6MTE: Rabbit 80S ribosome with eEF2 and SERBP1

Rabbit 80S ribosome with eEF2 and SERBP1 (rotated state). Determined by electron microscopy at 3.4 Å resolution. Released 21 Nov 2018.

Method
Electron microscopy
Resolution
3.4 Å
Organism
Oryctolagus cuniculus
Chains
83
Atoms
220,739
Mol. weight
3296.96 kDa
Ligands
MG, ZN, GDP
Released
21 Nov 2018

Explore 6MTE in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6MTE contains 558 α-helices and 606 β-strands across 79 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain a: 7 helices, 7 β-strands

ElementResiduesLengthSheet
α-helix7-93
α-helix42-476
β-strand72-74315
α-helix75-773
α-helix84-929
β-strand971111
α-helix98-992
β-strand100-102316
α-helix103-1064
β-strand110-112315
β-strand123-126416
β-strand128-129215
α-helix131-14010
β-strand143-146416
Chain A: 10 helices, 19 β-strands
ElementResiduesLengthSheet
α-helix3-53
α-helix6-94
β-strand28126
α-helix30-323
α-helix34-385
β-strand41-44427
β-strand45-50626
β-strand57-62626
β-strand73-77526
α-helix781
β-strand79128
β-strand83129
β-strand87-90427
β-strand101-103327
β-strand112-114327
β-strand116130
β-strand126130
β-strand134-140727
β-strand145-149527
β-strand155-159527
β-strand163-166427
α-helix1681
β-strand169128
α-helix174-1763
α-helix182-19211
α-helix201-2033
β-strand224-225231
α-helix229-2302
β-strand237-238231
Chain aa: 4 helices, 5 β-strands
ElementResiduesLengthSheet
β-strand20-223187
β-strand29-313187
β-strand36-438188
α-helix49-513
β-strand571105
α-helix62-654
β-strand66-738188
α-helix75-806
α-helix96-994
Chain AA: 10 helices, 8 β-strands
ElementResiduesLengthSheet
α-helix12-2110
β-strand251185
α-helix35-373
β-strand38-414185
β-strand47-493185
α-helix501
α-helix51-6616
β-strand74-785186
α-helix86-949
β-strand97-1004186
β-strand121-1244186
α-helix131-1366
β-strand144-1485186
β-strand159-1624186
α-helix168-18417
α-helix194-1952
α-helix203-2064
α-helix209-2179
Chain b: 7 helices, 0 β-strands
ElementResiduesLengthSheet
α-helix12-176
α-helix22-243
α-helix37-4812
α-helix50-534
α-helix54-7522
α-helix91-10010
α-helix106-11510
Chain B: 16 helices, 24 β-strands
ElementResiduesLengthSheet
α-helix9-102
α-helix14-163
α-helix32-354
α-helix40-412
β-strand42-43235
β-strand45-541036
β-strand57-59337
β-strand63138
β-strand65138
β-strand71-73337
β-strand76-80536
α-helix82-832
β-strand84-951239
β-strand98-106939
α-helix115-1184
α-helix131-1344
α-helix135-1384
α-helix140-1434
α-helix148-1569
β-strand159-165739
α-helix168-1703
β-strand180-184539
β-strand185-186235
α-helix190-20011
β-strand203-205339
β-strand216-222736
α-helix223-2253
β-strand228-229240
α-helix231-2344
α-helix237-2404
β-strand270-271240
β-strand276-2871236
β-strand292-293241
β-strand298-299241
β-strand320142
β-strand324142
β-strand330-334536
β-strand344-349636
β-strand365-367337
α-helix382-3898
Chain bb: 4 helices, 6 β-strands
ElementResiduesLengthSheet
α-helix12-154
β-strand32-365191
β-strand44-474191
β-strand54-552192
α-helix57-593
β-strand62-654192
α-helix711
β-strand72-732192
α-helix741
β-strand78-814191
Chain BB: 8 helices, 8 β-strands
ElementResiduesLengthSheet
α-helix24-263
β-strand28-347190
β-strand43-508190
α-helix58-603
β-strand66-705190
α-helix71-733
β-strand82-9110190
β-strand96-10510190
α-helix107-1137
β-strand120-1289190
β-strand134-14310190
α-helix158-17417
α-helix181-1888
α-helix192-1998
β-strand207-21913190
α-helix226-2283

71 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
28S rRNA5RNA3597Oryctolagus cuniculus
5S rRNA7RNA120Oryctolagus cuniculus
5.8S rRNA8RNA151Oryctolagus cuniculus
uL2Aprotein248Oryctolagus cuniculusG1TT27 (AlphaFold model)
uL3Bprotein394Oryctolagus cuniculusG1TL06 (AlphaFold model)
uL4Cprotein362Oryctolagus cuniculus
uL18Dprotein293Oryctolagus cuniculusP19949 (AlphaFold model)
eL6Eprotein291Oryctolagus cuniculusG1SKF7 (AlphaFold model)
uL30Fprotein225Oryctolagus cuniculusG1SV32
eL8Gprotein319Oryctolagus cuniculus
uL6Hprotein190Oryctolagus cuniculusG1SWI6
uL16Iprotein214Oryctolagus cuniculusB7NZQ2

71 more molecules are not listed.

Sequence of entity 1 (5), FASTA
>6MTE_1 28S rRNA (chains 5)
CGCGACCUCAGAUCAGACGUGGCGACCCGCUGAAUUUAAGCAUAUUAGUCAGCGGAGGAA
AAGAAACUAACCAGGAUUCCCUCAGUAACGGCGAGUGAACAGGGAAGAGCCCAGCGCCGA
AUCCCCGCCCCGCGGCGGGGCGCGGGAAAUGUGGCGUACGGAAGACCCACUCCCCGGCGC
CGGGGGGCCCAAGUCCUUCUGAUCGAGGCCCAGCCCGUGGACGGUGUGAGGCCGGUAGCG
GCCCCCGGCGCGCCGGGCCCGGGUCUUCCCGGAGUCGGGUUGCUUGGGAAUGCAGCCCAA
AGCGGGUGGUAAACUCCAUCUAAGGCUAAAUACCGGCACGAGACCGAUAGUCAACAAGUA
CCGUAAGGGAAAGUUGAAAAGAACUUUGAAGAGAGAGUUCAAGAGGGCGUGAAACCGUUA
AGAGGUAAACGGGUGGGGUCCGCGCAGUCCGCCCGGAGGAUUCAACCCGGCGGCGCGGUC
CGGCCGUGCCGGCGGGGCGGAUCUCCCGCUCCCGUCGGCGGGGGACCGCCCCCCGGCCGG
CGACCGGCCGCCGCCGGGCGCAUUUCCACCGCGGCGGUGCGCCGCGACCGGCUCCGGGAC
GGCUGGGAAGGCCCCGGCGGGGAAGGUGGCCCGGGGGCCCCGGGUGUUACAGCCCCGCCC
CGGCAGCAGCAGCUCGCCGAAUCCCGGGGCCGAGGGAGCGAGACCCGUGCCGCCGCGCUC
UCCCCCCUGGGGGGGCCGGGCCACCCCUCCCACGGCGCGACCGCUGGGGCGGACUGUCCA
GUGCGCCCCGGGCGGGUCGCGCCGUCGGGCCCGGGGGGCCACGCGUCCCCCGCGAGCGCA
CGGGGUCGGCGGCGAUGUCGGCUACCCACCCGACCCGUCUUGAAACACGGACCAAGGAGU
CUAACACGUGCGCGAGUCGGGGGCUACGAAAGCCGCCGUGGCGCAAUGAAGGUGAAGGCC
GGCGGCGCGCCGCCGGCCGAGGUGGGAUCCCGAGGCCUUCCAGUCCGCCGAGGGCGCACC
ACCGGCCCGUCUCGCCCGCCGCGCCGGGGAGGUGGAGCACGAGCGCACGUGUUAGGACCC
GAAAGAUGGUGAACUAUGCCUGGGCAGGGCGAAGCCAGAGGAAACUCUGGUGGAGGUCCG
UAGCGGUCCUGACGUGCGAAUCGGUCGUCCGACCUGGGUAUAGGGGCGAAAGACUAAUCG
AACCAUCUAGUAGCUGGUUCCCUCCAAAGUUUCCCUCAGGAUAGCUGGCGCUCUCCGCAG
UUUUAUCCGGUAAAGCGAAUGAUUAGAGGUCUUGGGGCCGAAACGAUCUCAACCUAUUCU
CAAACUUUAAAUGGGUAAGAAGCCCGGCUCGCUGGUGUGGAGCCGGGCGUGGAAUGCGAG
