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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

1N8R

Structure of large ribosomal subunit in complex with virginiamycin M

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1A
(A)		23S ribosomal RNApolymer2922946034.41GenBank (3377779)Haloarcula marismortui
2B
(B)		5S ribosomal RNApolymer12239318.41GenBank (3377779)Haloarcula marismortui
3C
(C)		50S ribosomal protein L2Ppolymer23925237.51UniProt (P20276)
Pfam (PF00181)
Pfam (PF03947)		Haloarcula marismortuiHmal2, HL4
4D
(D)		50S ribosomal protein L3Ppolymer33737265.21UniProt (P20279)
Pfam (PF00297)		Haloarcula marismortuiHmal3, HL1
5E
(E)		50S ribosomal protein L4Epolymer24626442.11UniProt (P12735)
Pfam (PF00573)		Haloarcula marismortuiHmal4, HL6
6F
(F)		50S ribosomal protein L5Ppolymer17619420.51UniProt (P14124)
Pfam (PF00673)
Pfam (PF00281)		Haloarcula marismortuiHmal5, HL13
7G
(G)		50S ribosomal protein L6Ppolymer17719830.51UniProt (P14135)
Pfam (PF00347)		Haloarcula marismortuiHmal6, HL10
8H
(H)		50S ribosomal protein L7Aepolymer11912600.81UniProt (P12743)
Pfam (PF01248)		Haloarcula marismortuiHS6
9I
(I)		Acidic ribosomal protein P0 homologpolymer34837213.81UniProt (P15825)
Pfam (PF00466)
Pfam (PF17777)		Haloarcula marismortuiL10E, HMaL10
10J
(J)		50S ribosomal protein L10epolymer16718022.51Pfam (PF00252)
UniProt (by SIFTS) (P60617)		Haloarcula marismortui
11K
(K)		50S ribosomal protein L13Ppolymer14516249.21UniProt (P29198)
Pfam (PF00572)		Haloarcula marismortuiHmal13
12L
(L)		50S ribosomal protein L14Ppolymer13214216.21UniProt (P22450)
Pfam (PF00238)		Haloarcula marismortuiHmal14, HL27
13M
(M)		50S ribosomal protein L15Ppolymer16417874.21UniProt (P12737)
Pfam (PF00828)		Haloarcula marismortuiHmal15, HL9
14N
(N)		50S ribosomal protein L15Epolymer19422856.61Pfam (PF00827)
UniProt (by SIFTS) (P60618)		Haloarcula marismortui
15O
(O)		50S ribosomal protein L18Ppolymer18620509.71UniProt (P14123)
Pfam (PF17144)		Haloarcula marismortuiHmal18, HL12
16P
(P)		50S ribosomal protein L18Epolymer11512307.71UniProt (P12733)
Pfam (PF00828)		Haloarcula marismortuiHL29, L19
17Q
(Q)		50S ribosomal protein L19Epolymer14816631.31UniProt (P14119)
Pfam (PF01280)
Pfam (PF25476)		Haloarcula marismortuiHmal19, HL24
18R
(R)		50S ribosomal protein L21epolymer9510436.61UniProt (P12734)
Pfam (PF01157)		Haloarcula marismortuiHL31
19S
(S)		50S ribosomal protein L22Ppolymer15416835.71UniProt (P10970)
Pfam (PF00237)		Haloarcula marismortuiHmal22, HL23
20T
(T)		50S ribosomal protein L23Ppolymer849481.31UniProt (P12732)
Pfam (PF00276)		Haloarcula marismortuiHmal23, HL25, L21
21U
(U)		50S ribosomal protein L24Ppolymer11913539.81UniProt (P10972)
Pfam (PF16906)
Pfam (PF00467)		Haloarcula marismortuiHmal24, HL16, HL15
22V
(V)		50S ribosomal protein L24Epolymer667233.71UniProt (P14116)
Pfam (PF01246)		Haloarcula marismortuiHL21/HL22
23W
(W)		50S ribosomal protein L29Ppolymer707758.71UniProt (P10971)
