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Cadmium in PDB 2ffh: The Signal Sequence Binding Protein Ffh From Thermus Aquaticus

Protein crystallography data

The structure of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus, PDB code: 2ffh was solved by R.J.Keenan, D.M.Freymann, P.Walter, R.M.Stroud, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 3.20
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 195.050, 195.050, 335.720, 90.00, 90.00, 120.00
R / Rfree (%) 25.7 / 29.6

Cadmium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 16;

Binding sites:

The binding sites of Cadmium atom in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus (pdb code 2ffh). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 16 binding sites of Cadmium where determined in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus, PDB code: 2ffh:
Jump to Cadmium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Cadmium binding site 1 out of 16 in 2ffh

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Cadmium binding site 1 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd701

b:84.9
occ:1.00
OE1 A:GLU302 2.0 0.4 1.0
N A:MET1 2.1 76.7 1.0
OE2 A:GLU302 2.3 0.2 1.0
CD A:GLU302 2.4 0.7 1.0
OD2 A:ASP296 2.5 68.5 1.0
OD1 A:ASP296 2.8 68.3 1.0
CG A:ASP296 3.1 68.0 1.0
CA A:MET1 3.1 75.1 1.0
O A:VAL297 3.6 81.2 1.0
NH2 A:ARG290 3.8 64.2 1.0
CG A:GLU302 3.9 0.6 1.0
CB A:MET1 3.9 78.5 1.0
CG A:MET1 4.1 81.5 1.0
C A:MET1 4.3 72.4 1.0
CE A:MET1 4.4 86.7 1.0
C A:VAL297 4.5 80.5 1.0
CB A:ASP296 4.6 67.0 1.0
NE A:ARG290 4.7 61.4 1.0
CZ A:ARG290 4.7 60.8 1.0
O A:MET1 4.7 73.5 1.0
N A:SER299 4.8 93.2 1.0
CB A:GLU302 4.8 0.6 1.0
CA A:ALA298 4.9 88.2 1.0
N A:VAL297 4.9 72.9 1.0
OG A:SER299 5.0 94.9 1.0

Cadmium binding site 2 out of 16 in 2ffh

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Cadmium binding site 2 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd702

b:0.3
occ:1.00
OE1 A:GLU225 2.3 85.3 1.0
CD A:GLU225 3.1 82.3 1.0
OE2 A:GLU225 3.1 85.4 1.0
OE1 A:GLU323 3.3 91.9 1.0
CD A:GLU323 3.9 92.7 1.0
OE2 A:GLU323 4.1 94.1 1.0
CG A:GLU225 4.5 78.8 1.0
CG A:GLU323 4.8 91.0 1.0
CG2 A:THR222 5.0 59.9 1.0

Cadmium binding site 3 out of 16 in 2ffh

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Cadmium binding site 3 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 3 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd703

b:0.6
occ:1.00
ND1 A:HIS261 2.2 77.5 1.0
CE1 A:HIS261 3.0 77.7 1.0
CG A:HIS261 3.3 76.4 1.0
CB A:HIS261 3.8 73.4 1.0
NE2 A:HIS261 4.2 78.8 1.0
OE1 A:GLU46 4.2 82.5 1.0
CD2 A:HIS261 4.3 77.0 1.0
CA A:HIS261 4.4 71.0 1.0
CG A:GLU46 4.5 84.0 1.0
CD A:GLU46 4.9 84.4 1.0

Cadmium binding site 4 out of 16 in 2ffh

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Cadmium binding site 4 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 4 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd704

b:82.5
occ:1.00
OE1 A:GLU280 1.8 80.2 1.0
CD A:GLU280 2.6 78.5 1.0
OE2 A:GLU280 2.8 78.0 1.0
NZ C:LYS151 3.5 92.7 1.0
CG A:GLU280 4.0 75.5 1.0
NE A:ARG286 4.5 47.4 1.0
CD C:LYS151 4.5 89.0 1.0
CE C:LYS151 4.5 91.0 1.0
NH2 A:ARG286 4.7 44.0 1.0
NH1 A:ARG290 4.9 61.8 1.0
CB A:GLU280 5.0 74.8 1.0

