2LB2 Signaling Protein Transcription date Mar 22, 2011
title Structure Of The Second Domain Of Human Nedd4l In Complex Wi Phosphorylated Ptpy Motif Derived From Human Smad3
authors M.J.Macias, E.Aragon, N.Goerner, A.Zaromytidou, Q.Xi, A.Escobedo, J.Massague
compound source
Molecule: E3 Ubiquitin-Protein Ligase Nedd4-Like
Chain: A
Fragment: Residues 386-420
Synonym: Nedd4.2, Nedd4-2
Ec: 6.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Nedd4l, Kiaa0439, Nedl3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector: Petm11

Molecule: Mothers Against Decapentaplegic Homolog 3
Chain: B
Fragment: Residues 178-189
Synonym: Mad Homolog 3, Mad3, Mothers Against Dpp Homolog 3 Jv15-2, Smad Family Member 3, Smad 3, Smad3, Hsmad3;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
methodSolution NMR
ligand TPO enzyme Ligase E.C.6.3.2 BRENDA
note 2LB2 is a representative structure
Primary referenceA Smad action turnover switch operated by WW domain readers of a phosphoserine code., Aragon E, Goerner N, Zaromytidou AI, Xi Q, Escobedo A, Massague J, Macias MJ, Genes Dev. 2011 Jun 15;25(12):1275-88. PMID:21685363
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (316 Kb) [Save to disk]
  • Biological Unit Coordinates (2lb2.pdb1.gz) 13 Kb
  • LPC: Ligand-Protein Contacts for 2LB2
  • CSU: Contacts of Structural Units for 2LB2
  • Original NMR restraints for 2LB2 from PDB
  • Retrieve 2LB2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2LB2 from S2C, [Save to disk]
  • View 2LB2 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 2LB2
  • 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 2LB2, from MSDmotif at EBI
  • Fold representative 2lb2 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2lb2_A] [2lb2] [2lb2_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2LB2: [WW ] by SMART
  • Alignments of the sequence of 2LB2 with the sequences similar proteins can be viewed for 2LB2's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2LB2
  • Community annotation for 2LB2 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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