PDB entry 6ybw

View 6ybw on RCSB PDB site
Description: structure of a human 48s translational initiation complex - 40s body
Deposited on 2020-03-18, released 2020-09-16
The last revision was dated 2020-09-16, with a file datestamp of 2020-09-11.
Experiment type: EM
Resolution: 3.1 Å
R-factor: N/A
AEROSPACI score: 0.18 (click here for full SPACI score report)

Chains and heterogens:

  • Chain '7':
    Compound: mRNA
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
  • Chain '9':
    Compound: 60S ribosomal protein L41
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'A':
    Compound: 18S rRNA
    Species: Homo sapiens [TaxId:9606]
  • Chain 'B':
    Compound: 40S ribosomal protein S11
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: 40S ribosomal protein S4, X isoform
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: 40S ribosomal protein S9
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: 40S ribosomal protein S23
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: 40S ribosomal protein S30
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: 40S ribosomal protein S7
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: 40S ribosomal protein S27
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: 40S ribosomal protein S13
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: 40S ribosomal protein S15a
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'K':
    Compound: 40S ribosomal protein S21
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    Compound: 40S ribosomal protein S2
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'M':
    Compound: 40S ribosomal protein S17
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'N':
    Compound: 40S Ribosomal protein SA
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'O':
    Compound: 40s ribosomal protein s3a
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'P':
    Compound: 40s ribosomal protein s14
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'Q':
    Compound: 40S ribosomal protein S26
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'R':
    Compound: 40s ribosomal protein s8
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'S':
    Compound: 40s ribosomal protein s6
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'T':
    Compound: 40S ribosomal protein S24
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'p':
    Compound: Eukaryotic translation initiation factor 1
    Species: Homo sapiens [TaxId:9606]
    Gene: EIF1, SUI1
    Database cross-references and differences (RAF-indexed):
  • Chain 'q':
    Compound: eukaryotic translation initiation factor 1a, x-chromosomal
    Species: Homo sapiens [TaxId:9606]
    Gene: EIF1AX, EIF1A, EIF4C
    Database cross-references and differences (RAF-indexed):
  • Chain 'y':
    Compound: Eukaryotic translation initiation factor 3 subunit C
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
  • Chain 'z':
    Compound: Eukaryotic translation initiation factor 3 subunit J
    Species: Homo sapiens [TaxId:9606]
    Gene: EIF3J, EIF3S1, PRO0391
    Database cross-references and differences (RAF-indexed):
  • Heterogens: 5MU, 6MZ, A2M, MA6, MG, OMC, OMG, OMU, PSU, UR3, ZN

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 '7':
    No sequence available.

  • Chain '9':
    Sequence, based on SEQRES records:
    >6ybw9 (9:)
mrakwrkkrmrrlkrkrrkmrqrsk

    Sequence, based on observed residues (ATOM records):
    >6ybw9 (9:)
mrakwrkkrmrrlkrkrrkmrqrs

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6ybwB (B:)
madiqterayqkqptifqnkkrvllgetgkeklpryykniglgfktpkeaiegtyidkkc
pftgnvsirgrilsgvvtkmkmqrtivirrdylhyirkynrfekrhknmsvhlspcfrdv
qigdivtvgecrplsktvrfnvlkvtkaagtkkqfqk

    Sequence, based on observed residues (ATOM records):
    >6ybwB (B:)
diqterayqkqptifqnkkkeklpryykniglgfktpkeaiegtyidkkcpftgnvsirg
rilsgvvtkmkmqrtivirrdylhyirkynrfekrhknmsvhlspcfrdvqigdivtvge
crplsktvrfnvlkvtkaagtk

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6ybwC (C:)
margpkkhlkrvaapkhwmldkltgvfaprpstgphklreclpliiflrnrlkyaltgde
vkkicmqrfikidgkvrtditypagfmdvisidktgenfrliydtkgrfavhritpeeak
yklckvrkifvgtkgiphlvthdartirypdplikvndtiqidletgkitdfikfdtgnl
cmvtgganlgrigvitnrerhpgsfdvvhvkdangnsfatrlsnifvigkgnkpwislpr
gkgirltiaeerdkrlaakqssg

