PDB entry 1vs6

View 1vs6 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 50s 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):
  • Uniprot P0A7N4 (Start-56)
  Domains in SCOP 1.73: d1vs601
• Chain '1':
  Compound: 50S ribosomal protein L33
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7N9 (Start-54)
  Domains in SCOP 1.73: d1vs611
• Chain '2':
  Compound: 50S ribosomal protein L34
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7P5 (0-45)
  Domains in SCOP 1.73: d1vs621
• Chain '3':
  Compound: 50S ribosomal protein L35
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7Q1 (Start-64)
  Domains in SCOP 1.73: d1vs631
• Chain '4':
  Compound: 50S ribosomal protein L36
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7Q6 (0-37)
  Domains in SCOP 1.73: d1vs641
• 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):
  • Uniprot P60422
• Chain 'D':
  Compound: 50S ribosomal protein L3
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P60438 (0-208)
• Chain 'E':
  Compound: 50S ribosomal protein L4
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P60723 (0-200)
• Chain 'F':
  Compound: 50S ribosomal protein L5
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P62399 (Start-178)
• Chain 'G':
  Compound: 50S ribosomal protein L6
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02390 (Start-176)
• Chain 'H':
  Compound: 50S ribosomal protein L9
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7R1 (0-148)
• Chain 'I':
  Compound: 50S ribosomal protein L11
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7J7 (Start-141)
• Chain 'J':
  Compound: 50S ribosomal protein L13
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02410 (0-End)
• Chain 'K':
  Compound: 50S ribosomal protein L14
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02411
• Chain 'L':
  Compound: 50S ribosomal protein L15
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02413 (0-143)
  Domains in SCOP 1.73: d1vs6l1
• Chain 'M':
  Compound: 50S ribosomal protein L16
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02414 (0-135)
  Domains in SCOP 1.73: d1vs6m1
• Chain 'N':
  Compound: 50S ribosomal protein L17
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02416 (0-126)
• Chain 'O':
  Compound: 50S ribosomal protein L18
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0C018 (0-116)
• Chain 'P':
  Compound: 50S ribosomal protein L19
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7K6 (1-114)
  Domains in SCOP 1.73: d1vs6p1
• Chain 'Q':
  Compound: 50S ribosomal protein L20
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7L3 (Start-117)
• Chain 'R':
  Compound: 50S ribosomal protein L21
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02422 (0-102)
  Domains in SCOP 1.73: d1vs6r1
• Chain 'S':
  Compound: 50S ribosomal protein L22
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P61175 (0-109)
• Chain 'T':
  Compound: 50S ribosomal protein L23
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02424 (0-End)
• Chain 'U':
  Compound: 50S ribosomal protein L24
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P60624
  Domains in SCOP 1.73: d1vs6u1
• Chain 'V':
  Compound: 50S ribosomal protein L25
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P68919 (0-93)
  Domains in SCOP 1.73: d1vs6v1
• Chain 'W':
  Compound: 50S ribosomal protein L27
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7L8 (Start-84)
• Chain 'X':
  Compound: 50S ribosomal protein L29
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7M6 (0-62)
  Domains in SCOP 1.73: d1vs6x1
• Chain 'Y':
  Compound: 50S ribosomal protein L30
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P02430 (Start-58)
• Chain 'Z':
  Compound: 50S ribosomal protein L31
  Species: Escherichia coli
  Database cross-references and differences (RAF-indexed):
  • Uniprot P0A7M9 (0-69)
  Domains in SCOP 1.73: d1vs6z1
• Heterogens: MG, HOH

PDB Chain Sequences:

• Chain '0':
  Sequence, based on SEQRES records: (download)
  

  >1vs60 (0:)
  mavqqnkptrskrgmrrshdaltavtslsvdktsgekhlrhhitadgyyrgrkviak
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >1vs60 (0:)
  avqqnkptrskrgmrrshdaltavtslsvdktsgekhlrhhitadgyyrgrkviak
  

