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PDBsum entry 3rbb
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protein ligands Protein-protein interface(s) links
Viral protein, protein binding PDB id
3rbb

 

 

 

 

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Contents
Protein chains
137 a.a.
60 a.a.
123 a.a.
Ligands
EDO ×2
Waters ×208
PDB id:
3rbb
Name: Viral protein, protein binding
Title: HIV-1 nef protein in complex with engineered hck sh3 domain
Structure: Protein nef. Chain: a, c. Synonym: 3'orf, negative factor, f-protein, c-terminal core protein. Engineered: yes. Mutation: yes. Tyrosine-protein kinase hck. Chain: b, d. Synonym: hemopoietic cell kinase, p59-hck/p60-hck. Engineered: yes.
Source: HIV-1 m:b_arv2/sf2. HIV-1. Organism_taxid: 11685. Strain: sf2. Gene: HIV-1 nef, nef. Expressed in: escherichia coli. Expression_system_taxid: 562. Homo sapiens. Human.
Resolution:
2.35Å     R-factor:   0.206     R-free:   0.245
Authors: F.A.Horenkamp,A.Schulte,M.Weyand,M.Geyer
Key ref: F.A.Horenkamp et al. (2011). Conformation of the dileucine-based sorting motif in HIV-1 Nef revealed by intermolecular domain assembly. Traffic, 12, 867-877. PubMed id: 21477083
Date:
29-Mar-11     Release date:   27-Apr-11    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P03407  (NEF_HV1A2) -  Protein Nef from Human immunodeficiency virus type 1 group M subtype B (isolate ARV2/SF2)
Seq:
Struc: 		210 a.a.
137 a.a.
Protein chains
Pfam   ArchSchema ?
P08631  (HCK_HUMAN) -  Tyrosine-protein kinase HCK from Homo sapiens
Seq:
Struc: 		 
Seq:
Struc: 		526 a.a.
60 a.a.*
Protein chain
Pfam   ArchSchema ?
P03407  (NEF_HV1A2) -  Protein Nef from Human immunodeficiency virus type 1 group M subtype B (isolate ARV2/SF2)
Seq:
Struc: 		210 a.a.
123 a.a.
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 6 residue positions (black crosses)

 Enzyme reactions 
   Enzyme class 2: Chains A, C: E.C.?
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
   Enzyme class 3: Chains B, D: E.C.2.7.10.2  - non-specific protein-tyrosine kinase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: L-tyrosyl-[protein] + ATP = O-phospho-L-tyrosyl-[protein] + ADP + H+
L-tyrosyl-[protein]
 + ATP
 = O-phospho-L-tyrosyl-[protein]
 + ADP
 + H(+)
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.
Molecule diagrams generated from .mol files obtained from the KEGG ftp site

 

 
    Added reference    
 
 
Traffic 12:867-877 (2011)
PubMed id: 21477083  
 
 
Conformation of the dileucine-based sorting motif in HIV-1 Nef revealed by intermolecular domain assembly.
F.A.Horenkamp, S.Breuer, A.Schulte, S.Lülf, M.Weyand, K.Saksela, M.Geyer.
 
  ABSTRACT  
 
No abstract given.

 

Literature references that cite this PDB file's key reference

  PubMed id Reference
22705789 X.Jia, R.Singh, S.Homann, H.Yang, J.Guatelli, and Y.Xiong (2012).
Structural basis of evasion of cellular adaptive immunity by HIV-1 Nef.
  Nat Struct Mol Biol, 19, 701-706.
PDB codes: 4emz 4en2
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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