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PDBsum entry 4v7f
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protein dna_rna Protein-protein interface(s) links
Ribosome PDB id
4v7f

 

 

 

 

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JSmol PyMol  
Contents
Protein chains
217 a.a.
252 a.a.
386 a.a.
361 a.a.
169 a.a.
191 a.a.
175 a.a.
233 a.a.
127 a.a.
197 a.a.
193 a.a.
136 a.a.
136 a.a.
148 a.a.
203 a.a.
269 a.a.
185 a.a.
188 a.a.
172 a.a.
159 a.a.
183 a.a.
100 a.a.
121 a.a.
126 a.a.
135 a.a.
119 a.a.
222 a.a.
97 a.a.
109 a.a.
127 a.a.
106 a.a.
112 a.a.
99 a.a.
87 a.a.
77 a.a.
50 a.a.
91 a.a.
380 a.a.
224 a.a.
236 a.a.
347 a.a.
63 a.a.
443 a.a.
322 a.a.
DNA/RNA
PDB id:
4v7f
Name: Ribosome
Title: Arx1 pre-60s particle.
Structure: 25s ribosomal RNA. Chain: 1. 5.8s ribosomal RNA. Chain: 2. 5s ribosomal RNA. Chain: 3. 60s ribosomal protein l1. Chain: a. Synonym: l10a.
Source: Saccharomyces cerevisiae. Yeast. Organism_taxid: 4932. Organism_taxid: 4932
Authors: C.Leidig,M.Thoms,I.Holdermann,B.Bradatsch,O.Berninghausen,G.Bange, I.Sinning,E.Hurt,R.Beckmann
Key ref: C.Leidig et al. (2014). 60S ribosome biogenesis requires rotation of the 5S ribonucleoprotein particle. Nat Commun, 5, 3491. PubMed id: 24662372 DOI: 10.1038/ncomms4491
Date:
10-Dec-13     Release date:   09-Jul-14    
Supersedes: 3j66
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P0CX43  (RL1A_YEAST) -  Large ribosomal subunit protein uL1A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		217 a.a.
217 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX45  (RL2A_YEAST) -  Large ribosomal subunit protein uL2A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		254 a.a.
252 a.a.
Protein chain
Pfam   ArchSchema ?
P14126  (RL3_YEAST) -  Large ribosomal subunit protein uL3 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		387 a.a.
386 a.a.
Protein chain
Pfam   ArchSchema ?
P10664  (RL4A_YEAST) -  Large ribosomal subunit protein uL4A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		362 a.a.
361 a.a.
Protein chain
Pfam   ArchSchema ?
P0C0W9  (RL11A_YEAST) -  Large ribosomal subunit protein uL5A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		174 a.a.
169 a.a.
Protein chain
Pfam   ArchSchema ?
P05738  (RL9A_YEAST) -  Large ribosomal subunit protein uL6A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		191 a.a.
191 a.a.
Protein chain
Pfam   ArchSchema ?
Q02326  (RL6A_YEAST) -  Large ribosomal subunit protein eL6A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		176 a.a.
175 a.a.
Protein chain
Pfam   ArchSchema ?
P17076  (RL8A_YEAST) -  Large ribosomal subunit protein eL8A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		256 a.a.
233 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX53  (RL12A_YEAST) -  Large ribosomal subunit protein uL11A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		165 a.a.
127 a.a.
Protein chain
Pfam   ArchSchema ?
P26784  (RL16A_YEAST) -  Large ribosomal subunit protein uL13A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		199 a.a.
197 a.a.
Protein chain
Pfam   ArchSchema ?
Q12690  (RL13A_YEAST) -  Large ribosomal subunit protein eL13A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		199 a.a.
193 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX41  (RL23A_YEAST) -  Large ribosomal subunit protein uL14A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		137 a.a.
136 a.a.
Protein chain
Pfam   ArchSchema ?
P36105  (RL14A_YEAST) -  Large ribosomal subunit protein eL14A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		138 a.a.
136 a.a.
Protein chain
Pfam   ArchSchema ?
P02406  (RL28_YEAST) -  Large ribosomal subunit protein uL15 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		149 a.a.
148 a.a.
Protein chain
Pfam   ArchSchema ?
P05748  (RL15A_YEAST) -  Large ribosomal subunit protein eL15A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		204 a.a.
203 a.a.
Protein chain
Pfam   ArchSchema ?
P26321  (RL5_YEAST) -  Large ribosomal subunit protein uL18 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		297 a.a.
269 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX49  (RL18A_YEAST) -  Large ribosomal subunit protein eL18A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		186 a.a.
185 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX82  (RL19A_YEAST) -  Large ribosomal subunit protein eL19A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		189 a.a.
188 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX23  (RL20A_YEAST) -  Large ribosomal subunit protein eL20A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		172 a.a.
172 a.a.
Protein chain
Pfam   ArchSchema ?
Q02753  (RL21A_YEAST) -  Large ribosomal subunit protein eL21A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		160 a.a.
159 a.a.
Protein chain
Pfam   ArchSchema ?
P05740  (RL17A_YEAST) -  Large ribosomal subunit protein uL22A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		184 a.a.
183 a.a.
Protein chain
Pfam   ArchSchema ?
P05749  (RL22A_YEAST) -  Large ribosomal subunit protein eL22A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		121 a.a.
100 a.a.
Protein chain
Pfam   ArchSchema ?
P04456  (RL25_YEAST) -  Large ribosomal subunit protein uL23 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		142 a.a.
121 a.a.
Protein chain
Pfam   ArchSchema ?
P05743  (RL26A_YEAST) -  Large ribosomal subunit protein uL24A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		127 a.a.
126 a.a.
Protein chain
Pfam   ArchSchema ?
P0C2H6  (RL27A_YEAST) -  Large ribosomal subunit protein eL27A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		136 a.a.
135 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX84  (RL35A_YEAST) -  Large ribosomal subunit protein uL29A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		120 a.a.
119 a.a.
Protein chain
Pfam   ArchSchema ?
P05737  (RL7A_YEAST) -  Large ribosomal subunit protein uL30A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		244 a.a.
222 a.a.
Protein chain
Pfam   ArchSchema ?
P14120  (RL30_YEAST) -  Large ribosomal subunit protein eL30 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		105 a.a.
97 a.a.
Protein chain
Pfam   ArchSchema ?
P0C2H8  (RL31A_YEAST) -  Large ribosomal subunit protein eL31A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		113 a.a.
109 a.a.
Protein chain
Pfam   ArchSchema ?
P38061  (RL32_YEAST) -  Large ribosomal subunit protein eL32 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		130 a.a.
127 a.a.
Protein chain
Pfam   ArchSchema ?
P05744  (RL33A_YEAST) -  Large ribosomal subunit protein eL33A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		107 a.a.
106 a.a.
Protein chain
Pfam   ArchSchema ?
P87262  (RL34A_YEAST) -  Large ribosomal subunit protein eL34A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		121 a.a.
112 a.a.
Protein chain
Pfam   ArchSchema ?
P05745  (RL36A_YEAST) -  Large ribosomal subunit protein eL36A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		100 a.a.
99 a.a.
Protein chain
Pfam   ArchSchema ?
P49166  (RL37A_YEAST) -  Large ribosomal subunit protein eL37A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		88 a.a.
87 a.a.
Protein chain
Pfam   ArchSchema ?
P49167  (RL38_YEAST) -  Large ribosomal subunit protein eL38 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		78 a.a.
77 a.a.
Protein chain
Pfam   ArchSchema ?
P04650  (RL39_YEAST) -  Large ribosomal subunit protein eL39 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		51 a.a.
50 a.a.
Protein chain
Pfam   ArchSchema ?
P0CX25  (RL43A_YEAST) -  Large ribosomal subunit protein eL43A from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		92 a.a.
91 a.a.
Protein chain
Pfam   ArchSchema ?
Q03862  (ARX1_YEAST) -  Probable metalloprotease ARX1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		 
Seq:
Struc: 		593 a.a.
380 a.a.
Protein chain
Pfam   ArchSchema ?
Q12522  (IF6_YEAST) -  Eukaryotic translation initiation factor 6 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		245 a.a.
224 a.a.
Protein chain
Pfam   ArchSchema ?
P33201  (MRT4_YEAST) -  Ribosome assembly factor MRT4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		236 a.a.
236 a.a.
Protein chain
Pfam   ArchSchema ?
Q02892  (NOG1_YEAST) -  Nucleolar GTP-binding protein 1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		 
Seq:
Struc: 		647 a.a.
347 a.a.
Protein chain
Pfam   ArchSchema ?
Q07915  (RLP24_YEAST) -  Ribosome biogenesis protein RLP24 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		199 a.a.
63 a.a.
Protein chain
Pfam   ArchSchema ?
P25382  (NLE1_YEAST) -  Ribosome assembly protein 4 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		515 a.a.
443 a.a.
Protein chains
Pfam   ArchSchema ?
P40693  (RLP7_YEAST) -  Ribosome biogenesis protein RLP7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Seq:
Struc: 		322 a.a.
322 a.a.
Key:    PfamA domain  Secondary structure

