PDB entry 1kqs

View 1kqs on RCSB PDB site
Description: The Haloarcula marismortui 50S Complexed with a Pretranslocational Intermediate in Protein Synthesis
Class: ribosome
Keywords: ribosome assembly, RNA-RNA, protein-RNA, protein-protein, protein synthesis, peptidyl transferase
Deposited on 2002-01-07, released 2002-02-22
The last revision prior to the SCOPe 2.06 freeze date was dated 2009-02-24, with a file datestamp of 2009-03-01.
Experiment type: XRAY
Resolution: 3.1 Å
R-factor: 0.173
AEROSPACI score: 0.26 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '0':
    Compound: 23s rRNA
    Species: Haloarcula marismortui [TaxId:2238]
  • Chain '1':
    Compound: ribosomal protein l39e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqs1_
  • Chain '2':
    Compound: ribosomal protein l44e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqs2_
  • Chain '3':
    Compound: cca
    Species: synthetic, synthetic
  • Chain '4':
    Compound: CC-Pmn-pcb
    Species: synthetic, synthetic
  • Chain '9':
    Compound: 5s rRNA
    Species: Haloarcula marismortui [TaxId:2238]
  • Chain 'A':
    Compound: ribosomal protein l2
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsa1, d1kqsa2
  • Chain 'B':
    Compound: ribosomal protein l3
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P20279 (0-336)
      • conflict (309)
    Domains in SCOPe 2.06: d1kqsb_
  • Chain 'C':
    Compound: ribosomal protein l4
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsc_
  • Chain 'D':
    Compound: ribosomal protein l5
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsd_
  • Chain 'E':
    Compound: ribosomal protein l6
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqse1, d1kqse2
  • Chain 'F':
    Compound: ribosomal protein l7ae
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsf_
  • Chain 'G':
    Compound: ribosomal protein l10
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsg_
  • Chain 'H':
    Compound: ribosomal protein l10e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed):
    • PDB 1KQS (0-166)
    Domains in SCOPe 2.06: d1kqsh_
  • Chain 'I':
    Compound: ribosomal protein l13
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsi_
  • Chain 'J':
    Compound: ribosomal protein l14
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsj_
  • Chain 'K':
    Compound: ribosomal protein l15
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsk_
  • Chain 'L':
    Compound: ribosomal protein l15e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed):
    • PDB 1KQS (0-193)
    Domains in SCOPe 2.06: d1kqsl_
  • Chain 'M':
    Compound: ribosomal protein l18
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsm_
  • Chain 'N':
    Compound: ribosomal protein l18e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsn_
  • Chain 'O':
    Compound: ribosomal protein l19e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P14119 (0-End)
      • conflict (70)
    Domains in SCOPe 2.06: d1kqso_
  • Chain 'P':
    Compound: ribosomal protein l21e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsp_
  • Chain 'Q':
    Compound: ribosomal protein l22
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsq_
  • Chain 'R':
    Compound: ribosomal protein l23
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsr_
  • Chain 'S':
    Compound: ribosomal protein l24
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqss_
  • Chain 'T':
    Compound: ribosomal protein l24e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqst_
  • Chain 'U':
    Compound: ribosomal protein l29
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsu_
  • Chain 'V':
    Compound: ribosomal protein l30
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsv_
  • Chain 'W':
    Compound: ribosomal protein l31e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsw_
  • Chain 'X':
    Compound: ribosomal protein l32e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsx_
  • Chain 'Y':
    Compound: ribosomal protein l37ae
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed):
    • PDB 1KQS (0-72)
    Domains in SCOPe 2.06: d1kqsy_
  • Chain 'Z':
    Compound: ribosomal protein l37e
    Species: Haloarcula marismortui [TaxId:2238]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d1kqsz_
  • Heterogens: MG, K, NA, CL, PPU, PHA, ACA, BTN, CD, HOH

PDB Chain Sequences:

  • Chain '0':
    No sequence available.

  • Chain '1':
    Sequence, based on SEQRES records: (download) 
    >1kqs1 (1:)
gkkskatkkrlakldnqnsrvpawvmlktdevqrnhkrrhwrrndtde

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqs1 (1:)
gkkskatkkrlakldnqnsrvpawvmlktdernhkrrhwrrndtde

  • Chain '2':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqs2 (2:)
mqmprrfntycphcnehqehevekvrsgrqtgmkwidrqrernsgigndgkfskvpggdk
ptkktdlkyrcgecgkahlregwragrlefqe

  • Chain '3':
    No sequence available.

