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Sodium in PDB 1t4b: 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.

Enzymatic activity of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.

All present enzymatic activity of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.:
1.2.1.11;

Protein crystallography data

The structure of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase., PDB code: 1t4b was solved by C.E.Nichols, B.Dhaliwal, M.Lockyer, A.R.Hawkins, D.K.Stammers, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.38 / 1.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 56.500, 70.100, 180.900, 90.00, 90.00, 90.00
R / Rfree (%) 17 / 19.9

Sodium Binding Sites:

The binding sites of Sodium atom in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase. (pdb code 1t4b). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 5 binding sites of Sodium where determined in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase., PDB code: 1t4b:
Jump to Sodium binding site number: 1; 2; 3; 4; 5;

Sodium binding site 1 out of 5 in 1t4b

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Sodium binding site 1 out of 5 in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na5003

b:79.1
occ:1.00
 O A:HOH5131 2.8 42.5 1.0
O A:HOH5129 3.6 30.2 1.0
O A:MET1 3.7 27.1 1.0
OE1 A:GLN2 4.2 36.7 1.0
O A:HOH5198 4.4 38.8 1.0
O A:HOH5391 4.6 45.0 1.0
C A:MET1 4.8 26.3 1.0
OD2 A:ASP67 4.9 17.6 1.0
N A:MET1 4.9 31.6 1.0

Sodium binding site 2 out of 5 in 1t4b

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Sodium binding site 2 out of 5 in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na5004

b:22.0
occ:1.00
 O A:HOH5474 2.5 22.1 1.0
O A:HOH5011 2.6 25.6 1.0
O A:HOH5473 2.6 25.2 1.0
O A:HOH5472 2.7 27.8 1.0
O A:HOH5290 2.8 52.5 1.0
O B:HOH5456 2.9 57.9 1.0
O B:HOH5054 4.2 16.3 1.0
O A:HOH5096 4.2 20.2 1.0
OD2 A:ASP308 4.3 16.3 1.0
O A:HOH5411 4.3 25.5 1.0
O A:ASN307 4.3 13.8 1.0
O A:HOH5030 4.4 16.4 1.0
O B:HOH5179 4.4 32.1 1.0
O B:HOH5309 4.5 27.6 1.0
OD1 A:ASP308 4.8 28.5 1.0
CB A:ASN307 4.9 14.0 1.0
CG A:ASP308 4.9 22.7 1.0
NE2 B:GLN233 4.9 16.2 1.0
C A:ASN307 5.0 14.6 1.0

Sodium binding site 3 out of 5 in 1t4b

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Sodium binding site 3 out of 5 in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na5005

b:61.8
occ:1.00
 O A:HOH5138 2.8 40.2 1.0
O A:HOH5135 2.8 49.1 1.0
OD1 A:ASP76 3.1 23.6 1.0
CG A:ASP76 4.0 23.8 1.0
OD2 A:ASP76 4.0 19.7 1.0

Sodium binding site 4 out of 5 in 1t4b

Go back to Sodium Binding Sites List in 1t4b
Sodium binding site 4 out of 5 in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na5001

b:35.0
occ:1.00
 O B:HOH5045 2.7 21.9 1.0
O B:HOH5451 2.7 34.3 1.0
O B:HOH5130 2.7 25.7 1.0
O B:HOH5450 2.8 42.5 1.0
O A:HOH5469 2.8 48.5 1.0
O B:HOH5452 2.8 53.9 1.0
O B:HOH5089 4.1 23.1 1.0
O A:HOH5285 4.3 39.8 1.0
O B:HOH5200 4.3 35.4 1.0
OD2 B:ASP308 4.4 20.3 1.0
O A:HOH5054 4.4 18.5 1.0
O B:HOH5293 4.4 46.6 1.0
O B:ASN307 4.5 16.7 1.0
O B:HOH5095 4.6 20.9 1.0
OD1 B:ASP308 4.7 31.2 1.0
CG B:ASP308 4.9 25.2 1.0
NE2 A:GLN233 5.0 17.7 1.0

Sodium binding site 5 out of 5 in 1t4b

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Sodium binding site 5 out of 5 in the 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of 1.6 Angstrom Structure of Esherichia Coli Aspartate- Semialdehyde Dehydrogenase. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na5002

b:66.4
occ:1.00
 O B:HOH5391 2.9 39.5 1.0
O B:HOH5457 2.9 41.6 1.0
O B:HOH5228 3.0 42.1 1.0
O B:HOH5458 3.6 31.4 1.0
O B:HOH5255 4.1 51.0 1.0
NE2 B:GLN2 4.4 31.7 1.0
OE1 B:GLN2 4.8 25.4 1.0
O B:HOH5249 4.9 40.0 1.0

Reference:

C.E.Nichols, B.Dhaliwal, M.Lockyer, A.R.Hawkins, D.K.Stammers. High-Resolution Structures Reveal Details of Domain Closure and "Half-of-Sites-Reactivity" in Escherichia Coli Aspartate Beta-Semialdehyde Dehydrogenase. J.Mol.Biol. V. 341 797 2004.
ISSN: ISSN 0022-2836
PubMed: 15288787
DOI: 10.1016/J.JMB.2004.05.073
Page generated: Sun Oct 6 22:37:55 2024

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