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 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 SCOPe 2.08 freeze date was dated 2014-12-10, with a file datestamp of 2014-12-05.
Experiment type: XRAY
Resolution: 3.46 Å
R-factor: 0.279
AEROSPACI score: 0.02 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '0':
    Compound: 50S ribosomal protein L32
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs801
  • Chain '1':
    Compound: 50S ribosomal protein L33
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs811
  • Chain '2':
    Compound: 50S ribosomal protein L34
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs821
  • Chain '3':
    Compound: 50S ribosomal protein L35
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs831
  • Chain '4':
    Compound: 50S ribosomal protein L36
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs841
  • Chain 'A':
    Compound: 5S ribosomal RNA
    Species: Escherichia coli [TaxId:562]
  • Chain 'B':
    Compound: 23S ribosomal RNA
    Species: Escherichia coli [TaxId:562]
  • Chain 'C':
    Compound: 50S ribosomal protein L2
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8c1, d1vs8c2
  • Chain 'D':
    Compound: 50S ribosomal protein L3
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8d1
  • Chain 'E':
    Compound: 50S ribosomal protein L4
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8e1
  • Chain 'F':
    Compound: 50S ribosomal protein L5
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8f1
  • Chain 'G':
    Compound: 50S ribosomal protein L6
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8g1, d1vs8g2
  • Chain 'H':
    Compound: 50S ribosomal protein L9
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8h1, d1vs8h2
  • Chain 'I':
    Compound: 50S ribosomal protein L11
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8i1, d1vs8i2
  • Chain 'J':
    Compound: 50S ribosomal protein L13
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8j1
  • Chain 'K':
    Compound: 50S ribosomal protein L14
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8k1
  • Chain 'L':
    Compound: 50S ribosomal protein L15
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8l1
  • Chain 'M':
    Compound: 50S ribosomal protein L16
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8m1
  • Chain 'N':
    Compound: 50S ribosomal protein L17
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8n1
  • Chain 'O':
    Compound: 50S ribosomal protein L18
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8o1
  • Chain 'P':
    Compound: 50S ribosomal protein L19
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8p1
  • Chain 'Q':
    Compound: 50S ribosomal protein L20
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8q1
  • Chain 'R':
    Compound: 50S ribosomal protein L21
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8r1
  • Chain 'S':
    Compound: 50S ribosomal protein L22
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8s1
  • Chain 'T':
    Compound: 50S ribosomal protein L23
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8t1
  • Chain 'U':
    Compound: 50S ribosomal protein L24
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8u1
  • Chain 'V':
    Compound: 50S ribosomal protein L25
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8v1
  • Chain 'W':
    Compound: 50S ribosomal protein L27
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8w1
  • Chain 'X':
    Compound: 50S ribosomal protein L29
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8x1
  • Chain 'Y':
    Compound: 50S ribosomal protein L30
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d1vs8y1
  • Chain 'Z':
    Compound: 50S ribosomal protein L31
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: 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':
    Sequence, based on SEQRES records: (download) 
    >1vs8C (C:)
mavvkckptspgrrhvvkvvnpelhkgkpfaplleknsksggrnnngrittrhiggghkq
ayrivdfkrnkdgipavverleydpnrsanialvlykdgerryilapkglkagdqiqsgv
daaikpgntlpmrnipvgstvhnvemkpgkggqlarsagtyvqivardgayvtlrlrsge
mrkveadcratlgevgnaehmlrvlgkagaarwrgvrptvrgtamnpvdhphgggegrnf
gkhpvtpwgvqtkgkktrsnkrtdkfivrrrsk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8C (C:)
vkckptspgrrhvvkvvnpelhkgkpfaplleknsksggrnnngrittrhiggghkqayr
ivdfkrnkdgipavverleydpnrsanialvlykdgerryilapkglkagdqiqsgvdaa
ikpgntlpmrnipvgstvhnvemkpgkggqlarsagtyvqivardgayvtlrlrsgemrk
veadcratlgevgnaehmlrvlgkagaarwrgvrptvrgtamnpvdhphgggegrnfgkh
pvtpwgvqtkgkktrsnkrtdkfivrr

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs8D (D:)
miglvgkkvgmtriftedgvsipvtvieveanrvtqvkdlandgyraiqvttgakkanrv
tkpeaghfakagveagrglwefrlaegeeftvgqsisvelfadvkkvdvtgtskgkgfag
tvkrwnfrtqdathgnslshrvpgsigqnqtpgkvfkgkkmagqmgnervtvqsldvvrv
daernlllvkgavpgatgsdlivkpavka

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs8E (E:)
melvlkdaqsaltvsettfgrdfnealvhqvvvayaagarqgtraqktraevtgsgkkpw
rqkgtgrarsgsikspiwrsggvtfaarpqdhsqkvnkkmyrgalksilselvrqdrliv
vekfsveapktkllaqklkdmaledvliitgeldenlflaarnlhkvdvrdatgidpvsl
iafdkvvmtadavkqveemla

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >1vs8F (F:)
maklhdyykdevvkklmtefnynsvmqvprvekitlnmgvgeaiadkklldnaaadlaai
sgqkplitkarksvagfkirqgypigckvtlrgermwefferlitiavprirdfrglsak
sfdgrgnysmgvreqiifpeidydkvdrvrgldititttaksdeegrallaafdfpfrk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8F (F:)
aklhdyykdevvkklmtefnynsvmqvprvekitlnmgvgeaiadkklldnaaadlaais
gqkplitkarksvagfkirqgypigckvtlrgermwefferlitiavprirdfrglsaks
fdgrgnysmgvreqiifpeidydkvdrvrgldititttaksdeegrallaafdfpfrk

