5XYM

Large subunit of Mycobacterium smegmatis


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.08 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Cryo-EM structure of Mycobacterium smegmatis ribosome reveals two unidentified ribosomal proteins close to the functional centers.

Li, Z.Ge, X.Zhang, Y.Zheng, L.Sanyal, S.Gao, N.

(2018) Protein Cell 9: 384-388


Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L32
0
57Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmFMSMEG_5489MSMEI_5337
Find proteins for A0R3I9 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R3I9

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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L4
E
215Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplDMSMEG_1437MSMEI_1401
Find proteins for A0QSD2 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD2

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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L5
F
187Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplEMSMEG_1467MSMEI_1431
Find proteins for A0QSG1 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSG1

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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L6
G
179Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplFMSMEG_1470MSMEI_1434
Find proteins for A0QSG4 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSG4

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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L9
H
151Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplIMSMEG_6894MSMEI_6710
Find proteins for A0R7F6 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R7F6

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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L13
J
147Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplMMSMEG_1556MSMEI_1519
Find proteins for A0QSP8 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSP8

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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L14
K
122Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplNMSMEG_1465MSMEI_1429
Find proteins for A0QSF9 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSF9

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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L15
L
147Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplOMSMEI_1438
Find proteins for I7G436 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  I7G436

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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L16
M
138Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplPMSMEG_1443MSMEI_1407
Find proteins for A0QSD8 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD8

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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L17
N
199Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplQMSMEG_1525MSMEI_1489
Find proteins for A0QSL9 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSL9

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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L18
O
127Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplRMSMEI_1435
Find proteins for I7FGD9 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  I7FGD9

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L33 2
1
54Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmG2MSMEG_6067MSMEI_5907
Find proteins for A0R551 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R551

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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L19
P
113Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplSMSMEG_2440MSMEI_2379
Find proteins for A0QV42 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QV42

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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L20
Q
129Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplTMSMEG_3791MSMEI_3703
Find proteins for A0QYU6 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QYU6

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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L21
R
103Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplUMSMEG_4625MSMEI_4508
Find proteins for A0R151 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R151

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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L22
S
153Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplVMSMEG_1441MSMEI_1405
Find proteins for A0QSD6 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD6

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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L23
T
100Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplWMSMEG_1438MSMEI_1402
Find proteins for A0QSD3 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD3

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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L24
U
105Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplXMSMEG_1466MSMEI_1430
Find proteins for A0QSG0 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSG0

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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L25
V
215Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplYctcMSMEI_5282
Find proteins for I7GFB2 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  I7GFB2

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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L27
W
88Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmAMSMEG_4624MSMEI_4507
Find proteins for A0R150 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R150

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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L28
X
64Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmB-3rpmBMSMEI_2340
Find proteins for I7FJ52 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  I7FJ52

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Entity ID: 29
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L29
Y
77Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmCMSMEG_1444MSMEI_1408
Find proteins for A0QSD9 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD9

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L34
2
47Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmHMSMEG_6946MSMEI_6752
Find proteins for A0R7K0 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R7K0

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Entity ID: 30
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L30
Z
61Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmDMSMEG_1473MSMEI_1437
Find proteins for A0QSG7 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSG7

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Entity ID: 31
MoleculeChainsSequence LengthOrganismDetails
Uncharacterized protein bL37
a
24Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: MSMEG_1916
Find proteins for A0QTP4 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QTP4

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L35
3
64Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmIMSMEG_3792MSMEI_3704
Find proteins for A0QYU7 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QYU7

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L36
4
37Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rpmJMSMEG_1520MSMEI_1484
Find proteins for A0QSL4 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSL4

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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L2
C
278Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplBMSMEG_1439MSMEI_1403
Find proteins for A0QSD4 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD4

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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
50S ribosomal protein L3
D
217Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Gene Names: rplCMSMEG_1436MSMEI_1400
Find proteins for A0QSD1 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0QSD1

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Entity ID: 6
MoleculeChainsLengthOrganism
23S RNAA3164Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

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Entity ID: 7
MoleculeChainsLengthOrganism
5S RNAB118Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.08 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-09-27
    Type: Initial release
  • Version 1.1: 2018-04-11
    Changes: Data collection, Database references