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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5NWY

2.9 A cryo-EM structure of VemP-stalled ribosome-nascent chain complex

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1sVemP nascent chainpolymer17920531.11UniProt (A0A0P7EF65)
In PDB		Vibrio alginolyticus
2MGln-tRNApolymer7524060.31GenBank (1207385735)Escherichia coli
3O5S rRNApolymer12038790.11GenBank (1174070234)Escherichia coli
4P50S ribosomal protein L2polymer27329923.61UniProt (P60422)
Pfam (PF00181)
Pfam (PF03947)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL2
5Q50S ribosomal protein L3polymer20922277.51UniProt (P60438)
Pfam (PF00297)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL3
6R50S ribosomal protein L4polymer20122121.61UniProt (P60723)
Pfam (PF00573)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL4
7S50S ribosomal protein L5polymer17920333.61UniProt (P62399)
Pfam (PF00281)
Pfam (PF00673)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL5
8T50S ribosomal protein L6polymer17718932.81UniProt (P0AG55)
Pfam (PF00347)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL6
9U50S ribosomal protein L9polymer14915789.01UniProt (P0A7R1)
Pfam (PF01281)
Pfam (PF03948)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL9
10V50S ribosomal protein L11polymer14214894.41UniProt (P0A7J7)
Pfam (PF03946)
Pfam (PF00298)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL11
11W50S ribosomal protein L13polymer14216050.61UniProt (P0AA10)
Pfam (PF00572)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL13
12X50S ribosomal protein L14polymer12313565.11UniProt (P0ADY3)
Pfam (PF00238)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL14
13Y50S ribosomal protein L15polymer14415008.51UniProt (P02413)
Pfam (PF00828)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL15
14Z50S ribosomal protein L16polymer13615312.31UniProt (P0ADY7)
Pfam (PF00252)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL16
15a50S ribosomal protein L17polymer12714393.71UniProt (P0AG44)
Pfam (PF01196)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL17
16b50S ribosomal protein L18polymer11712794.71UniProt (P0C018)
Pfam (PF00861)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL18
17c50S ribosomal protein L19polymer11513159.31UniProt (P0A7K6)
Pfam (PF01245)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL19
18d50S ribosomal protein L20polymer11813528.01UniProt (P0A7L3)
Pfam (PF00453)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL20
19e50S ribosomal protein L21polymer10311586.41UniProt (P0AG48)
Pfam (PF00829)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL21
20f50S ribosomal protein L22polymer11012253.41UniProt (P61175)
Pfam (PF00237)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL22
21g50S ribosomal protein L23polymer10011222.21UniProt (P0ADZ0)
Pfam (PF00276)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL23
22h50S ribosomal protein L24polymer10411339.31UniProt (P60624)
Pfam (PF00467)
Pfam (PF17136)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL24
23i50S ribosomal protein L25polymer9410713.51UniProt (P68919)
Pfam (PF01386)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL25
24j50S ribosomal protein L27polymer859146.51UniProt (P0A7L8)
Pfam (PF01016)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL27
25k50S ribosomal protein L28polymer789027.61UniProt (P0A7M2)
Pfam (PF00830)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL28
26l50S ribosomal protein L29polymer637286.51UniProt (P0A7M6)
Pfam (PF00831)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL29
27m50S ribosomal protein L30polymer596554.81UniProt (P0AG51)
Pfam (PF00327)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein uL30
28n50S ribosomal protein L32polymer576463.41UniProt (P0A7N4)
Pfam (PF01783)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL32
29o50S ribosomal protein L33polymer556388.61UniProt (P0A7N9)
Pfam (PF00471)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL33
30p50S ribosomal protein L34polymer465397.51UniProt (P0A7P5)
Pfam (PF00468)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL34
31q50S ribosomal protein L35polymer657313.01UniProt (P0A7Q1)
Pfam (PF01632)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL35,Ribosomal protein A
32r50S ribosomal protein L36polymer384377.41UniProt (P0A7Q6)
Pfam (PF00444)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL36-A,Ribosomal protein B
33N23S rRNApolymer2903941306.21GenBank (802133627)Escherichia coli K-12
34L50S ribosomal protein L31polymer707887.11UniProt (P0A7M9)
Pfam (PF01197)
In PDB		Escherichia coli (strain K12)Large ribosomal subunit protein bL31-A
35016S rRNApolymer1539498725.41GenBank (1114169151)Escherichia coli
36130S ribosomal protein S2polymer23325888.61UniProt (P0A7V0)
Pfam (PF00318)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS2
37230S ribosomal protein S3polymer23326031.31UniProt (P0A7V3)
Pfam (PF07650)
Pfam (PF00189)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS3
38330S ribosomal protein S4polymer20623514.21UniProt (P0A7V8)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS4
39430S ribosomal protein S5polymer16617500.21UniProt (P0A7W1)
Pfam (PF00333)
Pfam (PF03719)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS5
40530S ribosomal protein S6polymer13115211.11UniProt (P02358)
Pfam (PF01250)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein bS6
41630S ribosomal protein S7polymer15617637.41UniProt (P02359)
Pfam (PF00177)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS7
42730S ribosomal protein S8polymer13014146.61UniProt (P0A7W7)
Pfam (PF00410)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS8
43830S ribosomal protein S9polymer13014886.31UniProt (P0A7X3)
Pfam (PF00380)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS9
44930S ribosomal protein S10polymer10311755.61UniProt (P0A7R5)
Pfam (PF00338)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS10
45A30S ribosomal protein S11polymer12913871.01UniProt (P0A7R9)
Pfam (PF00411)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS11
46B30S ribosomal protein S12polymer12413768.21UniProt (P0A7S3)
Pfam (PF00164)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS12
47C30S ribosomal protein S13polymer11813128.51UniProt (P0A7S9)
Pfam (PF00416)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS13
48D30S ribosomal protein S14polymer10111606.61UniProt (P0AG59)
Pfam (PF00253)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS14
49E30S ribosomal protein S15polymer8910290.81UniProt (P0ADZ4)
Pfam (PF00312)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS15
50F30S ribosomal protein S16polymer829207.61UniProt (P0A7T3)
Pfam (PF00886)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein bS16
51G30S ribosomal protein S17polymer849724.51UniProt (P0AG63)
Pfam (PF00366)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS17
52H30S ribosomal protein S18polymer759005.51UniProt (P0A7T7)
Pfam (PF01084)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein bS18
53I30S ribosomal protein S19polymer9210455.41UniProt (P0A7U3)
Pfam (PF00203)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein uS19
54J30S ribosomal protein S20polymer879708.51UniProt (P0A7U7)
Pfam (PF01649)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein bS20
55K30S ribosomal protein S21polymer718524.01UniProt (P68679)
Pfam (PF01165)
In PDB		Escherichia coli (strain K12)Small ribosomal subunit protein bS21
56tmRNApolymer41240.81Vibrio alginolyticus
Sequence modifications
s: 26 - 159 (UniProt: A0A0P7EF65)
PDBExternal DatabaseDetails
Met -2-initiating methionine
His -1-expression tag
His 0-expression tag
His 1-expression tag
His 2-expression tag
His 3-expression tag
His 4-expression tag
His 5-expression tag
His 6-expression tag
His 7-expression tag
His 8-expression tag
Gly 9-expression tag
Asp 10-expression tag
Tyr 11-expression tag
Lys 12-expression tag
Asp 13-expression tag
Asp 14-expression tag
Asp 15-expression tag
Asp 16-expression tag
Lys 17-expression tag
Glu 18-expression tag
Asn 19-expression tag
Leu 20-expression tag
Tyr 21-expression tag
Phe 22-expression tag
Gln 23-expression tag
Gly 24-expression tag
Ser 25-expression tag
Gln 30His 30conflict
Ala 59Val 59conflict
Leu 160-expression tag
Glu 161-expression tag
Val 162-expression tag
Leu 163-expression tag
Phe 164-expression tag
Gln 165-expression tag
Gly 166-expression tag
Pro 167-expression tag
Tyr 168-expression tag
Pro 169-expression tag
Tyr 170-expression tag
Asp 171-expression tag
Val 172-expression tag
Pro 173-expression tag
Asp 174-expression tag
Tyr 175-expression tag
Ala 176-expression tag
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains56
Total formula weight2195557.1
All*Total formula weight2195557.1
*Water molecules are not included.

222926

PDB entries from 2024-07-24

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