PDB entry 3df3

View 3df3 on RCSB PDB site
Description: Crystal structure of the bacterial ribosome from Escherichia coli in complex with hygromycin B. This file contains the 30S subunit of the second 70S ribosome, with hygromycin B bound. The entire crystal structure contains two 70S ribosomes.
Class: ribosome
Keywords: RNA-protein complex, RIBOSOME
Deposited on 2008-06-11, released 2008-08-19
The last revision prior to the SCOPe 2.03 freeze date was dated 2009-11-03, with a file datestamp of 2009-10-30.
Experiment type: XRAY
Resolution: 3.5 Å
R-factor: 0.269
AEROSPACI score: 0.05 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 16S ribosomal RNA
    Species: Escherichia coli [TaxId:562]
  • Chain 'B':
    Compound: 30S ribosomal protein S2
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3b1
  • Chain 'C':
    Compound: 30S ribosomal protein S3
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3c1, d3df3c2
  • Chain 'D':
    Compound: 30S ribosomal protein S4
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3d1
  • Chain 'E':
    Compound: 30S ribosomal protein S5
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3e1, d3df3e2
  • Chain 'F':
    Compound: 30S ribosomal protein S6
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3f1
  • Chain 'G':
    Compound: 30S ribosomal protein S7
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3g1
  • Chain 'H':
    Compound: 30S ribosomal protein S8
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3h1
  • Chain 'I':
    Compound: 30S ribosomal protein S9
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3i1
  • Chain 'J':
    Compound: 30S ribosomal protein S10
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3j1
  • Chain 'K':
    Compound: 30S ribosomal protein S11
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3k1
  • Chain 'L':
    Compound: 30S ribosomal protein S12
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3l1
  • Chain 'M':
    Compound: 30S ribosomal protein S13
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3m1
  • Chain 'N':
    Compound: 30S ribosomal protein S14
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3n1
  • Chain 'O':
    Compound: 30S ribosomal protein S15
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3o1
  • Chain 'P':
    Compound: 30S ribosomal protein S16
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3p1
  • Chain 'Q':
    Compound: 30S ribosomal protein S17
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3q1
  • Chain 'R':
    Compound: 30S ribosomal protein S18
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3r1
  • Chain 'S':
    Compound: 30S ribosomal protein S19
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3s1
  • Chain 'T':
    Compound: 30S ribosomal protein S20
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3t1
  • Chain 'U':
    Compound: 30S ribosomal protein S21
    Species: Escherichia coli [TaxId:562]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.03: d3df3u1
  • Heterogens: MG, HYG, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >3df3B (B:)
atvsmrdmlkagvhfghqtrywnpkmkpfifgarnkvhiinlektvpmfnealaelnkia
srkgkilfvgtkraaseavkdaalscdqffvnhrwlggmltnwktvrqsikrlkdletqs
qdgtfdkltkkealmrtreleklenslggikdmgglpdalfvidadhehiaikeannlgi
pvfaivdtnsdpdgvdfvipgnddairavtlylgavaatvregrsqdlasqaeesfveae

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3B (B:)
mlkagvhfghqtrywnpkmkpfifgarnkvhiinlektvpmfnealaelnkiasrkgkil
fvgtkraaseavkdaalscdqffvnhrwlggmltnwktvrqsikrlkdletqsqdgtfdk
ltkkealmrtreleklenslggikdmgglpdalfvidadhehiaikeannlgipvfaivd
tnsdpdgvdfvipgnddairavtlylgavaatvregrs

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >3df3C (C:)
gqkvhpngirlgivkpwnstwfantkefadnldsdfkvrqyltkelakasvsrivierpa
ksirvtihtarpgivigkkgedveklrkvvadiagvpaqiniaevrkpeldaklvadsit
sqlerrvmfrramkravqnamrlgakgikvevsgrlggaeiartewyregrvplhtlrad
idyntseahttygvigvkvwifkgeilggmaaveqpekpaaqpkkqqrkgrk

