Sodium in PDB 6hac: Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form)

Enzymatic activity of Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form)

All present enzymatic activity of Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form):
1.12.98.2;

Protein crystallography data

The structure of Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form), PDB code: 6hac was solved by G.Huang, T.Wagner, M.D.Wodrich, K.Ataka, E.Bill, U.Ermler, X.Hu, S.Shima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	26.62 / 2.30
*Space group*	I 4₁ 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	136.985, 136.985, 117.317, 90.00, 90.00, 90.00
*R / R_free (%)*	17.1 / 19.2

Other elements in 6hac:

The structure of Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form) also contains other interesting chemical elements:

Iron

(Fe)

1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form) (pdb code 6hac). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form), PDB code: 6hac:

Sodium binding site 1 out of 1 in 6hac

Go back to

Sodium Binding Sites List in 6hac

Sodium binding site 1 out of 1 in the Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form)

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of [Fe]-Hydrogenase (Hmd) Holoenzyme From Methanococcus Aeolicus (Open Form) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na405 b:46.9 occ:1.00	O	A:PRO325	2.7	40.0	1.0
	O	A:HOH605	2.8	40.6	1.0
	N	A:GLU328	2.9	40.3	1.0
	N	A:LEU329	3.0	31.8	1.0
	C	A:LEU326	3.3	43.7	1.0
	N	A:SER327	3.4	39.5	1.0
	C	A:PRO325	3.4	39.3	1.0
	CA	A:LEU326	3.5	39.8	1.0
	CA	A:GLU328	3.5	40.7	1.0
	CB	A:GLU328	3.6	42.4	1.0
	C	A:GLU328	3.8	40.9	1.0
	O	A:LEU326	3.8	43.9	1.0
	N	A:LEU326	3.8	36.7	1.0
	CB	A:LEU329	3.9	31.3	1.0
	C	A:SER327	3.9	46.0	1.0
	CG	A:GLU328	4.0	55.4	1.0
	CA	A:LEU329	4.0	30.3	1.0
	CA	A:SER327	4.1	40.6	1.0
	OG	A:SER327	4.2	48.8	1.0
	CA	A:PRO325	4.6	35.6	1.0
	O	A:GLY324	4.6	40.1	1.0
	CB	A:SER327	4.8	41.2	1.0
	N	A:LEU330	4.9	31.6	1.0
	O	A:GLU328	5.0	37.6	1.0

Reference:

G.Huang, T.Wagner, M.D.Wodrich, K.Ataka, E.Bill, U.Ermler, X.Hu, S.Shima. The Atomic-Resolution Crystal Structure of Activated [Fe]-Hydrogenase Nat Catal 2019.
ISSN: ESSN 2520-1158
DOI: 10.1038/S41929-019-0289-4

Page generated: Tue Oct 8 09:16:05 2024

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