Atomistry » Iron » PDB 5tia-5ufg » 5u1a
Atomistry »
  Iron »
    PDB 5tia-5ufg »
      5u1a »

Iron in PDB 5u1a: Ferritin with Gc Mtre Loop 1 Inserted at HIS34

Enzymatic activity of Ferritin with Gc Mtre Loop 1 Inserted at HIS34

All present enzymatic activity of Ferritin with Gc Mtre Loop 1 Inserted at HIS34:
1.16.3.2;

Protein crystallography data

The structure of Ferritin with Gc Mtre Loop 1 Inserted at HIS34, PDB code: 5u1a was solved by S.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 2.00
Space group P 4
Cell size a, b, c (Å), α, β, γ (°) 128.412, 128.412, 165.041, 90.00, 90.00, 90.00
R / Rfree (%) 16.8 / 19.6

Other elements in 5u1a:

The structure of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 also contains other interesting chemical elements:

Chlorine (Cl) 8 atoms
Sodium (Na) 30 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34 (pdb code 5u1a). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34, PDB code: 5u1a:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in 5u1a

Go back to Iron Binding Sites List in 5u1a
Iron binding site 1 out of 6 in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe203

b:42.0
occ:1.00
 O D:HOH384 2.3 23.0 1.0
NE2 D:HIS164 2.4 32.6 1.0
NE2 A:HIS164 2.4 33.2 1.0
NE2 B:HIS164 2.6 32.7 1.0
O B:HOH378 3.2 41.8 1.0
CE1 D:HIS164 3.3 30.7 1.0
CD2 A:HIS164 3.3 32.6 1.0
CD2 D:HIS164 3.4 29.0 1.0
CE1 A:HIS164 3.4 33.8 1.0
CD2 B:HIS164 3.5 33.8 1.0
CE1 B:HIS164 3.7 34.4 1.0
ND1 D:HIS164 4.4 27.9 1.0
CG D:HIS164 4.5 29.0 1.0
CG A:HIS164 4.5 30.8 1.0
CD1 B:LEU168 4.5 26.3 1.0
ND1 A:HIS164 4.5 28.6 1.0
CD1 A:LEU168 4.6 23.2 1.0
CG B:HIS164 4.7 31.1 1.0
CD1 D:LEU168 4.7 24.6 1.0
ND1 B:HIS164 4.8 30.9 1.0
OD1 A:ASN163 5.0 40.6 1.0
OD1 B:ASN163 5.0 56.4 1.0

Iron binding site 2 out of 6 in 5u1a

Go back to Iron Binding Sites List in 5u1a
Iron binding site 2 out of 6 in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Fe204

b:37.9
occ:0.25
 O E:HOH390 2.2 23.8 0.2
NE2 E:HIS164 2.4 36.2 1.0
O E:HOH392 3.0 34.2 0.2
CE1 E:HIS164 3.3 36.0 1.0
CD2 E:HIS164 3.5 35.7 1.0
ND1 E:HIS164 4.4 31.7 1.0
CG E:HIS164 4.6 31.6 1.0
OD1 E:ASN163 4.6 36.5 1.0
CD1 E:LEU168 4.9 24.9 1.0

Iron binding site 3 out of 6 in 5u1a

Go back to Iron Binding Sites List in 5u1a
Iron binding site 3 out of 6 in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Fe206

b:37.5
occ:0.25
 O F:HOH413 2.0 13.7 0.2
O F:HOH421 2.5 50.0 0.2
NE2 F:HIS164 2.5 39.9 1.0
CE1 F:HIS164 3.4 40.4 1.0
CD2 F:HIS164 3.5 38.9 1.0
ND1 F:HIS164 4.5 34.9 1.0
CG F:HIS164 4.6 33.1 1.0
OD1 F:ASN163 4.7 47.7 1.0
CD1 F:LEU168 4.8 22.8 1.0

Iron binding site 4 out of 6 in 5u1a

Go back to Iron Binding Sites List in 5u1a
Iron binding site 4 out of 6 in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Fe203

b:39.6
occ:1.00
 NE2 G:HIS164 2.4 29.4 1.0
O G:HOH415 2.4 26.3 1.0
NE2 J:HIS164 2.5 33.7 1.0
NE2 H:HIS164 2.7 36.7 1.0
O J:HOH385 3.1 41.3 1.0
CD2 G:HIS164 3.3 30.9 1.0
CE1 G:HIS164 3.4 29.3 1.0
CD2 J:HIS164 3.4 32.2 1.0
CE1 J:HIS164 3.4 33.7 1.0
CD2 H:HIS164 3.5 36.0 1.0
CE1 H:HIS164 3.7 35.5 1.0
CD1 H:LEU168 4.5 26.0 1.0
CG G:HIS164 4.5 29.4 1.0
ND1 G:HIS164 4.5 29.9 1.0
ND1 J:HIS164 4.5 30.2 1.0
CG J:HIS164 4.6 30.4 1.0
CD1 G:LEU168 4.6 25.4 1.0
CG H:HIS164 4.7 30.7 1.0
CD1 J:LEU168 4.7 26.7 1.0
ND1 H:HIS164 4.8 30.6 1.0
OD1 G:ASN163 4.8 41.2 1.0
OD1 H:ASN163 5.0 51.1 1.0

Iron binding site 5 out of 6 in 5u1a

Go back to Iron Binding Sites List in 5u1a
Iron binding site 5 out of 6 in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Fe203

b:38.5
occ:0.25
 NE2 K:HIS164 2.4 30.6 1.0
O K:HOH420 2.5 26.3 0.2
CD2 K:HIS164 3.3 32.7 1.0
CE1 K:HIS164 3.4 32.2 1.0
ND1 K:HIS164 4.5 31.5 1.0
CG K:HIS164 4.5 28.7 1.0
CD1 K:LEU168 4.8 23.6 1.0
OD1 K:ASN163 4.8 47.8 1.0

Iron binding site 6 out of 6 in 5u1a

Go back to Iron Binding Sites List in 5u1a
Iron binding site 6 out of 6 in the Ferritin with Gc Mtre Loop 1 Inserted at HIS34


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Ferritin with Gc Mtre Loop 1 Inserted at HIS34 within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Fe206

b:42.7
occ:0.25
 O L:HOH412 2.3 21.3 0.2
NE2 L:HIS164 2.3 34.5 1.0
O L:HOH422 2.6 48.1 0.2
CE1 L:HIS164 3.2 33.5 1.0
CD2 L:HIS164 3.4 35.1 1.0
ND1 L:HIS164 4.3 29.1 1.0
CG L:HIS164 4.4 31.0 1.0
OD1 L:ASN163 4.7 43.4 1.0
CD1 L:LEU168 4.9 25.4 1.0

Reference:

L.Wang, D.Xing, A.Le Van, A.E.Jerse, S.Wang. Structure-Based Design of Ferritin Nanoparticle Immunogens Displaying Antigenic Loops of Neisseria Gonorrhoeae. Febs Open Bio V. 7 1196 2017.
ISSN: ESSN 2211-5463
PubMed: 28781959
DOI: 10.1002/2211-5463.12267
Page generated: Tue Aug 6 09:44:20 2024

Last articles

Zn in 2YRC
Zn in 2YQP
Zn in 2YR2
Zn in 2YQL
Zn in 2YPT
Zn in 2YPA
Zn in 2YPU
Zn in 2YNW
Zn in 2YNT
Zn in 2YNV
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy