6DMM Antimicrobial Protein date Jun 05, 2018
title Crystal Structure Of The G23a Mutant Of Human Alpha Defensin
authors N.Gohain, W.D.Tolbert, M.Pazgier
compound source
Molecule: Neutrophil Defensin 4
Chain: A, B, C, D, E, F, G, H, I, J, K, L
Synonym: Defensin,Alpha 4,Hnp-4,Hp-4
Engineered: Yes
Mutation: Yes
 Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.218 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
41.629 65.894 124.064 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.67 Å
ligand MPD, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, K, E, B, H, C, D, I, G, L


Primary referenceSystematic mutational analysis of human neutrophil alpha-defensin HNP4., Hu H, Di B, David Tolbert W, Gohain N, Yuan W, Gao P, Ma B, He Q, Pazgier M, Zhao L, Lu W, Biochim Biophys Acta Biomembr. 2019 Jan 15. pii: S0005-2736(19)30010-0. doi:, 10.1016/j.bbamem.2019.01.007. PMID:30658057
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]
  • Biological Unit Coordinates (6dmm.pdb1.gz) 24 Kb
  • Biological Unit Coordinates (6dmm.pdb2.gz) 23 Kb
  • Biological Unit Coordinates (6dmm.pdb3.gz) 24 Kb
  • Biological Unit Coordinates (6dmm.pdb4.gz) 24 Kb
  • Biological Unit Coordinates (6dmm.pdb5.gz) 24 Kb
  • Biological Unit Coordinates (6dmm.pdb6.gz) 25 Kb
  • LPC: Ligand-Protein Contacts for 6DMM
  • CSU: Contacts of Structural Units for 6DMM
  • Structure Factors (1111 Kb)
  • Retrieve 6DMM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DMM from S2C, [Save to disk]
    • View 6DMM 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 6DMM
  • 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: [6dmm_H] [6dmm_K] [6dmm_C] [6dmm_G] [6dmm_B] [6dmm_A] [6dmm_L] [6dmm_I] [6dmm_J] [6dmm_D] [6dmm_F] [6dmm_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DMM
  • Community annotation for 6DMM at PDBWiki (http://pdbwiki.org)

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