5JHC Hydrolase date Apr 20, 2016
title Crystal Structure Of The Self-Assembled Propeptides From Ape
authors A.Yamasaki, N.N.Noda
compound source
Molecule: Vacuolar Aminopeptidase 1
Chain: A, C, E, G, I, K, M, O, Q, S, U, W, Y, B, a, b, D, F J, E, L, F, N, G, P, H, R, I, T, J, V, K, X, L, Z, M;
Fragment: Unp Residues 1-22
Synonym: Aminopeptidase Ysci,Leucine Aminopeptidase Iv,Lapi Lysosomal Aminopeptidase III,Polypeptidase,Vacuolar Aminope
Ec: 3.4.11.22
Engineered: Yes
Mutation: Yes
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Ape1, Api, Lap4, Ysc1, Ykl103c, Ykl455
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: H 3 2
R_factor 0.276 R_Free 0.311
crystal
cell
length a length b length c angle alpha angle beta angle gamma
248.758 248.758 164.403 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.40 Å
ligand
enzyme Hydrolase E.C.3.4.11.22 BRENDA
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (299 Kb) [Save to disk]
  • Biological Unit Coordinates (5jhc.pdb1.gz) 23 Kb
  • Biological Unit Coordinates (5jhc.pdb2.gz) 21 Kb
  • Biological Unit Coordinates (5jhc.pdb3.gz) 24 Kb
  • Biological Unit Coordinates (5jhc.pdb4.gz) 24 Kb
  • Biological Unit Coordinates (5jhc.pdb5.gz) 24 Kb
  • Biological Unit Coordinates (5jhc.pdb6.gz) 25 Kb
  • Biological Unit Coordinates (5jhc.pdb7.gz) 24 Kb
  • Biological Unit Coordinates (5jhc.pdb8.gz) 24 Kb
  • Biological Unit Coordinates (5jhc.pdb9.gz) 24 Kb
  • CSU: Contacts of Structural Units for 5JHC
  • Structure Factors (462 Kb)
  • Retrieve 5JHC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JHC from S2C, [Save to disk]
  • Re-refined 5jhc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5JHC 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 5JHC
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jhc_E] [5jhc_l] [5jhc_k] [5jhc_C] [5jhc_B] [5jhc_i] [5jhc_N] [5jhc_m] [5jhc_j] [5jhc_Z] [5jhc_d] [5jhc_S] [5jhc_e] [5jhc_G] [5jhc_h] [5jhc_c] [5jhc_A] [5jhc_b] [5jhc_Q] [5jhc_X] [5jhc_L] [5jhc_f] [5jhc_M] [5jhc_D] [5jhc] [5jhc_F] [5jhc_g] [5jhc_P] [5jhc_K] [5jhc_H] [5jhc_V] [5jhc_a] [5jhc_O] [5jhc_U] [5jhc_T] [5jhc_I] [5jhc_Y] [5jhc_W] [5jhc_R] [5jhc_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5JHC
  • Community annotation for 5JHC at PDBWiki (http://pdbwiki.org)

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