Atomistry » Iron » PDB 7oqr-7p7e » 7p0p
Atomistry »
  Iron »
    PDB 7oqr-7p7e »
      7p0p »

Iron in PDB 7p0p: Naf-1 Bound to M1 Molecule

Protein crystallography data

The structure of Naf-1 Bound to M1 Molecule, PDB code: 7p0p was solved by O.Livnah, Y.Eisenberg-Domovich, H.B.Marjault, R.Nechushtai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.21 / 1.74
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 43.573, 47.589, 125.948, 90, 90, 90
R / Rfree (%) 20.4 / 25.4

Iron Binding Sites:

The binding sites of Iron atom in the Naf-1 Bound to M1 Molecule (pdb code 7p0p). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 8 binding sites of Iron where determined in the Naf-1 Bound to M1 Molecule, PDB code: 7p0p:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Iron binding site 1 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 1 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe200

b:22.8
occ:1.00
FE1 A:FES200 0.0 22.8 1.0
S2 A:FES200 2.2 22.4 1.0
S1 A:FES200 2.2 25.1 1.0
SG A:CYS101 2.3 25.2 1.0
SG A:CYS99 2.4 23.2 1.0
FE2 A:FES200 2.7 23.5 1.0
CB A:CYS101 3.3 27.8 1.0
CB A:CYS99 3.4 23.6 1.0
N A:CYS101 3.6 25.4 1.0
CA A:CYS99 3.7 21.9 1.0
N A:ARG100 3.9 20.1 1.0
CA A:CYS101 3.9 26.1 1.0
CB A:HIS114 4.0 24.0 1.0
N A:HIS114 4.1 22.4 1.0
C A:CYS99 4.2 19.8 1.0
N A:SER104 4.3 25.8 1.0
ND1 A:HIS114 4.4 24.1 1.0
N A:TRP102 4.4 25.8 1.0
CA A:HIS114 4.4 24.0 1.0
C A:CYS101 4.4 26.2 1.0
CB A:SER104 4.5 26.5 1.0
N A:ARG103 4.6 25.1 1.0
C A:ARG100 4.6 23.1 1.0
SG A:CYS110 4.7 24.7 1.0
CG A:HIS114 4.7 22.0 1.0
CA A:CYS110 4.8 25.6 1.0
CA A:SER104 4.8 27.5 1.0
CB A:CYS110 4.9 23.4 1.0
CA A:ARG100 5.0 20.8 1.0

Iron binding site 2 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 2 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe200

b:23.5
occ:1.00
FE2 A:FES200 0.0 23.5 1.0
S1 A:FES200 2.2 25.1 1.0
ND1 A:HIS114 2.2 24.1 1.0
SG A:CYS110 2.3 24.7 1.0
S2 A:FES200 2.3 22.4 1.0
FE1 A:FES200 2.7 22.8 1.0
CE1 A:HIS114 3.2 22.5 1.0
CG A:HIS114 3.2 22.0 1.0
CB A:CYS110 3.3 23.4 1.0
CB A:HIS114 3.5 24.0 1.0
CA A:CYS110 3.8 25.6 1.0
N A:HIS114 3.9 22.4 1.0
N A:GLY112 4.0 26.9 1.0
CB A:PRO127 4.2 22.6 1.0
CD A:PRO127 4.3 23.1 1.0
NE2 A:HIS114 4.3 23.2 1.0
CA A:GLY112 4.3 25.2 1.0
N A:ASP111 4.3 26.9 1.0
CD2 A:HIS114 4.3 21.6 1.0
CA A:HIS114 4.3 24.0 1.0
N A:SER113 4.4 24.5 1.0
CG A:PRO127 4.4 22.6 1.0
C A:CYS110 4.4 26.0 1.0
C A:GLY112 4.5 24.1 1.0
SG A:CYS101 4.5 25.2 1.0
CA A:CYS99 4.6 21.9 1.0
SG A:CYS99 4.6 23.2 1.0
N A:PRO127 4.6 22.4 1.0
CB A:CYS99 4.7 23.6 1.0
CA A:PRO127 4.8 23.4 1.0
C A:SER113 5.0 22.2 1.0

Iron binding site 3 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 3 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe200

b:23.9
occ:1.00
FE1 B:FES200 0.0 23.9 1.0
S1 B:FES200 2.2 24.7 1.0
S2 B:FES200 2.2 23.2 1.0
SG B:CYS101 2.3 24.8 1.0
SG B:CYS99 2.4 22.7 1.0
FE2 B:FES200 2.7 23.6 1.0
CB B:CYS99 3.3 25.6 1.0
CB B:CYS101 3.3 23.6 1.0
N B:CYS101 3.6 21.6 1.0
CA B:CYS99 3.6 24.8 1.0
N B:ARG100 3.9 22.0 1.0
CA B:CYS101 3.9 23.6 1.0
CB B:HIS114 4.1 22.6 1.0
C B:CYS99 4.2 23.0 1.0
ND1 B:HIS114 4.2 22.0 1.0
N B:HIS114 4.3 23.9 1.0
N B:TRP102 4.4 25.0 1.0
C B:CYS101 4.4 23.7 1.0
CB B:SER104 4.5 26.3 1.0
N B:SER104 4.5 26.8 1.0
CA B:HIS114 4.6 23.9 1.0
SG B:CYS110 4.6 25.3 1.0
N B:ARG103 4.6 26.3 1.0
CG B:HIS114 4.7 23.4 1.0
C B:ARG100 4.7 22.9 1.0
CA B:CYS110 4.8 25.6 1.0
CB B:CYS110 4.8 27.5 1.0
CA B:SER104 4.9 27.5 1.0
CA B:ARG100 5.0 22.2 1.0
N B:CYS99 5.0 24.2 1.0

