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5JVG

The large ribosomal subunit from Deinococcus radiodurans in complex with avilamycin

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1X23S ribosomal RNApolymer2877932472.51GenBank (1026245073)Deinococcus radiodurans R1
2Y5S ribosomal RNApolymer12439911.91GenBank (11612676)Deinococcus radiodurans R1
3A50S ribosomal protein L2polymer27530107.81UniProt (Q9RXJ9)
Pfam (PF00181)
Pfam (PF03947)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
4B50S ribosomal protein L3polymer21122477.21UniProt (Q9RXK2)
Pfam (PF00297)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
5C50S ribosomal protein L4polymer20522308.21UniProt (Q9RXK1)
Pfam (PF00573)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
6D50S ribosomal protein L5polymer18020379.91UniProt (Q9RXJ0)
Pfam (PF00281)
Pfam (PF00673)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
7E50S ribosomal protein L6polymer18519613.61UniProt (Q9RSL3)
Pfam (PF00347)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
8F50S ribosomal protein L11polymer14414889.21UniProt (Q9RSS7)
Pfam (PF03946)
Pfam (PF00298)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
9G50S ribosomal protein L13polymer17419223.21UniProt (Q9RXY1)
Pfam (PF00572)
In PDB
Deinococcus radiodurans
10H50S ribosomal protein L14polymer13414256.51UniProt (Q9RXJ2)
Pfam (PF00238)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
11I50S ribosomal protein L15polymer15616894.21UniProt (Q9RSK9)
Pfam (PF00828)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
12J50S ribosomal protein L16polymer14116126.01UniProt (Q9RXJ5)
Pfam (PF00252)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
13K50S ribosomal protein L17polymer11612926.11UniProt (Q9RSJ5)
Pfam (PF01196)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
14L50S ribosomal protein L18polymer11412163.91UniProt (Q9RSL2)
Pfam (PF00861)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
15M50S ribosomal protein L19polymer16618347.81UniProt (Q9RWB4)
Pfam (PF01245)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
16N50S ribosomal protein L20polymer11813991.31UniProt (Q9RSW7)
Pfam (PF00453)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
17O50S ribosomal protein L21polymer10011165.71UniProt (Q9RY64)
Pfam (PF00829)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
18P50S ribosomal protein L22polymer13415190.91UniProt (Q9RXJ7)
Pfam (PF00237)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
19Q50S ribosomal protein L23polymer9510539.21UniProt (Q9RXK0)
Pfam (PF00276)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
20R50S ribosomal protein L24polymer11512384.41UniProt (Q9RXJ1)
Pfam (PF00467)
Pfam (PF17136)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
21S50S ribosomal protein L25polymer23725415.41UniProt (Q9RX88)
Pfam (PF01386)
Pfam (PF14693)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)General stress protein CTC
22T50S ribosomal protein L27polymer919609.11UniProt (Q9RY65)
Pfam (PF01016)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
23U50S ribosomal protein L28polymer818982.61UniProt (Q9RRG8)
Pfam (PF00830)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
24V50S ribosomal protein L29polymer677775.01UniProt (Q9RXJ4)
Pfam (PF00831)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
25W50S ribosomal protein L30polymer556079.21UniProt (Q9RSL0)
Pfam (PF00327)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
26Z50S ribosomal protein L32polymer606810.01UniProt (P49228)
Pfam (PF01783)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
27150S ribosomal protein L33polymer556374.51UniProt (Q9RSS4)
Pfam (PF00471)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
28250S ribosomal protein L34polymer475626.61UniProt (Q9RSH2)
Pfam (PF00468)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
29350S ribosomal protein L35polymer667448.11UniProt (Q9RSW6)
Pfam (PF01632)
In PDB
Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)
30XAvilamycinnon-polymer1404.21Chemie (6NO)
31X, Y, A, J, K...MAGNESIUM IONnon-polymer24.3446Chemie (MG)
32X(4S)-2-METHYL-2,4-PENTANEDIOLnon-polymer118.25Chemie (MPD)
33XSPERMIDINEnon-polymer145.23Chemie (SPD)
Sequence modifications
X: 1 - 2877 (GenBank: 1026245073)
PDBExternal DatabaseDetails
U 1526C 140011conflict
A 1890G 140375conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains29
Total formula weight1359490.0
Non-Polymers*Number of molecules455
Total formula weight13270.9
All*Total formula weight1372760.8
*Water molecules are not included.

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PDB entries from 2024-07-17

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