3CLZ	Ligase	date	Mar 20, 2008
title	The Set And Ring Associated (Sra) Domain Of Uhrf1 Bound To M Dna
authors	J.R.Walker, G.V.Avvakumov, S.Xue, A.Dong, Y.Li, C.Bountra, J.Weige C.H.Arrowsmith, A.M.Edwards, A.Bochkarev, S.Dhe-Paganon, Struct Genomics Consortium (Sgc)
compound		source
Molecule: E3 Ubiquitin-Protein Ligase Uhrf1 Chain: A, B, C, D Fragment: Sra Domain (Unp Residues 414-617) Synonym: Ubiquitin-Like Phd And Ring Finger Domain-Containi 1, Ubiquitin-Like-Containing Phd And Ring Finger Domains Pr Inverted Ccaat Box-Binding Protein Of 90 Kda, Transcription Icbp90, Nuclear Zinc Finger Protein Np95, Nuclear Protein 9 Ring Finger Protein 106; Ec: 6.3.2.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Uhrf1, Icbp90, Np95, Rnf106 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pnic-Ch
Molecule: 5'-D(Dgpdgpdgpdcpdcp(5cm)Pdgpdcpdapdgp 3'; Chain: E, G, I, K Engineered: Yes		Synthetic: Yes
Molecule: 5'-D(Dcpdcpdcpdtpdgpdcpdgpdgpdgpdcpdcp Chain: F, H, J, L Engineered: Yes		Synthetic: Yes
symmetry	Space Group: P 1 21 1	R_factor 0.189 R_Free 0.231
crystal cell	length a length b length c angle alpha angle beta angle gamma 76.198 111.359 97.403 90.00 90.53 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	5CM	enzyme	Ligase E.C.6.3.2 BRENDA
Primary reference	Structural basis for recognition of hemi-methylated DNA by the SRA domain of human UHRF1., Avvakumov GV, Walker JR, Xue S, Li Y, Duan S, Bronner C, Arrowsmith CH, Dhe-Paganon S, Nature. 2008 Oct 9;455(7214):822-5. Epub 2008 Sep 3. PMID:18772889

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (368 Kb) [Save to disk] Biological Unit Coordinates (3clz.pdb1.gz) 90 Kb Biological Unit Coordinates (3clz.pdb2.gz) 91 Kb Biological Unit Coordinates (3clz.pdb3.gz) 90 Kb Biological Unit Coordinates (3clz.pdb4.gz) 91 Kb LPC: Ligand-Protein Contacts for 3CLZ CSU: Contacts of Structural Units for 3CLZ Likely Quarternary Molecular Structure file(s) for 3CLZ Structure Factors (1307 Kb) Retrieve 3CLZ in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3CLZ from S2C, [Save to disk] Re-refined 3clz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3CLZ 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 3CLZ

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 3CLZ, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3clz_L] [3clz] [3clz_B] [3clz_H] [3clz_A] [3clz_K] [3clz_C] [3clz_J] [3clz_G] [3clz_I] [3clz_E] [3clz_F] [3clz_D] SWISS-PROT database: [Q96T88] Domain organization of [UHRF1_HUMAN] by SWISSPFAM Domain found in 3CLZ: [SRA ] by SMART

Other resources with information on 3CLZ

Community annotation for 3CLZ at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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