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Calcium in PDB 2ya0: Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua

Protein crystallography data

The structure of Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua, PDB code: 2ya0 was solved by A.Lammerts Van Bueren, E.Ficko-Blean, B.Pluvinage, J.H.Hehemann, M.A.Higgins, L.Deng, A.D.Ogunniyi, U.H.Stroeher, N.E.Warry, R.D.Burke, M.Czjzek, J.C.Paton, D.J.Vocadlo, A.B.Boraston, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.85
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 57.574, 75.196, 87.038, 90.00, 97.31, 90.00
R / Rfree (%) 17.2 / 22.7

Other elements in 2ya0:

The structure of Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua (pdb code 2ya0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua, PDB code: 2ya0:

Calcium binding site 1 out of 1 in 2ya0

Go back to Calcium Binding Sites List in 2ya0
Calcium binding site 1 out of 1 in the Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Catalytic Module of the Multi-Modular Glycogen-Degrading Pneumococcal Virulence Factor Spua within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1696

b:27.5
occ:1.00
O A:SER206 2.4 16.9 1.0
O A:HOH2676 2.4 17.6 1.0
OD1 A:ASP537 2.4 16.9 1.0
O A:TYR208 2.4 17.4 1.0
O A:HOH2332 2.5 19.3 1.0
O A:HOH2106 2.5 31.7 1.0
O A:HOH2372 2.5 37.1 1.0
CG A:ASP537 3.4 22.3 1.0
C A:TYR208 3.6 17.6 1.0
C A:SER206 3.6 19.1 1.0
C A:ASN207 4.1 19.6 1.0
CA A:ASP537 4.1 20.4 1.0
CB A:ASP537 4.1 19.1 1.0
N A:TYR208 4.2 17.9 1.0
CB A:ASN209 4.2 19.4 1.0
O A:ASN207 4.2 19.3 1.0
N A:SER206 4.3 20.6 1.0
CA A:ASN209 4.3 17.1 1.0
OD2 A:ASP537 4.3 20.7 1.0
N A:ASN209 4.4 17.6 1.0
CA A:SER206 4.4 18.3 1.0
O A:HOH2331 4.4 30.1 1.0
O A:HOH2678 4.4 38.6 1.0
CA A:ASN207 4.5 18.5 1.0
O A:PHE188 4.5 20.2 1.0
O A:TYR536 4.5 20.9 1.0
N A:ASN207 4.5 19.9 1.0
CA A:TYR208 4.6 18.1 1.0
CG A:ASN209 4.6 20.5 1.0
ND2 A:ASN209 4.6 18.9 1.0
CB A:SER206 4.7 18.2 1.0
O A:HOH2383 4.7 23.4 1.0
C A:ASP537 4.9 19.2 1.0
O A:HOH2370 4.9 37.6 1.0

Reference:

A.Lammerts Van Bueren, E.Ficko-Blean, B.Pluvinage, J.Hehemann, M.A.Higgins, L.Deng, A.D.Ogunniyi, U.H.Stroeher, N.El Warry, R.D.Burke, M.Czjzek, J.C.Paton, D.J.Vocadlo, A.B.Boraston. The Conformation and Function of A Multimodular Glycogen-Degrading Pneumococcal Virulence Factor. Structure V. 19 640 2011.
ISSN: ISSN 0969-2126
PubMed: 21565699
DOI: 10.1016/J.STR.2011.03.001
Page generated: Sat Dec 12 04:00:04 2020

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