UGCCUAGUGGGCCACUUUUGGUAAGCAGAACUGGCGCUGCGGGAUGAACCGAACGCCGGG
UUAAGGCGCCCGAUGCCGACGCUCAUCAGACCCCAGAAAAGGUGUUGGUUGAUAUAGACA
GCAGGAUGGUGGCCAUGGAAGUCGGAAUCCGCUAAGGAGUGUGUAACAACUCACCUGCCG
AAUCAACUAGCCCUGAAAAUGGAUGGCGCUGGAGCGUCGGGCCCAUACCCGGCCGUCGCU
GGCAGUCGGCAGAGCGAGAAAGAGAGUGGCGCGGACGCUACGCCGCGACGAGUAGGAGGG
CCGCUGCGGUGAGCCUUGAAGCCUAGGGCGCGGGCCCGGGUGGAGCCGCCGCAGGUGCAG
AUCUUGGUGGUAGUAGCAAAUAUUCAAACGAGAACUUUGAAGGCCGAAGUGGAGAAGGGU
UCCAUGUGAACAGCAGUUGAACAUGGGUCAGUCGGUCCUGAGAGAUGGGCGAGCGCCGUU
CCGAAGGGACGGGCGAUGGCCUCCGUUGCCCUCAGCCGAUCGAAAGGGAGUCGGGUUCAG
AUCCCCGAAUCCGGAGUGGCGGAGAUGGGCGCCGCGAGGCGUCCAGUGCGGUAACGCGAC
CGAUCCCGGAGAAGCCGGCGGGAGCCCCGGGGAGAGUUCUCUUUUCUUUGUGAAGGGCAG
GGCGCCCUGGAAUGGGUUCGCCCCGAGAGAGGGGCCCGUGCCUUGGAAAGCGUCGCGGUU
CCGGCGGCGUCCGGUGAGCUCUCGCUGGCCCUUGAAAAUCCGGGGGAGAGGGUGUAAAUC
UCGCGCCGGGCCGUACCCAUAUCCGCAGCAGGUCUCCAAGGUGAACAGCCUCUGGCAUGU
UGGAACAAUGUAGGUAAGGGAAGUCGGCAAGCCGGAUCCGUAACUUCGGGAUAAGGAUUG
GCUCUAAGGGCUGGCAGCCGACUUAGAACUGGUGCGGACCAGGGGAAUCCGACUGUUUAA
UUAAAACAAAGCAUCGCGAAGGCCCGCGGCGGGUGUUGACGCGAUGUGAUUUCUGCCCAG
UGCUCUGAAUGUCAAAGUGAAGAAAUUCAAUGAAGCGCGGGUAAACGGCGGGAGUAACUA
UGACUCUCUUAAGGUAGCCAAAUGCCUCGUCAUCUAAUUAGUGACGCGCAUGAAUGGAUG
AACGAGAUUCCCACUGUCCCUACCUACUAUCCAGCGAAACCACAGCCAAGGGAACGGGCU
UGGCGGAAUCAGCGGGGAAAGAAGACCCUGUUGAGCUUGACUCUAGUCUGGCACGGUGAA
GAGACAUGAGAAGUGUAGAAUAAGUGGGAGGCCGCCGGUGAAAUACCACUACUCUGAUCG
UUUUUUCACUGACCCGGUGAGGCGGGGGGGCGAGCCGGGCUCUCGCUUCUGGCGCCAAGC
GCCCGGCCGGCCGGGCGCGACCCGCUCCGGGGACAGUGCCAGGUGGGGAGUUUGACUGGG
GCGGUACACCUGUCAAACGGUAACGCAGGUGUCCUAAGGCGAGCUCAGGGAGGACAGAAA
CCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUACGAAUACAGA
CCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAGGUGUCAG
AAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUU
UUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAU
UGUUCACCCACUAAUAGGGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUUAGUUU
UACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAG
GUUCAGACAUUUGGUGUAUGUGCUUGGCUGAGGAGCCAAUGGGGCGAAGCUACCAUCUGU
GGGAUUAUGACUGAACGCCUCUAAGUCAGAAUCCCGCCCAGGCGGAACGAUAGCGCCGGA
GCCUCGGUUGGCCUCGGAUAGCCGGUCCCCCGCCGGGGUCCGGUGCGGAGAGCCCUUCGU
CCCGGGAAACGGGGCGGCCGGAAAGGGGGCCGCCCUCUCGCCCGUCACGCACCGCACGUU