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3C (C:)
gqkvhpngirlgivkpwnstwfantkefadnldsdfkvrqyltkelakasvsrivierpa
ksirvtihtarpgivigkkgedveklrkvvadiagvpaqiniaevrkpeldaklvadsit
sqlerrvmfrramkravqnamrlgakgikvevsgrlggaeiartewyregrvplhtlrad
idyntseahttygvigvkvwifkgei

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3df3D (D:)
arylgpklklsrregtdlflksgvraidtkckieqapgqhgarkprlsdygvqlrekqkv
rriygvlerqfrnyykeaarlkgntgenllallegrldnvvyrmgfgatraearqlvshk
aimvngrvvniasyqvspndvvsirekakkqsrvkaalelaeqrekptwlevdagkmegt
fkrkpersdlsadinehlivelysk

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >3df3E (E:)
ahiekqagelqekliavnrvsktvkggrifsftaltvvgdgngrvgfgygkarevpaaiq
kamekarrnminvalnngtlqhpvkgvhtgsrvfmqpasegtgiiaggamravlevagvh
nvlakaygstnpinvvratidglenmnspemvaakrgksveeilgk

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3E (E:)
elqekliavnrvsktvkggrifsftaltvvgdgngrvgfgygkarevpaaiqkamekarr
nminvalnngtlqhpvkgvhtgsrvfmqpasegtgiiaggamravlevagvhnvlakayg
stnpinvvratidglenmnspemvaakrgk

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >3df3F (F:)
mrhyeivfmvhpdqseqvpgmierytaaitgaegkihrledwgrrqlaypinklhkahyv
lmnveapqevidelettfrfndavirsmvmrtkhavteaspmvkakderrerrddfanet
addaeagdseeeeee

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3F (F:)
mrhyeivfmvhpdqseqvpgmierytaaitgaegkihrledwgrrqlaypinklhkahyv
lmnveapqevidelettfrfndavirsmvmrtkhavteas

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >3df3G (G:)
prrrvigqrkilpdpkfgsellakfvnilmvdgkkstaesivysaletlaqrsgkselea
fevalenvrptvevksrrvggstyqvpvevrpvrrnalamrwiveaarkrgdksmalrla
nelsdaaenkgtavkkredvhrmaeankafahyrwlslrsfshqagasskqpalgyln

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3G (G:)
rrrvigqrkilpdpkfgsellakfvnilmvdgkkstaesivysaletlaqrsgkseleaf
evalenvrptvevksrrvggstyqvpvevrpvrrnalamrwiveaarkrgdksmalrlan
elsdaaenkgtavkkredvhrmaeankafahy

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3df3H (H:)
smqdpiadmltrirngqaankaavtmpssklkvaianvlkeegfiedfkvegdtkpelel
tlkyfqgkavvesiqrvsrpglriykrkdelpkvmaglgiavvstskgvmtdraarqagl
ggeiicyva

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >3df3I (I:)
aenqyygtgrrkssaarvfikpgngkivinqrsleqyfgretarmvvrqplelvdmvekl
dlyitvkgggisgqagairhgitralmeydeslrselrkagfvtrdarqverkkvglrka
rrrpqfskr

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3I (I:)
nqyygtgrrkssaarvfikpgngkivinqrsleqyfgretarmvvrqplelvdmvekldl
yitvkgggisgqagairhgitralmeydeslrselrkagfvtrdarqverkkvglrkarr
rpqfskr

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >3df3J (J:)
mqnqririrlkafdhrlidqataeivetakrtgaqvrgpiplptrkerftvlisphvnkd
ardqyeirthlrlvdiveptektvdalmrldlaagvdvqislg

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3J (J:)
ririrlkafdhrlidqataeivetakrtgaqvrgpiplptrkerftvlisphvnkdardq
yeirthlrlvdiveptektvdalmrldlaagvdvqisl

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >3df3K (K:)
akapirarkrvrkqvsdgvahihasfnntivtitdrqgnalgwataggsgfrgsrkstpf
aaqvaaercadavkeygiknlevmvkgpgpgrestiralnaagfritnitdvtpiphngc
rppkkrrv

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3K (K:)
rkqvsdgvahihasfnntivtitdrqgnalgwataggsgfrgsrkstpfaaqvaaercad
avkeygiknlevmvkgpgpgrestiralnaagfritnitdvtpiphngcrppkkrrv

