1FJG: Thermus thermophilus 30S ribosomal subunit
Structure of the thermus thermophilus 30S ribosomal subunit in complex with the antibiotics streptomycin, spectinomycin, and paromomycin. Determined by X-ray diffraction at 3.0 Å resolution. Released 25 Sept 2000.
- Method
- X-ray diffraction
- Resolution
- 3.0 Å
- Organism
- Thermus thermophilus
- Chains
- 22
- Atoms
- 51,995
- Mol. weight
- 789.32 kDa
- Ligands
- PAR, MG, SCM, SRY
- Released
- 25 Sept 2000
Explore 1FJG in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
1FJG contains 101 α-helices and 113 β-strands across 20 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 B: 10 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 26-31 | 6 | |
| β-strand | 32 | 1 | 1 |
| β-strand | 42 | 1 | 1 |
| α-helix | 44-64 | 21 | |
| β-strand | 68-71 | 4 | 2 |
| α-helix | 75-77 | 3 | |
| α-helix | 78-87 | 10 | |
| β-strand | 92-93 | 2 | 2 |
| α-helix | 105-121 | 17 | |
| α-helix | 132-148 | 17 | |
| β-strand | 161-164 | 4 | 2 |
| α-helix | 171-180 | 10 | |
| β-strand | 184-188 | 5 | 2 |
| α-helix | 194-196 | 3 | |
| β-strand | 199-202 | 4 | 2 |
| α-helix | 208-223 | 16 | |
| α-helix | 236-242 | 7 | |
Chain C: 8 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-11 | 3 | |
| β-strand | 21 | 1 | 3 |
| α-helix | 29-43 | 15 | |
| β-strand | 54-56 | 3 | 4 |
| β-strand | 58 | 1 | 3 |
| β-strand | 59 | 1 | 5 |
| β-strand | 64 | 1 | 5 |
| β-strand | 67-70 | 4 | 4 |
| α-helix | 73-77 | 5 | |
| α-helix | 83-91 | 9 | |
| β-strand | 103-105 | 3 | 4 |
| α-helix | 109-111 | 3 | |
| α-helix | 113-126 | 14 | |
| α-helix | 130-143 | 14 | |
| β-strand | 148-153 | 6 | 6 |
| α-helix | 157-159 | 3 | |
| β-strand | 166 | 1 | 6 |
| β-strand | 169-171 | 3 | 6 |
| β-strand | 182-187 | 6 | 6 |
| β-strand | 198-203 | 6 | 6 |
Chain D: 13 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 11-15 | 5 | |
| α-helix | 24-27 | 4 | |
| α-helix | 32-34 | 3 | |
| α-helix | 47-52 | 6 | |
| α-helix | 53-67 | 15 | |
| α-helix | 72-84 | 13 | |
| α-helix | 89-98 | 10 | |
| β-strand | 100 | 1 | 7 |
| α-helix | 101-107 | 7 | |
| α-helix | 114-122 | 9 | |
| β-strand | 126-128 | 3 | 8 |
| β-strand | 132 | 1 | 8 |
| β-strand | 139 | 1 | 7 |
| β-strand | 145 | 1 | 9 |
| β-strand | 146-148 | 3 | 8 |
| α-helix | 151-154 | 4 | |
| α-helix | 156-164 | 9 | |
| β-strand | 174-177 | 4 | 9 |
| β-strand | 182-185 | 4 | 9 |
| α-helix | 188-190 | 3 | |
| α-helix | 200-206 | 7 | |
Chain E: 4 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 7-14 | 8 | 10 |
| β-strand | 19-20 | 2 | 11 |
| β-strand | 23-24 | 2 | 11 |
| β-strand | 28-35 | 8 | 10 |
| β-strand | 40-48 | 9 | 10 |
| α-helix | 51-63 | 13 | |
| β-strand | 66-68 | 3 | 10 |
| β-strand | 72 | 1 | 12 |
| β-strand | 75 | 1 | 12 |
| β-strand | 80-84 | 5 | 13 |
| β-strand | 87-93 | 7 | 13 |
| β-strand | 100-101 | 2 | 13 |
| α-helix | 104-112 | 9 | |
| β-strand | 118-124 | 7 | 13 |
