PDB entry 2b9p

View 2b9p on RCSB PDB site
Description: 50S ribosomal subunit from a crystal structure of the ribosome in complex with tRNAs and mRNA with a stop codon in the A-site. This file contains the 50S subunit from a crystal structure of the ribosome in complex with tRNAs and mRNA with a stop codon in the A-site and is described in remark 400.
Class: ribosome
Keywords: ribosome, translation
Deposited on 2005-10-12, released 2006-01-10
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: 6.46 Å
R-factor: 0.354
AEROSPACI score: -0.19 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '0':
    Compound: 50S ribosomal protein L27
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9p01
  • Chain '2':
    Compound: 50S ribosomal protein L29
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-End)
    Domains in SCOPe 2.08: d2b9p21
  • Chain '3':
    Compound: 50S ribosomal protein L30
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2b9p31
  • Chain '4':
    Compound: 50S ribosomal protein L31
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-72)
  • Chain '5':
    Compound: 50S ribosomal protein L32
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9p51
  • Chain '6':
    Compound: 50S ribosomal protein L33
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
  • Chain '7':
    Compound: 50S ribosomal protein L34
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-End)
    Domains in SCOPe 2.08: d2b9p71
  • Chain '8':
    Compound: 50S ribosomal protein L35
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (Start-63)
    Domains in SCOPe 2.08: d2b9p81
  • Chain '9':
    Compound: 50S ribosomal protein L36
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (Start-35)
    Domains in SCOPe 2.08: d2b9p91
  • Chain 'A':
    Compound: 23S ribosomal RNA
    Species: Thermus thermophilus [TaxId:300852]
  • Chain 'B':
    Compound: 5S ribosomal RNA
    Species: Thermus thermophilus [TaxId:274]
  • Chain 'D':
    Compound: 50S ribosomal protein L2
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-172)
  • Chain 'E':
    Compound: 50S ribosomal protein L3
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
  • Chain 'F':
    Compound: 50S ribosomal protein L4
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-245)
    Domains in SCOPe 2.08: d2b9pf1
  • Chain 'G':
    Compound: 50S ribosomal protein L5
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
  • Chain 'H':
    Compound: 50S ribosomal protein L6
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9ph1, d2b9ph2
  • Chain 'I':
    Compound: 50S ribosomal protein L9
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-148)
    Domains in SCOPe 2.08: d2b9pi1, d2b9pi2
  • Chain 'K':
    Compound: 50S ribosomal protein L11
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9pk1, d2b9pk2
  • Chain 'N':
    Compound: 50S ribosomal protein L13
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9pn1
  • Chain 'O':
    Compound: 50S ribosomal protein L14
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-121)
    Domains in SCOPe 2.08: d2b9po1
  • Chain 'P':
    Compound: 50S ribosomal protein L15
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
  • Chain 'Q':
    Compound: 50S ribosomal protein L16
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-137)
  • Chain 'R':
    Compound: 50S ribosomal protein L17
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2b9pr1
  • Chain 'S':
    Compound: 50S ribosomal protein L18
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
  • Chain 'T':
    Compound: 50S ribosomal protein L19
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9pt1
  • Chain 'U':
    Compound: 50S ribosomal protein L20
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (Start-117)
    Domains in SCOPe 2.08: d2b9pu1
  • Chain 'V':
    Compound: 50S ribosomal protein L21
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-99)
    Domains in SCOPe 2.08: d2b9pv1
  • Chain 'W':
    Compound: 50S ribosomal protein L22
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d2b9pw1
  • Chain 'X':
    Compound: 50S ribosomal protein L23
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-End)
    Domains in SCOPe 2.08: d2b9px1
  • Chain 'Y':
    Compound: 50S ribosomal protein 24
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P (0-End)
    Domains in SCOPe 2.08: d2b9py1
  • Chain 'Z':
    Compound: 50S ribosomal protein CTC
    Species: Thermus thermophilus [TaxId:274]
    Database cross-references and differences (RAF-indexed):
    • PDB 2B9P
    Domains in SCOPe 2.08: d2b9pz1

PDB Chain Sequences:

  • Chain '0':
    Sequence, based on SEQRES records: (download) 
    >2b9p0 (0:)
mahkkgvgsskngrdsnpkylgvkkfggevvkagnilvrqrgtkfkagqgvgmgrdhtlf
alsdgkvvfinkgkgarfisieaaqtevaad

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9p0 (0:)
ahkkgvgsskngrdsnpkylgvkkfggevvkagnilvrqrgtkfkagqgvgmgrdhtlfa
lsdgkvvfinkgkgarfisieaaqte

  • Chain '2':
    Sequence, based on SEQRES records: (download) 
    >2b9p2 (2:)
tvlhvqeirdmtpaereaelddlktellnaravqaaggapenpgrikelrkaiariktiq
geegdlqene

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9p2 (2:)
tvlhvqeirdmtpaereaelddlktellnarvqaaggapenpgrikelrkaiariktiqg
eegd

  • Chain '3':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2b9p3 (3:)
mprlkvklvkspigypkdqkaalkalglrrlqqervledtpairgnvekvahlvrvevve

  • Chain '4':
    No sequence available.

