2YQ8	Oxidoreductase	date	Nov 06, 2012
title	Crystal Structure Of The Semet-Labeled N-Terminal Domain And Substrate Binding Domain Of Alpha Subunit Of Prolyl-4 Hydro Type I From Human.
authors	J.Anantharajan, M.K.Koski, R.K.Wierenga
compound		source
Molecule: Prolyl 4-Hydroxylase Subunit Alpha-1 Chain: A, B Fragment: Collagen Binding Domain, Residues 18-255 Synonym: 4-Ph Alpha-1, Procollagen-Proline\,2-Oxoglutarate- Dioxygenase Subunit Alpha-1, Prolyl-4 Hydroxylase Type I; Ec: 1.14.11.2 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: B834 Expression_system_vector_type: Plasmid Expression_system_vector: Pet22b
symmetry	Space Group: C 1 2 1	R_factor 0.209 R_Free 0.277
crystal cell	length a length b length c angle alpha angle beta angle gamma 104.878 72.017 66.431 90.00 91.67 90.00
method	X-Ray Diffraction	resolution	2.99 Å
ligand	MSE	enzyme	Oxidoreductase E.C.1.14.11.2 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	The Structural Motifs for Substrate Binding and Dimerization of the alpha Subunit of Collagen Prolyl 4-Hydroxylase., Anantharajan J, Koski MK, Kursula P, Hieta R, Bergmann U, Myllyharju J, Wierenga RK, Structure. 2013 Oct 23. pii: S0969-2126(13)00355-9. doi:, 10.1016/j.str.2013.09.005. PMID:24207127

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk] Biological Unit Coordinates (2yq8.pdb1.gz) 73 Kb LPC: Ligand-Protein Contacts for 2YQ8 CSU: Contacts of Structural Units for 2YQ8 Structure Factors (86 Kb) Retrieve 2YQ8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2YQ8 from S2C, [Save to disk] Re-refined 2yq8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2YQ8 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 2YQ8

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 2YQ8, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2yq8_B] [2yq8_A] [2yq8] SWISS-PROT database: Domain organization of by SWISSPFAM

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