Calcium in PDB 1y5y: Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1

The structure of Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1, PDB code: 1y5y was solved by P.Acharya, M.Goenrich, C.H.Hagemeier, U.Demmer, J.A.Vorholt, R.K.Thauer, U.Ermler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.89 / 2.00
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	120.659, 120.659, 205.947, 90.00, 90.00, 90.00
R / Rfree (%)	20.4 / 23.9

The structure of Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1 also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

The binding sites of Calcium atom in the Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1 (pdb code 1y5y). 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 Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1, PDB code: 1y5y:

Calcium binding site 1 out of 1 in the Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of the Tetrahydromethanopterin Dependent Formaldehyde- Activating Enzyme (Fae) From Methylobacterium Extorquens AM1 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca201 b:32.8 occ:1.00 OD1 A:ASN44 3.2 37.2 1.0 ND2 E:ASN4044 3.2 27.5 1.0 OD1 D:ASN3044 3.3 37.9 1.0 ND2 B:ASN1044 3.3 34.9 1.0 NZ C:LYS2046 3.4 27.3 0.5 NZ E:LYS4046 3.4 22.5 0.5 OD1 C:ASN2044 3.4 33.5 1.0 CG A:ASN44 4.1 26.1 1.0 CG D:ASN3044 4.1 30.4 1.0 CG E:ASN4044 4.2 32.7 1.0 ND2 A:ASN44 4.2 29.5 1.0 ND2 D:ASN3044 4.2 26.5 1.0 CG B:ASN1044 4.2 30.2 1.0 OD1 B:ASN1044 4.2 31.5 1.0 OD1 E:ASN4044 4.2 28.8 1.0 CG C:ASN2044 4.2 28.7 1.0 ND2 C:ASN2044 4.3 27.9 1.0 CE C:LYS2046 4.7 38.3 0.5 CE B:LYS1046 4.9 50.3 1.0 CE E:LYS4046 5.0 28.1 0.5

P.Acharya, M.Goenrich, C.H.Hagemeier, U.Demmer, J.A.Vorholt, R.K.Thauer, U.Ermler. How An Enzyme Binds the C1-Carrier Tetrahydromethanopterin: Structure of the Tetrahydromethanopterin Dependent Formaldehyde-Activating Enzyme (Fae) From Methylobacterium Extorquens AM1 J.Biol.Chem. V. 280 13712 2005.
ISSN: ISSN 0021-9258
PubMed: 15632161
DOI: 10.1074/JBC.M412320200