PDB entry 4qcx

View 4qcx on RCSB PDB site
Description: Crystal structure of the Thermus thermophilus 70S ribosome in the pre-attack state of peptide bond formation containing short substrate-mimic Cytidine-Puromycin in the A site and acylated tRNA in the P site. This entry contains the 50S subunit of the second 70S ribosome in the ASU.
Deposited on 2014-05-13, released 2014-08-20
The last revision was dated 2014-12-10, with a file datestamp of 2014-12-05.
Experiment type: XRAY
Resolution: 2.9 Å
R-factor: 0.233
AEROSPACI score: 0.15 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '0':
    Compound: 50S ribosomal protein L27
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '1':
    Compound: 50S ribosomal protein L28
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '2':
    Compound: 50S ribosomal protein L29
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '3':
    Compound: 50S ribosomal protein L30
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '4':
    Compound: 50S ribosomal protein L31
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '5':
    Compound: 50S ribosomal protein L32
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '6':
    Compound: 50S ribosomal protein L33
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '7':
    Compound: 50S ribosomal protein L34
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '8':
    Compound: 50S ribosomal protein L35
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain '9':
    Compound: 50S ribosomal protein L36
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'A':
    Compound: 23S ribosomal RNA
    Species: Thermus thermophilus [TaxId:300852]
  • Chain 'B':
    Compound: 5S ribosomal RNA
    Species: Thermus thermophilus [TaxId:300852]
  • Chain 'D':
    Compound: 50S ribosomal protein L2
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: 50S ribosomal protein L3
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: 50S ribosomal protein L4
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: 50S ribosomal protein L5
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: 50S ribosomal protein L6
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: 50S ribosomal protein L9
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: 50S ribosomal protein L13
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'O':
    Compound: 50S ribosomal protein L14
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'P':
    Compound: 50S ribosomal protein L15
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'Q':
    Compound: 50S ribosomal protein L16
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'R':
    Compound: 50S ribosomal protein L17
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'S':
    Compound: 50S ribosomal protein L18
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'T':
    Compound: 50S ribosomal protein L19
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'U':
    Compound: 50S ribosomal protein L20
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'V':
    Compound: 50S ribosomal protein L21
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'W':
    Compound: 50S ribosomal protein L22
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'X':
    Compound: 50S ribosomal protein L23
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'Y':
    Compound: 50S ribosomal protein L24
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Chain 'Z':
    Compound: 50S ribosomal protein L25
    Species: Thermus thermophilus [TaxId:300852]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: MG, ZN, HOH

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain '0':
    Sequence, based on SEQRES records:
    >4qcx0 (0:)
mahkkglgstrngrdsqakrlgvkryegqvvragnilvrqrgtrfkpgknvgmgrdftlf
alvdgvvefqdrgrlgryvhvrpla

    Sequence, based on observed residues (ATOM records):
    >4qcx0 (0:)
ahkkglgstrngrdsqakrlgvkryegqvvragnilvrqrgtrfkpgknvgmgrdftlfa
lvdgvvefqdrgrlgryvhvrpl

  • Chain '1':
    Sequence, based on SEQRES records:
    >4qcx1 (1:)
mskvceisgkrpivansiqrrgkakreggvgkkttgiskrrqypnlqkvrvrvagqeitf
rvaashipkvyelverakglkleglspkeikkellkll

    Sequence, based on observed residues (ATOM records):
    >4qcx1 (1:)
skvceisgkrpivansiqrrgkakreggvgkkttgiskrrqypnlqkvrvrvagqeitfr
vaashipkvyelverakglkleglspkeikkellkll

  • Chain '2':
    Sequence, based on SEQRES records:
    >4qcx2 (2:)
mklsevrkqleearklspveleklvrekkrelmelrfqasigqlsqnhkirdlkrqiarl
ltvlnekrrqna

