› 5nb4

X-ray diffraction
1.14Å resolution

Atomic resolution structure of C-phycoerythrin from marine cyanobacterium Phormidium sp. A09DM at pH 7.5

Released:
DOI: 10.2210/pdb5nb4/pdb
PDB 5nb4 coloured by chain and viewed from the front.
PDB 5nb4 coloured by chain and viewed from the side.
PDB 5nb4 coloured by chain and viewed from the top.
Source organism: Phormidium rubidum A09DM
Primary publication:
An improved crystal structure of C-phycoerythrin from the marine cyanobacterium Phormidium sp. A09DM.
Sonani RR, Roszak AW, Ortmann de Percin Northumberland C, Madamwar D, Cogdell RJ
Photosyn. Res. (2017)
PMID: 28918447

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Phycoerythrin Alpha subunit Chains: A, B, C, D, E, F, G, H, I, J, K, L
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I, J, K, L
Length: 164 amino acids
Theoretical weight: 17.66 KDa
Source organism: Phormidium rubidum A09DM
UniProt:
  • Canonical: A0A0E3W010 (Residues: 1-160; Coverage: 100%)
Gene name: cpeA
Sequence domains: Phycobilisome protein
Structure domains: Phycocyanins
Phycoerythrin Beta subunit Chains: M, N, O, P, Q, R, S, T, U, V, W, X
Molecule details ›
Chains: M, N, O, P, Q, R, S, T, U, V, W, X
Length: 184 amino acids
Theoretical weight: 19.37 KDa
Source organism: Phormidium rubidum A09DM
UniProt:
  • Canonical: A0A0E4G455 (Residues: 1-177; Coverage: 100%)
Gene name: cpeB
Sequence domains: Phycobilisome protein
Structure domains: Phycocyanins

Ligands and Environments

6 bound ligands:
Ligand PEB 60 x PEB
Ligand NO3 6 x NO3
Ligand PI 24 x PI
Ligand NA 16 x NA
Ligand MPD 10 x MPD
Ligand MRD 2 x MRD
1 modified residue:
Ligand MEN 12 x MEN

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P1
Unit cell:
a: 109.046Å b: 109.095Å c: 117.371Å
α: 78.78° β: 82.32° γ: 60.26°
R-values:
R R work R free
0.149 0.147 0.184

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