Cadmium binding site 5 out of 16 in 2ffh

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Cadmium binding site 5 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 5 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd705

b:0.2
occ:1.00
OD1 A:ASP97 2.6 96.5 1.0
OD2 A:ASP97 2.9 94.8 1.0
CG A:ASP97 3.1 95.1 1.0
CB A:ASP97 4.5 93.4 1.0

Cadmium binding site 6 out of 16 in 2ffh

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Cadmium binding site 6 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 6 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd701

b:80.8
occ:1.00
N B:MET1 1.9 75.6 1.0
OD2 B:ASP296 2.1 68.7 1.0
CG B:ASP296 2.8 72.3 1.0
OD1 B:ASP296 3.0 75.0 1.0
CA B:MET1 3.3 75.0 1.0
O B:MET1 3.5 72.2 1.0
C B:MET1 3.7 72.7 1.0
CB B:MET1 4.1 79.9 1.0
CB B:ASP296 4.2 69.1 1.0
OE2 B:GLU302 4.6 0.7 1.0
OE1 B:GLU302 4.6 0.6 1.0
O B:VAL297 4.6 79.2 1.0
OG B:SER6 4.6 59.5 1.0
O B:ARG290 4.7 47.7 1.0
N B:PHE2 4.8 68.5 1.0
CD B:GLU302 4.9 0.2 1.0
CG B:MET1 4.9 86.0 1.0

Cadmium binding site 7 out of 16 in 2ffh

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Cadmium binding site 7 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 7 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd702

b:0.6
occ:1.00
OE1 B:GLU225 2.3 82.2 1.0
OE1 B:GLU323 2.8 97.2 1.0
CD B:GLU225 3.2 81.0 1.0
OE2 B:GLU225 3.4 82.1 1.0
CD B:GLU323 3.6 95.4 1.0
OE2 B:GLU323 4.2 97.3 1.0
CG B:GLU323 4.5 92.9 1.0
CG B:GLU225 4.6 77.6 1.0

Cadmium binding site 8 out of 16 in 2ffh

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Cadmium binding site 8 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 8 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd703

b:92.4
occ:1.00
ND1 B:HIS261 2.4 74.1 1.0
CE1 B:HIS261 3.3 75.0 1.0
CG B:HIS261 3.5 74.4 1.0
CB B:HIS261 3.9 72.2 1.0
CG B:GLU46 4.3 84.1 1.0
OE1 B:GLU46 4.3 77.3 1.0
CA B:HIS261 4.4 70.3 1.0
NE2 B:HIS261 4.4 76.5 1.0
CD2 B:HIS261 4.6 77.0 1.0
CD B:GLU46 4.8 84.6 1.0

Cadmium binding site 9 out of 16 in 2ffh

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Cadmium binding site 9 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 9 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd704

b:0.1
occ:1.00
OE1 B:GLU280 2.3 79.0 1.0
CD B:GLU280 3.2 78.4 1.0
OE2 B:GLU280 3.3 79.5 1.0
NZ A:LYS151 4.2 93.4 1.0
NH1 B:ARG290 4.3 71.9 1.0
NH2 B:ARG286 4.4 49.3 1.0
NE B:ARG286 4.4 48.8 1.0
CG B:GLU280 4.7 77.6 1.0
CZ B:ARG286 4.8 47.8 1.0
CD A:LYS151 4.9 89.7 1.0
CE A:LYS151 4.9 92.1 1.0

Cadmium binding site 10 out of 16 in 2ffh

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Cadmium binding site 10 out of 16 in the The Signal Sequence Binding Protein Ffh From Thermus Aquaticus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 10 of The Signal Sequence Binding Protein Ffh From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cd701

b:90.6
occ:1.00
N C:MET1 2.0 74.2 1.0
OD2 C:ASP296 2.4 61.4 1.0
OE1 C:GLU302 2.7 0.7 1.0
CG C:ASP296 3.2 60.9 1.0
CD C:GLU302 3.2 0.5 1.0
OE2 C:GLU302 3.3 0.4 1.0
CA C:MET1 3.3 73.0 1.0
OD1 C:ASP296 3.4 63.0 1.0
O C:MET1 3.8 70.7 1.0
C C:MET1 3.8 70.7 1.0
CB C:MET1 4.1 75.3 1.0
OG C:SER6 4.5 64.1 1.0
CG C:GLU302 4.5 0.1 1.0
CB C:ASP296 4.5 62.2 1.0
CG C:MET1 4.8 82.3 1.0
O C:ARG290 4.9 40.0 1.0
N C:PHE2 4.9 67.5 1.0

Reference:

R.J.Keenan, D.M.Freymann, P.Walter, R.M.Stroud. Crystal Structure of the Signal Sequence Binding Subunit of the Signal Recognition Particle. Cell(Cambridge,Mass.) V. 94 181 1998.
ISSN: ISSN 0092-8674
PubMed: 9695947
DOI: 10.1016/S0092-8674(00)81418-X
Page generated: Sat Dec 12 08:17:06 2020

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