    Sequence, based on observed residues (ATOM records):
    >4qcx2 (2:)
mklsevrkqleearklspveleklvrekkrelmelrfqasigqlsqnhkirdlkrqiarl
ltvlnekrrq

  • Chain '3':
    Sequence, based on SEQRES records:
    >4qcx3 (3:)
mprlkvklvkspigypkdqkaalkalglrrlqqervledtpairgnvekvahlvrvevve

    Sequence, based on observed residues (ATOM records):
    >4qcx3 (3:)
prlkvklvkspigypkdqkaalkalglrrlqqervledtpairgnvekvahlvrvevve

  • Chain '4':
    Sequence, based on SEQRES records:
    >4qcx4 (4:)
mkegihpklvpariicgcgnvietystkpeiyvevcskchpfytgqqrfvdtegrverfq
rrygdsyrkgr

    Sequence, based on observed residues (ATOM records):
    >4qcx4 (4:)
mkegihpklvpariicgcgnvietystkpeiyvevcskchpfytgqqrfvdtegrverfq
rrygdsyrk

  • Chain '5':
    Sequence, based on SEQRES records:
    >4qcx5 (5:)
makhpvpkkktskarrdarrshhaltpptlvpcpeckamkpphtvcpecgyyagrkvlev

    Sequence, based on observed residues (ATOM records):
    >4qcx5 (5:)
akhpvpkkktskarrdarrshhaltpptlvpcpeckamkpphtvcpecgyyagrkvlev

  • Chain '6':
    Sequence, based on SEQRES records:
    >4qcx6 (6:)
masevriklllecteckrrnyateknkrntpnklelrkycpwcrkhtvhrevki

    Sequence, based on observed residues (ATOM records):
    >4qcx6 (6:)
asevriklllecteckrrnyateknkrntpnklelrkycpwcrkhtvhrevki

  • Chain '7':
    Sequence, based on SEQRES records:
    >4qcx7 (7:)
mkrtwqpnrrkrakthgfrarmrtpggrkvlkrrrqkgrwrltpavrkr

    Sequence, based on observed residues (ATOM records):
    >4qcx7 (7:)
mkrtwqpnrrkrakthgfrarmrtpggrkvlkrrrqkgrwrltpavrk

  • Chain '8':
    Sequence, based on SEQRES records:
    >4qcx8 (8:)
mpkmkthkgakkrvkitasgkvvamktgkrhlnwqksgkeirqkgrkfvlakpeaerikl
llpye

    Sequence, based on observed residues (ATOM records):
    >4qcx8 (8:)
pkmkthkgakkrvkitasgkvvamktgkrhlnwqksgkeirqkgrkfvlakpeaerikll
lpye

  • Chain '9':
    Sequence; same for both SEQRES and ATOM records:
    >4qcx9 (9:)
mkvrasvkricdkckvirrhgrvyvicenpkhkqrqg

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records:
    >4qcxD (D:)
mavkkfkpytpsrrfmtvadfseitktepekslvkplkktggrnnqgritvrfrggghkr
lyriidfkrwdkvgipakvaaieydpnrsariallhyvdgekryiiapdglqvgqqvvag
pdapiqvgnalplrfipvgtvvhavelepkkgaklaraagtsaqiqgregdyvilrlpsg
elrkvhgecyatvgavgnadhknivlgkagrsrwlgrrphvrgaamnpvdhphgggegra
prgrppaspwgwqtkglktrkrrkpssrfiiarrkk

    Sequence, based on observed residues (ATOM records):
    >4qcxD (D:)
avkkfkpytpsrrfmtvadfseitktepekslvkplkktggrnnqgritvrfrggghkrl
yriidfkrwdkvgipakvaaieydpnrsariallhyvdgekryiiapdglqvgqqvvagp
dapiqvgnalplrfipvgtvvhavelepkkgaklaraagtsaqiqgregdyvilrlpsge
lrkvhgecyatvgavgnadhknivlgkagrsrwlgrrphvrgaamnpvdhphgggegrap
rgrppaspwgwqtkglktrkrrkpssrfiiarrkk