    Sequence, based on observed residues (ATOM records):
    >6ybwC (C:)
argpkkhlkrvaapkhwmldkltgvfaprpstgphklreclpliiflrnrlkyaltgdev
kkicmqrfikidgkvrtditypagfmdvisidktgenfrliydtkgrfavhritpeeaky
klckvrkifvgtkgiphlvthdartirypdplikvndtiqidletgkitdfikfdtgnlc
mvtgganlgrigvitnrerhpgsfdvvhvkdangnsfatrlsnifvigkgnkpwislprg
kgirltiaeerdkrla

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6ybwD (D:)
mpvarswvcrktyvtprrpfeksrldqelkligeyglrnkrevwrvkftlakirkaarel
ltldekdprrlfegnallrrlvrigvldegkmkldyilglkiedflerrlqtqvfklgla
ksihharvlirqrhirvrkqvvnipsfivrldsqkhidfslrspygggrpgrvkrknakk
gqggagagddeeed

    Sequence, based on observed residues (ATOM records):
    >6ybwD (D:)
pvarswvcrktyvtprrpfeksrldqelkligeyglrnkrevwrvkftlakirkaarell
tldekdprrlfegnallrrlvrigvldegkmkldyilglkiedflerrlqtqvfklglak
sihharvlirqrhirvrkqvvnipsfivrldsqkhidfslrspygggrpgrvkrkna

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6ybwE (E:)
mgkcrglrtarklrshrrdqkwhdkqykkahlgtalkanpfggashakgivlekvgveak
qpnsairkcvrvqlikngkkitafvpndgclnfieendevlvagfgrkghavgdipgvrf
kvvkvanvsllalykgkkerprs

    Sequence, based on observed residues (ATOM records):
    >6ybwE (E:)
gkcrglrtarklrshrrdqkwhdkqykkahlgtalkanpfggashakgivlekvgveakq
pnsairkcvrvqlikngkkitafvpndgclnfieendevlvagfgrkghavgdipgvrfk
vvkvanvsllalykgkkerp

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6ybwF (F:)
kvhgslaragkvrgqtpkvakqekkkkktgrakrrmqynrrfvnvvptfgkkkgpnans

    Sequence, based on observed residues (ATOM records):
    >6ybwF (F:)
laragkvrgqtpkvakqekkkkktgrakrrmqynrrfvnvkgpnans

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6ybwG (G:)
mfsssakivkpngekpdefesgisqallelemnsdlkaqlrelnitaakeievgggrkai
iifvpvpqlksfqkiqvrlvrelekkfsgkhvvfiaqrrilpkptrksrtknkqkrprsr
tltavhdailedlvfpseivgkrirvkldgsrlikvhldkaqqnnvehkvetfsgvykkl
tgkdvnfefpefql

    Sequence, based on observed residues (ATOM records):
    >6ybwG (G:)
ivkppdefesgisqallelemnsdlkaqlrelnitaakeievgggrkaiiifvpvpqlks
fqkiqvrlvrelekkfsgkhvvfiaqrrilpkptrkkqkrprsrtltavhdailedlvfp
seivgkrirvkldgsrlikvhldkaqqnnvehkvetfsgvykkltgkdvnfefpefq

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6ybwH (H:)
mplakdllhpspeeekrkhkkkrlvqspnsyfmdvkcpgcykittvfshaqtvvlcvgcs
tvlcqptggkarltegcsfrrkqh

    Sequence, based on observed residues (ATOM records):
    >6ybwH (H:)
plakdllhpspeeekrkhkkkrlvqspnsyfmdvkcpgcykittvfshaqtvvlcvgcst
vlcqptggkarltegcsfrrk

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6ybwI (I:)
mgrmhapgkglsqsalpyrrsvptwlkltsddvkeqiyklakkgltpsqigvilrdshgv
aqvrfvtgnkilrilkskglapdlpedlyhlikkavavrkhlernrkdkdakfrlilies
rihrlaryyktkrvlppnwkyesstasalva

    Sequence, based on observed residues (ATOM records):
    >6ybwI (I:)
grmhapgkglsqsalpyrrsvptwlkltsddvkeqiyklakkgltpsqigvilrdshgva
qvrfvtgnkilrilkskglapdlpedlyhlikkavavrkhlernrkdkdakfrliliesr
ihrlaryyktkrvlppnwkyesstasalva

  • Chain 'J':
    Sequence, based on SEQRES records:
    >6ybwJ (J:)
mvrmnvladalksinnaekrgkrqvlirpcskvivrfltvmmkhgyigefeiiddhragk
ivvnltgrlnkcgvisprfdvqlkdlekwqnnllpsrqfgfivlttsagimdheearrkh
tggkilgfff

    Sequence, based on observed residues (ATOM records):
    >6ybwJ (J:)
vrmnvladalksinnaekrgkrqvlirpcskvivrfltvmmkhgyigefeiiddhragki
vvnltgrlnkcgvisprfdvqlkdlekwqnnllpsrqfgfivlttsagimdheearrkht
ggkilgfff

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6ybwK (K:)
mqndagefvdlyvprkcsasnriigakdhasiqmnvaevdkvtgrfngqfktyaicgair
rmgesddsilrlakadgivsknf

    Sequence, based on observed residues (ATOM records):
    >6ybwK (K:)
mqndagefvdlyvprkcsasnriigakdhasiqmnvaevdkvtgrfngqfktyaicgair
rmgesddsilrlakadgivsk

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6ybwL (L:)
maddagaaggpggpggpgmgnrggfrggfgsgirgrgrgrgrgrgrgrgarggkaedkew
mpvtklgrlvkdmkiksleeiylfslpikeseiidfflgaslkdevlkimpvqkqtragq
rtrfkafvaigdynghvglgvkcskevatairgaiilaklsivpvrrgywgnkigkphtv
pckvtgrcgsvlvrlipaprgtgivsapvpkkllmmagiddcytsargctatlgnfakat
fdaisktysyltpdlwketvftkspyqeftdhlvkthtrvsvqrtqapavatt

    Sequence, based on observed residues (ATOM records):
    >6ybwL (L:)
dkewmpvtklgrlvkdmkiksleeiylfslpikeseiidfflgaslkdevlkimpvqkqt
ragqrtrfkafvaigdynghvglgvkcskevatairgaiilaklsivpvrrgywgnkigk
phtvpckvtgrcgsvlvrlipaprgtgivsapvpkkllmmagiddcytsargctatlgnf
akatfdaisktysyltpdlwketvftkspyqeftdhlvkt

  • Chain 'M':
    Sequence, based on SEQRES records:
    >6ybwM (M:)
mgrvrtktvkkaarviiekyytrlgndfhtnkrvceeiaiipskklrnkiagyvthlmkr
iqrgpvrgisiklqeeererrdnyvpevsaldqeiievdpdtkemlklldfgslsnlqvt
qptvgmnfktprgpv

    Sequence, based on observed residues (ATOM records):
    >6ybwM (M:)
errdnyvpevsaldqeiievdpdtkemlklldfgslsnlqvtqptvgmnfktpr

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6ybwN (N:)
msgaldvlqmkeedvlkflaagthlggtnldfqmeqyiykrksdgiyiinlkrtweklll
aaraivaienpadvsvissrntgqravlkfaaatgatpiagrftpgtftnqiqaafrepr
llvvtdpradhqplteasyvnlptialcntdsplryvdiaipcnnkgahsvglmwwmlar
evlrmrgtisrehpwevmpdlyfyrdpeeiekeeqaaaekavtkeefqgewtapapefta
tqpevadwsegvqvpsvpiqqfptedwsaqpatedwsaaptaqatewvgattdws

    Sequence, based on observed residues (ATOM records):
    >6ybwN (N:)
sgaldvlqmkeedvlkflaagthlggtnldfqmeqyiykrksdgiyiinlkrtwekllla
araivaienpadvsvissrntgqravlkfaaatgatpiagrftpgtftnqiqaafreprl
lvvtdpradhqplteasyvnlptialcntdsplryvdiaipcnnkgahsvglmwwmlare
vlrmrgtisrehpwevmpdlyfyrdpe

  • Chain 'O':
    Sequence, based on SEQRES records:
    >6ybwO (O:)
mavgknkrltkggkkgakkkvvdpfskkdwydvkapamfnirnigktlvtrtqgtkiasd
glkgrvfevsladlqndevafrkfklitedvqgkncltnfhgmdltrdkmcsmvkkwqtm
ieahvdvkttdgyllrlfcvgftkkrnnqirktsyaqhqqvrqirkkmmeimtrevqtnd
lkevvnklipdsigkdiekacqsiyplhdvfvrkvkmlkkpkfelgklmelhgegsssgk
atgdetgakveradgyeppvqesv

