Iron in PDB 6j28: Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine

Enzymatic activity of Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine

All present enzymatic activity of Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine:
2.5.1.128;

Protein crystallography data

The structure of Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine, PDB code: 6j28 was solved by E.Mizohata, M.Toyoda, J.Fujita, T.Inoue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.33 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 69.777, 158.518, 72.018, 90.00, 118.94, 90.00
R / Rfree (%) 20 / 25.4

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine (pdb code 6j28). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine, PDB code: 6j28:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 6j28

Go back to Iron Binding Sites List in 6j28
Iron binding site 1 out of 2 in the Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe403

b:14.4
occ:1.00
 SG C:CYS100 2.3 17.8 1.0
SG A:CYS100 2.3 20.3 1.0
SG A:CYS97 2.4 19.9 1.0
SG C:CYS97 2.4 21.1 1.0
CB A:CYS97 3.1 19.1 1.0
CB C:CYS97 3.1 22.1 1.0
CB A:CYS100 3.3 21.5 1.0
CB C:CYS100 3.4 19.7 1.0
N A:CYS100 3.8 20.2 1.0
N C:CYS100 3.8 22.1 1.0
CA A:CYS100 4.2 20.9 1.0
CA C:CYS100 4.2 19.4 1.0
CB C:ALA99 4.4 23.3 1.0
CA A:CYS97 4.5 19.4 1.0
CB A:ALA99 4.5 24.9 1.0
CA C:CYS97 4.5 19.9 1.0
C A:ALA99 4.6 24.0 1.0
CA A:GLY104 4.6 18.7 1.0
O A:CYS97 4.6 22.9 1.0
C C:ALA99 4.7 21.8 1.0
N A:GLY104 4.7 18.4 1.0
CA C:GLY104 4.7 17.1 1.0
C A:CYS97 4.8 21.0 1.0
O C:CYS97 4.8 20.2 1.0
N C:GLY104 4.8 16.1 1.0
C C:CYS97 4.9 21.2 1.0
CA C:ALA99 4.9 23.3 1.0
N A:ALA99 4.9 26.8 1.0
CA A:ALA99 4.9 23.9 1.0
N C:ALA99 5.0 21.8 1.0

Iron binding site 2 out of 2 in 6j28

Go back to Iron Binding Sites List in 6j28
Iron binding site 2 out of 2 in the Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of the Branched-Chain Polyamine Synthase C9 Mutein From Thermus Thermophilus (Tth-Bpsa C9) in Complex with N4- Aminopropylspermidine and 5'-Methylthioadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe403

b:14.5
occ:1.00
 SG D:CYS100 2.3 18.1 1.0
SG D:CYS97 2.3 19.8 1.0
SG B:CYS100 2.3 16.9 1.0
SG B:CYS97 2.4 20.3 1.0
CB B:CYS97 3.1 18.6 1.0
CB D:CYS97 3.1 19.1 1.0
CB D:CYS100 3.3 19.5 1.0
CB B:CYS100 3.3 18.4 1.0
N D:CYS100 3.8 20.2 1.0
N B:CYS100 3.9 19.5 1.0
CA D:CYS100 4.2 19.0 1.0
CA B:CYS100 4.2 18.8 1.0
CB D:ALA99 4.3 23.3 1.0
CA B:CYS97 4.5 18.9 1.0
CA D:CYS97 4.5 19.2 1.0
O B:CYS97 4.6 18.2 1.0
CA D:GLY104 4.6 16.3 1.0
CB B:ALA99 4.6 22.6 1.0
C D:ALA99 4.6 22.9 1.0
CA B:GLY104 4.7 18.3 1.0
C B:CYS97 4.7 19.4 1.0
C B:ALA99 4.7 21.6 1.0
N D:GLY104 4.8 14.2 1.0
C D:CYS97 4.8 19.6 1.0
O D:CYS97 4.8 19.2 1.0
N B:GLY104 4.8 16.2 1.0
CA D:ALA99 4.9 22.8 1.0
N D:ALA99 4.9 20.1 1.0
N B:ALA99 5.0 20.3 1.0
CA B:ALA99 5.0 21.0 1.0

Reference:

R.Hidese, M.Toyoda, K.I.Yoshino, W.Fukuda, G.A.Wihardja, S.Kimura, J.Fujita, M.Niitsu, T.Oshima, T.Imanaka, E.Mizohata, S.Fujiwara. The C-Terminal Flexible Region of Branched-Chain Polyamine Synthase Facilitates Substrate Specificity and Catalysis. Febs J. V. 286 3926 2019.
ISSN: ISSN 1742-464X
PubMed: 31162806
DOI: 10.1111/FEBS.14949
Page generated: Sun Dec 13 16:34:40 2020

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