CGUGGGGAACCUGGCGCUAAACCAUUCGUAGACGACCUGCUUCUGGGUCGGGGUUUCGUA
CGUAGCAGAGCAGCUGCUGCGAUCUAUUGAAAGUCAGCCCUCGACACAAGGGUUUGU
Sequence of entity 2 (7), FASTA
>6MTE_2 5S rRNA (chains 7)
GUCUACGGCCAUACCACCCUGAACGCGCCCGAUCUCGUCUGAUCUCGGAAGCUAAGCAGG
GUCGGGCCUGGUUAGUACUUGGAUGGGAGACCGCCUGGGAAUACCGGGUGCUGUAGGCUU
Sequence of entity 3 (8), FASTA
>6MTE_3 5.8S rRNA (chains 8)
CGACUCUUAGCGGUGGAUCACUCGGCUCGUGCGUCGAUGAAGAACGCAGCUAGCUGCGAG
AAUUAAUGUGAAUUGCAGGUUGAUCAUCGACACUUCGAACGCACUUGCGGCCCCGGGUUC
CUCCCGGGGCUACGCCUGUCUGAGCGUCGCU
Sequence of entity 4 (A), FASTA
>6MTE_4 uL2 (chains A)
GRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHDPGRGAPLAKV
VFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNVLPVGTMPEGTIVCCLEEKPG
DRGKLARASGNYATVISHNPETKKTRVKLPSGSKKVISSANRAVVGVVAGGGRIDKPILK
AGRAYHKYKAKRNCWPRVRGVAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAAR
RTGRLRGT
Sequence of entity 5 (B), FASTA
>6MTE_5 uL3 (chains B)
SHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIVREVD
RPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRTFKTVFAEHISDECKRRFYKN
WHKSKKKAFTKYCKKWQDDAGKRQLDKDFSSMKKYCQVIRVLAHTQMRLLPLRQKKAHLM
EIQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLP
RKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIKN
NASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRALE
KIDLKFIDTTSKFGHGRFQTVEEKKAFMGPLKKD
Sequence of entity 6 (C), FASTA
>6MTE_6 uL4 (chains C)
ACARPLISVYSEKGESSGKNVTLPAVFKAPIRPDIVNFVHTNLRKNNRQPYAVSELAGHQ
TSAESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRGGRMFAPTKTWRRWHRRVNTTQKR
YAICSALAASALPALVMSKGHRIEEVPELPLVVEDKVEGYKKTKEAVLLLKKLKAWNDIK
KVYASQRMRAGKGKMRNRRRIQRRGPCVIYNEDNGIVKAFRNIPGITLLNVTKLNILKLA
PGGHVGRFCIWTESAFRKLDDLYGTWRKAASLKSNYNLPMHKMLNTDLSRILKSPEIQRA
LRAPRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQARNHKLRVERAAAALAAK
SD
Sequence of entity 7 (D), FASTA
>6MTE_7 uL18 (chains D)
FVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDIIC
QIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIYEGQ
VEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALKGAVDGGLSIPHSTKRFPG
YDSESKEFNAEVHRKHIMGQNVADYMRYLMEEDEDAYKKQFSQYIKNNVTPDMMEEMYKK
AHAAIRENPVYEKKPKREVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERAA
Sequence of entity 8 (E), FASTA
>6MTE_8 eL6 (chains E)
MAGEKAPAAKPDATKKSPAKKADHARGKAKKKTLAEKKPKKGKPHCSRNPVLVRGIGRYS
RSAMYSRKALYKRKYAAPKSRIERKKKREKVLATVTKPVGGDKNGGTRVVKLRKMPRYYP
TEDVPRKLLSHGKKPFSQHVRKLRASITPGTILIILTGRHRGKRVVFLKQLSSGLLLVTG
PLSLNRVPLRRTHQKFVIATSTKIDISGVKIPKHLTDAYFKKKKLRKPRHQEGEIFDTEK
EKYEITEQRKVDQKAVDSQILPKIKAVPQLQGYLRSVFALTNGVYPHKLVF
Sequence of entity 9 (F), FASTA
>6MTE_9 uL30 (chains F)
NFAELKIKRLRKKFAQKMLRKARRKLIYEKAKHYHKEYRQMYRTEIRMARMARKAGNFYV
PAEPKLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYIAWG
YPNLKSVNELIYKRGYGKINKKRIALTDNTLIARSLGKYNIICMEDLIHEIYTVGKHFKE
ANNFLWPFKLSSPRGGMKKKTTHFVEGGDAGNREDQINRLIRRMN
Sequence of entity 10 (G), FASTA
>6MTE_10 eL8 (chains G)
MSSYRLGYCMKEERHNLVLCLWSQSPGILNSKCLWPFTNIHLLVGALPREGAGGAWGGGR
SEQLPTCSTTHHDFTWDKKVVNPLFEKRPKNFGIGQDIQPKRDLTRFVKWPRYIRLQRQR
AILYKRLKVPPAINQFTQVLDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGD
VPTKRPPVLRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCILKGK
ARLGRLVHRKTCTTVAFTQVNSEDKGALAKLVEAIRTNYNDRYDEIRRHWGGNVLGPKSV
ARIAKLEKAKAKELATKLG
Sequence of entity 11 (H), FASTA
>6MTE_11 uL6 (chains H)
MKTILSNQTVDIPENVDISLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKW
WGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGE
KYIRRVRMRPGVACSVSQAQKDELVLEGNDIELVSNSAALIQQATTVKNKDIRKFLDGIY
VSEKGTVQQA
Sequence of entity 12 (I), FASTA
>6MTE_12 uL16 (chains I)
MGRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQL
SSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFG
KPQGTVARVHIGQVIMSIRTKLQNKEHVVEALRRAKFKFPGRQKIHISKKWGFTKFNADE
FEDMVAEKRLIPDGCGVKYIPNRGPLDKWRALHS

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg298
ZNZinc ionZn8
GDPGuanosine-5'-diphosphateC10 H15 N5 O11 P21

Primary citation

Structures of translationally inactive mammalian ribosomes. Brown, A., Baird, M.R., Yip, M.C. et al. Elife (2018) 7. DOI 10.7554/eLife.40486 · PubMed

Other PDB entries of the same protein (UniProt G1TT27 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

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