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PDBsum entry 3iz6

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protein Protein-protein interface(s) links
Ribosome PDB id
3iz6
Jmol
Contents
Protein chains
380 a.a. *
260 a.a. *
208 a.a. *
200 a.a. *
263 a.a. *
191 a.a. *
126 a.a. *
128 a.a. *
119 a.a. *
142 a.a. *
152 a.a. *
121 a.a. *
141 a.a. *
85 a.a. *
146 a.a. *
91 a.a. *
100 a.a. *
92 a.a. *
58 a.a. *
62 a.a. *
25 a.a. *
36 a.a. *
98 a.a. *
50 a.a. *
195 a.a. *
143 a.a. *
130 a.a. *
48 a.a. *
82 a.a. *
* Residue conservation analysis
Superseded by: 3j60
PDB id:
3iz6
Name: Ribosome
Title: Localization of the small subunit ribosomal proteins into a cryo-em map of triticum aestivum translating 80s ribosome
Structure: 40s ribosomal protein rack1 (rack1). Chain: a. 40s ribosomal protein sa (s2p). Chain: a. 40s ribosomal protein s3 (s3p). Chain: b. 40s ribosomal protein s4 (s4e). Chain: d. Synonym: scar protein ss620.
Source: Triticum aestivum. Wheat. Organism_taxid: 4565. Organism_taxid: 4565
Authors: J.-P.Armache,A.Jarasch,A.M.Anger,E.Villa,T.Becker,S.Bhushan, F.Jossinet,M.Habeck,G.Dindar,S.Franckenberg,V.Marquez,Mielk M.Thomm,O.Berninghausen,B.Beatrix,J.Soeding,E.Westhof,D.N.W R.Beckmann
Key ref: J.P.Armache et al. (2010). Localization of eukaryote-specific ribosomal proteins in a 5.5-Å cryo-EM map of the 80S eukaryotic ribosome. Proc Natl Acad Sci U S A, 107, 19754-19759. PubMed id: 20974910
Date:
30-Sep-10     Release date:   01-Dec-10    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
Q8LNY6  (Q8LNY6_WHEAT) -  G protein beta subunit
Seq:
Struc:
380 a.a.
380 a.a.
Protein chain
Pfam   ArchSchema ?
Q8H3I3  (Q8H3I3_ORYSJ) -  40S ribosomal protein SA
Seq:
Struc:
305 a.a.
260 a.a.
Protein chain
Pfam   ArchSchema ?
Q8L804  (Q8L804_WHEAT) -  Putative 40S ribosomal protein S3
Seq:
Struc:
227 a.a.
208 a.a.
Protein chain
Pfam   ArchSchema ?
P49398  (RS4_ORYSJ) -  40S ribosomal protein S4
Seq:
Struc:
265 a.a.
200 a.a.
Protein chain
Pfam   ArchSchema ?
Q84M35  (Q84M35_ORYSJ) -  40S ribosomal protein S2, putative, expressed
Seq:
Struc:
274 a.a.
263 a.a.
Protein chain
Pfam   ArchSchema ?
Q93VC6  (Q93VC6_ORYSJ) -  Os01g0100700 protein
Seq:
Struc:
200 a.a.
191 a.a.
Protein chain
Pfam   ArchSchema ?
Q0IQF7  (RS16_ORYSJ) -  40S ribosomal protein S16
Seq:
Struc:
149 a.a.
126 a.a.
Protein chain
Pfam   ArchSchema ?
P35686  (RS20_ORYSJ) -  40S ribosomal protein S20
Seq:
Struc:
128 a.a.
128 a.a.
Protein chain
Pfam   ArchSchema ?
Q6H7T1  (Q6H7T1_ORYSJ) -  Os02g0162500 protein
Seq:
Struc:
150 a.a.
119 a.a.
Protein chain
Pfam   ArchSchema ?
Q8L4F2  (Q8L4F2_ORYSJ) -  40S ribosomal protein S23
Seq:
Struc:
142 a.a.
142 a.a.
Protein chain
Pfam   ArchSchema ?
Q8L806  (Q8L806_WHEAT) -  Putative ribosomal protein S18
Seq:
Struc:
152 a.a.
152 a.a.
Protein chain
Pfam   ArchSchema ?
Q69UI2  (RS131_ORYSJ) -  40S ribosomal protein S13-1
Seq:
Struc:
151 a.a.
121 a.a.
Protein chain
Pfam   ArchSchema ?
Q7XEQ3  (Q7XEQ3_ORYSJ) -  40S ribosomal protein S17-4, putative, expressed
Seq:
Struc:
141 a.a.
141 a.a.
Protein chain
Pfam   ArchSchema ?
Q7XIK5  (Q7XIK5_ORYSJ) -  Os04g0613600 protein
Seq:
Struc:
161 a.a.
85 a.a.
Protein chain
Pfam   ArchSchema ?
P40978  (RS19_ORYSJ) -  40S ribosomal protein S19
Seq:
Struc:
146 a.a.
146 a.a.
Protein chain
Pfam   ArchSchema ?
P31674  (RS15_ORYSJ) -  40S ribosomal protein S15
Seq:
Struc:
154 a.a.
91 a.a.
Protein chain
Pfam   ArchSchema ?
Q53QG2  (Q53QG2_ORYSJ) -  40S ribosomal protein S25, putative, expressed
Seq:
Struc:
108 a.a.
100 a.a.
Protein chain
No UniProt id for this chain
Struc: 92 a.a.
Protein chain
Pfam   ArchSchema ?
Q7X9K4  (Q7X9K4_WHEAT) -  S28 ribosomal protein (Fragment)
Seq:
Struc:
86 a.a.
58 a.a.
Protein chain
Pfam   ArchSchema ?
Q6K853  (Q6K853_ORYSJ) -  40S ribosomal protein S30-like
Seq:
Struc:
62 a.a.
62 a.a.
Protein chain
No UniProt id for this chain
Struc: 25 a.a.
Protein chain
No UniProt id for this chain
Struc: 36 a.a.
Protein chain
Pfam   ArchSchema ?
Q6H541  (Q6H541_ORYSJ) -  40S ribosomal protein S24
Seq:
Struc:
138 a.a.
98 a.a.
Protein chain
Pfam   ArchSchema ?
Q6K5R5  (Q6K5R5_ORYSJ) -  40S ribosomal protein S27
Seq:
Struc:
86 a.a.
50 a.a.
Protein chain
Pfam   ArchSchema ?
Q2R1J8  (Q2R1J8_ORYSJ) -  40S ribosomal protein S9, putative, expressed
Seq:
Struc:
195 a.a.
195 a.a.*
Protein chain
No UniProt id for this chain
Struc: 143 a.a.
Protein chain
Pfam   ArchSchema ?
Q84ZP1  (Q84ZP1_ORYSJ) -  Os07g0208000 protein
Seq:
Struc:
130 a.a.
130 a.a.
Protein chain
Pfam   ArchSchema ?
Q5I7K3  (RS29_WHEAT) -  40S ribosomal protein S29
Seq:
Struc:
56 a.a.
48 a.a.
Protein chain
Pfam   ArchSchema ?
P35687  (RS21_ORYSJ) -  40S ribosomal protein S21
Seq:
Struc:
82 a.a.
82 a.a.
Key:    PfamA domain  PfamB domain  Secondary structure
* PDB and UniProt seqs differ at 10 residue positions (black crosses)