  • Chain '5':
    Sequence, based on SEQRES records: (download) 
    >2b9p5 (5:)
makhpvpkkktskskrdmrrshhaltapnltecpqchgkklshhicpncgyydgrqvlav

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9p5 (5:)
akhpvpkkktskskrdmrrshhaltapnltecpqchgkklshhicpncgyydgrqvla

  • Chain '6':
    No sequence available.

  • Chain '7':
    Sequence, based on SEQRES records: (download) 
    >2b9p7 (7:)
mkrtyqpnnrkrakthgfrarmktksgrnilarrrakgrhqltvsde

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9p7 (7:)
mkrtyqpnnrkrakthgfrarmktksgrnilarrrakgrhqltvsd

  • Chain '8':
    Sequence, based on SEQRES records: (download) 
    >2b9p8 (8:)
mpkmkthkmakrrikitgtgkvmafksgkrhqntgksgdeirgkgkgfvlakaewarmkl
mlpr

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9p8 (8:)
pkmkthkmakrrikitgtgkvmafksgkrhqntgksgdeirgkgkgfvlakaewarmklm
lpr

  • Chain '9':
    Sequence, based on SEQRES records: (download) 
    >2b9p9 (9:)
mkvrssvkkmcdnckvvrrhgrvlvicsnvkhkqrq

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9p9 (9:)
kvrssvkkmcdnckvvrrhgrvlvicsnvkhkqrq

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'D':
    No sequence available.

  • Chain 'E':
    No sequence available.

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >2b9pF (F:)
meatiydldgntdgevdlpdvfetpvrsdligkavraaqanrkqdygsdeyaglrtpaes
fgsgrgqahvpkldgrarrvpqavkgrsahppktekdrsldlndkerqlavrsalaatad
adlvadrghefdrdevpvvvsddfedlvktqevvsllealdvhadidradetkikagqgs
argrkyrrpasilfvtsdepstaarnlagadvatasevntedlapggapgrltvftesal
aevaer

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pF (F:)
meatiydntdgevdlpdvfetpvrsdligkavraaqanrkqdygsdeyaglrtpaesfgs
grgqahrvpqavkgrsahppktekdrsldlndkerqlavrsalaatadvvvsddfedlvk
tqevvsllealdvhadidrlfvtsdepstaarnlagadvatasevntedlapgrltvfte
salaevaer

  • Chain 'G':
    No sequence available.

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >2b9pH (H:)
srvgkkpieipagvtvtvngntvtvkgpkgeltrtfhpdmtitvegnvitvtrpsdekhh
ralhgttrsllanmvegvskgyekalelvgvgyraskqgkklvlsvgyshpveiepeegl
eievpsqtkiivkgadkqrvgelaaniravrppepykgkgiryegelvrlkegktgk

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pH (H:)
pieipagvtvtvngntvtvkgpkgeltrtfhpdmtitvegnvitvtrpsdekhhralhgt
trsllanmvegvskgyekalelvgvgyraskqgkklvlsvgyshpveiepeegleievps
qtkiivkgadkqrvgelaaniravrppepykgkgiryegelvrl

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >2b9pI (I:)
mkviflkdvkgkgkkgeiknvadgyannflfkqglaieatpanlkaleaqkqkeqrqaae
elanakklkeqlekltvtipakageggrlfgsitskqiaeslqaqhglkldkrkielada
iralgytnvpvklhpevtatlkvhvteqk

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pI (I:)
mkviflkdvkgkgkkgeiknvadgyannflfkqglaieatpanlkaleaqkqkeqrqaae
elanakklkeqlekltvtipakagegrlfgsitskqiaeslqaqhglkldkrkieladai
ralgytnvpvklhpevtatlkvhvteqk

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >2b9pK (K:)
makkvaaqiklqlpagkatpappvgpalgqhgvnimefckrfnaetadkagmilpvvitv
yedksftfiiktppasfllkkaagiekgssepkrkivgkvtrkqieeiaktkmpdlnans
leaamkiiegtaksmgievvd

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pK (K:)
qiklqlpagkatpappvgpalgqhgvnimefckrfnaetadkagmilpvvitvyedksft
fiiktppasfllkkaagiekgssepkrkivgkvtrkqieeiaktkmpdlnansleaamki
iegtaksmgievv

  • Chain 'N':
    Sequence, based on SEQRES records: (download) 
    >2b9pN (N:)
msvaefdadvivdardcimgrvasqvaeqaldgetvavvnaeravitgreeqivekyekr
vdigndngyfypkrpdgifkrtirgmlphkkqrgreafesvrvylgnpydedgevldgts
ldrlsnikfvtlgeisetlganktw

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pN (N:)
aefdadvivdardcimgrvasqvaeqaldgetvavvnaeravitgreeqivekyekrvdi
gndngyfypkrpdgifkrtirgmlpkkqrgreafesvrvylgnpydtlgeisetlga

  • Chain 'O':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2b9pO (O:)
miqqesrlkvadnsgarevlvikvlggsgrryanigdvvvatvkdatpggvvkkgqvvka
vvvrtkrgvrrpdgsyirfdenacviirddksprgtrifgpvarelrdkdfmkiislape
vi

  • Chain 'P':
    No sequence available.

  • Chain 'Q':
    No sequence available.

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >2b9pR (R:)
mrhlksgrklnrhsshrlalyrnqaksllthgritttvpkakelrgfvdhlihlakrgdl
harrlvlrdlqdvklvrklfdeiapryrdrqggytrvlklaerrrgdgaplalvelve

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pR (R:)
sshrlalyrnqaksllthgritttvpkakelrgfvdhlihlakrgdlharrlvlrdlqdv
klvrklfdeiapryrdrqggytrvlklaerrrgdgaplalvelve

  • Chain 'S':
    No sequence available.

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >2b9pT (T:)
prtrecdycgtdiepgtgtmfvhkdgatthfcsskcennadlgrearnlewtdtargeag
eaedea

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pT (T:)
recdycgtdiepgtgtmfvhkdgatthfcsskcennadlrearnlewtdtar

  • Chain 'U':
    Sequence, based on SEQRES records: (download) 
    >2b9pU (U:)
mpraktgivrrrrhkkvlkrakgfwgsrskqyrnafqtllnaatyeyrdrrnkkrdfrrl
wiqrinagarlhgmnystfinglkranidlnrkvladiaarepeafkalvdasrnarq

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pU (U:)
praktgivrrrrhkkvlkrakgfwgsrskqyrnafqtllnaatyeyrdrrnkkrdfrrlw
iqrinagarlhgmnystfinglkranidlnrkvladiaarepeafkalvdasrnarq

  • Chain 'V':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2b9pV (V:)
mfaiiqtggkqyrvsegdvirveslqgeagdkvelkalfvggeqtvfgedagkytvqaev
vehgrgkkiyirkyksgvqyrrrtghrqnftaikilgiqg

  • Chain 'W':
    Sequence, based on SEQRES records: (download) 
    >2b9pW (W:)
meakaiaryvrisprkvrlvvdlirgksleearnilrytnkrgayfvakvlesaaanavn
nhdmledrlyvkaayvdegpalkrvlprargradiikkrtshitvilgekhgk

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pW (W:)
eakaiaryvrisprkvrlvvdlirgksleearnilrytnkrgayfvakvlesaaanavnn
hdledrlyvkaayvdegpalkrvlprargradiikkrtshitvilgek

  • Chain 'X':
    Sequence, based on SEQRES records: (download) 
    >2b9pX (X:)
swdvikhphvtekamndmdfqnklqfavddraskgevadaveeqydvtveqvntqntmdg
ekkavvrlsedddaqevasrigvf

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pX (X:)
swdvikhphvtekamndmdfnklqfavddraskgevadaveeqydvtveqvntqntmdge
kkavvrlsedddqeva

  • Chain 'Y':
    Sequence, based on SEQRES records: (download) 
    >2b9pY (Y:)
skqpdkqrksqrraplherhkqvratlsadlreeygqrnvrvnagdtvevlrgdfageeg
evinvdldkavihvedvtlektdgeevprpldtsnvrvtdldledekrearleseddsa

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pY (Y:)
skqpdkqrksqrraplherhkqvratlsadlreeygvrvnagdtvevlrgdfageegevi
nvdldkavihvedvtlektdgeevprpldtsnvrvtdldledekrearle

  • Chain 'Z':
    Sequence, based on SEQRES records: (download) 
    >2b9pZ (Z:)
mahtgqtaksqgdtatmeltakprtpkqkldesmiaavaynkennvsfaldrkafdrafr
qqsttglfditveggetfpalvkavqmdkrkrapihvdfymvtygepvevsvpvhttgrs
qgevqgglvdivvhnlqivapgprripqelvvdvtkmnigdhitagdiklpegctlaadp
eltvvsvlpprltaeeleaevqaaqvaglvaagelseeaaeavlegdasleevkaeased
nagtdsednsdaq

    Sequence, based on observed residues (ATOM records): (download) 
    >2b9pZ (Z:)
meltakprtpkqkldesmiaavaynkennvsfaldrkafdrafrqqsttglfditvegge
tfpalvkavqmdkrkrapihvdfymvtygepvevsvpvhttgrsqgevqgglvdivvhnl
qivapgprripqelvvdvtkmnigdhitagdiklpegctlaadpeltvvsvlpprlt