1TT5	Cell Cycle, Ligase	date	Jun 21, 2004
title	Structure Of Appbp1-Uba3-Ubc12n26: A Unique E1-E2 Interactio For Optimal Conjugation Of The Ubiquitin-Like Protein Nedd8
authors	D.T.Huang, D.W.Miller, R.Mathew, R.Cassell, J.M.Holton, M.F.Rouss B.A.Schulman
compound		source
Molecule: Amyloid Protein-Binding Protein 1 Chain: A, C Synonym: Appbp1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex4t3
Molecule: Ubiquitin-Activating Enzyme E1c Isoform 1 Chain: B, D Fragment: Residues 33-463 Synonym: Uba3, Nedd8-Activating Enzyme Huba3 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex4t3
Molecule: Ubiquitin-Conjugating Enzyme E2 M Chain: E, F Fragment: Residues 1-26 Synonym: Ubc12n26, Ubiquitin-Protein Ligase M, Ubiquitin Ca Protein M, Nedd8-Conjugating Enzyme Ubc12; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ube2m, Ubc12 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex4t3
symmetry	Space Group: P 21 21 21	R_factor 0.237 R_Free 0.279
crystal cell	length a length b length c angle alpha angle beta angle gamma 92.410 122.770 195.910 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	ZN	enzyme
related structures	by homologous chain: 1R4M, 1YOV
Gene Ontology	Chain Function Process Component A, C D, B
Primary reference	A unique E1-E2 interaction required for optimal conjugation of the ubiquitin-like protein NEDD8., Huang DT, Miller DW, Mathew R, Cassell R, Holton JM, Roussel MF, Schulman BA, Nat Struct Mol Biol 2004 Oct;11(10):927-35. Epub 2004 Sep 07. PMID:15361859

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (298 Kb) [Save to disk] Biological Unit Coordinates (1tt5.pdb1.gz) 153 Kb Biological Unit Coordinates (1tt5.pdb2.gz) 142 Kb LPC: Ligand-Protein Contacts for 1TT5 CSU: Contacts of Structural Units for 1TT5 Likely Quarternary Molecular Structure file(s) for 1TT5 Structure Factors (918 Kb) Retrieve 1TT5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1TT5 from S2C, [Save to disk] Re-refined 1tt5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1TT5 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 1TT5

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1TT5, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1tt5a_, region A [Jmol] [rasmolscript] [script source]     - Domain d1tt5b_, region B [Jmol] [rasmolscript] [script source]     - Domain d1tt5c_, region C [Jmol] [rasmolscript] [script source]     - Domain d1tt5d_, region D [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1tt5_F] [1tt5_B] [1tt5] [1tt5_C] [1tt5_D] [1tt5_E] [1tt5_A] SWISS-PROT database: [Q8TBC4] [P61081] [Q13564] Domain organization of [UBA3_HUMAN] [UBC12_HUMAN] [ULA1_HUMAN] by SWISSPFAM Domain found in 1TT5: [E2_bind ] by SMART

Other resources with information on 1TT5

Community annotation for 1TT5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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