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6TH6

Cryo-EM Structure of T. kodakarensis 70S ribosome

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1Aa16S ribosomal RNApolymer1498486944.81Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
2Ab30S ribosomal protein S2polymer20123039.81UniProt (Q5JJD2)
Pfam (PF00318)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
3Ac30S ribosomal protein S3polymer20923390.21UniProt (Q5JDH5)
Pfam (PF07650)
Pfam (PF00189)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
4Ad30S ribosomal protein S3Aepolymer20023064.91UniProt (Q5JGM4)
Pfam (PF01015)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)Ribosomal protein S1e
5Ae30S ribosomal protein S4polymer18021240.61UniProt (Q5JJF2)
Pfam (PF00163)
Pfam (PF01479)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
6Af30S ribosomal protein S4epolymer24327820.61UniProt (Q5JJG0)
Pfam (PF00900)
Pfam (PF08071)
Pfam (PF01479)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
7Ag30S ribosomal protein S5polymer23526372.61UniProt (Q5JJG8)
Pfam (PF00333)
Pfam (PF03719)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
8Ah30S ribosomal protein S6epolymer12513761.01UniProt (Q5JDK8)
Pfam (PF01092)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
9Ai30S ribosomal protein S7polymer21524573.71UniProt (Q5JE04)
Pfam (PF00177)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
10Aj30S ribosomal protein S8polymer13014602.11UniProt (Q5JJG3)
Pfam (PF00410)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
11Ak30S ribosomal protein S8epolymer13014548.01UniProt (Q5JGF3)
Pfam (PF01201)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
12Al30S ribosomal protein S9polymer13515358.91UniProt (Q5JJE2)
Pfam (PF00380)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
13Am30S ribosomal protein S10polymer10211716.71UniProt (Q5JFZ5)
Pfam (PF00338)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
14An30S ribosomal protein S11polymer14015111.21UniProt (Q5JJF3)
Pfam (PF00411)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
15Ao30S ribosomal protein S12polymer14716488.51UniProt (Q5JE20)
Pfam (PF00164)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
16Ap30S ribosomal protein S13polymer14917025.91UniProt (Q5JJF1)
Pfam (PF00416)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
17Aq30S ribosomal protein S15polymer15117583.81UniProt (Q5JGJ4)
Pfam (PF08069)
Pfam (PF00312)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
18Ar30S ribosomal protein S14 type Zpolymer566634.11UniProt (Q5JJG2)
Pfam (PF00253)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
19As30S ribosomal protein S17polymer11413219.41UniProt (Q5JDH9)
Pfam (PF00366)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
20At30S ribosomal protein S17epolymer678036.41UniProt (Q5JDC7)
Pfam (PF00833)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
21Au30S ribosomal protein S19polymer13315453.41UniProt (Q5JDH3)
Pfam (PF00203)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
22Av30S ribosomal protein S19epolymer15017304.01UniProt (Q5JGN5)
Pfam (PF01090)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
23Aw30S ribosomal protein S24epolymer9811458.11UniProt (Q5JIY8)
Pfam (PF01282)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
24Ax30S ribosomal protein S27epolymer657069.61UniProt (Q5JE50)
Pfam (PF01667)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
25Ay30S ribosomal protein S28epolymer707971.21UniProt (Q5JGR4)
Pfam (PF01200)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
26AzPredicted zinc-ribbon RNA-binding protein involved in translationpolymer627001.21UniProt (Q5JFE2)
Pfam (PF07754)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
27BA23S ribosomal RNApolymer3037987668.91Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
28BB5S ribosomal RNApolymer12640744.31GenBank (57158259)Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
29BC50S ribosomal protein L2polymer23926092.41UniProt (Q5JDH2)
Pfam (PF00181)
Pfam (PF03947)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
30BD50S ribosomal protein L3polymer34639118.61UniProt (Q5JDJ0)
Pfam (PF00297)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
31BE50S ribosomal protein L4polymer25528768.61UniProt (Q5JDI0)
Pfam (PF00573)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
32BF50S ribosomal protein L5polymer18321027.61UniProt (Q5JJG1)
Pfam (PF00281)
Pfam (PF00673)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
33BG50S ribosomal protein L6polymer18420888.31UniProt (Q5JJG4)
Pfam (PF00347)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
34BH, BI50S ribosomal protein L7Aepolymer12313454.62UniProt (Q5JGR3)
Pfam (PF01248)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)Ribosomal protein L8e
35BJ50S ribosomal protein L10epolymer18221116.61UniProt (Q5JDI6)
Pfam (PF00252)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
36BK50S ribosomal protein L13polymer14216316.21UniProt (Q5JJF6)
Pfam (PF00572)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
37BL50S ribosomal protein L14polymer14115181.91UniProt (Q5JJF8)
Pfam (PF00238)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
38BM, BN50S ribosomal protein L14epolymer838968.52UniProt (Q5JJE4)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
39BO50S ribosomal protein L15polymer14816571.41UniProt (Q5JJH0)
Pfam (PF00828)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
40BP50S ribosomal protein L15epolymer19422607.91UniProt (Q5JH43)
Pfam (PF00827)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
41BQ50S ribosomal protein L18polymer20122895.41UniProt (Q5JJG7)
Pfam (PF17144)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
42BR50S ribosomal protein L18epolymer12113799.21UniProt (Q5JJF5)
Pfam (PF17135)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
43BS50S ribosomal protein L19epolymer15017667.21UniProt (Q5JJG6)
Pfam (PF01280)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
44BT50S ribosomal protein L18Aepolymer779227.71UniProt (Q5JGT3)
Pfam (PF01775)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)50S ribosomal protein L20e,50S ribosomal protein LX
45BU50S ribosomal protein L21epolymer9811290.31UniProt (Q5JI51)
Pfam (PF01157)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
46BV50S ribosomal protein L22polymer15617838.81UniProt (Q5JDH4)
Pfam (PF00237)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
47BW50S ribosomal protein L23polymer869915.81UniProt (Q5JDH1)
Pfam (PF00276)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
48BX50S ribosomal protein L24polymer12114225.81UniProt (Q5JJF9)
Pfam (PF16906)
Pfam (PF00467)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
49BY50S ribosomal protein L24epolymer678111.61UniProt (Q5JGR5)
Pfam (PF01246)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
50BZ50S ribosomal protein L29polymer667937.51UniProt (Q5JDH6)
Pfam (PF00831)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
51Ba50S ribosomal protein L30polymer15517856.21UniProt (Q5JJG9)
Pfam (PF00327)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
52Bb50S ribosomal protein L30epolymer10210972.81UniProt (Q5JE35)
Pfam (PF01248)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
53Bc50S ribosomal protein L31epolymer9010354.31UniProt (Q5JGT5)
Pfam (PF01198)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
54Bd50S ribosomal protein L32epolymer12514654.51UniProt (Q5JJG5)
Pfam (PF01655)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
55Be50S ribosomal protein L34epolymer9010558.81UniProt (Q5JJF7)
Pfam (PF01199)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
56Bg50S ribosomal protein L37Aepolymer869240.01UniProt (Q5JDM6)
Pfam (PF01780)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)Ribosomal protein L43e
57Bh50S ribosomal protein L37epolymer637470.91UniProt (Q5JIE1)
Pfam (PF01907)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
58Bi50S ribosomal protein L39epolymer516262.71UniProt (Q5JGT6)
Pfam (PF00832)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
59Bj50S ribosomal protein L40epolymer515782.01UniProt (Q5JJD3)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
60BkLSU ribosomal protein L41Epolymer375051.41UniProt (Q5JEV0)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
61Bl50S ribosomal protein L44epolymer9411204.41UniProt (Q5JE51)
Pfam (PF00935)
In PDB
Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
62Ag, Ar, As, Ax, Az...ZINC IONnon-polymer65.412Chemie (ZN)
63waterwater18.02129Chemie (HOH)
Sequence modifications
Ax: 1 - 65 (UniProt: Q5JE50)
PDBExternal DatabaseDetails
Glu 64Leu 64conflict
Leu 65Glu 65conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains63
Total formula weight2430057.1
Non-Polymers*Number of molecules12
Total formula weight784.9
All*Total formula weight2430842.0
*Water molecules are not included.

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PDB entries from 2024-09-18

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