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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6SKG

Cryo-EM Structure of T. kodakarensis 70S ribosome in TkNat10 deleted strain

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1Aa16S ribosomal RNApolymer1498487394.91Thermococcus kodakarensis
2Ab30S ribosomal protein S2polymer20123039.81UniProt (Q5JJD2)
Pfam (PF00318)
In PDB		Thermococcus kodakarensis
3Ac30S ribosomal protein S3polymer20923390.21UniProt (Q5JDH5)
Pfam (PF07650)
Pfam (PF00189)
In PDB		Thermococcus kodakarensis
4Ad30S ribosomal protein S3Aepolymer20023064.91UniProt (Q5JGM4)
Pfam (PF01015)
In PDB		Thermococcus kodakarensisRibosomal protein S1e
5Ae30S ribosomal protein S4polymer18021240.61UniProt (Q5JJF2)
Pfam (PF01479)
In PDB		Thermococcus kodakarensis
6Af30S ribosomal protein S4epolymer24327820.61UniProt (Q5JJG0)
Pfam (PF08071)
Pfam (PF01479)
Pfam (PF00900)
In PDB		Thermococcus kodakarensis
7Ag30S ribosomal protein S5polymer23526372.61UniProt (Q5JJG8)
Pfam (PF00333)
Pfam (PF03719)
In PDB		Thermococcus kodakarensis
8Ah30S ribosomal protein S6epolymer12513761.01UniProt (Q5JDK8)
Pfam (PF01092)
In PDB		Thermococcus kodakarensis
9Ai30S ribosomal protein S7polymer21524573.71UniProt (Q5JE04)
Pfam (PF00177)
In PDB		Thermococcus kodakarensis
10Aj30S ribosomal protein S8polymer13014602.11UniProt (Q5JJG3)
Pfam (PF00410)
In PDB		Thermococcus kodakarensis
11Ak30S ribosomal protein S8epolymer13014548.01UniProt (Q5JGF3)
Pfam (PF01201)
In PDB		Thermococcus kodakarensis
12Al30S ribosomal protein S9polymer13515358.91UniProt (Q5JJE2)
Pfam (PF00380)
In PDB		Thermococcus kodakarensis
13Am30S ribosomal protein S10polymer10211716.71UniProt (Q5JFZ5)
Pfam (PF00338)
In PDB		Thermococcus kodakarensis
14An30S ribosomal protein S11polymer14015111.21UniProt (Q5JJF3)
Pfam (PF00411)
In PDB		Thermococcus kodakarensis
15Ao30S ribosomal protein S12polymer14716488.51UniProt (Q5JE20)
Pfam (PF00164)
In PDB		Thermococcus kodakarensis
16Ap30S ribosomal protein S13polymer14917025.91UniProt (Q5JJF1)
Pfam (PF00416)
In PDB		Thermococcus kodakarensis
17Aq30S ribosomal protein S15polymer15117583.81UniProt (Q5JGJ4)
Pfam (PF08069)
Pfam (PF00312)
In PDB		Thermococcus kodakarensis
18Ar30S ribosomal protein S14 type Zpolymer566634.11UniProt (Q5JJG2)
Pfam (PF00253)
In PDB		Thermococcus kodakarensis
19As30S ribosomal protein S17polymer11413219.41UniProt (Q5JDH9)
Pfam (PF00366)
In PDB		Thermococcus kodakarensis
20At, Bm30S ribosomal protein S17epolymer678036.42UniProt (Q5JDC7)
Pfam (PF00833)
In PDB		Thermococcus kodakarensis
21Au30S ribosomal protein S19polymer13315453.41UniProt (Q5JDH3)
Pfam (PF00203)
In PDB		Thermococcus kodakarensis
22Av30S ribosomal protein S19epolymer15017304.01UniProt (Q5JGN5)
Pfam (PF01090)
In PDB		Thermococcus kodakarensis
23Aw, Bn30S ribosomal protein S24epolymer9811458.12UniProt (Q5JIY8)
Pfam (PF01282)
In PDB		Thermococcus kodakarensis
24Ax30S ribosomal protein S27epolymer657085.51UniProt (Q5JE50)
Pfam (PF01667)
In PDB		Thermococcus kodakarensis
25Ay30S ribosomal protein S28epolymer707971.21UniProt (Q5JGR4)
Pfam (PF01200)
In PDB		Thermococcus kodakarensis
26AzPredicted zinc-ribbon RNA-binding protein involved in translationpolymer627001.21UniProt (Q5JFE2)
Pfam (PF07754)
In PDB		Thermococcus kodakarensis
27BA23S ribosomal RNApolymer3037987981.41Thermococcus kodakarensis
28BB5S ribosomal RNApolymer12640744.31GenBank (57158259)Thermococcus kodakarensis
29BC50S ribosomal protein L2polymer23926092.41UniProt (Q5JDH2)
Pfam (PF00181)
Pfam (PF03947)
In PDB		Thermococcus kodakarensis
30BD50S ribosomal protein L3polymer34639118.61UniProt (Q5JDJ0)
Pfam (PF00297)
In PDB		Thermococcus kodakarensis
31BE50S ribosomal protein L4polymer25528768.61UniProt (Q5JDI0)
Pfam (PF00573)
In PDB		Thermococcus kodakarensis
32BF50S ribosomal protein L5polymer18321027.61UniProt (Q5JJG1)
Pfam (PF00281)
Pfam (PF00673)
In PDB		Thermococcus kodakarensis
33BG50S ribosomal protein L6polymer18420888.31UniProt (Q5JJG4)
Pfam (PF00347)
In PDB		Thermococcus kodakarensis
34BH, BI50S ribosomal protein L7Aepolymer12313454.62UniProt (Q5JGR3)
Pfam (PF01248)
In PDB		Thermococcus kodakarensisRibosomal protein L8e
35BJ50S ribosomal protein L10epolymer18221116.61UniProt (Q5JDI6)
Pfam (PF00252)
In PDB		Thermococcus kodakarensis
36BK50S ribosomal protein L13polymer14216316.21UniProt (Q5JJF6)
Pfam (PF00572)
In PDB		Thermococcus kodakarensis
37BL50S ribosomal protein L14polymer14115181.91UniProt (Q5JJF8)
Pfam (PF00238)
In PDB		Thermococcus kodakarensis
38BM, BN50S ribosomal protein L14epolymer838968.52UniProt (Q5JJE4)
In PDB		Thermococcus kodakarensis
39BO50S ribosomal protein L15polymer14816571.41UniProt (Q5JJH0)
Pfam (PF00828)
In PDB		Thermococcus kodakarensis
40BP50S ribosomal protein L15epolymer19422607.91UniProt (Q5JH43)
Pfam (PF00827)
In PDB		Thermococcus kodakarensis
41BQ50S ribosomal protein L18polymer20122895.41UniProt (Q5JJG7)
Pfam (PF17144)
In PDB		Thermococcus kodakarensis
42BR50S ribosomal protein L18epolymer12113799.21UniProt (Q5JJF5)
Pfam (PF17135)
In PDB		Thermococcus kodakarensis
43BS50S ribosomal protein L19epolymer15017667.21UniProt (Q5JJG6)
Pfam (PF01280)
In PDB		Thermococcus kodakarensis
44BT50S ribosomal protein L18Aepolymer779227.71UniProt (Q5JGT3)
Pfam (PF01775)
In PDB		Thermococcus kodakarensis50S ribosomal protein L20e,50S ribosomal protein LX
45BU50S ribosomal protein L21epolymer9811290.31UniProt (Q5JI51)
Pfam (PF01157)
In PDB		Thermococcus kodakarensis
46BV50S ribosomal protein L22polymer15617838.81UniProt (Q5JDH4)
Pfam (PF00237)
In PDB		Thermococcus kodakarensis
47BW50S ribosomal protein L23polymer869915.81UniProt (Q5JDH1)
Pfam (PF00276)
In PDB		Thermococcus kodakarensis
48BX50S ribosomal protein L24polymer12114225.81UniProt (Q5JJF9)
Pfam (PF16906)
Pfam (PF00467)
In PDB		Thermococcus kodakarensis
49BY50S ribosomal protein L24epolymer678111.61UniProt (Q5JGR5)
Pfam (PF01246)
In PDB		Thermococcus kodakarensis
50BZ50S ribosomal protein L29polymer667937.51UniProt (Q5JDH6)
Pfam (PF00831)
In PDB		Thermococcus kodakarensis
51Ba50S ribosomal protein L30polymer15517856.21UniProt (Q5JJG9)
Pfam (PF00327)
In PDB		Thermococcus kodakarensis
52Bb50S ribosomal protein L30epolymer10210972.81UniProt (Q5JE35)
Pfam (PF01248)
In PDB		Thermococcus kodakarensis
53Bc50S ribosomal protein L31epolymer9010354.31UniProt (Q5JGT5)
Pfam (PF01198)
In PDB		Thermococcus kodakarensis
54Bd50S ribosomal protein L32epolymer12514654.51UniProt (Q5JJG5)
Pfam (PF01655)
In PDB		Thermococcus kodakarensis
55Be50S ribosomal protein L34epolymer9010558.81UniProt (Q5JJF7)
Pfam (PF01199)
In PDB		Thermococcus kodakarensis
56BfRibosomal protein eL35Apolymer10111064.91Thermococcus kodakarensis
57Bg50S ribosomal protein L37Aepolymer869240.01UniProt (Q5JDM6)
Pfam (PF01780)
In PDB		Thermococcus kodakarensisRibosomal protein L43e
58Bh50S ribosomal protein L37epolymer637470.91UniProt (Q5JIE1)
Pfam (PF01907)
In PDB		Thermococcus kodakarensis
59Bi50S ribosomal protein L39epolymer516262.71UniProt (Q5JGT6)
Pfam (PF00832)
In PDB		Thermococcus kodakarensis
60Bj50S ribosomal protein L40epolymer515782.01UniProt (Q5JJD3)
In PDB		Thermococcus kodakarensis
61BkLSU ribosomal protein L41Epolymer375051.41UniProt (Q5JEV0)
In PDB		Thermococcus kodakarensis
62Bl50S ribosomal protein L44epolymer9411204.41UniProt (Q5JE51)
Pfam (PF00935)
In PDB		Thermococcus kodakarensis
63BoNucleic acid-binding protein, containing C2H2 zinc-fingerpolymer475485.61UniProt (Q5JFH3)
Pfam (PF00096)
In PDB		Thermococcus kodakarensis
64BpPredicted exosome subunit, UPF0023 familypolymer23626873.11UniProt (Q5JIV0)
Pfam (PF01172)
Pfam (PF09377)
Pfam (PF20268)
In PDB		Thermococcus kodakarensis
65BqUnknown ribosomal proteinpolymer342434.71Thermococcus kodakarensis
66Bg, Bh, Bj, Bl, Bo...ZINC IONnon-polymer65.414Chemie (ZN)
67waterwater18.03556Chemie (HOH)
Sequence modifications
Ax: 1 - 65 (UniProt: Q5JE50)
PDBExternal DatabaseDetails
Glu 64Leu 64conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains69
Total formula weight2496188.5
Non-Polymers*Number of molecules14
Total formula weight915.7
All*Total formula weight2497104.2
*Water molecules are not included.

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PDB entries from 2024-04-17

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