1WDA	Hydrolase	date	May 12, 2004
title	Crystal Structure Of Human Peptidylarginine Deiminase Type4 Complex With Benzoyl-L-Arginine Amide
authors	K.Arita, H.Hashimoto, T.Shimizu, K.Nakashima, M.Yamada, M.Sato
compound		source
Molecule: Protein-Arginine Deiminase Type Iv Chain: A Synonym: Peptidylarginine Deiminase Iv, Hl-60 Pad Ec: 3.5.3.15 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex6p-1
symmetry	Space Group: C 1 2 1	R_factor 0.210 R_Free 0.252
crystal cell	length a length b length c angle alpha angle beta angle gamma 146.133 60.045 115.406 90.00 124.23 90.00
method	X-Ray Diffraction	resolution	2.30 Å
ligand	BAG, CA, SO4	enzyme	Hydrolase E.C.3.5.3.15 BRENDA
related structures	by homologous chain: 1WD9
Gene Ontology	Chain Function Process Component A
Primary reference	Structural basis for Ca(2+)-induced activation of human PAD4., Arita K, Hashimoto H, Shimizu T, Nakashima K, Yamada M, Sato M, Nat Struct Mol Biol 2004 Aug;11(8):777-83. Epub 2004 Jul 11. PMID:15247907

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (111 Kb) [Save to disk] Biological Unit Coordinates (1wda.pdb1.gz) 202 Kb LPC: Ligand-Protein Contacts for 1WDA CSU: Contacts of Structural Units for 1WDA Likely Quarternary Molecular Structure file(s) for 1WDA Structure Factors (296 Kb) Retrieve 1WDA in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1WDA from S2C, [Save to disk] Re-refined 1wda structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1WDA 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 1WDA

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 1WDA, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1wdaa1, region A:113-293 [Jmol] [rasmolscript] [script source]     - Domain d1wdaa3, region A:294-663 [Jmol] [rasmolscript] [script source]     - Domain d1wdaa2, region A:4-112 [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1wda] [1wda_A] SWISS-PROT database: [Q9UM07] Domain organization of [PADI4_HUMAN] by SWISSPFAM

Other resources with information on 1WDA

Community annotation for 1WDA 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

---