Atomistry » Iron » PDB 5xdh-5xy4 » 5xnc
Atomistry »
  Iron »
    PDB 5xdh-5xy4 »
      5xnc »

Iron in PDB 5xnc: Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine

Enzymatic activity of Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine

All present enzymatic activity of Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) 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 (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine, PDB code: 5xnc was solved by E.Mizohata, K.M.Tse, J.Fujita, T.Inoue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.53 / 1.84
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 137.533, 50.978, 402.428, 90.00, 93.69, 90.00
R / Rfree (%) 16.1 / 20.7

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine (pdb code 5xnc). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine, PDB code: 5xnc:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 5xnc

Go back to Iron Binding Sites List in 5xnc
Iron binding site 1 out of 4 in the Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) 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 (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe406

b:30.3
occ:0.80
 SG B:CYS91 2.3 37.5 1.0
SG A:CYS94 2.3 37.6 1.0
SG B:CYS94 2.3 39.2 1.0
SG A:CYS91 2.3 35.1 1.0
CB A:CYS91 3.0 36.1 1.0
CB B:CYS91 3.1 37.7 1.0
CB A:CYS94 3.2 39.2 1.0
CB B:CYS94 3.3 38.9 1.0
N B:CYS94 3.6 37.8 1.0
N A:CYS94 3.7 36.7 1.0
CA B:CYS94 4.0 39.0 1.0
CA A:CYS94 4.1 38.2 1.0
CA A:CYS91 4.5 36.9 1.0
CA B:CYS91 4.5 38.0 1.0
CB B:HIS93 4.6 51.7 1.0
C B:HIS93 4.6 43.4 1.0
C A:HIS93 4.7 44.5 1.0
C A:CYS91 4.9 38.3 1.0
C B:CYS94 4.9 36.0 1.0
CA B:HIS93 4.9 46.0 1.0
C B:CYS91 4.9 39.0 1.0
C A:CYS94 4.9 39.1 1.0
N B:HIS93 5.0 43.4 1.0
CB A:HIS93 5.0 52.7 1.0

Iron binding site 2 out of 4 in 5xnc

Go back to Iron Binding Sites List in 5xnc
Iron binding site 2 out of 4 in the Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) 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 (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe403

b:43.8
occ:0.80
 SG D:CYS91 2.2 53.9 1.0
SG D:CYS94 2.3 53.6 1.0
SG C:CYS94 2.3 50.6 1.0
SG C:CYS91 2.3 50.2 1.0
CB C:CYS91 3.0 49.9 1.0
CB D:CYS91 3.0 51.3 1.0
CB C:CYS94 3.2 52.6 1.0
CB D:CYS94 3.2 56.5 1.0
N C:CYS94 3.7 55.5 1.0
N D:CYS94 3.7 58.3 1.0
CA C:CYS94 4.0 53.4 1.0
CA D:CYS94 4.1 56.6 1.0
CA C:CYS91 4.4 51.2 1.0
CA D:CYS91 4.4 52.9 1.0
C D:HIS93 4.7 64.1 1.0
C C:HIS93 4.7 57.6 1.0
CB C:HIS93 4.8 69.8 1.0
CB D:HIS93 4.8 72.0 1.0
C D:CYS91 4.9 53.4 1.0
C D:CYS94 4.9 54.5 1.0
C C:CYS91 4.9 49.5 1.0
C C:CYS94 4.9 50.1 1.0
O D:CYS91 4.9 52.6 1.0
O C:CYS91 5.0 49.4 1.0

Iron binding site 3 out of 4 in 5xnc

Go back to Iron Binding Sites List in 5xnc
Iron binding site 3 out of 4 in the Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) 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 3 of Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe403

b:50.9
occ:0.80
 SG F:CYS91 2.3 61.4 1.0
SG E:CYS91 2.3 59.9 1.0
SG F:CYS94 2.3 61.6 1.0
SG E:CYS94 2.3 59.8 1.0
CB E:CYS91 3.1 63.5 1.0
CB F:CYS91 3.1 54.0 1.0
CB F:CYS94 3.2 66.4 1.0
CB E:CYS94 3.3 63.5 1.0
N E:CYS94 3.7 61.1 1.0
N F:CYS94 3.7 69.4 1.0
CA E:CYS94 4.0 64.2 1.0
CA F:CYS94 4.1 64.3 1.0
CA E:CYS91 4.5 61.9 1.0
CB E:HIS93 4.5 79.2 1.0
CA F:CYS91 4.5 57.2 1.0
CB F:HIS93 4.6 78.6 1.0
C E:HIS93 4.7 65.8 1.0
C F:HIS93 4.7 71.7 1.0
C E:CYS91 4.8 62.1 1.0
O E:CYS91 4.8 61.2 1.0
C E:CYS94 4.8 63.4 1.0
C F:CYS94 4.9 62.9 1.0
CA E:HIS93 4.9 71.5 1.0
N E:HIS93 5.0 67.2 1.0
C F:CYS91 5.0 56.5 1.0

Iron binding site 4 out of 4 in 5xnc

Go back to Iron Binding Sites List in 5xnc
Iron binding site 4 out of 4 in the Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) 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 4 of Crystal Structure of the Branched-Chain Polyamine Synthase (Bpsa) in Complex with N4-Aminopropylspermidine and 5-Methylthioadenosine within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe403

b:46.5
occ:0.40
 SG G:CYS94 2.3 57.1 1.0
SG G:CYS91 2.3 54.8 1.0
CB G:CYS91 3.0 56.9 1.0
CB G:CYS94 3.3 61.3 1.0
N G:CYS94 3.7 59.8 1.0
CA G:CYS94 4.1 57.4 1.0
CA G:CYS91 4.4 54.5 1.0
C G:HIS93 4.8 63.1 1.0
C G:CYS91 4.9 56.7 1.0
C G:CYS94 5.0 60.6 1.0

Reference:

R.Hidese, K.M.Tse, S.Kimura, E.Mizohata, J.Fujita, Y.Horai, N.Umezawa, T.Higuchi, M.Niitsu, T.Oshima, T.Imanaka, T.Inoue, S.Fujiwara. Active Site Geometry of A Novel Aminopropyltransferase For Biosynthesis of Hyperthermophile-Specific Branched-Chain Polyamine. Febs J. V. 284 3684 2017.
ISSN: ISSN 1742-4658
PubMed: 28881427
DOI: 10.1111/FEBS.14262
Page generated: Tue Aug 6 11:47:37 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy