2OM7: 30S ribosomal protein S12

Structural Basis for Interaction of the Ribosome with the Switch Regions of GTP-bound Elongation Factors. Determined by electron microscopy at 7.3 Å resolution. Released 15 Jan 2008.

Method
Electron microscopy
Resolution
7.3 Å
Organism
Thermus thermophilus
Chains
14
Atoms
19,031
Mol. weight
404.6 kDa
Released
15 Jan 2008

Explore 2OM7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2OM7 contains 41 α-helices and 57 β-strands across 4 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 E: 1 helix, 5 β-strands

ElementResiduesLengthSheet
α-helix7-126
β-strand33-4081
β-strand55-6061
β-strand65-6951
β-strand82-8541
β-strand99-10021
Chain K: 3 helices, 3 β-strands
ElementResiduesLengthSheet
α-helix23-253
β-strand4312
α-helix58-592
α-helix191-1955
β-strand212-21322
β-strand218-21922
Chain L: 25 helices, 41 β-strands
ElementResiduesLengthSheet
α-helix9-113
β-strand12-1983
α-helix25-3612
β-strand69-7463
β-strand77-8263
α-helix91-10010
β-strand103-10973
β-strand11313
α-helix116-12712
β-strand132-13763
α-helix146-1527
α-helix153-1575
β-strand161-16333
β-strand165-16844
β-strand176-17944
β-strand184-18854
β-strand196-19724
α-helix199-2024
α-helix203-22119
α-helix225-2339
α-helix239-25113
β-strand256-26053
β-strand26215
β-strand26715
α-helix269-27911
α-helix287-2882
β-strand289-29246
β-strand298-30146
β-strand310-319103
β-strand323-332103
β-strand334-33637
β-strand339-34353
β-strand348-358113
β-strand363-36643
β-strand368-37037
β-strand374-37963
β-strand388-39033
β-strand39816
β-strand409-41578
α-helix419-43416
β-strand439-44248
β-strand449-45358
α-helix456-46712
β-strand474-47638
α-helix477-4793
β-strand480-48238
β-strand491-49999
β-strand506-516119
α-helix517-5182
β-strand523-52759
α-helix536-5383
α-helix539-54911
α-helix558-5603
β-strand563-57199
α-helix579-59618
β-strand602-6131210
α-helix618-6269
β-strand630-634510
β-strand637110
β-strand640-648910
α-helix649-6513
β-strand653-65428
α-helix655-6628
β-strand668-6781110
α-helix679-6802
α-helix681-6877
Chain N: 12 helices, 8 β-strands
ElementResiduesLengthSheet
α-helix8-158
β-strand19111
α-helix26-305
β-strand34-36311
β-strand39-41311
α-helix44-6219
β-strand69-71312
α-helix75-773
α-helix78-869
β-strand92-93212
α-helix102-1043
α-helix105-12218
α-helix125-1284
α-helix132-14918
β-strand162-164312
α-helix168-1703
α-helix171-1799
β-strand184-188512
β-strand199-202412
α-helix208-22417

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
Fragment of 16S rRNA (h14)ARNA12Thermus thermophilus
Fragment of 16S rRNA (h15)BRNA28Thermus thermophilus
Fragment of 16S rRNA (h44)CRNA96Thermus thermophilus
16S ribosomal RNA (H5)DRNA303Thermus thermophilus
Fragment of23S rRNA (H95)FRNA29Thermus thermophilus
Fragment of23S rRNA (H68)GRNA54Thermus thermophilus
Fragment of23S rRNA (H89)HRNA42Thermus thermophilus
Fragment of23S rRNA (H42-44)IRNA58Thermus thermophilus
Fragment of23S rRNA (H76)JRNA102Thermus thermophilus
p/E-tRNAMRNA74Thermus thermophilus
30S ribosomal protein S12Eprotein135Thermus thermophilusQ5SHN3 (AlphaFold model)
50S ribosomal protein L1Kprotein229Thermus thermophilusQ5SLP7 (AlphaFold model)

2 more molecules are not listed.

Sequence of entity 1 (A), FASTA
>2OM7_1 Fragment of 16S rRNA (h14) (chains A)
CUCCUACGGGAG
Sequence of entity 2 (B), FASTA
>2OM7_2 Fragment of 16S rRNA (h15) (chains B)
UUCCGCAAUGGGCGCAAGCCUGACGGAG
Sequence of entity 3 (C), FASTA
>2OM7_3 Fragment of 16S rRNA (h44) (chains C)
GCCCGUCACGCCAUGGGAGCGGGCUCUACCCGAAGUCGCCGGGAGCCUACGGGCAGGCGC
CGAGGGUAGGGCCCGUGACUGGGGCGAAGUCGUAAC
Sequence of entity 4 (D), FASTA
>2OM7_4 16S ribosomal RNA (H5) (chains D)
GACAUGCAAGUCGUGCGGGCCGCGGGGUUUUACUCCGUGGUCAGCGGCGGACGGGUGAGU
AACGCGUGGGUGACCUACCCGGAAGAGGGGGACAACCCGGGGAAACUCGGGCUAAUCCCC
CAUGUGGACCCGCCCCUUGGGGUGUGUCCAAAGGGCUUUGCCCGCUUCCGGAUGGGCCCG
CGUCCCAUCAGCUAGUUGGUGGGGUAAUGGCCCACCAAGGCGACGACGGGUAGCCGGUCU
GAGAGGAUGGCCGGCCACAGGGGCACUGAGACACGGGCCCCACUCCUACGGGAGGCAGCA
GUU
Sequence of entity 5 (F), FASTA
>2OM7_5 Fragment of23S rRNA (H95) (chains F)
CUCUUCCUAGUACGAGAGGACCGGAAGGG
Sequence of entity 6 (G), FASTA
>2OM7_6 Fragment of23S rRNA (H68) (chains G)
GUGCCGGAAGGUCAAGGGGAGGGGUGCAAGCCCCGAACCGAAGCCCCGGUGAAC
Sequence of entity 7 (H), FASTA
>2OM7_7 Fragment of23S rRNA (H89) (chains H)
GCUGAUCUCCCCCGAGCGUCCACAGCGGCGGGGAGGUUUGGC
Sequence of entity 8 (I), FASTA
>2OM7_8 Fragment of23S rRNA (H42-44) (chains I)
GCCAGGAGGUUGGCUUAGAAGCAGCCAUCCUUUAAAGAGUGCGUAAUAGCUCACUGGU
Sequence of entity 9 (J), FASTA
>2OM7_9 Fragment of23S rRNA (H76) (chains J)
GCUCUUGGUCGCGCCUGCGUAGGAUAGGUGGGAGCCUGUGAACCCCCGCCUCCGGGUGGG
GGGGAGGCGCCGGUGAAAUACCACCCUGGCGCGGCUGGGGGC
Sequence of entity 10 (M), FASTA
>2OM7_10 p/E-tRNA (chains M)
UCCGUGAUAACAAAGCGGUUAUGUACCGGAUUUUUAUUCCGGCUAUCGGGGUUCAAUUCC
CCGUCGCGGAGCCA
Sequence of entity 11 (E), FASTA
>2OM7_11 30S ribosomal protein S12 (chains E)
MVALPTINQLVRKGREKVRKKSKVPALKGAPFRRGVCTVVRTVTPKKPNSALRKVAKVRL
TSGYEVTAYIPGEGHNLQEHSVVLIRGGRVKDLPGVRYHIVRGVYDAAGVKDRKKSRSKY
GTKKPKEAAKTAAKK
Sequence of entity 12 (K), FASTA
>2OM7_12 50S ribosomal protein L1 (chains K)
MPKHGKRYRALLEKVDPNKVYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVR
GTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDV
MGAVGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKAS
FPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRINPHS

Primary citation

Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors. Connell, S.R., Takemoto, C., Wilson, D.N. et al. Mol Cell (2007) 25:751-764. DOI 10.1016/j.molcel.2007.01.027 · PubMed

Other PDB entries of the same protein (UniProt Q5SHN3 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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