrfkktgkggfkhkhanlrhiltkkatkrkrhlrpkamvskgdlglvia
    clpya
    

    Sequence, based on observed residues (ATOM records): (download)
    >1vs83 (3:)
    pkiktvrgaakrfkktgkggfkhkhanlrhiltkkatkrkrhlrpkamvskgdlglviac
    lpya
    

  • Chain '4':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs84 (4:)
    mkvrasvkklcrnckivkrdgvirvicsaepkhkqrqg
    

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    No sequence available.

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    No sequence available.

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    No sequence available.

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    No sequence available.

  • Chain 'K':
    No sequence available.

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs8L (L:)
    mrlntlspaegskkagkrlgrgigsglgktggrghkgqksrsgggvrrgfeggqmplyrr
    lpkfgftsrkaaitaeirlsdlakveggvvdlntlkaaniigiqiefakvilagevttpv
    tvrglrvtkgaraaieaaggkiee
    

  • Chain 'M':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs8M (M:)
    mlqpkrtkfrkmhkgrnrglaqgtdvsfgsfglkavgrgrltarqieaarramtravkrq
    gkiwirvfpdkpitekplavrmgkgkgnveywvaliqpgkvlyemdgvpeelareafkla
    aaklpikttfvtktvm
    

  • Chain 'N':
    No sequence available.

  • Chain 'O':
    No sequence available.

  • Chain 'P':
    Sequence, based on SEQRES records: (download)
    >1vs8P (P:)
    msniikqleqeqmkqdvpsfrpgdtvevkvwvvegskkrlqafegvviairnrglhsaft
    vrkisngegvervfqthspvvdsisvkrrgavrkaklyylrertgkaarikerln
    

    Sequence, based on observed residues (ATOM records): (download)
    >1vs8P (P:)
    sniikqleqeqmkqdvpsfrpgdtvevkvwvvegskkrlqafegvviairnrglhsaftv
    rkisngegvervfqthspvvdsisvkrrgavrkaklyylrertgkaarikerln
    

  • Chain 'Q':
    No sequence available.

  • Chain 'R':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs8R (R:)
    myavfqsggkqhrvsegqtvrlekldiatgetvefaevlmiangeevkigvpfvdggvik
    aevvahgrgekvkivkfrrrkhyrkqqghrqwftdvkitgisa
    

  • Chain 'S':
    No sequence available.

  • Chain 'T':
    No sequence available.

  • Chain 'U':
    Sequence, based on SEQRES records: (download)
    >1vs8U (U:)
    maakirrddevivltgkdkgkrgkvknvlssgkviveginlvkkhqkpvpalnqpggive
    keaaiqvsnvaifnaatgkadrvgfrfedgkkvrffksnsetik
    

    Sequence, based on observed residues (ATOM records): (download)
    >1vs8U (U:)
    aakirrddevivltgkdkgkrgkvknvlssgkviveginlvkkhqkpvpalnqpggivek
    eaaiqvsnvaifnaatgkadrvgfrfedgkkvrffksnseti
    

  • Chain 'V':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs8V (V:)
    mftinaevrkeqgkgasrrlraankfpaiiyggkeaplaieldhdkvmnmqakaefysev
    ltivvdgkeikvkaqdvqrhpykpklqhidfvra
    

  • Chain 'W':
    No sequence available.

  • Chain 'X':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs8X (X:)
    mkakelreksveelntellnllreqfnlrmqaasgqlqqshllkqvrrdvarvktllnek
    aga
    

  • Chain 'Y':
    No sequence available.

  • Chain 'Z':
    Sequence; same for both SEQRES and ATOM records: (download)
    >1vs8Z (Z:)
    mkkdihpkyeeitascscgnvmkirstvghdlnldvcskchpfftgkqrdvatggrvdrf
    nkrfnipgsk