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3df3L (L:)
atvnqlvrkprarkvaksnvpaleacpqkrgvctrvytttpkkpnsalrkvcrvrltngf
evtsyiggeghnlqehsvilirggrvkdlpgvryhtvrgaldcsgvkdrkqarskygvkr
pka

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >3df3M (M:)
ariaginipdhkhavialtsiygvgktrskailaaagiaedvkiselsegqidtlrdeva
kfvvegdlrreismsikrlmdlgcyrglrhrrglpvrgqrtktnartrkgprkpikk

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3M (M:)
ariaginipdhkhavialtsiygvgktrskailaaagiaedvkiselsegqidtlrdeva
kfvvegdlrreismsikrlmdlgcyrglrhrrglpvrgqrtktnartrkgprk

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >3df3N (N:)
akqsmkarevkrvaladkyfakraelkaiisdvnasdedrwnavlklqtlprdsspsrqr
nrcrqtgrphgflrkfglsrikvreaamrgeipglkkasw

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3N (N:)
akqsmkarevkrvaladkyfakraelkaiisdvnarwnavlklqtlprdsspsrqrnrcr
qtgrphgflrkfglsrikvreaamrgeipglkkasw

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >3df3O (O:)
mslsteatakivsefgrdandtgstevqvalltaqinhlqghfaehkkdhhsrrgllrmv
sqrrklldylkrkdvarytrlierlglrr

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3O (O:)
slsteatakivsefgrdandtgstevqvalltaqinhlqghfaehkkdhhsrrgllrmvs
qrrklldylkrkdvarytrlierlglrr

  • Chain 'P':
    Sequence, based on SEQRES records: (download) 
    >3df3P (P:)
mvtirlarhgakkrpfyqvvvadsrnarngrfiervgffnpiasekeegtrldldriahw
vgqgatisdrvaalikevnkaa

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3P (P:)
mvtirlarhgakkrpfyqvvvadsrnarngrfiervgffnpiasekeegtrldldriahw
vgqgatisdrvaalikevnk

  • Chain 'Q':
    Sequence, based on SEQRES records: (download) 
    >3df3Q (Q:)
tdkirtlqgrvvsdkmeksivvaierfvkhpiygkfikrttklhvhdennecgigdvvei
recrplsktkswtlvrvvekavl

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3Q (Q:)
kirtlqgrvvsdkmeksivvaierfvkhpiygkfikrttklhvhdennecgigdvveire
crplsktkswtlvrvvekavl

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >3df3R (R:)
aryfrrrkfcrftaegvqeidykdiatlknyitesgkivpsritgtrakyqrqlaraikr
arylsllpytdrhq

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3R (R:)
eidykdiatlknyitesgkivpsritgtrakyqrqlaraikrarylsllpytdrh

  • Chain 'S':
    Sequence, based on SEQRES records: (download) 
    >3df3S (S:)
prslkkgpfidlhllkkvekavesgdkkplrtwsrrstifpnmigltiavhngrqhvpvf
vtdemvghklgefaptrtyrghaadkkakkk

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3S (S:)
prslkkgpfidlhllkkvekavesgdkkplrtwsrrstifpnmigltiavhngrqhvpvf
vtdemvghklgefaptrtyr

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >3df3T (T:)
aniksakkraiqsekarkhnasrrsmmrtfikkvyaaieagdkaaaqkafnemqpivdrq
aakglihknkaarhkanltaqinkla

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3T (T:)
niksakkraiqsekarkhnasrrsmmrtfikkvyaaieagdkaaaqkafnemqpivdrqa
akglihknkaarhkanltaqinkla

  • Chain 'U':
    Sequence, based on SEQRES records: (download) 
    >3df3U (U:)
mpvikvrenepfdvalrrfkrscekagvlaevrrrefyekptterkrakasavkrhakkl
arenarrtrly

    Sequence, based on observed residues (ATOM records): (download) 
    >3df3U (U:)
ikvrenepfdvalrrfkrscekagvlaevrrrefyekptterkrakasavk