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PDBsum entry 3nvq

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protein ligands Protein-protein interface(s) links
Signaling protein/protein binding PDB id
3nvq
Jmol
Contents
Protein chains
588 a.a. *
474 a.a. *
Ligands
NAG ×21
NDG
Waters ×858
* Residue conservation analysis
PDB id:
3nvq
Name: Signaling protein/protein binding
Title: Molecular mechanism of guidance cue recognition
Structure: Semaphorin-7a. Chain: a, e. Fragment: unp residues 45-637. Synonym: semaphorin-l, sema l, semaphorin-k1, sema k1, john hargen human blood group ag, jmh blood group antigen, cdw10 engineered: yes. Plexin-c1. Chain: b, f. Fragment: unp residues 33-507.
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: sema7a, cd108, semal. Expressed in: homo sapiens. Expression_system_taxid: 9606. Expression_system_cell: hek293s. Gene: plxnc1, vespr. Expression_system_cell: hek293s
Resolution:
2.40Å     R-factor:   0.248     R-free:   0.277
Authors: Z.Juo,H.Liu,A.Shim,P.Focia,X.Chen,C.Garcia,X.He
Key ref: H.Liu et al. (2010). Structural basis of semaphorin-plexin recognition and viral mimicry from Sema7A and A39R complexes with PlexinC1. Cell, 142, 749-761. PubMed id: 20727575
Date:
08-Jul-10     Release date:   15-Sep-10    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
O75326  (SEM7A_HUMAN) -  Semaphorin-7A
Seq:
Struc:
 
Seq:
Struc:
666 a.a.
588 a.a.
Protein chains
Pfam   ArchSchema ?
O60486  (PLXC1_HUMAN) -  Plexin-C1
Seq:
Struc:
 
Seq:
Struc:
 
Seq:
Struc:
 
Seq:
Struc:
1568 a.a.
474 a.a.*
Key:    PfamA domain  PfamB domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     membrane   4 terms 
  Biological process     positive regulation of macrophage cytokine production   16 terms 
  Biochemical function     protein binding     3 terms  

 

 
Cell 142:749-761 (2010)
PubMed id: 20727575  
 
 
Structural basis of semaphorin-plexin recognition and viral mimicry from Sema7A and A39R complexes with PlexinC1.
H.Liu, Z.S.Juo, A.H.Shim, P.J.Focia, X.Chen, K.C.Garcia, X.He.
 
  ABSTRACT  
 
No abstract given.

 

Literature references that cite this PDB file's key reference

  PubMed id Reference
23104057 B.J.Janssen, T.Malinauskas, G.A.Weir, M.Z.Cader, C.Siebold, and E.Y.Jones (2012).
Neuropilins lock secreted semaphorins onto plexins in a ternary signaling complex.
  Nat Struct Mol Biol, 19, 1293-1299.
PDB codes: 4gz8 4gz9 4gza
22902366 J.Elegheert, N.Bracke, P.Pouliot, I.Gutsche, A.V.Shkumatov, N.Tarbouriech, K.Verstraete, A.Bekaert, W.P.Burmeister, D.I.Svergun, B.N.Lambrecht, B.Vergauwen, and S.N.Savvides (2012).
Allosteric competitive inactivation of hematopoietic CSF-1 signaling by the viral decoy receptor BARF1.
  Nat Struct Mol Biol, 19, 938-947.
PDB codes: 3uez 3uf2 3uf5 4adf 4adq
20877282 B.J.Janssen, R.A.Robinson, F.Pérez-Brangulí, C.H.Bell, K.J.Mitchell, C.Siebold, and E.Y.Jones (2010).
Structural basis of semaphorin-plexin signalling.
  Nature, 467, 1118-1122.
PDB codes: 3okt 3okw 3oky 3ol2
20881961 T.Nogi, N.Yasui, E.Mihara, Y.Matsunaga, M.Noda, N.Yamashita, T.Toyofuku, S.Uchiyama, Y.Goshima, A.Kumanogoh, and J.Takagi (2010).
Structural basis for semaphorin signalling through the plexin receptor.
  Nature, 467, 1123-1127.
PDB codes: 3afc 3al8 3al9
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.

 

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