Chlorine in PDB 5yft: Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate

Enzymatic activity of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate

All present enzymatic activity of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate:
5.3.1.29;

Protein crystallography data

The structure of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate, PDB code: 5yft was solved by P.Gogoi, S.P.Kanaujia, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	85.69 / 2.21
*Space group*	P 3₁ 1 2
*Cell size a, b, c (Å), α, β, γ (°)*	98.810, 98.810, 257.081, 90.00, 90.00, 120.00
*R / R_free (%)*	15.1 / 19.3

Other elements in 5yft:

The structure of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate also contains other interesting chemical elements:

Potassium

(K)

3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate (pdb code 5yft). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate, PDB code: 5yft:
Jump to Chlorine binding site number: 1; 2; 3;

Chlorine binding site 1 out of 3 in 5yft

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Chlorine Binding Sites List in 5yft

Chlorine binding site 1 out of 3 in the Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Cl403 b:54.3 occ:1.00	O	A:HOH659	2.9	45.8	1.0
	N	A:VAL251	3.4	25.3	1.0
	CB	A:VAL251	4.0	24.1	1.0
	CD2	A:LEU250	4.0	37.5	1.0
	CA	A:LEU250	4.0	28.4	1.0
	CG2	A:VAL251	4.1	26.0	1.0
	C	A:LEU250	4.2	27.9	1.0
	CA	A:VAL251	4.3	25.0	1.0
	CB	A:LEU250	4.3	32.0	1.0
	CD1	A:ILE213	4.4	29.4	1.0
	O	A:VAL251	4.4	25.1	1.0
	CG2	A:THR207	4.6	20.5	1.0
	CG	A:LEU250	4.8	34.6	1.0
	C	A:VAL251	4.9	23.6	1.0

Chlorine binding site 2 out of 3 in 5yft

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Chlorine Binding Sites List in 5yft

Chlorine binding site 2 out of 3 in the Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Cl403 b:53.1 occ:1.00	N	B:VAL251	3.3	24.4	1.0
	CD2	B:LEU250	3.8	40.7	1.0
	CA	B:LEU250	3.9	28.3	1.0
	CG2	B:VAL251	3.9	25.5	1.0
	CB	B:VAL251	4.0	22.0	1.0
	C	B:LEU250	4.1	27.2	1.0
	CA	B:VAL251	4.2	23.4	1.0
	CB	B:LEU250	4.4	29.9	1.0
	O	B:VAL251	4.4	22.8	1.0
	CD1	B:ILE213	4.4	23.7	1.0
	CG2	B:THR207	4.5	19.9	1.0
	CG	B:LEU250	4.7	35.5	1.0
	C	B:VAL251	4.8	23.0	1.0
	O	B:GLN249	4.9	26.9	1.0

Chlorine binding site 3 out of 3 in 5yft

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Chlorine Binding Sites List in 5yft

Chlorine binding site 3 out of 3 in the Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate

Mono view

Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Ribose-1,5-Bisphosphate Isomerase Mutant D204N From Pyrococcus Horikoshii OT3 in Complex with Ribose-1,5- Bisphosphate within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
C:Cl403 b:50.4 occ:1.00	O	C:HOH631	2.9	41.1	1.0
	N	C:VAL251	3.4	26.1	1.0
	CD2	C:LEU250	4.0	37.3	1.0
	CG2	C:VAL251	4.1	26.5	1.0
	CA	C:LEU250	4.1	28.9	1.0
	CB	C:VAL251	4.1	25.7	1.0
	C	C:LEU250	4.2	27.1	1.0
	CA	C:VAL251	4.3	25.8	1.0
	CG2	C:THR207	4.4	20.6	1.0
	O	C:VAL251	4.5	26.8	1.0
	CD1	C:ILE213	4.5	27.7	1.0
	CB	C:LEU250	4.5	33.8	1.0
	CG	C:LEU250	4.9	35.2	1.0
	C	C:VAL251	4.9	26.1	1.0

Reference:

P.Gogoi, S.P.Kanaujia. A Presumed Homologue of the Regulatory Subunits of EIF2B Functions As Ribose-1,5-Bisphosphate Isomerase in Pyrococcus Horikoshii OT3. Sci Rep V. 8 1891 2018.
ISSN: ESSN 2045-2322
PubMed: 29382938
DOI: 10.1038/S41598-018-20418-W

Page generated: Fri Jul 26 21:23:51 2024

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