7C9O Transcription date Jun 06, 2020
title Crystal Structure Of Dna-Bound Cctnf-Ybyc Complex (Hd1cct Yc2)
authors C.Shen, H.Liu, Z.Guan, Y.Xing, P.Yin
compound source
Molecule: Zinc Finger Protein Hd1
Chain: A
Synonym: Protein Constans-Like,Protein Heading Date 1,Oshd1 Photoperiod Sensitivity 1;
Engineered: Yes
 Organism_scientific: Oryza Sativa Japonica Group
Organism_common: Rice
Organism_taxid: 39947
Gene: Hd1, Se1, Os06g0275000, Loc_os06g16370, P0038c05.23, P0676f10.34;
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Nuclear Transcription Factor Y Subunit B-11
Chain: B
Synonym: Osnf-Yb11,Protein Days To Heading 8,Protein Headin Transcriptional Activator Hap3h,Oshap3h;
Engineered: Yes
Organism_scientific: Oryza Sativa Japonica Group
Organism_common: Rice
Organism_taxid: 39947
Gene: Hd5, Dth8, Ghd8, Hap3h, Nfyb11, Os08g0174500, Loc_os0
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Nuclear Transcription Factor Y Subunit C-2
Chain: C
Synonym: Osnf-Yc2,Transcriptional Activator Hap5c,Oshap5c
Engineered: Yes
Organism_scientific: Oryza Sativa Japonica Group
Organism_common: Rice
Organism_taxid: 39947
Gene: Nfyc2, Hap5c, Os03g0251350, Loc_os03g14669
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna (25-Mer)
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Oryza Sativa
Organism_taxid: 4530

Molecule: Dna (25-Mer)
Chain: E
Engineered: Yes
Synthetic: Yes
Organism_scientific: Oryza Sativa
Organism_taxid: 4530
symmetry Space Group: P 32 2 1
R_factor 0.200 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
136.080 136.080 62.960 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.55 Å
Primary referenceStructural Insight into DNA Recognition by CCT/NF-YB/YC Complexes in Plant Photoperiodic Flowering., Shen C, Liu H, Guan Z, Junjie Y, Ting Z, Yan W, Wu C, Zhang Q, Yin P, Xing Y, Plant Cell. 2020 Aug 25. pii: tpc.20.00067. doi: 10.1105/tpc.20.00067. PMID:32843433
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (7c9o.pdb1.gz) 115 Kb
  • CSU: Contacts of Structural Units for 7C9O
  • Structure Factors (597 Kb)
  • Retrieve 7C9O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 7C9O from S2C, [Save to disk]
    • View 7C9O 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 7C9O
  • 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: [7c9o_C] [7c9o_E] [7c9o_A] [7c9o_B] [7c9o_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 7C9O
  • Community annotation for 7C9O at PDBWiki (http://pdbwiki.org)

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