  • Chain '4':
    No sequence available.

  • Chain '9':
    No sequence available.

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >1kqsA (A:)
grriqgqrrgrgtstfrapshrykadlehrkvedgdviagtvvdiehdparsapvaavef
edgdrrlilapegvgvgdelqvgvdaeiapgntlplaeipegvpvcnvesspgdggkfar
asgvnaqllthdrnvavvklpsgemkrldpqcratigvvggggrtdkpfvkagnkhhkmk
argtkwpnvrgvamnavdhpfggggrqhpgkpksisrnappgrkvgdiaskrtgrggne

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsA (A:)
grriqgqrrgrgtstfrapshrykadlehrkvedgdviagtvvdiehdparsapvaavef
edgdrrlilapegvgvgdelqvgvdaeiapgntlplaeipegvpvcnvesspgdggkfar
asgvnaqllthdrnvavvklpsgemkrldpqcratigvvggggrtdkpfvkagnkhhkmk
argtkwpnvrgvamnavdhpfggggrqhpgkpksisrnappgrkvgdiaskrtgrgg

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsB (B:)
pqpsrprkgslgfgprkrstsetprfnswpsddgqpgvqgfagykagmthvvlvndepns
pregmeetvpvtvietppmravalrayedtpygqrpltevwtdefhseldrtldvpedhd
pdaaeeqirdaheagdlgdlrlithtvpdavpsvpkkkpdvmetrvgggsvsdrldhald
ivedggehamndifrageyadvagvtkgkgtqgpvkrwgvqkrkgkharqgwrrrignlg
pwnpsrvrstvpqqgqtgyhqrtelnkrlidigegdeptvdggfvnygevdgpytlvkgs
vpgpdkrlvrfrpavrpndqprldpevryvsnesnqg

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsC (C:)
mqatiydldgntdgevdlpdvfetpvrsdligkavraaqanrkqdygsdeyaglrtpaes
fgsgrgqahvpkldgrarrvpqavkgrsahppktekdrsldlndkerqlavrsalaatad
adlvadrghefdrdevpvvvsddfedlvktqevvsllealdvhadidradetkikagqgs
argrkyrrpasilfvtsdepstaarnlagadvatasevntedlapggapgrltvftesal
aevaer

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >1kqsD (D:)
ssesesggdfhemrepriekvvvhmgighggrdlanaedilgeitgqmpvrtkakrtvge
fdiregdpigakvtlrdemaeeflqtalplaelatsqfddtgnfsfgveehtefpsqeyd
psigiygldvtvnlvrpgyrvakrdkasrsiptkhrlnpadavafiestydvevse

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsD (D:)
fhemrepriekvvvhmgighanaedilgeitgqmpvrtkakrtvgefdiregdpigakvt
lrdemaeeflqtalplaelatsqfddtgnfsfgldvtvnlvrpgyrvakrdkasrsiptk
hrlnpadavafiestydvev

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >1kqsE (E:)
prveleipedvdaeqdhlditvegdngsvtrrlwypdidvsvdgdtvviesdednaktms
tigtfqshienmfhgvtegweygmevfyshfpmqvnvegdevvienflgekaprrttihg
dtdveidgeeltvsgpdieavgqtaadieqltrindkdvrvfqdgvyitrkpnrgda

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsE (E:)
prveleipedvdaeqdhlditvegdngsvtrrlwypdidvsvdgdtvviesdednaktms
tigtfqshienmfhgvtegweygmevfyshfpmqvnvegdevvienflgekaprrttihg
dtdveidgeeltvsgpdieavgqtaadieqltrindkdvrvfqdgvyitrkp

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsF (F:)
pvyvdfdvpadleddalealevardtgavkkgtnettksiergsaelvfvaedvqpeeiv
mhipeladekgvpfifveqqddlghaaglevgsaaaavtdagaaatvleeiadkveelr

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >1kqsG (G:)
msaeserktetipewkqeevdaivemiesyesvgvvniagipsrqlqdmrrdlhgtaelr
vsrntlleralddvddgledlngyitgqvgligtddnpfslfqeleasktpapigageva
pndivipegdtgvdpgpfvgelqsvgadariqegsiqvlsdstvldtgeevsqelsnvln
elgiepkevgldlravfadgvlfepeeleldideyrsdiqaaagrafnlsvnadyptatt
aptmlqsdrgnakslalqaaiedpevvpdlvskadaqvralasqiddeealpeelqgvea
dvateeptddqdddtaseddadaddaaeeadddddddedagdalgamf

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsG (G:)
ipewkqeevdaivemiesrntlleraldd

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >1kqsH (H:)
kpgamyrnsskpaytrreyisgipgkkiaqfdmgnngagptypaqvelvvekpvqirhna
leaarvaanryvqnsgaaanykfrirkfpfhvirenkaaaaaaaaaaadgmrapfgkpvg
taarvhganhifiawvnpdpnveeawrrakmkvtptinidsspagna

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsH (H:)
kpgamyrnsskpaytrreyisgipgkkiaqfdmgnngagptypaqvelvvekpvqirhna
leaarvaanryvqnsgaaanykfrirkfpfhvirenkdgmrapfgkpvgtaarvhganhi
fiawvnpdpnveeawrrakmkvtptinidsspagna

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >1kqsI (I:)
msvaefdadvivdardcimgrvasqvaeqaldgetvavvnaeravitgreeqivekyekr
vdigndngyfypkrpdgifkrtirgmlphkkqrgreafesvrvylgnpydedgevldgts
ldrlsnikfvtlgeisetlganktw

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsI (I:)
aefdadvivdardcimgrvasqvaeqaldgetvavvnaeravitgreeqivekyekrvdi
gndngyfypkrpdgifkrtirgmlphkkqrgreafesvrvylgnpydedgevldgtsldr
lsnikfvtlgeisetlganktw

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsJ (J:)
mealgadvtqglekgslitcadntgarelkvisvhgysgtknrhpkaglgdkitvsvtkg
tpemrrqvleavvvrqrkpirrpdgtrvkfednaavivdenedprgtelkgpiarevaqr
fgsvasaatmiv

  • Chain 'K':
    Sequence, based on SEQRES records: (download) 
    >1kqsK (K:)
tskkkrqrgsrthgggshknrrgaghrggrgdagrdkhefhnheplgksgfkrpqkvqee
aatidvreidenvtllaaddvaevedggfrvdvrdvveeaddadyvkvlgagqvrheltl
iaddfsegarekvegaggsveltdlgeerqaeaeetedadadee

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsK (K:)
tskkkrqrgsrthgggshknrrgaghrggrgdagrdkhefhnheplgksgfkrpqkvqee
aatidvreidenvtllaaddvaefrvdvrdvveeaddadyvkvlgagqvrheltliaddf
segarekvegaggsveltdlgeerq

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsL (L:)
arsaysyireawkrpkegqiaelmwhrmqewrnepavvrierptrldrarslgykakqgi
ivvrvairkgssrrtrfnkgrrskrmmvnritrkkniqriaeeranrkfpnlrvlnsysv
gedgrhkwhevilidpdhpaiksddqlswisrtrhrlrtfrgltsagrrcrglrgqgkgs
ekvrpslrvngaka

  • Chain 'M':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsM (M:)
atgprykvpmrrrreartdyhqrlrllksgkprlvarksnkhvraqlvtlgpngddtlas
ahssdlaeygweaptgnmpsayltgllaglraqeagveeavldiglnsptpgskvfaiqe
gaidagldiphnddvladwqrtrgahiaeydeqleeplysgdfdaadlpehfdelretll
dgdiel

  • Chain 'N':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsN (N:)
sktnprlssliadlksaarssggavwgdvaerlekprrthaevnlgrieryaqedetvvv
pgkvlgsgvlqkdvtvaavdfsgtaetkidqvgeavsleqaiennpegshvrvir

  • Chain 'O':
    Sequence, based on SEQRES records: (download) 
    >1kqsO (O:)
tdlsaqkrlaadvldvgknrvwfnperqgdiadaitredvrelvdegaiqakdkkgnsrg
rarerqkkrakghqkgagsrkgkagarqnskedwesriraqrtklrelrdegtlsssqyr
dlydkagggefdsvadleryidanhgda

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsO (O:)
tdlsaqkrlaadvldvgknrvwfnperqgdiadaitredvrelvdegaiqakdkkgnsrg
rarerqkkrakghqkgagsrkgkagarqnskedwesriraqrtklrelrdegtlsssqyr
dlydkagggefdsvadleryida

  • Chain 'P':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsP (P:)
pssngplegtrgklknkprdrgtsppqraveefddgekvhlkidpsvpngrfhprfdgqt
gtvegkqgdaykvdivdggkektiivtaahlrrqe

  • Chain 'Q':
    Sequence, based on SEQRES records: (download) 
    >1kqsQ (Q:)
gisysveadpdttakamlrerqmsfkhskaiareikgktageavdyleaviegdqpvpfk
qhnsgvghkskvdgwdagrypekaskafldllenavgnadhqgfdgeamtikhvaahkvg
eqqgrkpramgrasawnspqvdvelileepeved

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsQ (Q:)
gisysveadpdttakamlrerqmsfkhskaiareikgktageavdyleaviegdqpvpfk
qhnsgvghkskvdgwdagrypekaskafldllenavgnadhqgfdgeamtikhvaahkvg
eqqgrkpramgrasawnspqvdvelileep

  • Chain 'R':
    Sequence, based on SEQRES records: (download) 
    >1kqsR (R:)
swdvikhphvtekamndmdfqnklqfavddraskgevadaveeqydvtveqvntqntmdg
ekkavvrlsedddaqevasrigvf

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsR (R:)
swdvikhphvtekamndmdfqnklqfavddraskgevadaveeqydvtveqvntqntmdg
ekkavvrlsedddaqevasri

  • Chain 'S':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsS (S:)
skqpdkqrksqrraplherhkqvratlsadlreeygqrnvrvnagdtvevlrgdfageeg
evinvdldkavihvedvtlektdgeevprpldtsnvrvtdldledekrearleseddsa

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >1kqsT (T:)
prtrecdycgtdiepgtgtmfvhkdgatthfcsskcennadlgrearnlewtdtargeag
eaedea

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsT (T:)
recdycgtdiepgtgtmfvhkdgatthfcsskcennadlgrearnlewtdtar

  • Chain 'U':
    Sequence, based on SEQRES records: (download) 
    >1kqsU (U:)
tvlhvqeirdmtpaereaelddlktellnaravqaaggapenpgrikelrkaiariktiq
geegdlqene

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsU (U:)
tvlhvqeirdmtpaereaelddlktellnaravqaaggapenpgrikelrkaiariktiq
geegd

  • Chain 'V':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsV (V:)
mhalvqlrgevnmhtdiqdtlemlnihhvnhctlvpetdayrgmvakvndfvafgepsqe
tletvlatraeplegdadvddewvaehtdyddisglafallseettlreqglsptlrlhp
prgghdgvkhpvkeggqlgkhdtegiddlleamr

  • Chain 'W':
    Sequence, based on SEQRES records: (download) 
    >1kqsW (W:)
sasdfeervvtiplrdaraepnhkradkamilirehlakhfsvdedavrldpsineaawa
rgrantpskirvraarfeeegeaiveaetae

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsW (W:)
ervvtiplrdaraepnhkradkamilirehlakhfsvdedavrldpsineaawargrant
pskirvraarfeeegeaiveae

  • Chain 'X':
    Sequence, based on SEQRES records: (download) 
    >1kqsX (X:)
adneedveaeeeyteltdisgvgpskaeslreagfesvedvrgadqsaladvsgignala
arikadvggleveseteaeveeeggeeapdedvetelqargltektpdlsdedarlltqr
hrvgkpqfnrqdhhkkkrvstswrkprgqlskqrrgikgkgdtveagfrsptavrgkhps
gfeevrvhnvddlegvdgdteavriaskvgarkrerieeeaedagirvlnptyvevevse

    Sequence, based on observed residues (ATOM records): (download) 
    >1kqsX (X:)
telqargltektpdlsdedarlltqrhrvgkpqfnrqdhhkkkrvstswrkprgqlskqr
rgikgkgdtveagfrsptavrgkhpsgfeevrvhnvddlegvdgdteavriaskvgarkr
erieeeaedagirvlnptyvev

  • Chain 'Y':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsY (Y:)
rtgrfgpryglkirvrvadveikhkkkhkcpvcgfkklkragtgiwmcghcgykiaggcy
qpetvagkavmka

  • Chain 'Z':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >1kqsZ (Z:)
tgagtpsqgkknttthtkcrrcgeksyhtkkkvcsscgfgksakrrdyewqskage