| α-helix | 128-141 | 14 | |
| α-helix | 145-152 | 8 | |
Chain F: 3 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-10 | 9 | 14 |
| α-helix | 16-32 | 17 | |
| β-strand | 39-40 | 2 | 14 |
| β-strand | 44-52 | 9 | 14 |
| β-strand | 55-60 | 6 | 14 |
| β-strand | 63-67 | 5 | 14 |
| α-helix | 69-71 | 3 | |
| α-helix | 72-79 | 8 | |
| β-strand | 85-92 | 8 | 14 |
Chain G: 8 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-15 | 4 | |
| α-helix | 21-30 | 10 | |
| α-helix | 36-50 | 15 | |
| α-helix | 58-69 | 12 | |
| β-strand | 73-76 | 4 | 15 |
| β-strand | 79-81 | 3 | 16 |
| β-strand | 83-84 | 2 | 16 |
| β-strand | 87-90 | 4 | 15 |
| α-helix | 93-108 | 16 | |
| α-helix | 116-129 | 14 | |
| α-helix | 132-144 | 13 | |
| α-helix | 149-152 | 4 | |
Chain H: 5 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 5-18 | 14 | |
| β-strand | 25-27 | 3 | 17 |
| α-helix | 30-41 | 12 | |
| β-strand | 47-53 | 7 | 17 |
| β-strand | 56-62 | 7 | 17 |
| β-strand | 65 | 1 | 18 |
| α-helix | 75-77 | 3 | |
| β-strand | 78 | 1 | 18 |
| β-strand | 83-85 | 3 | 19 |
| β-strand | 88 | 1 | 20 |
| β-strand | 91 | 1 | 20 |
| β-strand | 94-95 | 2 | 19 |
| α-helix | 103-106 | 4 | |
| β-strand | 109-114 | 6 | 19 |
| β-strand | 117-120 | 4 | 19 |
| α-helix | 121-126 | 6 | |
| β-strand | 131-137 | 7 | 19 |
Chain I: 8 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 4-6 | 3 | 21 |
| β-strand | 9 | 1 | 21 |
| β-strand | 14-21 | 8 | 21 |
| β-strand | 26-28 | 3 | 21 |
| β-strand | 31-32 | 2 | 21 |
| α-helix | 33-36 | 4 | |
| α-helix | 41-47 | 7 | |
| α-helix | 48-53 | 6 | |
| β-strand | 59-66 | 8 | 21 |
| α-helix | 70-88 | 19 | |
| α-helix | 90-92 | 3 | |
| α-helix | 93-96 | 4 | |
| α-helix | 109-111 | 3 | |
| β-strand | 118 | 1 | 22 |
| β-strand | 121 | 1 | 22 |
| α-helix | 122-124 | 3 | |
12 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| 16S ribosomal RNA | A | RNA | 1522 | Thermus thermophilus | |
| Fragment of messenger RNA | X | RNA | 6 | Thermus thermophilus | |
| 30S ribosomal protein S2 | B | protein | 256 | Thermus thermophilus | P80371 (AlphaFold model) |
| 30S ribosomal protein S3 | C | protein | 239 | Thermus thermophilus | P80372 (AlphaFold model) |
| 30S ribosomal protein S4 | D | protein | 209 | Thermus thermophilus | P80373 (AlphaFold model) |
| 30S ribosomal protein S5 | E | protein | 162 | Thermus thermophilus | Q5SHQ5 (AlphaFold model) |
| 30S ribosomal protein S6 | F | protein | 101 | Thermus thermophilus | Q5SLP8 |
| 30S ribosomal protein S7 | G | protein | 156 | Thermus thermophilus | P17291 |
| 30S ribosomal protein S8 | H | protein | 138 | Thermus thermophilus | P0DOY9 |
| 30S ribosomal protein S9 | I | protein | 128 | Thermus thermophilus | P80374 |
| 30S ribosomal protein S10 | J | protein | 105 | Thermus thermophilus | Q5SHN7 |
| 30S ribosomal protein S11 | K | protein | 129 | Thermus thermophilus | P80376 |
10 more molecules are not listed.
Sequence of entity 1 (A), FASTA
>1FJG_1 16S RIBOSOMAL RNA (chains A)
UUUGUUGGAGAGUUUGAUCCUGGCUCAGGGUGAACGCUGGCGGCGUGCCUAAGACAUGCA
AGUCGUGCGGGCCGCGGGGUUUUACUCCGUGGUCAGCGGCGGACGGGUGAGUAACGCGUG
GGUGACCUACCCGGAAGAGGGGGACAACCCGGGGAAACUCGGGCUAAUCCCCCAUGUGGA
CCCGCCCCUUGGGGUGUGUCCAAAGGGCUUUGCCCGCUUCCGGAUGGGCCCGCGUCCCAU
CAGCUAGUUGGUGGGGUAAUGGCCCACCAAGGCGACGACGGGUAGCCGGUCUGAGAGGAU
GGCCGGCCACAGGGGCACUGAGACACGGGCCCCACUCCUACGGGAGGCAGCAGUUAGGAA
UCUUCCGCAAUGGGCGCAAGCCUGACGGAGCGACGCCGCUUGGAGGAAGAAGCCCUUCGG
GGUGUAAACUCCUGAACCCGGGACGAAACCCCCGACGAGGGGACUGACGGUACCGGGGUA
AUAGCGCCGGCCAACUCCGUGCCAGCAGCCGCGGUAAUACGGAGGGCGCGAGCGUUACCC
GGAUUCACUGGGCGUAAAGGGCGUGUAGGCGGCCUGGGGCGUCCCAUGUGAAAGACCACG
GCUCAACCGUGGGGGAGCGUGGGAUACGCUCAGGCUAGACGGUGGGAGAGGGUGGUGGAA
UUCCCGGAGUAGCGGUGAAAUGCGCAGAUACCGGGAGGAACGCCGAUGGCGAAGGCAGCC
ACCUGGUCCACCCGUGACGCUGAGGCGCGAAAGCGUGGGGAGCAAACCGGAUUAGAUACC
CGGGUAGUCCACGCCCUAAACGAUGCGCGCUAGGUCUCUGGGUCUCCUGGGGGCCGAAGC
UAACGCGUUAAGCGCGCCGCCUGGGGAGUACGGCCGCAAGGCUGAAACUCAAAGGAAUUG
ACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUUAAUUCGAAGCAACGCGAAGAACCUU
ACCAGGCCUUGACAUGCUAGGGAACCCGGGUGAAAGCCUGGGGUGCCCCGCGAGGGGAGC
CCUAGCACAGGUGCUGCAUGGCCGUCGUCAGCUCGUGCCGUGAGGUGUUGGGUUAAGUCC
CGCAACGAGCGCAACCCCCGCCGUUAGUUGCCAGCGGUUCGGCCGGGCACUCUAACGGGA
CUGCCCGCGAAAGCGGGAGGAAGGAGGGGACGACGUCUGGUCAGCAUGGCCCUUACGGCC
UGGGCGACACACGUGCUACAAUGCCCACUACAAAGCGAUGCCACCCGGCAACGGGGAGCU
AAUCGCAAAAAGGUGGGCCCAGUUCGGAUUGGGGUCUGCAACCCGACCCCAUGAAGCCGG
AAUCGCUAGUAAUCGCGGAUCAGCCAUGCCGCGGUGAAUACGUUCCCGGGCCUUGUACAC
ACCGCCCGUCACGCCAUGGGAGCGGGCUCUACCCGAAGUCGCCGGGAGCCUACGGGCAGG
CGCCGAGGGUAGGGCCCGUGACUGGGGCGAAGUCGUAACAAGGUAGCUGUACCGGAAGGU
GCGGCUGGAUCACCUCCUUUCU
Sequence of entity 2 (X), FASTA
>1FJG_2 FRAGMENT OF MESSENGER RNA (chains X)
UUUUCU
Sequence of entity 3 (B), FASTA
>1FJG_3 30S RIBOSOMAL PROTEIN S2 (chains B)
MPVEITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIED
LAMRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEA
LFASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKL
FIPVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQARGGVVEPSPSYALVQ
EAEATETPEGESEVEA
Sequence of entity 4 (C), FASTA
>1FJG_4 30S RIBOSOMAL PROTEIN S3 (chains C)
MGNKIHPIGFRLGITRDWESRWYAGKKQYRHLLLEDQRIRGLLEKELYSAGLARVDIERA
ADNVAVTVHVAKPGVVIGRGGERIRVLREELAKLTGKNVALNVQEVQNPNLSAPLVAQRV
AEQIERRFAVRRAIKQAVQRVMESGAKGAKVIVSGRIGGAEQARTEWAAQGRVPLHTLRA
NIDYGFALARTTYGVLGVKAYIFLGEVIGGQKPKARPELPKAEERPRRRRPAVRVKKEE
Sequence of entity 5 (D), FASTA
>1FJG_5 30S RIBOSOMAL PROTEIN S4 (chains D)
MGRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRPSDYAVRLRE
KQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRLDNVVYRLGFAVSRRQARQL
VRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIRQNLEAMKGRKVGPWLSLDVEG
MKGKFLRLPDREDLALPVQENLVIEFYSR
Sequence of entity 6 (E), FASTA
>1FJG_6 30S RIBOSOMAL PROTEIN S5 (chains E)
MPETDFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGY
YARRNMVEVPLQNGTIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILT
