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Chlorine in PDB 6x5s: Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn

Enzymatic activity of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn

All present enzymatic activity of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn:
2.4.1.68;

Protein crystallography data

The structure of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn, PDB code: 6x5s was solved by R.Kadirvelraj, Z.A.Wood, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 65.17 / 3.30
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 150.500, 150.500, 480.310, 90.00, 90.00, 120.00
R / Rfree (%) 19.8 / 22.4

Chlorine Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 13;

Binding sites:

The binding sites of Chlorine atom in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn (pdb code 6x5s). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 13 binding sites of Chlorine where determined in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn, PDB code: 6x5s:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Chlorine binding site 1 out of 13 in 6x5s

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Chlorine binding site 1 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl601

b:85.6
occ:1.00
 NH1 A:ARG559 3.3 80.4 1.0
NZ A:LYS561 3.7 77.4 1.0
CG A:LYS561 3.8 72.8 1.0
O A:ILE562 4.2 78.1 1.0
CE A:LYS561 4.3 78.7 1.0
CZ A:ARG559 4.5 83.0 1.0
N A:ILE562 4.5 79.9 1.0
CD1 A:ILE508 4.5 57.3 1.0
CD A:LYS561 4.7 76.9 1.0
CA A:LYS561 4.7 72.7 1.0
CB A:LYS561 4.8 69.8 1.0
C A:LYS561 5.0 82.2 1.0

Chlorine binding site 2 out of 13 in 6x5s

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Chlorine binding site 2 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl602

b:86.6
occ:1.00
 N A:LYS566 3.4 71.1 1.0
CA A:VAL565 4.0 67.8 1.0
CB A:LYS566 4.2 75.6 1.0
C A:VAL565 4.2 69.2 1.0
CG1 A:VAL565 4.3 66.5 1.0
CA A:LYS566 4.4 72.9 1.0
CB A:VAL565 4.5 68.2 1.0
CB A:PRO302 4.5 61.4 1.0
CG2 A:VAL565 4.5 71.7 1.0
O A:THR564 4.8 72.6 1.0
CG A:PRO302 4.9 61.6 1.0
O A:LYS566 5.0 68.5 1.0

Chlorine binding site 3 out of 13 in 6x5s

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Chlorine binding site 3 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl603

b:88.0
occ:1.00
 N A:HIS357 3.6 72.1 1.0
CA A:LYS356 3.8 65.2 1.0
CB A:LYS356 3.9 66.5 1.0
CD2 A:HIS357 3.9 83.3 1.0
C A:LYS356 4.2 68.5 1.0
CG A:HIS357 4.3 78.0 1.0
O A:HIS357 4.3 69.8 1.0
CA A:HIS357 4.5 72.0 1.0
CB A:HIS357 4.5 72.7 1.0
NE2 A:HIS357 4.7 80.4 1.0
C A:HIS357 4.9 70.5 1.0
O A:PHE355 5.0 70.3 1.0

Chlorine binding site 4 out of 13 in 6x5s

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Chlorine binding site 4 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl604

b:85.2
occ:1.00
 N A:GLU280 3.2 79.2 1.0
CB A:GLU280 3.6 68.0 1.0
CA A:PRO301 3.8 63.4 1.0
CB A:PRO301 3.8 60.4 1.0
CA A:GLU280 4.0 73.1 1.0
CA A:GLY279 4.0 78.2 1.0
CZ2 A:TRP277 4.1 77.6 1.0
C A:GLY279 4.1 80.3 1.0
N A:PRO301 4.3 62.3 1.0
CH2 A:TRP277 4.4 73.1 1.0
O A:ARG300 4.6 68.8 1.0
OE1 A:GLU280 4.6 63.9 1.0
C A:ARG300 4.6 65.0 1.0
CG A:PRO299 4.7 69.8 1.0
CD A:PRO302 4.7 61.6 1.0
N A:VAL281 4.9 80.7 1.0
CG A:PRO301 4.9 59.3 1.0
CD A:PRO301 4.9 59.4 1.0
CG A:GLU280 5.0 66.1 1.0

Chlorine binding site 5 out of 13 in 6x5s

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Chlorine binding site 5 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl605

b:80.3
occ:1.00
 N A:ASN423 3.4 80.8 1.0
CB A:ASN423 3.5 86.7 1.0
CG A:ASN423 3.7 90.2 1.0
N A:PRO422 3.8 77.0 1.0
CA A:TYR421 3.8 74.2 1.0
C A:TYR421 3.8 78.5 1.0
CD A:PRO422 3.8 75.5 1.0
ND2 A:ASN423 3.9 96.6 1.0
CA A:ASN423 4.1 85.4 1.0
CD1 A:TYR424 4.1 72.9 1.0
CE1 A:TYR424 4.2 74.4 1.0
CB A:TYR421 4.3 69.8 1.0
CD2 A:TYR421 4.4 75.2 1.0
CG A:PRO422 4.4 78.2 1.0
OD1 A:ASN423 4.4 84.3 1.0
C A:PRO422 4.4 82.2 1.0
O A:TYR421 4.5 80.4 1.0
CA A:PRO422 4.6 80.3 1.0
O A:LYS420 4.7 83.2 1.0
CG A:TYR421 4.8 69.8 1.0
N A:TYR424 4.9 87.4 1.0
C A:ASN423 4.9 89.6 1.0
N A:TYR421 5.0 73.5 1.0

