PDB entry 1vs5

View 1vs5 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 1.75 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: 0.04 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 16S ribosomal RNA
    Species: Escherichia coli
  • Chain 'B':
    Compound: 30S ribosomal protein S2
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5b1
  • Chain 'C':
    Compound: 30S ribosomal protein S3
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5c1, d1vs5c2
  • Chain 'D':
    Compound: 30S ribosomal protein S4
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5d1
  • Chain 'E':
    Compound: 30S ribosomal protein S5
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5e1, d1vs5e2
  • Chain 'F':
    Compound: 30S ribosomal protein S6
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5f1
  • Chain 'G':
    Compound: 30S ribosomal protein S7
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5g1
  • Chain 'H':
    Compound: 30S ribosomal protein S8
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5h1
  • Chain 'I':
    Compound: 30S ribosomal protein S9
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5i1
  • Chain 'J':
    Compound: 30S ribosomal protein S10
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5j1
  • Chain 'K':
    Compound: 30S ribosomal protein S11
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5k1
  • Chain 'L':
    Compound: 30S ribosomal protein S12
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5l1
  • Chain 'M':
    Compound: 30S ribosomal protein S13
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5m1
  • Chain 'N':
    Compound: 30S ribosomal protein S14
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5n1
  • Chain 'O':
    Compound: 30S ribosomal protein S15
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5o1
  • Chain 'P':
    Compound: 30S ribosomal protein S16
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5p1
  • Chain 'Q':
    Compound: 30S ribosomal protein S17
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5q1
  • Chain 'R':
    Compound: 30S ribosomal protein S18
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5r1
  • Chain 'S':
    Compound: 30S ribosomal protein S19
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5s1
  • Chain 'T':
    Compound: 30S ribosomal protein S20
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5t1
  • Chain 'U':
    Compound: 30S ribosomal protein S21
    Species: Escherichia coli
    Database cross-references and differences (RAF-indexed): Domains in SCOP 1.75: d1vs5u1
  • Heterogens: KSG, MG, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >1vs5B (B:)
matvsmrdmlkagvhfghqtrywnpkmkpfifgarnkvhiinlektvpmfnealaelnki
asrkgkilfvgtkraaseavkdaalscdqffvnhrwlggmltnwktvrqsikrlkdletq
sqdgtfdkltkkealmrtreleklenslggikdmgglpdalfvidadhehiaikeannlg
ipvfaivdtnsdpdgvdfvipgnddairavtlylgavaatvregrsqdlasqaeesfvea
e

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5B (B:)
mlkagvhfghqtrywnpkmkpfifgarnkvhiinlektvpmfnealaelnkiasrkgkil
fvgtkraaseavkdaalscdqffvnhrwlggmltnwktvrqsikrlkdletqsqdgtfdk
ltkkealmrtreleklenslggikdmgglpdalfvidadhehiaikeannlgipvfaivd
tnsdpdgvdfvipgnddairavtlylgavaatvregrs

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >1vs5C (C:)
mgqkvhpngirlgivkpwnstwfantkefadnldsdfkvrqyltkelakasvsrivierp
aksirvtihtarpgivigkkgedveklrkvvadiagvpaqiniaevrkpeldaklvadsi
tsqlerrvmfrramkravqnamrlgakgikvevsgrlggaeiartewyregrvplhtlra
didyntseahttygvigvkvwifkgeilggmaaveqpekpaaqpkkqqrkgrk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5C (C:)
gqkvhpngirlgivkpwnstwfantkefadnldsdfkvrqyltkelakasvsrivierpa
ksirvtihtarpgivigkkgedveklrkvvadiagvpaqiniaevrkpeldaklvadsit
sqlerrvmfrramkravqnamrlgakgikvevsgrlggaeiartewyregrvplhtlrad
idyntseahttygvigvkvwifkgei

