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Vanadium in PDB 1l7v: Bacterial Abc Transporter Involved in B12 Uptake

Enzymatic activity of Bacterial Abc Transporter Involved in B12 Uptake

All present enzymatic activity of Bacterial Abc Transporter Involved in B12 Uptake:
3.6.3.33;

Protein crystallography data

The structure of Bacterial Abc Transporter Involved in B12 Uptake, PDB code: 1l7v was solved by K.P.Locher, A.T.Lee, D.C.Rees, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 15.00 / 3.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 92.990, 106.292, 95.543, 90.00, 99.29, 90.00
R / Rfree (%) 26.2 / 28.6

Vanadium Binding Sites:

The binding sites of Vanadium atom in the Bacterial Abc Transporter Involved in B12 Uptake (pdb code 1l7v). This binding sites where shown within 5.0 Angstroms radius around Vanadium atom.
In total 8 binding sites of Vanadium where determined in the Bacterial Abc Transporter Involved in B12 Uptake, PDB code: 1l7v:
Jump to Vanadium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Vanadium binding site 1 out of 8 in 1l7v

Go back to Vanadium Binding Sites List in 1l7v
Vanadium binding site 1 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 1 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
C:V250

b:1.0
occ:1.00
 V1 C:V4O250 0.0 1.0 1.0
O0 C:V4O250 1.6 1.0 1.0
O1 C:V4O250 1.6 1.0 1.0
O9 C:V4O250 1.8 1.0 1.0
O3 C:V4O250 1.8 1.0 1.0
V2 C:V4O250 3.4 1.0 1.0
V4 C:V4O250 3.5 1.0 1.0
N C:GLY36 3.6 63.9 1.0
O6 C:V4O250 3.9 1.0 1.0
OG C:SER40 4.1 58.2 1.0
CE C:LYS39 4.1 60.9 1.0
N C:SER40 4.1 44.3 1.0
O11 C:V4O250 4.1 1.0 1.0
CA C:GLY36 4.2 67.7 1.0
N C:LYS39 4.2 47.5 1.0
O8 C:V4O250 4.2 1.0 1.0
CB C:LYS39 4.2 54.8 1.0
N C:GLY38 4.3 49.5 1.0
O4 C:V4O250 4.4 1.0 1.0
N C:ALA37 4.4 55.6 1.0
C C:GLY36 4.4 66.3 1.0
O2 C:V4O250 4.4 1.0 1.0
C C:GLY38 4.6 51.8 1.0
C C:ASN35 4.6 60.2 1.0
O10 C:V4O250 4.6 1.0 1.0
CB C:SER40 4.6 57.4 1.0
CA C:LYS39 4.6 45.7 1.0
CA C:ASN35 4.6 61.4 1.0
O C:PRO34 4.7 63.5 1.0
NZ C:LYS39 4.7 63.9 1.0
V3 C:V4O250 4.8 1.0 1.0
CA C:GLY38 4.8 50.9 1.0
C C:LYS39 4.9 46.2 1.0

Vanadium binding site 2 out of 8 in 1l7v

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Vanadium binding site 2 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 2 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
C:V250

b:1.0
occ:1.00
 V2 C:V4O250 0.0 1.0 1.0
O4 C:V4O250 1.6 1.0 1.0
O2 C:V4O250 1.6 1.0 1.0
O3 C:V4O250 1.7 1.0 1.0
O6 C:V4O250 1.8 1.0 1.0
V1 C:V4O250 3.4 1.0 1.0
V3 C:V4O250 3.5 1.0 1.0
N C:GLY36 3.9 63.9 1.0
O9 C:V4O250 4.0 1.0 1.0
OD1 C:ASN35 4.0 98.1 1.0
O5 C:V4O250 4.2 1.0 1.0
CB C:ASN35 4.3 92.5 1.0
O1 C:V4O250 4.3 1.0 1.0
O8 C:V4O250 4.3 1.0 1.0
O0 C:V4O250 4.4 1.0 1.0
CA C:ASN35 4.5 61.4 1.0
O7 C:V4O250 4.5 1.0 1.0
C C:ASN35 4.5 60.2 1.0
CG C:ASN35 4.6 94.8 1.0
CA C:GLY36 4.6 67.7 1.0
V4 C:V4O250 5.0 1.0 1.0

