Calcium in PDB 4y79: Factor Xa Complex with GTC000406

All present enzymatic activity of Factor Xa Complex with GTC000406:
3.4.21.6;

The structure of Factor Xa Complex with GTC000406, PDB code: 4y79 was solved by M.A.Convery, R.J.Young, S.Senger, J.N.Hamblin, C.Chan, J.R.Toomey, N.S.Watson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	56.914, 72.756, 79.901, 90.00, 90.00, 90.00
R / Rfree (%)	17.5 / 21.6

The structure of Factor Xa Complex with GTC000406 also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	1 atom

The binding sites of Calcium atom in the Factor Xa Complex with GTC000406 (pdb code 4y79). 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 Factor Xa Complex with GTC000406, PDB code: 4y79:

Calcium binding site 1 out of 1 in the Factor Xa Complex with GTC000406


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Factor Xa Complex with GTC000406 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:31.3 occ:1.00 O A:HOH508 2.2 45.4 1.0 OE1 A:GLU80 2.3 28.6 1.0 O A:GLN75 2.3 37.4 1.0 OE2 A:GLU77 2.3 32.2 1.0 O A:ASN72 2.3 28.2 1.0 OD1 A:ASP70 2.3 29.0 1.0 CD A:GLU77 3.4 40.6 1.0 CD A:GLU80 3.4 30.5 1.0 C A:ASN72 3.4 28.5 1.0 CG A:ASP70 3.4 30.7 1.0 C A:GLN75 3.5 47.9 1.0 CG A:GLU80 3.8 27.8 1.0 CG A:GLU77 3.9 40.7 1.0 OD2 A:ASP70 4.0 26.6 1.0 N A:GLU77 4.2 46.4 1.0 N A:ASN72 4.2 28.6 1.0 CA A:ASN72 4.3 29.3 1.0 N A:GLN75 4.3 53.8 1.0 N A:THR73 4.3 30.1 1.0 CA A:GLU76 4.4 52.4 1.0 OE1 A:GLU77 4.4 50.4 1.0 N A:GLU76 4.4 50.3 1.0 CA A:THR73 4.4 36.3 1.0 OE2 A:GLU80 4.5 28.0 1.0 CA A:GLN75 4.5 51.4 1.0 CB A:GLU77 4.6 40.6 1.0 CB A:ASP70 4.6 24.7 1.0 CB A:ASN72 4.6 29.9 1.0 C A:THR73 4.7 42.3 1.0 CA A:ASP70 4.8 25.9 1.0 N A:ARG71 4.8 24.9 1.0 C A:GLU76 4.8 52.6 1.0 OE2 A:GLU76 4.9 78.2 1.0 N A:GLU74 5.0 47.2 1.0

C.Chan, A.D.Borthwick, D.Brown, C.L.Burns-Kurtis, M.Campbell, L.Chaudry, C.W.Chung, M.A.Convery, J.N.Hamblin, L.Johnstone, H.A.Kelly, S.Kleanthous, A.Patikis, C.Patel, A.J.Pateman, S.Senger, G.P.Shah, J.R.Toomey, N.S.Watson, H.E.Weston, C.Whitworth, R.J.Young, P.Zhou. Factor Xa Inhibitors: S1 Binding Interactions of A Series of N-{(3S)-1-[(1S) -1-Methyl-2-Morpholin-4-Yl-2-Oxoethyl]-2-Oxopyrrolidin-3-Yl} Sulfonamides. J. Med. Chem. V. 50 1546 2007.
ISSN: ISSN 0022-2623
PubMed: 17338508
DOI: 10.1021/JM060870C