    Sequence, based on observed residues (ATOM records):
    >6ybwO (O:)
dpfskkdwydvkapamfnirnigktlvtrtqgtkiasdglkgrvfevsladlqndevafr
kfklitedvqgkncltnfhgmdltrdkmcsmvkkwqtmieahvdvkttdgyllrlfcvgf
tkkrnnqirktsyaqhqqvrqirkkmmeimtrevqtndlkevvnklipdsigkdiekacq
siyplhdvfvrkvkmlkkpkfelgklmelhg

  • Chain 'P':
    Sequence, based on SEQRES records:
    >6ybwP (P:)
maprkgkekkeeqvislgpqvaegenvfgvchifasfndtfvhvtdlsgketicrvtggm
kvkadrdesspyaamlaaqdvaqrckelgitalhiklratggnrtktpgpgaqsalrala
rsgmkigriedvtpipsdstrrkggrrgrrl

    Sequence, based on observed residues (ATOM records):
    >6ybwP (P:)
vaegenvfgvchifasfndtfvhvtdlsgketicrvtggmkvkadrdesspyaamlaaqd
vaqrckelgitalhiklratggnrtktpgpgaqsalralarsgmkigriedvtpipsdst
rrkggrrgrrl

  • Chain 'Q':
    Sequence, based on SEQRES records:
    >6ybwQ (Q:)
mtkkrrnngrakkgrghvqpirctncarcvpkdkaikkfvirniveaaavrdiseasvfd
ayvlpklyvklhycvscaihskvvrnrsrearkdrtppprfrpagaaprpppkpm

    Sequence, based on observed residues (ATOM records):
    >6ybwQ (Q:)
tkkrrnngrakkgrghvqpirctncarcvpkdkaikkfvirniveaaavrdiseasvfda
yvlpklyvklhycvscaihskvvrnrsrearkdrtpppr

  • Chain 'R':
    Sequence, based on SEQRES records:
    >6ybwR (R:)
mgisrdnwhkrrktggkrkpyhkkrkyelgrpaantkigprrihtvrvrggnkkyralrl
dvgnfswgsecctrktriidvvynasnnelvrtktlvkncivlidstpyrqwyeshyalp
lgrkkgakltpeeeeilnkkrskkiqkkyderkknakisslleeqfqqgkllaciasrpg
qcgradgyvlegkelefylrkikarkgk

    Sequence, based on observed residues (ATOM records):
    >6ybwR (R:)
gisrdnwhkrrktggkrkpyhkkrkyelgrpaantkigprrihtvrvrggnkkyralrld
vgnfswgsecctrktriidvvynasnnelvrtktlvkncivlidstpyrqwyeshyalpl
grkeeeilnkkrskkiqkkyderkknakisslleeqfqqgkllaciasrpgqcgradgyv
legkelefylrkikarkg

  • Chain 'S':
    Sequence, based on SEQRES records:
    >6ybwS (S:)
mklnisfpatgcqklievdderklrtfyekrmatevaadalgeewkgyvvrisggndkqg
fpmkqgvlthgrvrlllskghscyrprrtgerkrksvrgcivdanlsvlnlvivkkgekd
ipgltdttvprrlgpkrasrirklfnlskeddvrqyvvrkplnkegkkprtkapkiqrlv
tprvlqhkrrrialkkqrtkknkeeaaeyakllakrmkeakekrqeqiakrrrlsslras
tsksessqk

    Sequence, based on observed residues (ATOM records):
    >6ybwS (S:)
mklnisfpatgcqklievdderklrtfyekrmatevaadalgeewkgyvvrisggndkqg
fpmkqgvlthgrvrlllskghscyrprrtgerkrksvrgcivdanlsvlnlvivkkgekd
ipgltdttvprrlgpkrasrirklfnlskeddvrqyvvrkplnkegkkprtkapkiqrlv
tprvlqhkrrrialkkqrtkknkeeaaeyakllakrmkeakekrqeqiak

  • Chain 'T':
    Sequence, based on SEQRES records:
    >6ybwT (T:)
mndtvtirtrkfmtnrllqrkqmvidvlhpgkatvpkteireklakmykttpdvifvfgf
rthfgggkttgfgmiydsldyakknepkhrlarhglyekkktsrkqrkerknrmkkvrgt
akanvgagkkpke

    Sequence, based on observed residues (ATOM records):
    >6ybwT (T:)
tvtirtrkfmtnrllqrkqmvidvlhpgkatvpkteireklakmykttpdvifvfgfrth
fgggkttgfgmiydsldyakknepkhrlarhglyekkktsrkqrkerknrmkkvrgtaka
nvgag

