PDB entry 1ibm

View 1ibm on RCSB PDB site
Description: structure of the thermus thermophilus 30s ribosomal subunit in complex with a messenger RNA fragment and cognate transfer RNA anticodon stem-loop bound at the a site
Class: ribosome
Keywords: 30s ribosomal subunit, ribosome, a site, decoding, transfer tRNA, anticodon, stem-loop, messenger RNA, mRNA, codon
Deposited on 2001-03-28, released 2001-05-04
The last revision prior to the SCOPe 2.01 freeze date was dated 2009-02-24, with a file datestamp of 2009-03-01.
Experiment type: XRAY
Resolution: 3.31 Å
R-factor: 0.231
AEROSPACI score: 0.13 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 16S ribosomal RNA
    Species: Thermus thermophilus [TaxId:274]
  • Chain 'B':
    Compound: 30S ribosomal protein S2
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • EMBL CAC35061
    Domains in SCOPe 2.01: d1ibmb_
  • Chain 'C':
    Compound: 30S ribosomal protein S3
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • EMBL CAC35062
    Domains in SCOPe 2.01: d1ibmc_
  • Chain 'D':
    Compound: 30S ribosomal protein S4
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmd_
  • Chain 'E':
    Compound: 30S ribosomal protein S5
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibme_
  • Chain 'F':
    Compound: 30S ribosomal protein S6
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmf_
  • Chain 'G':
    Compound: 30S ribosomal protein S7
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmg_
  • Chain 'H':
    Compound: 30S ribosomal protein S8
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmh_
  • Chain 'I':
    Compound: 30S ribosomal protein S9
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • EMBL CAC35063 (Start-127)
    Domains in SCOPe 2.01: d1ibmi_
  • Chain 'J':
    Compound: 30S ribosomal protein S10
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmj_
  • Chain 'K':
    Compound: 30S ribosomal protein S11
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • GB BAA75547 (Start-128)
    Domains in SCOPe 2.01: d1ibmk_
  • Chain 'L':
    Compound: 30S ribosomal protein S12
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibml_
  • Chain 'M':
    Compound: 30S ribosomal protein S13
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • GB BAA75546
    Domains in SCOPe 2.01: d1ibmm_
  • Chain 'N':
    Compound: 30S ribosomal protein S14
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmn_
  • Chain 'O':
    Compound: 30S ribosomal protein S15
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmo_
  • Chain 'P':
    Compound: 30S ribosomal protein S16
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • GB CAC21226 (0-End)
    Domains in SCOPe 2.01: d1ibmp_
  • Chain 'Q':
    Compound: 30S ribosomal protein S17
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • EMBL CAA85419 (Start-104)
    Domains in SCOPe 2.01: d1ibmq_
  • Chain 'R':
    Compound: 30S ribosomal protein S18
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • GB AAF27297 (Start-87)
    Domains in SCOPe 2.01: d1ibmr_
  • Chain 'S':
    Compound: 30S ribosomal protein S19
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibms_
  • Chain 'T':
    Compound: 30S ribosomal protein S20
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • GB CAC15067 (Start-105)
    Domains in SCOPe 2.01: d1ibmt_
  • Chain 'V':
    Compound: 30S ribosomal protein Thx
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.01: d1ibmv_
  • Chain 'X':
    Compound: p-site messenger RNA fragment
  • Chain 'Y':
    Compound: anticodon stem-loop of phenylalanine transfer RNA
  • Chain 'Z':
    Compound: a-site messenger RNA fragment
  • Heterogens: MG, ZN

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >1ibmB (B:)
mpveitvkelleagvhfgherkrwnpkfaryiyaerngihiidlqktmeelertfrfied
lamrggtilfvgtkkqaqdivrmeaeragmpyvnqrwlggmltnfktisqrvhrleelea
lfaspeieerpkkeqvrlkhelerlqkylsgfrllkrlpdaifvvdptkeaiavrearkl
fipvialadtdsdpdlvdyiipgnddairsiqlilsravdliiqarggvvepspsyalvq
eaeatetpegesevea

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmB (B:)
vkelleagvhfgherkrwnpkfaryiyaerngihiidlqktmeelertfrfiedlamrgg
tilfvgtkkqaqdivrmeaeragmpyvnqrwlggmltnfktisqrvhrleelealfaspe
ieerpkkeqvrlkhelerlqkylsgfrllkrlpdaifvvdptkeaiavrearklfipvia
ladtdsdpdlvdyiipgnddairsiqlilsravdliiqarggvvepspsyalvq

