6IKM Antimicrobial Protein date Oct 16, 2018
title Crystal Structure Of Spue-Spermidine In Complex With Scfv5
authors D.Wu, X.Sun
compound source
Molecule: Polyamine Transport Protein
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R
Fragment: Unp Residues 28-362
Synonym: Spermidine-Binding Periplasmic Protein Spue
Engineered: Yes
 Organism_scientific: Pseudomonas Aeruginosa
Organism_taxid: 287
Expression_system: Escherichia Coli-Pichia Pastoris Shuttle Ppparg4;
Expression_system_taxid: 1182032

Molecule: Scfv5
Chain: a, b, c, d, e, f, g, h, I, j, k, l, m, n, o, p, q, r
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli-Pichia Pastoris Shuttle Ppparg4;
Expression_system_taxid: 1182032
symmetry Space Group: P 1 21 1
R_factor 0.228 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
146.235 481.804 146.134 90.00 120.08 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand SO4, SPD enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, N, K, E, Q, M, C, L, A, J, O, P, B, H, D, R, I, G


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1534 Kb) [Save to disk]
  • Biological Unit Coordinates (6ikm.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb2.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb3.gz) 105 Kb
  • Biological Unit Coordinates (6ikm.pdb4.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb5.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb6.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb7.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb8.gz) 104 Kb
  • Biological Unit Coordinates (6ikm.pdb9.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 6IKM
  • CSU: Contacts of Structural Units for 6IKM
  • Structure Factors (3296 Kb)
  • Retrieve 6IKM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6IKM from S2C, [Save to disk]
    • View 6IKM 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 6IKM
  • 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: [6ikm_O] [6ikm_D] [6ikm_n] [6ikm_o] [6ikm_b] [6ikm_r] [6ikm_I] [6ikm_K] [6ikm_H] [6ikm_i] [6ikm_a] [6ikm_f] [6ikm_P] [6ikm_J] [6ikm_m] [6ikm_R] [6ikm_B] [6ikm_p] [6ikm_c] [6ikm_N] [6ikm_j] [6ikm_E] [6ikm_g] [6ikm_e] [6ikm_l] [6ikm_h] [6ikm_A] [6ikm_k] [6ikm_G] [6ikm_M] [6ikm_C] [6ikm_F] [6ikm_q] [6ikm_L] [6ikm_Q] [6ikm_d]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6IKM
  • Community annotation for 6IKM at PDBWiki (http://pdbwiki.org)

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