KELGSRNPINIAYATMEALRQLRTKADVERLRKGEAHAQAQG
Sequence of entity 7 (F), FASTA
>1FJG_7 30S RIBOSOMAL PROTEIN S6 (chains F)
MRRYEVNIVLNPNLDQSQLALEKEIIQRALENYGARVEKVEELGLRRLAYPIAKDPQGYF
LWYQVEMPEDRVNDLARELRIRDNVRRVMVVKSQEPFLANA
Sequence of entity 8 (G), FASTA
>1FJG_8 30S RIBOSOMAL PROTEIN S7 (chains G)
MARRRRAEVRQLQPDLVYGDVLVTAFINKIMRDGKKNLAARIFYDACKIIQEKTGQEPLK
VFKQAVENVKPRMEVRSRRVGGANYQVPMEVSPRRQQSLALRWLVQAANQRPERRAAVRI
AHELMDAAEGKGGAVKKKEDVERMAEANRAYAHYRW
Sequence of entity 9 (H), FASTA
>1FJG_9 30S RIBOSOMAL PROTEIN S8 (chains H)
MLTDPIADMLTRIRNATRVYKESTDVPASRFKEEILRILAREGFIKGYERVDVDGKPYLR
VYLKYGPRRQGPDPRPEQVIHHIRRISKPGRRVYVGVKEIPRVRRGLGIAILSTSKGVLT
DREARKLGVGGELICEVW
Sequence of entity 10 (I), FASTA
>1FJG_10 30S RIBOSOMAL PROTEIN S9 (chains I)
MEQYYGTGRRKEAVARVFLRPGNGKVTVNGQDFNEYFQGLVRAVAALEPLRAVDALGRFD
AYITVRGGGKSGQIDAIKLGIARALVQYNPDYRAKLKPLGFLTRDARVVERKKYGKHKAR
RAPQYSKR
Sequence of entity 11 (J), FASTA
>1FJG_11 30S RIBOSOMAL PROTEIN S10 (chains J)
MPKIRIKLRGFDHKTLDASAQKIVEAARRSGAQVSGPIPLPTRVRRFTVIRGPFKHKDSR
EHFELRTHNRLVDIINPNRKTIEQLMTLDLPTGVEIEIKTVGGGR
Sequence of entity 12 (K), FASTA
>1FJG_12 30S RIBOSOMAL PROTEIN S11 (chains K)
MAKKPSKKKVKRQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYA
AQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQAIRALQASGLQVKSIVDDTPVPHNGCR
PKKKFRKAS
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| PAR | Paromomycin | C23 H45 N5 O14 | 1 |
| MG | Magnesium ion | Mg | 96 |
| SCM | Spectinomycin | C14 H24 N2 O7 | 1 |
| SRY | Streptomycin | C21 H39 N7 O12 | 1 |
| ZN | Zinc ion | Zn | 2 |
Primary citation
Functional insights from the structure of the 30S ribosomal subunit and its interactions with antibiotics. Carter, A.P., Clemons Jr., W.M., Brodersen, D.E. et al. Nature (2000) 407:340-348. DOI 10.1038/35030019 · PubMed
Other PDB entries of the same protein (UniProt P80371 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 9NO7 2.13 Å, Cryo-EM structure of the wild-type Thermus thermophilus 70S ribosome in complex with…
- 4Y4O 2.3 Å, Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and…
- 8CVL 2.3 Å, Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA,…
- 8FC6 2.35 Å, Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in…
- 8VTW 2.35 Å, Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with…
- 4W2F 2.4 Å, Crystal structure of the Thermus thermophilus 70S ribosome in complex with amicoumacin,…
- 6XHV 2.4 Å, Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex…
- 7RQA 2.4 Å, Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y,…
- 7RQE 2.4 Å, Crystal structure of the Thermus thermophilus 70S ribosome in complex with protein Y,…
- 8CVJ 2.4 Å, Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA,…
- 8VTU 2.4 Å, Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with…
- 8VTX 2.4 Å, Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in…
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