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >1vs8G (G:)
msrvakapvvvpagvdvkingqvitikgkngeltrtlndavevkhadntltfgprdgyad
gwaqagtarallnsmvigvtegftkklqlvgvgyraavkgnvinlslgfshpvdhqlpag
itaecptqteivlkgadkqvigqvaadlrayrrpepykgkgvryadevvrtkeakkk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8G (G:)
srvakapvvvpagvdvkingqvitikgkngeltrtlndavevkhadntltfgprdgyadg
waqagtarallnsmvigvtegftkklqlvgvgyraavkgnvinlslgfshpvdhqlpagi
taecptqteivlkgadkqvigqvaadlrayrrpepykgkgvryadevvrtkeakkk

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs8H (H:)
mqvilldkvanlgslgdqvnvkagyarnflvpqgkavpatkknieffearraeleaklae
vlaaanaraekinaletvtiaskagdegklfgsigtrdiadavtaagvevaksevrlpng
vlrttgehevsfqvhsevfakvivnvvae

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >1vs8I (I:)
makkvqayvklqvaagmanpsppvgpalgqqgvnimefckafnaktdsiekglpipvvit
vyadrsftfvtktppaavllkkaagiksgsgkpnkdkvgkisraqlqeiaqtkaadmtga
dieamtrsiegtarsmglvved

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8I (I:)
akkvqayvklqvaagmanpsppvgpalgqqgvnimefckafnaktdsiekglpipvvitv
yadrsftfvtktppaavllkkaagiksgsgkpnkdkvgkisraqlqeiaqtkaadmtgad
ieamtrsiegtarsmglvved

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >1vs8J (J:)
mktftakpetvkrdwyvvdatgktlgrlatelarrlrgkhkaeytphvdtgdyiivlnad
kvavtgnkrtdkvyyhhtghiggikqatfeemiarrpervieiavkgmlpkgplgramfr
klkvyagnehnhaaqqpqvldi

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8J (J:)
mktftakpetvkrdwyvvdatgktlgrlatelarrlrgkhkaeytphvdtgdyiivlnad
kvavtgnkrtdkvyyhhtghiggikqatfeemiarrpervieiavkgmlpkgplgramfr
klkvyagnehnhaaqqpqvl

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >1vs8K (K:)
miqeqtmlnvadnsgarrvmcikvlggshrryagvgdiikitikeaiprgkvkkgdvlka
vvvrtkkgvrrpdgsvirfdgnacvllnnnseqpigtrifgpvtrelrsekfmkiislap
evl

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8K (K:)
iqeqtmlnvadnsgarrvmcikvlggshrryagvgdiikitikeaiprgkvkkgdvlkav
vvrtkkgvrrpdgsvirfdgnacvllnnnseqpigtrifgpvtrelrsekfmkiislape
v

  • 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':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs8N (N:)
mrhrksgrqlnrnsshrqamfrnmagslvrheiikttlpkakelrrvveplitlaktdsv
anrrlafartrdneivaklfnelgprfasraggytrilkcgfragdnapmayielvdrse
kaeaaae

  • Chain 'O':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs8O (O:)
mdkksarirratrarrklqelgatrlvvhrtprhiyaqviapngsevlvaastvekaiae
qlkytgnkdaaaavgkavaeralekgikdvsfdrsgfqyhgrvqaladaareaglqf

  • 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':
    Sequence, based on SEQRES records: (download) 
    >1vs8Q (Q:)
marvkrgviararhkkilkqakgyygarsrvyrvafqavikagqyayrdrrqrkrqfrql
wiarinaaarqngisyskfinglkkasveidrkiladiavfdkvaftalvekakaala

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8Q (Q:)
arvkrgviararhkkilkqakgyygarsrvyrvafqavikagqyayrdrrqrkrqfrqlw
iarinaaarqngisyskfinglkkasveidrkiladiavfdkvaftalvekakaala

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

  • Chain 'S':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs8S (S:)
metiakhrharssaqkvrlvadlirgkkvsqaldiltytnkkaavlvkkvlesaianaeh
ndgadiddlkvtkifvdegpsmkrimprakgradrilkrtshitvvvsdr

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >1vs8T (T:)
mireerllkvlraphvsekastameksntivlkvakdatkaeikaavqklfevevevvnt
lvvkgkvkrhgqrigrrsdwkkayvtlkegqnldfvggae

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8T (T:)
mireerllkvlraphvsekastameksntivlkvakdatkaeikaavqklfevevevvnt
lvvkgkvkrhgqrigrrsdwkkayvtlkegqnldfvgga

  • 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':
    Sequence, based on SEQRES records: (download) 
    >1vs8W (W:)
mahkkaggstrngrdseakrlgvkrfggesvlagsiivrqrgtkfhaganvgcgrdhtlf
akadgkvkfevkgpknrkfisieae

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8W (W:)
ahkkaggstrngrdseakrlgvkrfggesvlagsiivrqrgtkfhaganvgcgrdhtlfa
kadgkvkfevkgpknrkfisieae

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

  • Chain 'Y':
    Sequence, based on SEQRES records: (download) 
    >1vs8Y (Y:)
maktikitqtrsaigrlpkhkatllglglrrightveredtpairgminavsfmvkvee

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs8Y (Y:)
aktikitqtrsaigrlpkhkatllglglrrightveredtpairgminavsfmvkvee

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