Magnesium in PDB 2o2q: Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp

Enzymatic activity of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp

All present enzymatic activity of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp:
1.5.1.6;

Protein crystallography data

The structure of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp, PDB code: 2o2q was solved by Y.Tsybovsky, H.Donato, N.I.Krupenko, C.Davies, S.A.Krupenko, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	50.00 / 2.00
*Space group*	C 1 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	259.400, 194.500, 97.300, 90.00, 108.80, 90.00
*R / R_free (%)*	16.8 / 19

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp (pdb code 2o2q). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp, PDB code: 2o2q:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in 2o2q

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Magnesium Binding Sites List in 2o2q

Magnesium binding site 1 out of 4 in the Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg2001 b:55.3 occ:1.00	O2N	A:NAP903	2.5	36.4	0.9
	O1N	A:NAP903	2.9	33.8	0.9
	O2A	A:NAP903	3.0	24.4	0.9
	PN	A:NAP903	3.1	35.5	0.9
	O	A:HOH3149	3.4	22.2	1.0
	O3	A:NAP903	3.9	28.4	0.9
	NE1	A:TRP573	3.9	15.1	1.0
	O	A:HOH3322	3.9	44.0	1.0
	PA	A:NAP903	4.0	24.4	0.9
	O	A:HOH3266	4.0	34.0	1.0
	O	A:HOH3364	4.1	31.3	1.0
	O	A:HOH3288	4.3	32.0	1.0
	O5D	A:NAP903	4.6	33.2	0.9
	O5B	A:NAP903	4.6	23.6	0.9
	CD1	A:TRP573	4.7	15.4	1.0
	O1X	A:NAP903	4.8	16.6	0.9
	O	A:HOH3255	4.8	32.4	1.0
	CE2	A:TRP573	4.9	15.8	1.0

Magnesium binding site 2 out of 4 in 2o2q

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Magnesium Binding Sites List in 2o2q

Magnesium binding site 2 out of 4 in the Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Mg2002 b:64.9 occ:1.00	O2A	B:NAP903	2.4	26.1	0.9
	O2N	B:NAP903	2.4	35.2	0.9
	O1N	B:NAP903	2.5	34.1	0.9
	PN	B:NAP903	2.7	34.5	0.9
	O3	B:NAP903	3.4	28.9	0.9
	PA	B:NAP903	3.4	25.2	0.9
	O	B:HOH3204	3.9	23.8	1.0
	O	B:HOH3337	4.0	29.4	1.0
	O	B:HOH3257	4.3	31.6	1.0
	O5D	B:NAP903	4.3	32.9	0.9
	O5B	B:NAP903	4.3	25.0	0.9
	NE1	B:TRP573	4.4	16.6	1.0
	O	B:HOH3339	4.6	30.4	1.0
	O1A	B:NAP903	4.6	24.9	0.9
	O	B:HOH3417	4.6	36.2	1.0
	O	B:HOH3132	5.0	29.2	1.0

Magnesium binding site 3 out of 4 in 2o2q

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Magnesium Binding Sites List in 2o2q

Magnesium binding site 3 out of 4 in the Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
C:Mg2003 b:48.3 occ:1.00	O2N	C:NAP903	2.5	35.1	0.9
	O1N	C:NAP903	2.7	32.9	0.9
	O2A	C:NAP903	2.8	22.1	0.9
	PN	C:NAP903	2.9	32.9	0.9
	O	C:HOH3407	3.4	44.1	1.0
	O	C:HOH3230	3.5	22.0	1.0
	O3	C:NAP903	3.7	27.1	0.9
	PA	C:NAP903	3.8	21.1	0.9
	NE1	C:TRP573	4.1	12.4	1.0
	O	C:HOH3376	4.1	24.0	1.0
	O	C:HOH3236	4.2	29.4	1.0
	O5D	C:NAP903	4.4	30.5	0.9
	O5B	C:NAP903	4.5	20.6	0.9
	O	C:HOH3393	4.6	38.7	1.0
	NZ	C:LYS757	4.9	27.8	1.0
	O1X	C:NAP903	4.9	18.2	0.9
	CD1	C:TRP573	4.9	12.9	1.0
	O1A	C:NAP903	5.0	19.7	0.9

Magnesium binding site 4 out of 4 in 2o2q

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Magnesium Binding Sites List in 2o2q

Magnesium binding site 4 out of 4 in the Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of the C-Terminal Domain of Rat 10'Formyltetrahydrofolate Dehydrogenase in Complex with Nadp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
D:Mg2004 b:54.7 occ:1.00	O2N	D:NAP903	2.2	34.8	0.9
	O2A	D:NAP903	2.5	25.1	0.9
	PN	D:NAP903	2.7	34.4	0.9
	O1N	D:NAP903	2.7	34.8	0.9
	O	D:HOH3229	3.2	24.0	1.0
	O3	D:NAP903	3.3	27.9	0.9
	PA	D:NAP903	3.4	22.9	0.9
	O	D:HOH3368	3.9	27.5	1.0
	O	D:HOH3201	4.0	31.8	1.0
	NE1	D:TRP573	4.0	14.2	1.0
	O5B	D:NAP903	4.1	23.2	0.9
	O	D:HOH3470	4.3	35.3	1.0
	O5D	D:NAP903	4.3	32.7	0.9
	O	D:HOH3295	4.3	32.9	1.0
	O1A	D:NAP903	4.7	23.3	0.9
	O1X	D:NAP903	4.8	20.5	0.9
	CD1	D:TRP573	4.8	15.3	1.0
	O	D:HOH3126	4.9	25.1	1.0

Reference:

Y.Tsybovsky, H.Donato, N.I.Krupenko, C.Davies, S.A.Krupenko. Crystal Structures of the Carboxyl Terminal Domain of Rat 10-Formyltetrahydrofolate Dehydrogenase: Implications For the Catalytic Mechanism of Aldehyde Dehydrogenases. Biochemistry V. 46 2917 2007.
ISSN: ISSN 0006-2960
PubMed: 17302434
DOI: 10.1021/BI0619573

Page generated: Wed Aug 14 01:03:12 2024

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