Magnesium in PDB 7qrm: Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution

Enzymatic activity of Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution

All present enzymatic activity of Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution:
7.1.1.6;

Other elements in 7qrm:

The structure of Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution also contains other interesting chemical elements:

Iron (Fe) 12 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution (pdb code 7qrm). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution, PDB code: 7qrm:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 7qrm

Go back to Magnesium Binding Sites List in 7qrm
Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg304

b:34.5
occ:1.00
 MG A:CLA304 0.0 34.5 1.0
NB A:CLA304 2.0 34.5 1.0
ND A:CLA304 2.0 34.5 1.0
NA A:CLA304 2.1 34.5 1.0
NC A:CLA304 2.1 34.5 1.0
C4D A:CLA304 2.9 34.5 1.0
HL3 B:UMQ302 3.0 39.8 1.0
C1B A:CLA304 3.0 34.5 1.0
C4A A:CLA304 3.0 34.5 1.0
C4B A:CLA304 3.1 34.5 1.0
C1C A:CLA304 3.1 34.5 1.0
C4C A:CLA304 3.1 34.5 1.0
C1D A:CLA304 3.2 34.5 1.0
C1A A:CLA304 3.2 34.5 1.0
CHB A:CLA304 3.4 34.5 1.0
CHC A:CLA304 3.4 34.5 1.0
CHA A:CLA304 3.5 34.5 1.0
CHD A:CLA304 3.5 34.5 1.0
HL2 B:UMQ302 3.7 39.8 1.0
CL B:UMQ302 3.8 39.8 1.0
C3D A:CLA304 4.3 34.5 1.0
C2B A:CLA304 4.3 34.5 1.0
C3B A:CLA304 4.3 34.5 1.0
C2C A:CLA304 4.3 34.5 1.0
C2D A:CLA304 4.4 34.5 1.0
C3C A:CLA304 4.4 34.5 1.0
C3A A:CLA304 4.4 34.5 1.0
C2A A:CLA304 4.5 34.5 1.0
HK1 B:UMQ302 4.5 39.8 1.0
C51 B:PL9301 4.5 42.9 1.0
HL1 B:UMQ302 4.6 39.8 1.0
HJ1 B:UMQ302 4.6 39.8 1.0
CK B:UMQ302 4.7 39.8 1.0
CBD A:CLA304 4.9 34.5 1.0
O B:GLY136 5.0 30.2 1.0

Magnesium binding site 2 out of 2 in 7qrm

Go back to Magnesium Binding Sites List in 7qrm
Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Catalytically Active Spinacia Oleracea Cytochrome B6F in Complex with Endogenous Plastoquinones at 2.7 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg201

b:35.8
occ:1.00
 MG J:CLA201 0.0 35.8 1.0
NB J:CLA201 2.0 35.8 1.0
ND J:CLA201 2.0 35.8 1.0
NA J:CLA201 2.1 35.8 1.0
NC J:CLA201 2.1 35.8 1.0
HL3 J:UMQ205 2.8 41.0 1.0
C4D J:CLA201 2.9 35.8 1.0
C1B J:CLA201 3.0 35.8 1.0
HL2 J:UMQ205 3.0 41.0 1.0
C4A J:CLA201 3.0 35.8 1.0
C4B J:CLA201 3.1 35.8 1.0
C1C J:CLA201 3.1 35.8 1.0
C4C J:CLA201 3.1 35.8 1.0
C1D J:CLA201 3.2 35.8 1.0
C1A J:CLA201 3.2 35.8 1.0
CL J:UMQ205 3.4 41.0 1.0
CHB J:CLA201 3.4 35.8 1.0
CHC J:CLA201 3.4 35.8 1.0
CHA J:CLA201 3.5 35.8 1.0
HK2 J:UMQ205 3.5 41.0 1.0
CHD J:CLA201 3.5 35.8 1.0
CK J:UMQ205 4.0 41.0 1.0
C3D J:CLA201 4.3 35.8 1.0
C2B J:CLA201 4.3 35.8 1.0
HL1 J:UMQ205 4.3 41.0 1.0
C3B J:CLA201 4.3 35.8 1.0
C2C J:CLA201 4.3 35.8 1.0
C2D J:CLA201 4.4 35.8 1.0
C3C J:CLA201 4.4 35.8 1.0
C3A J:CLA201 4.4 35.8 1.0
C2A J:CLA201 4.5 35.8 1.0
HJ2 J:UMQ205 4.6 41.0 1.0
HK1 J:UMQ205 4.8 41.0 1.0
C51 J:PL9203 4.9 44.6 1.0
CBD J:CLA201 4.9 35.8 1.0
CJ J:UMQ205 5.0 41.0 1.0

Reference:

M.Sarewicz, M.Szwalec, S.Pintscher, P.Indyka, M.Rawski, R.Pietras, B.Mielecki, L.Koziej, M.Jaciuk, S.Glatt, A.Osyczka. High-Resolution Cryo-Em Structures of Plant Cytochrome B 6 F at Work. Sci Adv V. 9 D9688 2023.
ISSN: ESSN 2375-2548
PubMed: 36638176
DOI: 10.1126/SCIADV.ADD9688
Page generated: Thu Apr 6 20:41:13 2023

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