DNA/RNA chains
  U-U-G-A-C-C-U-C-A-A-A-U-C-A-G-G-U-A-G-G-A-G-U-A-C-C-C-G-C-U-G-A-A-C-U-U-A-A-G- ... 3394 bases
  A-A-A-C-U-U-U-C-A-A-C-A-A-C-G-G-A-U-C-U-C-U-U-G-G-U-U-C-U-C-G-C-A-U-C-G-A-U-G- 158 bases
  G-G-U-U-G-C-G-G-C-C-A-U-A-U-C-U-A-C-C-A-G-A-A-A-G-C-A-C-C-G-U-U-U-C-C-C-G-U-C- 121 bases

 Enzyme reactions 
   Enzyme class 1: Chains A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i, j, k, m, n, o, p, q, r, s: E.C.?
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
   Enzyme class 2: Chain l: E.C.3.-.-.-
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

 

 
DOI no: 10.1038/ncomms4491 Nat Commun 5:3491 (2014)
PubMed id: 24662372  
 
 
60S ribosome biogenesis requires rotation of the 5S ribonucleoprotein particle.
C.Leidig, M.Thoms, I.Holdermann, B.Bradatsch, O.Berninghausen, G.Bange, I.Sinning, E.Hurt, R.Beckmann.
 
  ABSTRACT  
 
No abstract given.

 

 

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