4UX8 Signaling Protein date Aug 19, 2014
title Ret Recognition Of Gdnf-Gfralpha1 Ligand By A Composite Bind Promotes Membrane-Proximal Self-Association
authors K.Goodman, S.Kjaer, F.Beuron, P.Knowles, A.Nawrotek, E.Burns, A.Pu R.George, M.Santoro, E.P.Morris, N.Q.Mcdonald
compound source
Molecule: Proto-Oncogene Tyrosine-Protein Kinase Receptor R
Chain: A, B
Fragment: Ret Extracellular Domain, Residues 29-635
Synonym: Cadherin Family Member 12, Proto-Oncogene C-Ret, R Receptor Tyrosine Kinase;
Ec: 2.7.10.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho Lec8

Molecule: Gdnf Family Receptor Alpha-1
Chain: C, E
Synonym: Gfr Alpha 1
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Cho Lec8

Molecule: Glial Cell Line-Derived Neurotrophic Factor
Chain: D, F
Fragment: Mature, Unp Residues 78-211
Synonym: Hgdnf, Astrocyte-Derived Trophic Factor, Atf, Gdnf
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 24.00 Å
ligand CA, NAG enzyme Transferase E.C.2.7.10.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


C, E


F, D


Primary referenceRET Recognition of GDNF-GFRalpha1 Ligand by a Composite Binding Site Promotes Membrane-Proximal Self-Association., Goodman KM, Kjaer S, Beuron F, Knowles PP, Nawrotek A, Burns EM, Purkiss AG, George R, Santoro M, Morris EP, McDonald NQ, Cell Rep. 2014 Sep 25;8(6):1894-904. doi: 10.1016/j.celrep.2014.08.040. Epub 2014, Sep 18. PMID:25242331
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (258 Kb) [Save to disk]
  • Biological Unit Coordinates (4ux8.pdb1.gz) 247 Kb
  • LPC: Ligand-Protein Contacts for 4UX8
  • CSU: Contacts of Structural Units for 4UX8
  • Retrieve 4UX8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4UX8 from S2C, [Save to disk]
  • View 4UX8 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4UX8
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4UX8, from MSDmotif at EBI
  • Fold representative 4ux8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ux8_A] [4ux8_E] [4ux8_F] [4ux8_D] [4ux8_B] [4ux8_C] [4ux8]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4UX8: [GDNF] [TGFB ] by SMART
  • Other resources with information on 4UX8
  • Community annotation for 4UX8 at PDBWiki (http://pdbwiki.org)

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