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

  >1vs61 (1:)
  makgirekiklvssagtghfytttknkrtkpeklelkkfdpvvrqhviykeakik
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >1vs61 (1:)
  akgirekiklvssagtghfytttknkrtkpeklelkkfdpvvrqhviykeakik
  

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

  >1vs62 (2:)
  mkrtfqpsvlkrnrshgfrarmatkngrqvlarrrakgrarltvsk
  

  
  
• Chain '3':
  Sequence, based on SEQRES records: (download)
  

  >1vs63 (3:)
  mpkiktvrgaakrfkktgkggfkhkhanlrhiltkkatkrkrhlrpkamvskgdlglvia
  clpya
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >1vs63 (3:)
  pkiktvrgaakrfkktgkggfkhkhanlrhiltkkatkrkrhlrpkamvskgdlglviac
  lpya
  

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

  >1vs64 (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)
  

  >1vs6L (L:)
  mrlntlspaegskkagkrlgrgigsglgktggrghkgqksrsgggvrrgfeggqmplyrr
  lpkfgftsrkaaitaeirlsdlakveggvvdlntlkaaniigiqiefakvilagevttpv
  tvrglrvtkgaraaieaaggkiee
  

  
  
• Chain 'M':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >1vs6M (M:)
  mlqpkrtkfrkmhkgrnrglaqgtdvsfgsfglkavgrgrltarqieaarramtravkrq
  gkiwirvfpdkpitekplavrmgkgkgnveywvaliqpgkvlyemdgvpeelareafkla
  aaklpikttfvtktvm
  

  
  
• Chain 'N':
  No sequence available.
  
  
• Chain 'O':
  No sequence available.
  
  
• Chain 'P':
  Sequence, based on SEQRES records: (download)
  

  >1vs6P (P:)
  msniikqleqeqmkqdvpsfrpgdtvevkvwvvegskkrlqafegvviairnrglhsaft
  vrkisngegvervfqthspvvdsisvkrrgavrkaklyylrertgkaarikerln
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >1vs6P (P:)
  sniikqleqeqmkqdvpsfrpgdtvevkvwvvegskkrlqafegvviairnrglhsaftv
  rkisngegvervfqthspvvdsisvkrrgavrkaklyylrertgkaarikerln
  

  
  
• Chain 'Q':
  No sequence available.
  
  
• Chain 'R':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >1vs6R (R:)
  myavfqsggkqhrvsegqtvrlekldiatgetvefaevlmiangeevkigvpfvdggvik
  aevvahgrgekvkivkfrrrkhyrkqqghrqwftdvkitgisa
  

  
  
• Chain 'S':
  No sequence available.
  
  
• Chain 'T':
  No sequence available.
  
  
• Chain 'U':
  Sequence, based on SEQRES records: (download)
  

  >1vs6U (U:)
  maakirrddevivltgkdkgkrgkvknvlssgkviveginlvkkhqkpvpalnqpggive
  keaaiqvsnvaifnaatgkadrvgfrfedgkkvrffksnsetik
  

  
  Sequence, based on observed residues (ATOM records): (download)
  

  >1vs6U (U:)
  aakirrddevivltgkdkgkrgkvknvlssgkviveginlvkkhqkpvpalnqpggivek
  eaaiqvsnvaifnaatgkadrvgfrfedgkkvrffksnseti
  

  
  
• Chain 'V':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >1vs6V (V:)
  mftinaevrkeqgkgasrrlraankfpaiiyggkeaplaieldhdkvmnmqakaefysev
  ltivvdgkeikvkaqdvqrhpykpklqhidfvra
  

  
  
• Chain 'W':
  No sequence available.
  
  
• Chain 'X':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >1vs6X (X:)
  mkakelreksveelntellnllreqfnlrmqaasgqlqqshllkqvrrdvarvktllnek
  aga
  

  
  
• Chain 'Y':
  No sequence available.
  
  
• Chain 'Z':
  Sequence; same for both SEQRES and ATOM records: (download)
  

  >1vs6Z (Z:)
  mkkdihpkyeeitascscgnvmkirstvghdlnldvcskchpfftgkqrdvatggrvdrf
  nkrfnipgsk