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >1vs5D (D:)
marylgpklklsrregtdlflksgvraidtkckieqapgqhgarkprlsdygvqlrekqk
vrriygvlerqfrnyykeaarlkgntgenllallegrldnvvyrmgfgatraearqlvsh
kaimvngrvvniasyqvspndvvsirekakkqsrvkaalelaeqrekptwlevdagkmeg
tfkrkpersdlsadinehlivelysk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5D (D:)
arylgpklklsrregtdlflksgvraidtkckieqapgqhgarkprlsdygvqlrekqkv
rriygvlerqfrnyykeaarlkgntgenllallegrldnvvyrmgfgatraearqlvshk
aimvngrvvniasyqvspndvvsirekakkqsrvkaalelaeqrekptwlevdagkmegt
fkrkpersdlsadinehlivelysk

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >1vs5E (E:)
mahiekqagelqekliavnrvsktvkggrifsftaltvvgdgngrvgfgygkarevpaai
qkamekarrnminvalnngtlqhpvkgvhtgsrvfmqpasegtgiiaggamravlevagv
hnvlakaygstnpinvvratidglenmnspemvaakrgksveeilgk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5E (E:)
elqekliavnrvsktvkggrifsftaltvvgdgngrvgfgygkarevpaaiqkamekarr
nminvalnngtlqhpvkgvhtgsrvfmqpasegtgiiaggamravlevagvhnvlakayg
stnpinvvratidglenmnspemvaakrgk

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >1vs5F (F:)
mrhyeivfmvhpdqseqvpgmierytaaitgaegkihrledwgrrqlaypinklhkahyv
lmnveapqevidelettfrfndavirsmvmrtkhavteaspmvkakderrerrddfanet
addaeagdseeeeee

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5F (F:)
mrhyeivfmvhpdqseqvpgmierytaaitgaegkihrledwgrrqlaypinklhkahyv
lmnveapqevidelettfrfndavirsmvmrtkhavteas

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >1vs5G (G:)
mprrrvigqrkilpdpkfgsellakfvnilmvdgkkstaesivysaletlaqrsgksele
afevalenvrptvevksrrvggstyqvpvevrpvrrnalamrwiveaarkrgdksmalrl
anelsdaaenkgtavkkredvhrmaeankafahyrwlslrsfshqagasskqpalgyln

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5G (G:)
rrrvigqrkilpdpkfgsellakfvnilmvdgkkstaesivysaletlaqrsgkseleaf
evalenvrptvevksrrvggstyqvpvevrpvrrnalamrwiveaarkrgdksmalrlan
elsdaaenkgtavkkredvhrmaeankafa

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >1vs5H (H:)
msmqdpiadmltrirngqaankaavtmpssklkvaianvlkeegfiedfkvegdtkpele
ltlkyfqgkavvesiqrvsrpglriykrkdelpkvmaglgiavvstskgvmtdraarqag
lggeiicyva

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5H (H:)
smqdpiadmltrirngqaankaavtmpssklkvaianvlkeegfiedfkvegdtkpelel
tlkyfqgkavvesiqrvsrpglriykrkdelpkvmaglgiavvstskgvmtdraarqagl
ggeiicyva

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >1vs5I (I:)
maenqyygtgrrkssaarvfikpgngkivinqrsleqyfgretarmvvrqplelvdmvek
ldlyitvkgggisgqagairhgitralmeydeslrselrkagfvtrdarqverkkvglrk
arrrpqfskr

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5I (I:)
nqyygtgrrkssaarvfikpgngkivinqrsleqyfgretarmvvrqplelvdmvekldl
yitvkgggisgqagairhgitralmeydeslrselrkagfvtrdarqverkkvglrkarr
rpqfskr

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >1vs5J (J:)
mqnqririrlkafdhrlidqataeivetakrtgaqvrgpiplptrkerftvlisphvnkd
ardqyeirthlrlvdiveptektvdalmrldlaagvdvqislg

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5J (J:)
ririrlkafdhrlidqataeivetakrtgaqvrgpiplptrkerftvlisphvnkdardq
yeirthlrlvdiveptektvdalmrldlaagvdvqisl

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >1vs5K (K:)
makapirarkrvrkqvsdgvahihasfnntivtitdrqgnalgwataggsgfrgsrkstp
faaqvaaercadavkeygiknlevmvkgpgpgrestiralnaagfritnitdvtpiphng
crppkkrrv

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5K (K:)
rkqvsdgvahihasfnntivtitdrqgnalgwataggsgfrgsrkstpfaaqvaaercad
avkeygiknlevmvkgpgpgrestiralnaagfritnitdvtpiphngcrppkkrrv

