6VSU Hydrolase date Feb 11, 2020
title Arginase From Arabidopsis Thaliana In Complex With Ornithine
authors B.Sekula
compound source
Molecule: Arginase 1, Mitochondrial
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R V, W, X;
Synonym: Agmatinase Argah1,Arginine Amidohydrolase 1
Ec: 3.5.3.1,3.5.3.11
Engineered: Yes
Organism_scientific: Arabidopsis Thaliana
Organism_common: Mouse-Ear Cress
Organism_taxid: 3702
Tissue: Leaves
Gene: Argah1, At4g08900, T3h13.7
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: I 41
R_factor 0.159 R_Free 0.197
crystal
cell
length a length b length c angle alpha angle beta angle gamma
267.322 267.322 262.894 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand GOL, MN, NA, ORN, PEG enzyme Hydrolase E.C.3.5.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
S, F, T, N, K, E, V, Q, M, C, L, A, J, O, W, X, P, B, H, D, R, I, G, U


Primary referenceThe Neighboring Subunit Is Engaged to Stabilize the Substrate in the Active Site of Plant Arginases., Sekula B, Front Plant Sci. 2020 Jul 10;11:987. doi: 10.3389/fpls.2020.00987. eCollection, 2020. PMID:32754173
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2572 Kb) [Save to disk]
  • Biological Unit Coordinates (6vsu.pdb1.gz) 650 Kb
  • Biological Unit Coordinates (6vsu.pdb2.gz) 650 Kb
  • Biological Unit Coordinates (6vsu.pdb3.gz) 645 Kb
  • Biological Unit Coordinates (6vsu.pdb4.gz) 648 Kb
  • LPC: Ligand-Protein Contacts for 6VSU
  • CSU: Contacts of Structural Units for 6VSU
  • Structure Factors (15402 Kb)
  • Retrieve 6VSU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6VSU from S2C, [Save to disk]
  • View 6VSU 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 6VSU
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6vsu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6vsu_D] [6vsu_H] [6vsu_O] [6vsu_W] [6vsu_E] [6vsu_C] [6vsu_F] [6vsu_V] [6vsu_K] [6vsu_B] [6vsu_N] [6vsu_R] [6vsu_A] [6vsu_I] [6vsu_Q] [6vsu_X] [6vsu_L] [6vsu_S] [6vsu_U] [6vsu_T] [6vsu_M] [6vsu_J] [6vsu_G] [6vsu_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6VSU
  • Community annotation for 6VSU at PDBWiki (http://pdbwiki.org)

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