Chlorine binding site 6 out of 13 in 6x5s

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Chlorine binding site 6 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl606

b:71.3
occ:1.00
 N A:LYS202 3.1 82.1 1.0
CG A:LYS202 3.7 0.1 1.0
CB A:LYS202 3.7 98.4 1.0
N A:ASP203 3.8 89.4 1.0
CA A:LYS202 3.9 90.1 1.0
CB A:PRO201 4.0 73.9 1.0
CA A:PRO201 4.0 69.5 1.0
C A:PRO201 4.0 71.2 1.0
C A:LYS202 4.4 84.4 1.0
O A:ASP203 4.7 0.5 1.0
CA A:ASP203 4.8 94.5 1.0
CB A:ASP203 4.9 97.2 1.0
CD A:LYS202 5.0 0.9 1.0

Chlorine binding site 7 out of 13 in 6x5s

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Chlorine binding site 7 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl607

b:68.6
occ:1.00
 NH1 A:ARG318 2.8 0.5 1.0
CZ A:ARG318 4.2 0.4 1.0
NH2 A:ARG318 4.9 0.8 1.0

Chlorine binding site 8 out of 13 in 6x5s

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Chlorine binding site 8 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 8 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl601

b:79.4
occ:1.00
 N B:GLU280 3.1 83.9 1.0
CB B:GLU280 3.4 73.7 1.0
CA B:PRO301 3.8 60.6 1.0
CA B:GLU280 3.9 81.5 1.0
CB B:PRO301 3.9 63.5 1.0
C B:GLY279 4.1 82.7 1.0
CA B:GLY279 4.1 81.7 1.0
OE1 B:GLU280 4.2 73.0 1.0
CZ2 B:TRP277 4.3 66.8 1.0
N B:PRO301 4.4 65.5 1.0
CD B:PRO302 4.4 59.0 1.0
O B:ARG300 4.5 67.8 1.0
CH2 B:TRP277 4.6 68.3 1.0
N B:VAL281 4.7 85.3 1.0
C B:ARG300 4.7 66.0 1.0
CG B:GLU280 4.7 71.4 1.0
C B:GLU280 4.8 85.3 1.0
CD B:GLU280 5.0 73.6 1.0
CG B:PRO299 5.0 62.4 1.0

Chlorine binding site 9 out of 13 in 6x5s

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Chlorine binding site 9 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 9 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl602

b:83.2
occ:1.00
 N B:TRP341 3.5 66.2 1.0
CD B:PRO340 3.5 68.1 1.0
CD1 B:TRP341 3.7 67.3 1.0
CB B:PRO340 3.7 65.4 1.0
CG B:PRO340 3.8 65.8 1.0
N B:PRO340 4.0 68.1 1.0
CB B:TRP341 4.1 61.5 1.0
CA B:PRO340 4.3 66.4 1.0
C B:PRO340 4.3 67.1 1.0
CG B:TRP341 4.3 61.7 1.0
CA B:TRP341 4.4 65.6 1.0
CB B:GLN339 4.7 68.5 1.0
OE1 B:GLN339 4.8 78.5 1.0
C B:GLN339 4.8 70.1 1.0
NE1 B:TRP341 4.9 67.5 1.0

Chlorine binding site 10 out of 13 in 6x5s

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Chlorine binding site 10 out of 13 in the Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 10 of Human Alpha-1,6-Fucosyltransferase (FUT8) Bound to Gdp and A3'-Asn within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl603

b:84.9
occ:1.00
 N B:HIS357 3.3 71.8 1.0
O B:HIS357 3.7 62.0 1.0
CA B:LYS356 3.8 68.3 1.0
CB B:LYS356 3.8 68.3 1.0
CD2 B:HIS357 4.0 72.8 1.0
C B:LYS356 4.0 70.0 1.0
CA B:HIS357 4.1 68.6 1.0
CB B:HIS357 4.2 67.3 1.0
CG B:HIS357 4.3 69.3 1.0
C B:HIS357 4.3 64.7 1.0
CG B:LYS356 4.7 76.3 1.0

Reference:

B.M.Boruah, R.Kadirvelraj, L.Liu, A.Ramiah, C.Li, G.Zong, G.P.Bosman, J.Y.Yang, L.X.Wang, G.J.Boons, Z.A.Wood, K.W.Moremen. Characterizing Human Alpha-1,6-Fucosyltransferase (FUT8) Substrate Specificity and Structural Similarities with Related Fucosyltransferases. J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
PubMed: 33004438
DOI: 10.1074/JBC.RA120.014625
Page generated: Mon Jul 29 17:06:15 2024

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