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Mercury in PDB 5mlf: Structure of PSB29 at 1.55A

Protein crystallography data

The structure of Structure of PSB29 at 1.55A, PDB code: 5mlf was solved by J.W.Murray, A.Kozlo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.98 / 3.64
Space group P 63 2 2
Cell size a, b, c (Å), α, β, γ (°) 138.910, 138.910, 305.910, 90.00, 90.00, 120.00
R / Rfree (%) 31.1 / 35.8

Mercury Binding Sites:

The binding sites of Mercury atom in the Structure of PSB29 at 1.55A (pdb code 5mlf). This binding sites where shown within 5.0 Angstroms radius around Mercury atom.
In total 7 binding sites of Mercury where determined in the Structure of PSB29 at 1.55A, PDB code: 5mlf:
Jump to Mercury binding site number: 1; 2; 3; 4; 5; 6; 7;

Mercury binding site 1 out of 7 in 5mlf

Go back to Mercury Binding Sites List in 5mlf
Mercury binding site 1 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 1 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Hg301

b:96.7
occ:1.00
SG A:CYS81 2.8 0.8 1.0
CE A:MET86 3.5 88.5 1.0
N A:CYS81 3.6 0.7 1.0
CA A:CYS81 3.7 0.1 1.0
O A:PHE77 3.8 0.9 1.0
CB A:CYS81 3.9 0.7 1.0
C A:LEU80 4.0 0.3 1.0
CB A:LEU80 4.0 0.7 1.0
CE1 A:PHE77 4.1 0.2 1.0
CD1 A:PHE77 4.2 0.3 1.0
CG1 A:VAL56 4.4 44.6 1.0
CD2 A:LEU80 4.5 81.9 1.0
O A:LEU80 4.5 1.0 1.0
CZ A:PHE77 4.5 0.2 1.0
CG A:PHE77 4.6 0.4 1.0
CA A:LEU80 4.6 1.0 1.0
CD1 A:LEU91 4.7 87.3 1.0
C A:PHE77 4.7 0.1 1.0
CA A:PHE77 4.7 0.4 1.0
CG A:LEU80 4.7 0.3 1.0
CE2 A:PHE77 4.9 0.9 1.0
CD2 A:PHE77 4.9 0.7 1.0

Mercury binding site 2 out of 7 in 5mlf

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Mercury binding site 2 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 2 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Hg301

b:0.5
occ:1.00
SG B:CYS81 2.8 0.3 1.0
CE B:MET86 3.3 0.7 1.0
N B:CYS81 3.6 0.7 1.0
CA B:CYS81 3.7 0.2 1.0
CB B:CYS81 3.8 0.5 1.0
O B:PHE77 3.9 0.1 1.0
C B:LEU80 4.1 0.8 1.0
CE1 B:PHE77 4.2 70.2 1.0
CB B:LEU80 4.3 0.5 1.0
CD1 B:PHE77 4.3 74.1 1.0
CG1 B:VAL56 4.3 57.0 1.0
CD1 B:LEU91 4.5 77.4 1.0
O B:LEU80 4.5 0.0 1.0
CZ B:PHE77 4.5 70.0 1.0
CD2 B:LEU80 4.6 94.1 1.0
CG B:PHE77 4.7 80.5 1.0
CA B:LEU80 4.8 0.9 1.0
C B:PHE77 4.8 0.1 1.0
CA B:PHE77 4.9 0.4 1.0
CE2 B:PHE77 4.9 73.9 1.0
SD B:MET86 4.9 0.1 1.0
CG B:LEU80 4.9 98.7 1.0
CD2 B:PHE77 5.0 77.3 1.0
CD1 B:ILE37 5.0 68.4 1.0

Mercury binding site 3 out of 7 in 5mlf

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Mercury binding site 3 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 3 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Hg301

b:96.2
occ:1.00
SG C:CYS81 2.8 0.4 1.0
CE C:MET86 3.6 64.8 1.0
N C:CYS81 3.7 83.5 1.0
O C:PHE77 3.8 0.6 1.0
CA C:CYS81 3.8 87.1 1.0
CB C:CYS81 3.9 94.1 1.0
CE1 C:PHE77 4.0 0.4 1.0
CD1 C:PHE77 4.0 0.5 1.0
C C:LEU80 4.2 79.6 1.0
CB C:LEU80 4.2 73.2 1.0
CG1 C:VAL56 4.3 53.7 1.0
CZ C:PHE77 4.4 99.7 1.0
CG C:PHE77 4.4 0.4 1.0
CD1 C:LEU91 4.6 44.3 1.0
CA C:PHE77 4.6 0.1 1.0
CD2 C:LEU80 4.6 62.7 1.0
C C:PHE77 4.6 0.6 1.0
O C:LEU80 4.7 45.8 1.0
CE2 C:PHE77 4.8 0.2 1.0
CA C:LEU80 4.8 78.2 1.0
CD2 C:PHE77 4.8 0.7 1.0
CG C:LEU80 4.9 64.8 1.0