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >1vs5L (L:)
matvnqlvrkprarkvaksnvpaleacpqkrgvctrvytttpkkpnsalrkvcrvrltng
fevtsyiggeghnlqehsvilirggrvkdlpgvryhtvrgaldcsgvkdrkqarskygvk
rpka

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5L (L:)
atvnqlvrkprarkvaksnvpaleacpqkrgvctrvytttpkkpnsalrkvcrvrltngf
evtsyiggeghnlqehsvilirggrvkdlpgvryhtvrgaldcsgvkdrkqarskygvkr
pka

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >1vs5M (M:)
mariaginipdhkhavialtsiygvgktrskailaaagiaedvkiselsegqidtlrdev
akfvvegdlrreismsikrlmdlgcyrglrhrrglpvrgqrtktnartrkgprkpikk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5M (M:)
ariaginipdhkhavialtsiygvgktrskailaaagiaedvkiselsegqidtlrdeva
kfvvegdlrreismsikrlmdlgcyrglrhrrglpvrgqrtktnartrkgprkp

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >1vs5N (N:)
makqsmkarevkrvaladkyfakraelkaiisdvnasdedrwnavlklqtlprdsspsrq
rnrcrqtgrphgflrkfglsrikvreaamrgeipglkkasw

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5N (N:)
akqsmkarevkrvaladkyfakraelkaiisdvnarwnavlklqtlprdsspsrqrnrcr
qtgrphgflrkfglsrikvreaamrgeipglkkasw

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >1vs5O (O:)
mslsteatakivsefgrdandtgstevqvalltaqinhlqghfaehkkdhhsrrgllrmv
sqrrklldylkrkdvarytrlierlglrr

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5O (O:)
slsteatakivsefgrdandtgstevqvalltaqinhlqghfaehkkdhhsrrgllrmvs
qrrklldylkrkdvarytrlierlglrr

  • Chain 'P':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1vs5P (P:)
mvtirlarhgakkrpfyqvvvadsrnarngrfiervgffnpiasekeegtrldldriahw
vgqgatisdrvaalikevnkaa

  • Chain 'Q':
    Sequence, based on SEQRES records: (download) 
    >1vs5Q (Q:)
mtdkirtlqgrvvsdkmeksivvaierfvkhpiygkfikrttklhvhdennecgigdvve
irecrplsktkswtlvrvvekavl

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5Q (Q:)
kirtlqgrvvsdkmeksivvaierfvkhpiygkfikrttklhvhdennecgigdvveire
crplsktkswtlvrvvekav

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >1vs5R (R:)
maryfrrrkfcrftaegvqeidykdiatlknyitesgkivpsritgtrakyqrqlaraik
rarylsllpytdrhq

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5R (R:)
eidykdiatlknyitesgkivpsritgtrakyqrqlaraikrarylsllpytdrh

  • Chain 'S':
    Sequence, based on SEQRES records: (download) 
    >1vs5S (S:)
mprslkkgpfidlhllkkvekavesgdkkplrtwsrrstifpnmigltiavhngrqhvpv
fvtdemvghklgefaptrtyrghaadkkakkk

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5S (S:)
rslkkgpfidlhllkkvekavesgdkkplrtwsrrstifpnmigltiavhngrqhvpvfv
tdemvghklgefaptrtyr

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >1vs5T (T:)
maniksakkraiqsekarkhnasrrsmmrtfikkvyaaieagdkaaaqkafnemqpivdr
qaakglihknkaarhkanltaqinkla

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5T (T:)
niksakkraiqsekarkhnasrrsmmrtfikkvyaaieagdkaaaqkafnemqpivdrqa
akglihknkaarhkanltaqinkla

  • Chain 'U':
    Sequence, based on SEQRES records: (download) 
    >1vs5U (U:)
mpvikvrenepfdvalrrfkrscekagvlaevrrrefyekptterkrakasavkrhakkl
arenarrtrly

    Sequence, based on observed residues (ATOM records): (download) 
    >1vs5U (U:)
ikvrenepfdvalrrfkrscekagvlaevrrrefyekptterkrakasavk