  • Chain 'p':
    Sequence, based on SEQRES records:
    >6ybwp (p:)
msaiqnlhsfdpfadaskgddllpagtedyihiriqqrngrktlttvqgiaddydkkklv
kafkkkfacngtviehpeygeviqlqgdqrknicqflveiglakddqlkvhgf

    Sequence, based on observed residues (ATOM records):
    >6ybwp (p:)
dyihiriqqrngrktlttvqgiaddydkkklvkafkkkfacngtviehpeygeviqlqgd
qrknicqflveiglakddqlkvhgf

  • Chain 'q':
    Sequence, based on SEQRES records:
    >6ybwq (q:)
mpknkgkggknrrrgknenesekrelvfkedgqeyaqvikmlgngrleamcfdgvkrlch
irgklrkkvwintsdiilvglrdyqdnkadvilkynadearslkaygelpehakinetdt
fgpgdddeiqfddigdddediddi

    Sequence, based on observed residues (ATOM records):
    >6ybwq (q:)
ekrelvfkedgqeyaqvikmlgngrleamcfdgvkrlchirgklrkkvwintsdiilvgl
rdyqdnkadvilkynadearslkaygel

  • Chain 'y':
    Sequence, based on SEQRES records:
    >6ybwy (y:)
msrffttgsdsesesslsgeelvtkpvggnygkqplllsedeedtkrvvrsakdkrfeel
tnlirtirnamkirdvtkcleefellgkaygkaksivdkegvprfyiriladledylnel
wedkegkkkmnknnakalstlrqkirkynrdfeshitsykqnpeqsadedaekneedseg
ssdedededgvsaatflkkkseapsgesrkflkkmddededsedseddedwdtgstssds
dseeeegkqtalasrflkkapttdedkkaaekkredkakkkhdrkskrldeeeednegge
wervrggvplvkekpkmfakgteithavvikklneilqargkkgtdraaqiellqllvqi
aaennlgegvivkikfniiaslydynpnlatymkpemwgkcldcinelmdilfanpnifv
genileesenlhnadqplrvrgciltlvermdeeftkimqntdphsqeyvehlkdeaqvc
aiiervqryleekgtteevcriyllrilhtyykfdykahqrqltppegsskseqdqaene
gedsavlmerlckyiyakdrtdrirtcailchiyhhalhsrwyqardlmlmshlqdniqh
adppvqilynrtmvqlgicafrqgltkdahnalldiqssgrakellgqglllrslqernq
eqekverrrqvpfhlhinlellecvylvsamlleipymaahesdarrrmiskqfhhqlrv
gerqpllgppesmrehvvaaskamkmgdwktchsfiinekmngkvwdlfpeadkvrtmlv
rkiqeeslrtylftyssvydsismetlsdmfeldlptvhsiiskmiineelmasldqptq
tvvmhrteptaqqnlalqlaeklgslvennervfdhkqgtyggyfrdqkdgyrknegymr
rggyrqqqsqtay

    Sequence, based on observed residues (ATOM records):
    >6ybwy (y:)
vvrsakdkrfeeltnlirtirnamkirdvtkcleefellgkaygkaksivdkegvprfyi
riladledylnelwedkegkkkmnknnakalstlrqkirkynrdfeshitsykdedkkaa
ekkredkakkkhdrkskrldeeeedneggewervrggvplvk

  • Chain 'z':
    Sequence, based on SEQRES records:
    >6ybwz (z:)
maaaaaaagdsdswdadafsvedpvrkvggggtaggdrwegedededvkdnwdddddekk
eeaevkpevkisekkkiaekikekerqqkkrqeeikkrleepeepkvltpeeqladklrl
kklqeesdlelaketfgvnnavygidamnpssrddftefgkllkdkitqyekslyyasfl
evlvrdvcisleiddlkkitnsltvlcsekqkqekqskakkkkkgvvpggglkatmkddl
adyggydggyvqdyedfm

    Sequence, based on observed residues (ATOM records):
    >6ybwz (z:)
dededvkdnwdddddekkeeaevkpevkisekkkiaekikekerqqkkrqeeikqladkl
rlkklqeesdlelaketrddftefgkllkdkitqyekslyyasflevlvrdvcisleidd
lkkitnsltvlcsekqkqekqskakkkkkgvvpggglkat