  • Chain 'E':
    Sequence, based on SEQRES records:
    >4qcxE (E:)
mkgilgvkvgmtrifrddravpvtvilagpcpvvqrrtpekdgytavqlgflpqnpkrvn
rplkghfakagvepvrilreirdfnpegdtvtveifkpgervdvtgtskgrgfagvmkrw
nfaggpdshgahkihrhpgsignrktpgrvykgkkmaghygaervtvmnlevvdvipeen
lllvkgavpgpngglvivretkkaak

    Sequence, based on observed residues (ATOM records):
    >4qcxE (E:)
mkgilgvkvgmtrifrddravpvtvilagpcpvvqrrtpekdgytavqlgflpqnpkrvn
rplkghfakagvepvrilreirdfnpegdtvtveifkpgervdvtgtskgrgfagvmkrw
nfaggpdshgahkihrhpgsignrktpgrvykgkkmaghygaervtvmnlevvdvipeen
lllvkgavpgpngglvivretkka

  • Chain 'F':
    Sequence, based on SEQRES records:
    >4qcxF (F:)
mkevavyqipvlspsgrrelaadlpaeinphllwevvrwqlakrrrgtastktrgevays
grkiwpqkhtgrarhgdigapifvgggvvfgpkprdysytlpkkvrkkglamavadrare
gklllveafagvngktkeflawakeagldgsesvllvtgnelvrraarnlpwvvtlapeg
lnvydivrterlvmdldawevfqnriggea

    Sequence, based on observed residues (ATOM records):
    >4qcxF (F:)
vyqipvlspsgrrelaadlpaeinphllwevvrwqlakrrrgtastktrgevaysgrkiw
pqkhtgrarhgdigapifvgggvvfgpkprdysytlpkkvrkkglamavadraregklll
veafagvngktkeflawakeagldgsesvllvtgnelvrraarnlpwvvtlapeglnvyd
ivrterlvmdldawevfqnrigg

  • Chain 'G':
    Sequence, based on SEQRES records:
    >4qcxG (G:)
mpldvalkrkyyeevrpelirrfgyqnvwevprlekvvinqglgeakedarilekaaqel
alitgqkpavtrakksisnfklrkgmpiglrvtlrrdrmwiflekllnvalprirdfrgl
npnsfdgrgnynlglreqlifpeitydmvdalrgmdiavvttaetdeearallellgfpf
rk

    Sequence, based on observed residues (ATOM records):
    >4qcxG (G:)
pldvalkrkyyeevrpelirrfgyqnvwevprlekvvinqglgeakedarilekaaqela
litgqkpavtrakksisnfklrkgmpiglrvtlrrdrmwiflekllnvalprirdfrgln
pnsfdgrgnynlglreqlifpeitydmvdalrgmdiavvttaetdeearallellgfpfr
k

  • Chain 'H':
    Sequence, based on SEQRES records:
    >4qcxH (H:)
msrigrlpipvpkgvsvevapgrvkvkgpkgelevpvspemrvvveegvvrverpsderr
hkslhgltrtlianavkgvsegyskellikgigyrarlvgraleltvgfshpvvveppeg
itfevpeptrvrvsgidkqkvgqvaanirairkpsayhekgiyyagepvrlkpgkagakk

    Sequence, based on observed residues (ATOM records):
    >4qcxH (H:)
srigrlpipvpkgvsvevapgrvkvkgpkgelevpvspemrvvveegvvrverpsderrh
kslhgltrtlianavkgvsegyskellikgigyrarlvgraleltvgfshpvvveppegi
tfevpeptrvrvsgidkqkvgqvaanirairkpsayhekgiyyagepvrlkpgk