Iron binding site 4 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 4 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe200

b:23.6
occ:1.00
FE2 B:FES200 0.0 23.6 1.0
ND1 B:HIS114 2.2 22.0 1.0
S1 B:FES200 2.2 24.7 1.0
S2 B:FES200 2.2 23.2 1.0
SG B:CYS110 2.3 25.3 1.0
FE1 B:FES200 2.7 23.9 1.0
CE1 B:HIS114 3.0 21.0 1.0
CB B:CYS110 3.3 27.5 1.0
CG B:HIS114 3.3 23.4 1.0
CB B:HIS114 3.7 22.6 1.0
CA B:CYS110 3.8 25.6 1.0
N B:GLY112 4.0 25.9 1.0
N B:HIS114 4.0 23.9 1.0
NE2 B:HIS114 4.2 22.4 1.0
CA B:GLY112 4.2 25.1 1.0
CD B:PRO127 4.3 23.5 1.0
CB B:PRO127 4.3 21.6 1.0
CD2 B:HIS114 4.3 24.2 1.0
N B:ASP111 4.4 27.8 1.0
C B:CYS110 4.4 26.2 1.0
SG B:CYS101 4.5 24.8 1.0
CA B:HIS114 4.5 23.9 1.0
N B:SER113 4.5 22.1 1.0
CG B:PRO127 4.6 22.3 1.0
CA B:CYS99 4.6 24.8 1.0
C B:GLY112 4.6 24.3 1.0
N B:PRO127 4.6 22.5 1.0
SG B:CYS99 4.7 22.7 1.0
CB B:CYS99 4.7 25.6 1.0
CA B:PRO127 4.8 20.9 1.0

Iron binding site 5 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 5 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe200

b:23.4
occ:1.00
FE1 C:FES200 0.0 23.4 1.0
S2 C:FES200 2.2 23.0 1.0
S1 C:FES200 2.2 25.5 1.0
SG C:CYS101 2.3 23.8 1.0
SG C:CYS99 2.4 23.5 1.0
FE2 C:FES200 2.7 23.2 1.0
CB C:CYS101 3.4 22.8 1.0
CB C:CYS99 3.4 22.4 1.0
N C:CYS101 3.6 22.2 1.0
CA C:CYS99 3.7 22.2 1.0
N C:ARG100 3.9 20.1 1.0
CA C:CYS101 4.0 22.4 1.0
CB C:HIS114 4.0 23.9 1.0
C C:CYS99 4.2 21.0 1.0
N C:HIS114 4.3 22.2 1.0
ND1 C:HIS114 4.3 26.0 1.0
N C:TRP102 4.3 24.4 1.0
N C:SER104 4.4 26.4 1.0
C C:CYS101 4.5 23.1 1.0
CB C:SER104 4.5 25.2 1.0
CA C:HIS114 4.6 25.2 1.0
N C:ARG103 4.6 25.8 1.0
C C:ARG100 4.6 22.1 1.0
SG C:CYS110 4.6 26.4 1.0
CG C:HIS114 4.7 26.0 1.0
CA C:SER104 4.9 26.9 1.0
CA C:CYS110 4.9 25.7 1.0
CA C:ARG100 4.9 22.7 1.0
CB C:CYS110 5.0 26.4 1.0
N C:CYS99 5.0 21.7 1.0

Iron binding site 6 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 6 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe200

b:23.2
occ:1.00
FE2 C:FES200 0.0 23.2 1.0
ND1 C:HIS114 2.2 26.0 1.0
S1 C:FES200 2.2 25.5 1.0
S2 C:FES200 2.3 23.0 1.0
SG C:CYS110 2.3 26.4 1.0
FE1 C:FES200 2.7 23.4 1.0
CE1 C:HIS114 3.1 26.4 1.0
CG C:HIS114 3.2 26.0 1.0
CB C:CYS110 3.4 26.4 1.0
CB C:HIS114 3.6 23.9 1.0
CA C:CYS110 3.9 25.7 1.0
N C:GLY112 4.0 25.9 1.0
N C:HIS114 4.0 22.2 1.0
CD C:PRO127 4.1 23.5 1.0
NE2 C:HIS114 4.2 24.5 1.0
CA C:GLY112 4.3 26.1 1.0
CD2 C:HIS114 4.3 24.1 1.0
N C:ASP111 4.4 26.2 1.0
CB C:PRO127 4.4 21.0 1.0
SG C:CYS101 4.4 23.8 1.0
CA C:HIS114 4.4 25.2 1.0
CG C:PRO127 4.5 23.0 1.0
C C:CYS110 4.5 26.2 1.0
N C:SER113 4.5 24.0 1.0
C C:GLY112 4.6 26.1 1.0
CA C:CYS99 4.6 22.2 1.0
N C:PRO127 4.6 24.7 1.0
SG C:CYS99 4.7 23.5 1.0
CB C:CYS99 4.8 22.4 1.0
CA C:PRO127 4.9 21.7 1.0

