1WYW	Hydrolase	date	Feb 17, 2005
title	Crystal Structure Of Sumo1-Conjugated Thymine Dna Glycosylas
authors	D.Baba, N.Maita, J.G.Jee, Y.Uchimura, H.Saitoh, K.Sugasawa, F.Hana H.Tochio, H.Hiroaki, M.Shirakawa
compound		source
Molecule: Gt Mismatch-Specific Thymine Dna Glycosylase Chain: A Fragment: Central Region Synonym: Tdg Ec: 3.2.2.- 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: Pgex4t-3
Molecule: Ubiquitin-Like Protein Smt3c Chain: B Synonym: Ubiquitin-Homology Domain Protein Pic1, Ubiquitin- Protein Ubl1, Ubiquitin-Related Protein Sumo-1, Gap Modifyi 1, Gmp1, Sentrin, Oksw-Cl.43; 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: Pt-E1e2s1
symmetry	Space Group: P 21 21 21	R_factor 0.205 R_Free 0.245
crystal cell	length a length b length c angle alpha angle beta angle gamma 42.212 70.420 106.434 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.10 Å
ligand	CL, MG, NA	enzyme	Hydrolase E.C.3.2.2 BRENDA
related structures	by homologous chain: 2BF8
Gene Ontology	Chain Function Process Component A B
Primary reference	Crystal structure of thymine DNA glycosylase conjugated to SUMO-1., Baba D, Maita N, Jee JG, Uchimura Y, Saitoh H, Sugasawa K, Hanaoka F, Tochio H, Hiroaki H, Shirakawa M, Nature. 2005 Jun 16;435(7044):979-82. PMID:15959518

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk] Biological Unit Coordinates (1wyw.pdb1.gz) 51 Kb LPC: Ligand-Protein Contacts for 1WYW CSU: Contacts of Structural Units for 1WYW Likely Quarternary Molecular Structure file(s) for 1WYW Structure Factors (154 Kb) Retrieve 1WYW in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1WYW from S2C, [Save to disk] Re-refined 1wyw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1WYW 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 1WYW

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 1WYW, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1wyw] [1wyw_B] [1wyw_A] SWISS-PROT database: [P63165] [Q13569] Domain organization of [SUMO1_HUMAN] [TDG_HUMAN] by SWISSPFAM Domains found in 1WYW: [UBQ] [UDG] [UreE_C ] by SMART

Other resources with information on 1WYW

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---