  • Chain 'I':
    Sequence, based on SEQRES records:
    >4qcxI (I:)
mkvilleplenlgdvgqvvdvkpgyarnyllprglavlatesnlkaleariraqakrlae
rkaeaerlkeilenltltipvragetkiygsvtakdiaealsrqhgvtidpkrlalekpi
kelgeyvltykphpevpiqlkvsvvaqe

    Sequence, based on observed residues (ATOM records):
    >4qcxI (I:)
mkvilleplenlgdvgqvvdvkpgyarnyllprglavlatesnlkaleariraqakrlae
rkaeaerlkeilenltltipvragetkiygsvtakdiaealsrqhgvtidpkrlalekpi
kelgeyvltykphpevpiqlkvsvva

  • Chain 'N':
    Sequence; same for both SEQRES and ATOM records:
    >4qcxN (N:)
mktyvpkqveprwvlidaegktlgrlatkiatllrgkhrpdwtpnvamgdfvvvvnadki
rvtgkkleqkiytrysgypgglkkiplekmlathpervlehavkgmlpkgplgrrlfkrl
kvyagpdhphqaqrpeklev

  • Chain 'O':
    Sequence; same for both SEQRES and ATOM records:
    >4qcxO (O:)
miqpqtylevadntgarkimcirvlkgsnakyatvgdvivasvkeaiprgavkegdvvka
vvvrtkkeikrpdgsairfddnaaviinnqleprgtrvfgpvarelrekgfmkivslape
vl

  • Chain 'P':
    Sequence, based on SEQRES records:
    >4qcxP (P:)
mklsdlrpnpgankrrkrvgrgpgsghgktatrghkgqksrsgglkdprrfeggrsttlm
rlpkrgmqgqvpgeikrpryqgvnlkdlarfegevtpellvragllkkgyrlkilgegea
kplkvvahafsksaleklkaaggepvllea

    Sequence, based on observed residues (ATOM records):
    >4qcxP (P:)
mklsdlrpnpgankrrkrvgrgpgsghgktatrghkgqksrsgglkdprrfeggrsttlm
rlpkrgmqgqvpgeikrpryqgvnlkdlarfegevtpellvragllkkgyrlkilgegea
kplkvvahafsksaleklkaaggepvlle

  • Chain 'Q':
    Sequence; same for both SEQRES and ATOM records:
    >4qcxQ (Q:)
mlmprrmkyrkqqrgrlkgatkggdyvafgdyglvalepawitaqqieaarvamvrhfrr
ggkifirifpdkpytkkplevrmgkgkgnvegyvavvkpgrvmfevagvteeqamealri
aghklpiktkivrrdaydeaq

  • Chain 'R':
    Sequence; same for both SEQRES and ATOM records:
    >4qcxR (R:)
mrhlksgrklnrhsshrlalyrnqaksllthgritttvpkakelrgfvdhlihlakrgdl
harrlvlrdlqdvklvrklfdeiapryrdrqggytrvlklaerrrgdgaplalvelve

  • Chain 'S':
    Sequence, based on SEQRES records:
    >4qcxS (S:)
marltayerrkfrvrnrikrtgrlrlsvfrslkhiyaqiiddekgvtlvsasslalklkg
nktevarqvgralaekalalgikqvafdrgpykyhgrvkalaegaregglef

    Sequence, based on observed residues (ATOM records):
    >4qcxS (S:)
rltayerrkfrvrnrikrtgrlrlsvfrslkhiyaqiiddekgvtlvsasslalklkgnk
tevarqvgralaekalalgikqvafdrgpykyhgrvkalaegaregglef

  • Chain 'T':
    Sequence, based on SEQRES records:
    >4qcxT (T:)
mnrgaliklvesryvrtdlpefrpgdtvrvsykvkegnrtriqdfegivirirrngfntt
ftvrkvsygvgverifplhspliqkidivqrgrarraklyfirnlsdreirrklradrkr
idqdraaeraakeeaqkaqepkasqe