Iron binding site 7 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 7 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:22.3
occ:1.00
FE1 D:FES201 0.0 22.3 1.0
S1 D:FES201 2.2 23.1 1.0
S2 D:FES201 2.2 23.1 1.0
SG D:CYS101 2.4 23.4 1.0
SG D:CYS99 2.4 22.6 1.0
FE2 D:FES201 2.7 23.4 1.0
CB D:CYS99 3.4 20.6 1.0
CB D:CYS101 3.5 24.0 1.0
N D:CYS101 3.6 20.7 1.0
CA D:CYS99 3.7 21.4 1.0
N D:ARG100 4.0 19.6 1.0
CA D:CYS101 4.0 22.4 1.0
CB D:HIS114 4.0 25.4 1.0
N D:HIS114 4.0 25.0 1.0
C D:CYS99 4.3 19.7 1.0
N D:SER104 4.4 20.3 1.0
ND1 D:HIS114 4.4 23.3 1.0
CB D:SER104 4.4 21.4 1.0
N D:TRP102 4.4 21.8 1.0
CA D:HIS114 4.4 25.1 1.0
C D:CYS101 4.5 24.4 1.0
N D:ARG103 4.6 22.6 1.0
SG D:CYS110 4.6 24.4 1.0
C D:ARG100 4.7 21.5 1.0
CG D:HIS114 4.7 23.9 1.0
CB D:CYS110 4.7 22.6 1.0
CA D:SER104 4.8 21.8 1.0
CA D:CYS110 4.8 24.5 1.0
C D:SER113 4.9 23.2 1.0
CA D:ARG100 5.0 20.8 1.0

Iron binding site 8 out of 8 in 7p0p

Go back to Iron Binding Sites List in 7p0p
Iron binding site 8 out of 8 in the Naf-1 Bound to M1 Molecule


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Naf-1 Bound to M1 Molecule within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe201

b:23.4
occ:1.00
FE2 D:FES201 0.0 23.4 1.0
S2 D:FES201 2.2 23.1 1.0
S1 D:FES201 2.2 23.1 1.0
SG D:CYS110 2.2 24.4 1.0
ND1 D:HIS114 2.2 23.3 1.0
FE1 D:FES201 2.7 22.3 1.0
CE1 D:HIS114 3.2 23.2 1.0
CG D:HIS114 3.2 23.9 1.0
CB D:CYS110 3.2 22.6 1.0
CB D:HIS114 3.5 25.4 1.0
CA D:CYS110 3.9 24.5 1.0
N D:HIS114 3.9 25.0 1.0
N D:GLY112 4.0 23.4 1.0
CB D:PRO127 4.2 22.7 1.0
NE2 D:HIS114 4.3 22.3 1.0
CD D:PRO127 4.3 22.2 1.0
CA D:GLY112 4.3 22.0 1.0
CD2 D:HIS114 4.3 24.9 1.0
N D:ASP111 4.3 22.9 1.0
CA D:HIS114 4.3 25.1 1.0
N D:SER113 4.4 22.3 1.0
C D:CYS110 4.4 23.9 1.0
C D:GLY112 4.5 21.6 1.0
SG D:CYS101 4.5 23.4 1.0
CG D:PRO127 4.5 22.2 1.0
N D:PRO127 4.6 22.7 1.0
CA D:CYS99 4.6 21.4 1.0
SG D:CYS99 4.7 22.6 1.0
CA D:PRO127 4.8 23.5 1.0
CB D:CYS99 4.9 20.6 1.0
C D:SER113 5.0 23.2 1.0

Reference:

H.B.Marjault, O.Karmi, K.Zuo, D.Michaeli, Y.Eisenberg-Domovich, G.Rossetti, B.De Chassey, J.Vonderscher, I.Cabantchik, P.Carloni, R.Mittler, O.Livnah, E.Meldrum, R.Nechushtai. An Anti-Diabetic Drug Targets Neet (Cisd) Proteins Through Destabilization of Their [2FE-2S] Clusters. Commun Biol V. 5 437 2022.
ISSN: ESSN 2399-3642
PubMed: 35538231
DOI: 10.1038/S42003-022-03393-X
Page generated: Wed Apr 5 03:25:35 2023

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy