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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

4D61

Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1118S RRNApolymer1869602776.91ORYCTOLAGUS CUNICULUS (RABBIT)
2A40S RIBOSOMAL PROTEIN SApolymer29532883.91Pfam (PF00318)
Pfam (PF16122)
UniProt (by SIFTS) (G1TLT8)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US2,37 KDA LAMININ RECEPTOR PRECURSOR, 37LRP, 37/67 KDA LAMININ RECEPTOR, LRP/LR, 67 KDA LAMININ RECEPTOR, 67LR, COLON CARCINOMA LAMININ-BINDING PROTEIN, LAMININ RECEPTOR 1, LAMR, LAMININ-BINDING PROTEIN PRECURSOR P40, LBP/P40, MULTIDRUG RESISTANCE-ASSOCIATED PROTEIN MGR1-AG, NEM/1CHD4
3B40S RIBOSOMAL PROTEIN S3Apolymer26430002.11Pfam (PF01015)
UniProt (by SIFTS) (G1SS70)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES1, V-FOS TRANSFORMATION EFFECTOR PROTEIN, FTE-1
4C40S RIBOSOMAL PROTEIN S2polymer29331376.51Pfam (PF00333)
Pfam (PF03719)
UniProt (by SIFTS) (G1SWM1)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US5, PROTEIN LLREP3
5D40S RIBOSOMAL PROTEIN S3polymer24326729.41Pfam (PF07650)
Pfam (PF00189)
UniProt (by SIFTS) (G1TNM3)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US3
6E40S RIBOSOMAL PROTEIN S4, Y ISOFORM 1polymer26329512.81Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
Pfam (PF08071)
UniProt (by SIFTS) (G1TK17)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES4
7F40S RIBOSOMAL PROTEIN S5polymer20422913.51Pfam (PF00177)
UniProt (by SIFTS) (G1TFM5)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US7
8G40S RIBOSOMAL PROTEIN S6polymer24928751.91Pfam (PF01092)
UniProt (by SIFTS) (G1TM55)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES6, PHOSPHOPROTEIN NP33
9H40S RIBOSOMAL PROTEIN S7polymer19422168.91UniProt (by SIFTS) (G1SVB0)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES7
10I40S RIBOSOMAL PROTEIN S8polymer20824263.41Pfam (PF01201)
UniProt (by SIFTS) (G1TJW1)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES8
11J40S RIBOSOMAL PROTEIN S9polymer19422641.61Pfam (PF00163)
Pfam (PF01479)
UniProt (by SIFTS) (B7NZS8)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US4
12K40S RIBOSOMAL PROTEIN S10polymer16518933.81Pfam (PF03501)
UniProt (by SIFTS) (G1T168)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES10
13L40S RIBOSOMAL PROTEIN S11polymer15818468.81Pfam (PF16205)
Pfam (PF00366)
UniProt (by SIFTS) (G1TRM4)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US17
14M40S RIBOSOMAL PROTEIN S12polymer13214539.01Pfam (PF01248)
UniProt (by SIFTS) (G1SFR8)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES12
15N40S RIBOSOMAL PROTEIN S13polymer15117259.41Pfam (PF08069)
Pfam (PF00312)
UniProt (by SIFTS) (G1SP51)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US15
16O40S RIBOSOMAL PROTEIN S14polymer15116302.81Pfam (PF00411)
UniProt (by SIFTS) (G1T1F0)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US11
17P40S RIBOSOMAL PROTEIN S15polymer14517076.21Pfam (PF00203)
UniProt (by SIFTS) (G1U0Q2)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US19, RIG PROTEIN
18Q40S RIBOSOMAL PROTEIN S16polymer14616477.41Pfam (PF00380)
UniProt (by SIFTS) (G1SGX4)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US9
19R40S RIBOSOMAL PROTEIN S17polymer13515578.21Pfam (PF00833)
UniProt (by SIFTS) (G1TU13)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES17
20S40S RIBOSOMAL PROTEIN S18polymer15217759.81Pfam (PF00416)
UniProt (by SIFTS) (G1TPG3)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US13, KE-3, KE3
21T40S RIBOSOMAL PROTEIN S19polymer14516091.61Pfam (PF01090)
UniProt (by SIFTS) (G1TN62)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES19
22U40S RIBOSOMAL PROTEIN S20polymer11913398.81Pfam (PF00338)
UniProt (by SIFTS) (G1SIZ2)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US10
23V40S RIBOSOMAL PROTEIN S21polymer839124.41Pfam (PF01249)
UniProt (by SIFTS) (G1TM82)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES21
24W40S RIBOSOMAL PROTEIN S15Apolymer13014865.61Pfam (PF00410)
UniProt (by SIFTS) (G1TG89)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US8
25X40S RIBOSOMAL PROTEIN S23polymer14315844.71Pfam (PF00164)
UniProt (by SIFTS) (G1SZ47)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US12
26Y40S RIBOSOMAL PROTEIN S24polymer13315463.31Pfam (PF01282)
UniProt (by SIFTS) (G1TS40)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES24
27Z40S RIBOSOMAL PROTEIN S25polymer12513776.21Pfam (PF03297)
UniProt (by SIFTS) (G1TDB3)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES25
28a40S RIBOSOMAL PROTEIN S26polymer11513047.51Pfam (PF01283)
UniProt (by SIFTS) (G1TFE8)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES26
29b40S RIBOSOMAL PROTEIN S27polymer849480.21Pfam (PF01667)
UniProt (by SIFTS) (G1TZ76)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES27, METALLOPAN-STIMULIN 1, MPS-1
30c40S RIBOSOMAL PROTEIN S28polymer697855.11Pfam (PF01200)
UniProt (by SIFTS) (G1TIB4)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES28
31d40S RIBOSOMAL PROTEIN S29polymer566690.81Pfam (PF00253)
UniProt (by SIFTS) (G1U7M4)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN US14
32e40S RIBOSOMAL PROTEIN S30polymer596668.91Pfam (PF04758)
UniProt (by SIFTS) (G1T8A2)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES30
33fUBIQUITIN-40S RIBOSOMAL PROTEIN S27Apolymer15618004.01Pfam (PF00240)
Pfam (PF01599)
UniProt (by SIFTS) (G1SK22)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)40S RIBOSOMAL PROTEIN ES31, UBIQUITIN CARBOXYL EXTENSION PROTEIN 80
34gGUANINE NUCLEOTIDE-BINDING PROTEIN SUBUNIT BETA-2-LIKE 1polymer31735115.71Pfam (PF00400)
UniProt (by SIFTS) (G1SJB4)
In PDB		ORYCTOLAGUS CUNICULUS (RABBIT)CELL PROLIFERATION-INDUCING GENE 21 PROTEIN, GUANINE NUCLEO TIDE-BINDING PROTEIN SUBUNIT BETA-LIKE PROTEIN 12.3, HUMAN LUNG CA NCER ONCOGENE 7 PROTEIN, HLC-7, RECEPTOR FOR ACTIVATED C KINASE, R ECEPTOR OF ACTIVATED PROTEIN KINASE C 1, RACK1
35hEUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1polymer43649040.71UniProt (P62495)
Pfam (PF03463)
Pfam (PF03464)
Pfam (PF03465)
In PDB		HOMO SAPIENS (HUMAN)EUKARYOTIC RELEASE FACTOR 1, ERF1, PROTEIN CL1, TB3-1,
36iEUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR GTP-BINDING SUBUNIT ERF3Apolymer42647888.21UniProt (P15170)
Pfam (PF00009)
Pfam (PF03144)
Pfam (PF22594)
In PDB		HOMO SAPIENS (HUMAN)EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 3A, ERF3A, G1 TO S PHASE TRANSITION PROTEIN 1 HOMOLOG
37jCRICKET PARALYSIS VIRUS IRES RNApolymer20164363.91GenBank (AF218039)CRICKET PARALYSIS VIRUS
Sequence modifications
h: 5 - 437 (UniProt: P62495)
PDBExternal DatabaseDetails
Leu 438-expression tag
Glu 439-expression tag
His 440-expression tag
j: 6030 - 6216 (GenBank: AF218039)
j: 6217 - 6230 (PDB: 4D61)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains37
Total formula weight1383135.7
All*Total formula weight1383135.7
*Water molecules are not included.

225158

PDB entries from 2024-09-18

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