Magnesium in PDB 1dj9: Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway.

Enzymatic activity of Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway.

All present enzymatic activity of Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway.:
2.3.1.47;

Protein crystallography data

The structure of Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway., PDB code: 1dj9 was solved by S.P.Webster, D.Alexeev, D.J.Campopiano, R.M.Watt, M.Alexeeva, L.Sawyer, R.L.Baxter, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	10.00 / 2.00
*Space group*	P 3₁ 1 2
*Cell size a, b, c (Å), α, β, γ (°)*	58.890, 58.890, 201.770, 90.00, 90.00, 120.00
*R / R_free (%)*	21.2 / 27.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway. (pdb code 1dj9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway., PDB code: 1dj9:

Magnesium binding site 1 out of 1 in 1dj9

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Magnesium Binding Sites List in 1dj9

Magnesium binding site 1 out of 1 in the Crystal Structure of 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway.

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 8-Amino-7-Oxonanoate Synthase (or 7-Keto- 8AMINIPELARGONATE or Kapa Synthase) Complexed with Plp and the Product 8(S)-Amino-7-Oxonanonoate (or Kapa). the Enzyme of Biotin Biosynthetic Pathway. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg500 b:37.1 occ:0.88	N9C	A:KAM400	2.1	20.5	1.0
	O3	A:KAM400	2.1	18.3	1.0
	O	A:HOH1092	2.2	42.7	1.0
	OG	A:SER179	2.6	29.9	1.0
	O	A:HOH1069	2.7	29.9	1.0
	O7C	A:KAM400	2.7	42.9	1.0
	C8C	A:KAM400	2.7	36.0	1.0
	C7C	A:KAM400	2.8	42.8	1.0
	C4A	A:KAM400	3.1	32.4	1.0
	C3	A:KAM400	3.2	23.2	1.0
	C4	A:KAM400	3.6	34.3	1.0
	NE2	A:HIS207	3.7	29.2	1.0
	C6C	A:KAM400	3.8	37.9	1.0
	CD2	A:HIS133	3.9	30.9	1.0
	CB	A:SER179	4.0	20.4	1.0
	NE2	A:HIS133	4.2	25.8	1.0
	C9C	A:KAM400	4.2	21.1	1.0
	CE1	A:HIS207	4.2	26.1	1.0
	CE	A:MET180	4.3	86.9	1.0
	C5C	A:KAM400	4.3	43.8	1.0
	C2	A:KAM400	4.3	24.0	1.0
	CA	A:SER179	4.7	35.7	1.0
	C2A	A:KAM400	4.8	36.0	1.0
	CE	A:LYS236	4.9	26.9	1.0
	CD2	A:HIS207	5.0	32.0	1.0
	C5	A:KAM400	5.0	38.4	1.0

Reference:

S.P.Webster, D.Alexeev, D.J.Campopiano, R.M.Watt, M.Alexeeva, L.Sawyer, R.L.Baxter. Mechanism of 8-Amino-7-Oxononanoate Synthase: Spectroscopic, Kinetic, and Crystallographic Studies. Biochemistry V. 39 516 2000.
ISSN: ISSN 0006-2960
PubMed: 10642176
DOI: 10.1021/BI991620J

Page generated: Tue Aug 13 02:40:09 2024

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