    Sequence, based on observed residues (ATOM records):
    >4qcxT (T:)
mnrgaliklvesryvrtdlpefrpgdtvrvsykvkegnrtriqdfegivirirrngfntt
ftvrkvsygvgverifplhspliqkidivqrgrarraklyfirnlsdreirrklradrkr
idqdraaeraa

  • Chain 'U':
    Sequence, based on SEQRES records:
    >4qcxU (U:)
mpraktgvvrrrkhkkilklakgywglrsksfrkaretlfaagnyayahrkrrkrdfrrl
wivrinaacrqhglnystfihglkkagievdrknladlavrepqvfaelverakaaqg

    Sequence, based on observed residues (ATOM records):
    >4qcxU (U:)
praktgvvrrrkhkkilklakgywglrsksfrkaretlfaagnyayahrkrrkrdfrrlw
ivrinaacrqhglnystfihglkkagievdrknladlavrepqvfaelverakaaq

  • Chain 'V':
    Sequence; same for both SEQRES and ATOM records:
    >4qcxV (V:)
mfaivktggkqyrvepglklrvekldaepgatvelpvlllggektvvgtpvvegasvvae
vlghgrgkkilvskfkakvqyrrkkghrqpytellikeirg

  • Chain 'W':
    Sequence, based on SEQRES records:
    >4qcxW (W:)
meakaiaryvrisprkvrlvvdlirgksleearnilrytnkrgayfvakvlesaaanavn
nhdmledrlyvkaayvdegpalkrvlprargradiikkrtshitvilgekhgk

    Sequence, based on observed residues (ATOM records):
    >4qcxW (W:)
meakaiaryvrisprkvrlvvdlirgksleearnilrytnkrgayfvakvlesaaanavn
nhdmledrlyvkaayvdegpalkrvlprargradiikkrtshitvilgekhg

  • Chain 'X':
    Sequence, based on SEQRES records:
    >4qcxX (X:)
mktaydvilapvlsekayagfaegkytfwvhpkatkteiknavetafkvkvvkvntlhvr
gkkkrlgrylgkrpdrkkaivqvapgqkiealegli

    Sequence, based on observed residues (ATOM records):
    >4qcxX (X:)
mktaydvilapvlsekayagfaegkytfwvhpkatkteiknavetafkvkvvkvntlhvr
gkkkrlgrylgkrpdrkkaivqvapgqkiealegl

  • Chain 'Y':
    Sequence, based on SEQRES records:
    >4qcxY (Y:)
mrvkmhvkkgdtvlvasgkykgrvgkvkevlpkkyavivegvnivkkavrvspkypqggf
iekeaplhaskvrpicpacgkptrvrkkflengkkirvcakcggaldtee

    Sequence, based on observed residues (ATOM records):
    >4qcxY (Y:)
mrvkmhvkkgdtvlvasgkykgrvgkvkevlpkkyavivegvnivkkavrvspkypqggf
iekeaplhaskvrpicpacgkptrvrkkflengkkirvcakcggald

  • Chain 'Z':
    Sequence, based on SEQRES records:
    >4qcxZ (Z:)
meyrlkayyregekpsalrragklpgvmynrhlnrkvyvdlvefdkvfrqasihhvivle
lpdgqslptlvrqvnldkrrrrpehvdffvlsdepvemyvplrfvgtpagvraggvlqei
hrdilvkvsprnipefievdvsgleigdslhasdlklppgvelavspeetiaavvppedv
eklaeeaaaevaepevikkgkeeeee

    Sequence, based on observed residues (ATOM records):
    >4qcxZ (Z:)
meyrlkayyregekpsalrragklpgvmynrhlnrkvyvdlvefdkvfrqasihhvivle
lpdgqslptlvrqvnldkrrrrpehvdffvlsdepvemyvplrfvgtpagvraggvlqei
hrdilvkvsprnipefievdvsgleigdslhasdlklppgvelavspeetiaav