 

 
Proc Natl Acad Sci U S A 107:19754-19759 (2010)
PubMed id: 20974910  
 
 
Localization of eukaryote-specific ribosomal proteins in a 5.5-Å cryo-EM map of the 80S eukaryotic ribosome.
J.P.Armache, A.Jarasch, A.M.Anger, E.Villa, T.Becker, S.Bhushan, F.Jossinet, M.Habeck, G.Dindar, S.Franckenberg, V.Marquez, T.Mielke, M.Thomm, O.Berninghausen, B.Beatrix, J.Söding, E.Westhof, D.N.Wilson, R.Beckmann.
 
  ABSTRACT  
 
No abstract given.

 

Literature references that cite this PDB file's key reference

  PubMed id Reference
23395961 Y.Hashem, A.des Georges, J.Fu, S.N.Buss, F.Jossinet, A.Jobe, Q.Zhang, H.Y.Liao, R.A.Grassucci, C.Bajaj, E.Westhof, S.Madison-Antenucci, and J.Frank (2013).
High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome.
  Nature, 494, 385-389.
PDB codes: 3zeq 3zex 3zey 3zf7
22664983 S.Melnikov, A.Ben-Shem, N.Garreau de Loubresse, L.Jenner, G.Yusupova, and M.Yusupov (2012).
One core, two shells: bacterial and eukaryotic ribosomes.
  Nat Struct Mol Biol, 19, 560-567.  
22358840 T.Becker, S.Franckenberg, S.Wickles, C.J.Shoemaker, A.M.Anger, J.P.Armache, H.Sieber, C.Ungewickell, O.Berninghausen, I.Daberkow, A.Karcher, M.Thomm, K.P.Hopfner, R.Green, and R.Beckmann (2012).
Structural basis of highly conserved ribosome recycling in eukaryotes and archaea.
  Nature, 482, 501-506.
PDB codes: 3j15 3j16
21316217 D.N.Wilson, and R.Beckmann (2011).
The ribosomal tunnel as a functional environment for nascent polypeptide folding and translational stalling.
  Curr Opin Struct Biol, 21, 274-282.  
21205638 J.Rabl, M.Leibundgut, S.F.Ataide, A.Haag, and N.Ban (2011).
Crystal structure of the eukaryotic 40S ribosomal subunit in complex with initiation factor 1.
  Science, 331, 730-736.
PDB codes: 2xzm 2xzn
21138957 M.G.Kearse, A.S.Chen, and V.C.Ware (2011).
Expression of ribosomal protein L22e family members in Drosophila melanogaster: rpL22-like is differentially expressed and alternatively spliced.
  Nucleic Acids Res, 39, 2701-2716.  
21333526 N.Grigorieff, and S.C.Harrison (2011).
Near-atomic resolution reconstructions of icosahedral viruses from electron cryo-microscopy.
  Curr Opin Struct Biol, 21, 265-273.  
21529712 N.Kondrashov, A.Pusic, C.R.Stumpf, K.Shimizu, A.C.Hsieh, S.Xue, J.Ishijima, T.Shiroishi, and M.Barna (2011).
Ribosome-mediated specificity in Hox mRNA translation and vertebrate tissue patterning.
  Cell, 145, 383-397.  
21623367 T.Becker, J.P.Armache, A.Jarasch, A.M.Anger, E.Villa, H.Sieber, B.A.Motaal, T.Mielke, O.Berninghausen, and R.Beckmann (2011).
Structure of the no-go mRNA decay complex Dom34-Hbs1 bound to a stalled 80S ribosome.
  Nat Struct Mol Biol, 18, 715-720.
PDB code: 3izq
21310988 V.Ramakrishnan (2011).
Molecular biology. The eukaryotic ribosome.
  Science, 331, 681-682.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.