Mercury binding site 4 out of 7 in 5mlf

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Mercury binding site 4 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 4 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Hg301

b:0.1
occ:1.00
SG D:CYS81 2.8 0.1 1.0
O D:PHE77 3.6 0.4 1.0
N D:CYS81 3.7 0.3 1.0
CE D:MET86 3.8 91.1 1.0
CD1 D:PHE77 3.9 0.9 1.0
CA D:CYS81 3.9 0.0 1.0
CE1 D:PHE77 3.9 0.8 1.0
CB D:CYS81 4.0 0.5 1.0
CB D:LEU80 4.0 0.7 1.0
C D:LEU80 4.1 0.6 1.0
CG D:PHE77 4.3 0.4 1.0
CA D:PHE77 4.4 0.2 1.0
CZ D:PHE77 4.4 99.6 1.0
C D:PHE77 4.4 0.1 1.0
CG1 D:VAL56 4.5 27.0 1.0
CD2 D:LEU80 4.6 0.4 1.0
CA D:LEU80 4.6 0.6 1.0
CD2 D:PHE77 4.7 99.7 1.0
O D:LEU80 4.7 0.1 1.0
CE2 D:PHE77 4.7 99.1 1.0
CG D:LEU80 4.8 0.8 1.0
CD1 D:LEU91 4.9 96.9 1.0
CB D:PHE77 4.9 1.0 1.0

Mercury binding site 5 out of 7 in 5mlf

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Mercury binding site 5 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 5 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Hg301

b:94.8
occ:1.00
SG E:CYS81 2.8 0.1 1.0
O E:PHE77 3.7 80.0 1.0
N E:CYS81 3.7 0.5 1.0
CE E:MET86 3.8 92.1 1.0
CA E:CYS81 3.9 0.1 1.0
CD1 E:PHE77 3.9 65.4 1.0
CE1 E:PHE77 3.9 64.3 1.0
CB E:CYS81 4.0 0.6 1.0
CB E:LEU80 4.1 76.1 1.0
C E:LEU80 4.2 88.2 1.0
CG E:PHE77 4.3 67.9 1.0
CZ E:PHE77 4.3 64.3 1.0
CG1 E:VAL56 4.4 0.2 1.0
CA E:PHE77 4.4 74.8 1.0
C E:PHE77 4.5 79.9 1.0
CD2 E:LEU80 4.6 71.2 1.0
CD2 E:PHE77 4.6 67.9 1.0
CE2 E:PHE77 4.7 66.5 1.0
CA E:LEU80 4.7 77.9 1.0
O E:LEU80 4.7 86.8 1.0
CD1 E:LEU91 4.7 0.6 1.0
CG E:LEU80 4.9 73.7 1.0
CB E:PHE77 5.0 71.7 1.0

Mercury binding site 6 out of 7 in 5mlf

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Mercury binding site 6 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 6 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Hg301

b:0.5
occ:1.00
SG G:CYS81 2.8 0.3 1.0
CE G:MET86 3.6 74.4 1.0
N G:CYS81 3.7 0.0 1.0
O G:PHE77 3.7 0.9 1.0
CA G:CYS81 3.8 0.2 1.0
CB G:CYS81 3.9 0.0 1.0
CE1 G:PHE77 4.0 0.2 1.0
CD1 G:PHE77 4.1 0.4 1.0
C G:LEU80 4.1 0.7 1.0
CB G:LEU80 4.1 0.2 1.0
CG1 G:VAL56 4.4 68.3 1.0
CZ G:PHE77 4.4 1.0 1.0
CG G:PHE77 4.4 0.5 1.0
CD2 G:LEU80 4.6 0.0 1.0
CA G:PHE77 4.6 0.2 1.0
C G:PHE77 4.6 0.1 1.0
O G:LEU80 4.6 0.4 1.0
CD1 G:LEU91 4.7 0.9 1.0
CA G:LEU80 4.7 0.4 1.0
CE2 G:PHE77 4.7 0.2 1.0
CD2 G:PHE77 4.8 0.3 1.0
CG G:LEU80 4.9 1.0 1.0

Mercury binding site 7 out of 7 in 5mlf

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Mercury binding site 7 out of 7 in the Structure of PSB29 at 1.55A


Mono view


Stereo pair view

A full contact list of Mercury with other atoms in the Hg binding site number 7 of Structure of PSB29 at 1.55A within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Hg301

b:94.6
occ:1.00
SG F:CYS81 2.8 75.5 1.0
CE F:MET86 3.5 66.6 1.0
N F:CYS81 3.7 0.4 1.0
CA F:CYS81 3.8 0.5 1.0
O F:PHE77 3.8 0.8 1.0
CB F:CYS81 3.9 0.4 1.0
CE1 F:PHE77 4.0 0.7 1.0
CD1 F:PHE77 4.1 0.8 1.0
C F:LEU80 4.1 76.0 1.0
CB F:LEU80 4.2 84.3 1.0
CG1 F:VAL56 4.3 36.3 1.0
CZ F:PHE77 4.4 0.6 1.0
CG F:PHE77 4.5 0.6 1.0
CD1 F:LEU91 4.5 66.4 1.0
O F:LEU80 4.6 75.9 1.0
CD2 F:LEU80 4.6 76.5 1.0
C F:PHE77 4.7 0.3 1.0
CA F:PHE77 4.7 0.9 1.0
CE2 F:PHE77 4.8 0.6 1.0
CA F:LEU80 4.8 76.3 1.0
CD2 F:PHE77 4.8 0.6 1.0
CG F:LEU80 4.9 84.1 1.0

Reference:

M.Bec Kova, J.Yu, V.Krynicka, A.Kozlo, S.Shao, P.Konik, J.Komenda, J.W.Murray, P.J.Nixon. Structure of PSB29/THF1 and Its Association with the Ftsh Protease Complex Involved in Photosystem II Repair in Cyanobacteria. Philos. Trans. R. Soc. V. 372 2017LOND., B, Biol. Sci..
ISSN: ESSN 1471-2970
PubMed: 28808107
DOI: 10.1098/RSTB.2016.0394
Page generated: Sun Dec 13 19:13:04 2020

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