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Sodium in PDB 4uyt: X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae

Protein crystallography data

The structure of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae, PDB code: 4uyt was solved by T.Kraushaar, M.Veelders, S.Brueckner, D.Rhinow, H.U.Moesch, L.O.Essen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.54 / 1.03
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 30.430, 54.850, 120.150, 90.00, 90.00, 90.00
R / Rfree (%) 12.863 / 14.416

Sodium Binding Sites:

The binding sites of Sodium atom in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae (pdb code 4uyt). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 6 binding sites of Sodium where determined in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae, PDB code: 4uyt:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6;

Sodium binding site 1 out of 6 in 4uyt

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Sodium binding site 1 out of 6 in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1207

b:30.1
occ:1.00
 O A:HOH2230 2.6 26.4 1.0
NE1 A:TRP144 2.9 9.3 1.0
CE2 A:TRP144 3.7 8.4 1.0
CZ2 A:TRP144 3.9 8.9 1.0
CD1 A:TRP144 3.9 8.7 1.0
O A:ASP137 4.0 10.3 1.0
CA A:VAL138 4.1 8.3 1.0
O A:VAL138 4.5 10.2 1.0
CG1 A:VAL138 4.7 10.3 1.0
C A:VAL138 4.8 9.0 1.0
NE2 A:GLN136 4.8 16.7 0.4
C A:ASP137 4.8 8.5 1.0
CB A:VAL138 4.9 9.2 1.0
O A:HOH2274 4.9 41.5 1.0
N A:VAL138 4.9 8.2 1.0
CD2 A:TRP144 5.0 7.6 1.0

Sodium binding site 2 out of 6 in 4uyt

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Sodium binding site 2 out of 6 in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1208

b:27.2
occ:1.00
 N A:SER36 2.9 7.2 0.4
N A:SER36 2.9 7.2 0.6
O A:HOH2019 3.3 49.7 1.0
CB A:SER36 3.6 9.2 0.4
CA A:THR35 3.6 7.0 1.0
O A:GLY34 3.7 7.4 1.0
C A:THR35 3.7 6.6 1.0
CB A:SER36 3.7 9.0 0.6
CA A:SER36 3.8 7.5 0.4
OG A:SER36 3.8 10.4 0.6
CA A:SER36 3.9 7.2 0.6
O A:HOH2025 4.3 31.0 1.0
O A:HOH2015 4.3 24.5 1.0
O A:SER36 4.3 7.5 0.6
O A:HOH2014 4.4 13.5 1.0
O A:SER36 4.4 8.8 0.4
CG2 A:THR35 4.4 7.6 1.0
C A:GLY34 4.5 6.8 1.0
N A:THR35 4.5 6.9 1.0
CB A:THR35 4.6 6.8 1.0
C A:SER36 4.6 6.9 0.6
C A:SER36 4.6 7.1 0.4
OG A:SER36 4.9 11.5 0.4
O A:THR35 4.9 6.7 1.0

Sodium binding site 3 out of 6 in 4uyt

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Sodium binding site 3 out of 6 in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1209

b:32.9
occ:1.00
 O A:HOH2185 2.7 23.1 0.5
O A:HOH2185 2.8 17.6 0.5
O A:HOH2298 2.9 55.4 1.0
N A:GLN109 2.9 10.8 1.0
O A:HOH2188 3.4 25.5 1.0
O A:HOH2184 3.4 30.9 1.0
O A:THR107 3.6 12.1 1.0
CA A:VAL108 3.6 9.9 1.0
CB A:GLN109 3.7 13.1 1.0
C A:VAL108 3.8 9.1 1.0
CA A:GLN109 3.8 10.6 1.0
O A:HOH2197 4.1 1.0 1.0
C A:THR107 4.2 10.0 1.0
N A:VAL108 4.3 9.0 1.0
O A:HOH2103 4.3 48.3 1.0
O A:HOH2113 4.4 30.0 1.0
O A:GLN109 4.4 12.0 1.0
CE A:LYS105 4.5 29.3 1.0
C A:GLN109 4.6 10.1 1.0
CG1 A:VAL108 4.7 12.1 1.0
CB A:VAL108 4.8 10.5 1.0
NZ A:LYS105 4.8 36.2 1.0
O A:VAL108 4.9 9.5 1.0

Sodium binding site 4 out of 6 in 4uyt

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Sodium binding site 4 out of 6 in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1210

b:41.3
occ:1.00
 O A:HOH2285 3.0 45.4 1.0
ND2 A:ASN184 3.1 15.5 1.0
OD1 A:ASN184 3.5 18.7 1.0
CG A:ASN184 3.7 15.2 1.0
NE2 A:GLN185 4.0 23.6 1.0
O A:HOH2283 4.6 26.3 1.0

Sodium binding site 5 out of 6 in 4uyt

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Sodium binding site 5 out of 6 in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1211

b:46.6
occ:1.00
 O A:VAL138 2.8 10.2 1.0
CB A:ASN139 3.8 10.5 1.0
O A:HOH2230 3.8 26.4 1.0
CA A:ASN139 3.8 10.3 1.0
C A:VAL138 3.9 9.0 1.0
O A:HOH2231 4.2 36.1 0.5
N A:ASN139 4.3 9.5 1.0
O A:HOH2235 4.6 21.2 0.5
O A:HOH2231 4.8 31.4 0.5

Sodium binding site 6 out of 6 in 4uyt

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Sodium binding site 6 out of 6 in the X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of X-Ray Structure of the N-Terminal Domain of the Flocculin FLO11 From Saccharomyces Cerevisiae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1212

b:27.1
occ:1.00
 O A:HOH2131 2.4 49.3 1.0
O A:GLN77 2.8 7.6 1.0
OG A:SER67 2.9 9.2 0.6
OG A:SER67 2.9 12.6 0.4
O A:HOH2112 3.2 37.1 1.0
CB A:SER67 3.4 8.0 0.4
OG1 A:THR79 3.4 10.8 1.0
O A:SER67 3.4 6.4 0.6
C A:GLN77 3.5 6.4 1.0
O A:SER67 3.6 6.6 0.4
C A:SER67 3.6 6.7 0.4
C A:SER67 3.7 6.7 0.6
CB A:SER67 3.7 7.9 0.6
CA A:ILE78 3.7 6.7 1.0
N A:THR79 3.8 6.5 1.0
C A:ILE78 3.8 6.7 1.0
N A:ILE78 3.9 6.5 1.0
N A:VAL68 4.0 6.3 1.0
N A:SER69 4.1 6.3 1.0
O A:HOH2111 4.1 38.4 1.0
CA A:SER67 4.1 7.0 0.4
CA A:VAL68 4.1 6.1 1.0
CG A:GLN77 4.2 11.0 1.0
CB A:THR79 4.2 8.2 1.0
CA A:SER67 4.3 7.1 0.6
C A:VAL68 4.3 6.4 1.0
O A:ILE78 4.4 7.1 1.0
CB A:GLN77 4.4 8.5 1.0
O A:HOH2110 4.5 40.4 1.0
CB A:SER69 4.6 8.6 1.0
O A:HOH2066 4.6 43.8 1.0
CA A:THR79 4.6 6.8 1.0
CA A:GLN77 4.6 6.8 1.0
CG2 A:THR129 4.7 12.7 1.0
OE1 A:GLN77 4.7 27.2 1.0
O A:HOH2017 4.8 24.4 1.0
CD A:GLN77 4.9 17.4 1.0

Reference:

T.Kraushaar, S.Bruckner, M.Veelders, D.Rhinow, F.Schreiner, R.Birke, A.Pagenstecher, H.Mosch, L.Essen. Interactions By the Fungal FLO11 Adhesin Depend on A Fibronectin Type III-Like Adhesin Domain Girdled By Aromatic Bands. Structure V. 23 1005 2015.
ISSN: ISSN 0969-2126
PubMed: 25960408
DOI: 10.1016/J.STR.2015.03.021
Page generated: Mon Oct 7 18:47:53 2024

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