4UB6 Native structure of photosystem II (dataset-1) by a femtosecond X-ray laser date
authors Suga, M., Akita, F., Hirata, K., Ueno, G., Murakami, H., Nakajima, Y., Shimizu, T., Yamashita, K., Yamamoto, M., Ago, H., Shen, J.R.
compound source
symmetry
R_factor
R_Free 0.2382
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.95
ligand BCR, BCT, CA, CL, CLA, DGD, FE2, FME, GOL, HEC, HEM, HTG, LHG, LMG, LMT, MG, OEX, PHO, PL9, SQD, UNL enzyme
Gene
Ontology
ChainFunctionProcessComponent
B, b


E, e


F, f


H, h


I, i


K, k


L, l


M, m


O, o
  • oxygen evolving activity


    • R


    T, t


    Y, y


    Z, z


    a, A


    c, C


    d, D


    j, J


    u, U


    v, V


    x, X


    Primary referenceNative structure of photosystem II at 1.95 A resolution viewed by femtosecond X-ray pulses., Suga M, Akita F, Hirata K, Ueno G, Murakami H, Nakajima Y, Shimizu T, Yamashita K, Yamamoto M, Ago H, Shen JR, Nature. 2015 Jan 1;517(7532):99-103. doi: 10.1038/nature13991. Epub 2014 Nov 26. PMID:25470056
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2243 Kb) [Save to disk]
  • Biological Unit Coordinates (4ub6.pdb1.gz) 1101 Kb
  • Biological Unit Coordinates (4ub6.pdb2.gz) 1084 Kb
  • LPC: Ligand-Protein Contacts for 4UB6
  • CSU: Contacts of Structural Units for 4UB6
  • Structure Factors (7563 Kb)
  • Retrieve 4UB6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4UB6 from S2C, [Save to disk]
  • Re-refined 4ub6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4UB6 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 4UB6
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4UB6, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ub6_K] [4ub6_H] [4ub6_t] [4ub6_J] [4ub6_L] [4ub6_o] [4ub6_e] [4ub6_I] [4ub6_f] [4ub6_R] [4ub6_k] [4ub6_h] [4ub6_U] [4ub6_j] [4ub6_A] [4ub6_y] [4ub6_E] [4ub6_x] [4ub6_d] [4ub6_b] [4ub6_Y] [4ub6_T] [4ub6_C] [4ub6_i] [4ub6_l] [4ub6] [4ub6_u] [4ub6_M] [4ub6_F] [4ub6_B] [4ub6_v] [4ub6_z] [4ub6_c] [4ub6_m] [4ub6_Z] [4ub6_a] [4ub6_O] [4ub6_X] [4ub6_D] [4ub6_V]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4UB6
  • Community annotation for 4UB6 at PDBWiki (http://pdbwiki.org)

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