Vanadium binding site 3 out of 8 in 1l7v

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Vanadium binding site 3 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 3 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
C:V250

b:1.0
occ:1.00
 V3 C:V4O250 0.0 1.0 1.0
O7 C:V4O250 1.6 1.0 1.0
O5 C:V4O250 1.6 1.0 1.0
O6 C:V4O250 1.8 1.0 1.0
O8 C:V4O250 1.8 1.0 1.0
V4 C:V4O250 3.4 1.0 1.0
V2 C:V4O250 3.5 1.0 1.0
O9 C:V4O250 3.9 1.0 1.0
O2 C:V4O250 4.1 1.0 1.0
O3 C:V4O250 4.2 1.0 1.0
O10 C:V4O250 4.4 1.0 1.0
O11 C:V4O250 4.4 1.0 1.0
O4 C:V4O250 4.6 1.0 1.0
V1 C:V4O250 4.8 1.0 1.0

Vanadium binding site 4 out of 8 in 1l7v

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Vanadium binding site 4 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 4 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
C:V250

b:1.0
occ:1.00
 V4 C:V4O250 0.0 1.0 1.0
O10 C:V4O250 1.6 1.0 1.0
O11 C:V4O250 1.6 1.0 1.0
O8 C:V4O250 1.7 1.0 1.0
O9 C:V4O250 1.8 1.0 1.0
V3 C:V4O250 3.4 1.0 1.0
OG1 C:THR41 3.4 75.1 1.0
V1 C:V4O250 3.5 1.0 1.0
N C:THR41 3.9 70.6 1.0
CB C:SER40 4.0 57.4 1.0
O6 C:V4O250 4.0 1.0 1.0
CA C:GLY38 4.1 50.9 1.0
C C:GLY38 4.1 51.8 1.0
O C:GLY38 4.1 52.6 1.0
O1 C:V4O250 4.2 1.0 1.0
N C:SER40 4.2 44.3 1.0
O5 C:V4O250 4.3 1.0 1.0
O3 C:V4O250 4.3 1.0 1.0
N C:GLY38 4.4 49.5 1.0
CB C:THR41 4.4 70.6 1.0
O7 C:V4O250 4.4 1.0 1.0
CA C:SER40 4.5 45.3 1.0
O0 C:V4O250 4.5 1.0 1.0
OG C:SER40 4.5 58.2 1.0
C C:SER40 4.7 47.1 1.0
CA C:THR41 4.7 70.2 1.0
N C:LYS39 4.7 47.5 1.0
O C:GLY36 4.9 68.8 1.0
V2 C:V4O250 5.0 1.0 1.0

Vanadium binding site 5 out of 8 in 1l7v

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Vanadium binding site 5 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 5 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
D:V250