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >1ibmC (C:)
mgnkihpigfrlgitrdwesrwyagkkqyrhllledqrirgllekelysaglarvdiera
adnvavtvhvakpgvvigrggerirvlreelakltgknvalnvqevqnpnlsaplvaqrv
aeqierrfavrraikqavqrvmesgakgakvivsgriggaeqartewaaqgrvplhtlra
nidygfalarttygvlgvkayiflgeviggqkpkarpelpkaeerprrrrpavrvkkee

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmC (C:)
gnkihpigfrlgitrdwesrwyagkkqyrhllledqrirgllekelysaglarvdieraa
dnvavtvhvakpgvvigrggerirvlreelakltgknvalnvqevqnpnlsaplvaqrva
eqierrfavrraikqavqrvmesgakgakvivsgriggaeqartewaaqgrvplhtlran
idygfalarttygvlgvkayiflgev

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >1ibmD (D:)
mgryigpvcrlcrregvklylkgercyspkcamerrpyppgqhgqkrarrpsdyavrlre
kqklrriygiserqfrnlfeeaskkkgvtgsvflgllesrldnvvyrlgfavsrrqarql
vrhghitvngrrvdlpsyrvrpgdeiavaeksrnlelirqnleamkgrkvgpwlsldveg
mkgkflrlpdredlalpvneqlviefysr

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmD (D:)
gryigpvcrlcrregvklylkgercyspkcamerrpyppgqhgqkrarrpsdyavrlrek
qklrriygiserqfrnlfeeaskkkgvtgsvflgllesrldnvvyrlgfavsrrqarqlv
rhghitvngrrvdlpsyrvrpgdeiavaeksrnlelirqnleamkgrkvgpwlsldvegm
kgkflrlpdredlalpvneqlviefysr

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >1ibmE (E:)
mpetdfeekmilirrtarmqaggrrfrfgalvvvgdrqgrvglgfgkapevplavqkagy
yarrnmvevplqngtipheievefgaskivlkpaapgtgviagavprailelagvtdilt
kelgsrnpiniayatmealrqlrtkadverlrkgeahaqaqg

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmE (E:)
dfeekmilirrtarmqaggrrfrfgalvvvgdrqgrvglgfgkapevplavqkagyyarr
nmvevplqngtipheievefgaskivlkpaapgtgviagavprailelagvtdiltkelg
srnpiniayatmealrqlrtkadverlrkg

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1ibmF (F:)
mrryevnivlnpnldqsqlalekeiiqralenygarvekveelglrrlaypiakdpqgyf
lwyqvempedrvndlarelrirdnvrrvmvvksqepflana

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >1ibmG (G:)
marrrraevrqlqpdlvygdvlvtafinkimrdgkknlaarifydackiiqektgqeplk
vfkqavenvkprmevrsrrvgganyqvpmevsprrqqslalrwlvqaanqrperraavri
ahelmdaaegkggavkkkedvermaeanrayahyrw

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmG (G:)
arrrraevrqlqpdlvygdvlvtafinkimrdgkknlaarifydackiiqektgqeplkv
fkqavenvkprmevrsrrvgganyqvpmevsprrqqslalrwlvqaanqrperraavria
helmdaaegkggavkkkedvermaeanrayahyrw

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1ibmH (H:)
mltdpiadmltrirnatrvykestdvpasrfkeeilrilaregfikgyervdvdgkpylr
vylkygprrqgpdprpeqvihhirriskpgrrvyvgvkeiprvrrglgiailstskgvlt
drearklgvggelicevw

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >1ibmI (I:)
meqyygtgrrkeavarvflrpgngkvtvngqdfneyfqglvravaaleplravdalgrfd
ayitvrgggksgqidaiklgiaralvqynpdyraklkplgfltrdarvverkkygkhkar
rapqyskr

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmI (I:)
eqyygtgrrkeavarvflrpgngkvtvngqdfneyfqglvravaaleplravdalgrfda
yitvrgggksgqidaiklgiaralvqynpdyraklkplgfltrdarvverkkygkhkarr
apqyskr

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >1ibmJ (J:)
mpkiriklrgfdhktldasaqkiveaarrsgaqvsgpiplptrvrrftvirgpfkhkdsr
ehfelrthnrlvdiinpnrktieqlmtldlptgveieiktvgggr

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmJ (J:)
kiriklrgfdhktldasaqkiveaarrsgaqvsgpiplptrvrrftvirgpfkhkdsreh
felrthnrlvdiinpnrktieqlmtldlptgveieikt

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >1ibmK (K:)
makkpskkkvkrqvasgrayihasynntivtitdpdgnpitwssggvigykgsrkgtpya
aqlaaldaakkamaygmqsvdvivrgtgagreqairalqasglqvksivddtpvphngcr
pkkkfrkas