Pfam (PF00831)		Haloarcula marismortuiHmal29, HL33
24X
(X)		50S ribosomal protein L30Ppolymer15417062.91UniProt (P14121)
Pfam (PF00327)		Haloarcula marismortuiHmal30, HL20, HL16
25Y
(Y)		50S ribosomal protein L31Epolymer9110253.41UniProt (P18138)
Pfam (PF01198)		Haloarcula marismortuiL34, HL30
26Z
(Z)		50S ribosomal protein L32Epolymer24026324.51UniProt (P12736)
Pfam (PF14520)
Pfam (PF01655)		Haloarcula marismortuiHL5
27AA
(1)		50S ribosomal protein L37AEpolymer738097.81Pfam (PF01780)
UniProt (by SIFTS) (P60619)		Haloarcula marismortui
28BA
(2)		50S ribosomal protein L37epolymer566199.01UniProt (P32410)
Pfam (PF01907)		Haloarcula marismortuiL35e
29CA
(3)		50S ribosomal protein L39epolymer485844.71UniProt (P22452)
Pfam (PF00832)		Haloarcula marismortuiHL39e, HL46e
30DA
(4)		50S ribosomal protein L44Epolymer9210815.21UniProt (P32411)
Pfam (PF00935)		Haloarcula marismortuiLA, HLA
31EA
(A)		VIRGINIAMYCIN M1non-polymer525.61Chemie (VIR)
PubChem (23305545)
PubChem (23638084)
PubChem (16220095)
PubChem (21943995)
PubChem (23834963)
PubChem (45115154)
PubChem (3000636)
PubChem (46936184)
PubChem (91170822)
PubChem (92043180)
PubChem (51340270)
PubChem (124170679)
PubChem (138107094)
PubChem (171369731)
PubChem (90661110)
PubChem (122362102)
PubChem (5674)
PubChem (123721575)
PubChem (443111)
PubChem (5354042)
PubChem (5459318)
PubChem (5459319)
PubChem (124918852)
PubChem (124918853)
PubChem (124918854)
PubChem (6474110)
PubChem (127243391)
PubChem (129627461)
PubChem (12314510)
PubChem (155900335)
PubChem (158016457)
PubChem (163082139)
PubChem (163082140)
PubChem (163082141)
PubChem (163082142)
PubChem (163185109)
PubChem (163187566)
PubChem (168311940)
PubChem (168318668)
PubChem (168354945)
PubChem (171316548)
PubChem (171369727)
PubChem (171699258)
PubChem (171699619)
PubChem (172005858)
PubChem (173081582)
PubChem (173467003)
PubChem (173788141)
PubChem (173891971)
PubChem (175666960)
32AB, AC, AD, AE, BB...
(A, L, B, C, U...)		MAGNESIUM IONnon-polymer24.3117Chemie (MG)
PubChem (888)
33KE
(A)		POTASSIUM IONnon-polymer39.11Chemie (K)
PubChem (813)
34AF, AG, AH, BF, BG...
(A, M, N, R, S...)		SODIUM IONnon-polymer23.086Chemie (NA)
PubChem (923)
35AI, BI, BJ, DI, EH...
(K, 4, L, A, M...)		CHLORIDE IONnon-polymer35.522Chemie (CL)
PubChem (312)
36AJ, JI, SI, WI, XI
(4, P, V, 1, 2)		CADMIUM IONnon-polymer112.45Chemie (CD)
PubChem (31193)
37AK, BK, CJ, CK, DJ...
(Y, Z, A, 1, B...)		waterwater18.07882Chemie (HOH)
Sequence modifications
D: 1 - 337 (UniProt: P20279)
PDBExternal DatabaseDetails
-Pro 310deletion
Arg 310Phe 311conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains30
Total formula weight1451914.1
Non-Polymers*Number of molecules232
Total formula weight6727.5
All*Total formula weight1458641.7
*Water molecules are not included.

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PDB entries from 2026-05-20

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