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmK (K:)
krqvasgrayihasynntivtitdpdgnpitwssggvigykgsrkgtpyaaqlaaldaak
kamaygmqsvdvivrgtgagreqairalqasglqvksivddtpvphngcrpkkkfrkas

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >1ibmL (L:)
mvalptinqlvrkgrekvrkkskvpalkgapfrrgvctvvrtvtpkkpnsalrkvakvrl
tsgyevtayipgeghnlqehsvvlirggrvkdlpgvryhivrgvydaagvkdrkksrsky
gtkkpkeaaktaakk

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmL (L:)
ptinqlvrkgrekvrkkskvpalkgapfrrgvctvvrtvtpkkpnsalrkvakvrltsgy
evtayipgeghnlqehsvvlirggrvkdlpgvryhivrgvydaagvkdrkksrskygtkk
pkea

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >1ibmM (M:)
mariagveiprnkrvdvaltyiygigkarakealektginpatrvkdlteaevvrlreyv
entwklegelraevaanikrlmdigcyrglrhrrglpvrgqrtrtnartrkgprktvagk
kkaprk

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmM (M:)
ariagveiprnkrvdvaltyiygigkarakealektginpatrvkdlteaevvrlreyve
ntwklegelraevaanikrlmdigcyrglrhrrglpvrgqrtrtnartrkgprktvag

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >1ibmN (N:)
markaliekakrtpkfkvraytrcvrcgrarsvyrffglcriclrelahkgqlpgvrkas
w

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmN (N:)
arkaliekakrtpkfkvraytrcvrcgrarsvyrffglcriclrelahkgqlpgvrkasw

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >1ibmO (O:)
mpitkeekqkviqefarfpgdtgstevqvalltlrinrlsehlkvhkkdhhshrgllmmv
gqrrrllrylqredperyralieklgirg

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmO (O:)
pitkeekqkviqefarfpgdtgstevqvalltlrinrlsehlkvhkkdhhshrgllmmvg
qrrrllrylqredperyralieklgirg

  • Chain 'P':
    Sequence, based on SEQRES records: (download) 
    >1ibmP (P:)
mvkirlarfgskhnphyrivvtdarrkrdgkyiekigyydprkttpdwlkvdverarywl
svgaqptdtarrllrqagvfrqearega

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmP (P:)
mvkirlarfgskhnphyrivvtdarrkrdgkyiekigyydprkttpdwlkvdverarywl
svgaqptdtarrllrqagvfrqe

  • Chain 'Q':
    Sequence, based on SEQRES records: (download) 
    >1ibmQ (Q:)
mpkkvltgvvvsdkmqktvtvlverqfphplygkvikrskkylahdpeekyklgdvveii
esrpiskrkrfrvlrlvesgrmdlvekylirrqnyqslskrggka

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmQ (Q:)
pkkvltgvvvsdkmqktvtvlverqfphplygkvikrskkylahdpeekyklgdvveiie
srpiskrkrfrvlrlvesgrmdlvekylirrqnyqslskrggka

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >1ibmR (R:)
mstknakpkkeaqrrpsrkakvkatlgefdlrdyrnvevlkrflsetgkilprrrtglsg
keqrilaktikrarilgllpfteklvrk

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmR (R:)
psrkakvkatlgefdlrdyrnvevlkrflsetgkilprrrtglsgkeqrilaktikrari
lgllpfteklvrk

  • Chain 'S':
    Sequence, based on SEQRES records: (download) 
    >1ibmS (S:)
mprslkkgvfvddhllekvlelnakgekrliktwsrrstivpemvghtiavyngkqhvpv
yitenmvghklgefaptrtyrghgkeakatkkk

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmS (S:)
prslkkgvfvddhllekvlelnakgekrliktwsrrstivpemvghtiavyngkqhvpvy
itenmvghklgefaptrtyrghgkeak

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >1ibmT (T:)
maqkkpkrnlsalkrhrqslkrrlrnkakksaiktlskkaiqlaqegkaeealkimrkae
slidkaakgstlhknaaarrksrlmrkvrqlleaagapliggglsa

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmT (T:)
rnlsalkrhrqslkrrlrnkakksaiktlskkaiqlaqegkaeealkimrkaeslidkaa
kgstlhknaaarrksrlmrkvrqlleaagapliggglsa

  • Chain 'V':
    Sequence, based on SEQRES records: (download) 
    >1ibmV (V:)
gkgdrrtrrgkiwrgtygkyrprkkk

    Sequence, based on observed residues (ATOM records): (download) 
    >1ibmV (V:)
gkgdrrtrrgkiwrgtygkyrprk

  • Chain 'X':
    No sequence available.

  • Chain 'Y':
    No sequence available.

  • Chain 'Z':
    No sequence available.