b:0.5
occ:1.00
 V1 D:V4O250 0.0 0.5 1.0
O0 D:V4O250 1.6 0.5 1.0
O1 D:V4O250 1.6 0.5 1.0
O9 D:V4O250 1.8 0.5 1.0
O3 D:V4O250 1.8 0.5 1.0
V2 D:V4O250 3.4 0.5 1.0
V4 D:V4O250 3.5 0.5 1.0
N D:GLY36 3.5 63.9 1.0
O6 D:V4O250 3.9 0.5 1.0
CE D:LYS39 4.0 60.9 1.0
O11 D:V4O250 4.1 0.5 1.0
OG D:SER40 4.2 58.2 1.0
CA D:GLY36 4.2 67.7 1.0
N D:SER40 4.2 44.3 1.0
N D:LYS39 4.2 47.5 1.0
O8 D:V4O250 4.2 0.5 1.0
CB D:LYS39 4.2 54.8 1.0
N D:GLY38 4.3 49.5 1.0
N D:ALA37 4.3 55.6 1.0
O4 D:V4O250 4.4 0.5 1.0
C D:GLY36 4.4 95.1 1.0
O2 D:V4O250 4.4 0.5 1.0
C D:ASN35 4.5 81.3 1.0
CA D:ASN35 4.5 46.1 1.0
O D:PRO34 4.6 63.5 1.0
O10 D:V4O250 4.6 0.5 1.0
NZ D:LYS39 4.6 63.9 1.0
C D:GLY38 4.6 95.1 1.0
CA D:LYS39 4.6 45.7 1.0
CB D:SER40 4.7 57.4 1.0
V3 D:V4O250 4.8 0.5 1.0
CA D:GLY38 4.9 50.9 1.0
C D:LYS39 5.0 95.1 1.0

Vanadium binding site 6 out of 8 in 1l7v

Go back to Vanadium Binding Sites List in 1l7v
Vanadium binding site 6 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 6 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
D:V250

b:0.5
occ:1.00
 V2 D:V4O250 0.0 0.5 1.0
O4 D:V4O250 1.6 0.5 1.0
O2 D:V4O250 1.6 0.5 1.0
O3 D:V4O250 1.7 0.5 1.0
O6 D:V4O250 1.8 0.5 1.0
V1 D:V4O250 3.4 0.5 1.0
V3 D:V4O250 3.5 0.5 1.0
N D:GLY36 3.9 63.9 1.0
OD1 D:ASN35 3.9 99.3 1.0
O9 D:V4O250 4.0 0.5 1.0
O5 D:V4O250 4.2 0.5 1.0
CB D:ASN35 4.2 93.8 1.0
O1 D:V4O250 4.3 0.5 1.0
O8 D:V4O250 4.3 0.5 1.0
CA D:ASN35 4.4 46.1 1.0
O0 D:V4O250 4.4 0.5 1.0
CG D:ASN35 4.4 96.0 1.0
C D:ASN35 4.5 81.3 1.0
O7 D:V4O250 4.5 0.5 1.0
CA D:GLY36 4.6 67.7 1.0
V4 D:V4O250 5.0 0.5 1.0

Vanadium binding site 7 out of 8 in 1l7v

Go back to Vanadium Binding Sites List in 1l7v
Vanadium binding site 7 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 7 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
D:V250

b:0.5
occ:1.00
 V3 D:V4O250 0.0 0.5 1.0
O7 D:V4O250 1.6 0.5 1.0
O5 D:V4O250 1.6 0.5 1.0
O6 D:V4O250 1.8 0.5 1.0
O8 D:V4O250 1.8 0.5 1.0
V4 D:V4O250 3.4 0.5 1.0
V2 D:V4O250 3.5 0.5 1.0
O9 D:V4O250 3.9 0.5 1.0
O2 D:V4O250 4.1 0.5 1.0
O3 D:V4O250 4.2 0.5 1.0
O10 D:V4O250 4.4 0.5 1.0
O11 D:V4O250 4.4 0.5 1.0
O4 D:V4O250 4.6 0.5 1.0
V1 D:V4O250 4.8 0.5 1.0

Vanadium binding site 8 out of 8 in 1l7v

Go back to Vanadium Binding Sites List in 1l7v
Vanadium binding site 8 out of 8 in the Bacterial Abc Transporter Involved in B12 Uptake


Mono view


Stereo pair view

A full contact list of Vanadium with other atoms in the V binding site number 8 of Bacterial Abc Transporter Involved in B12 Uptake within 5.0Å range:
probe atom residue distance (Å) B Occ
D:V250

b:0.5
occ:1.00
 V4 D:V4O250 0.0 0.5 1.0
O10 D:V4O250 1.6 0.5 1.0
O11 D:V4O250 1.6 0.5 1.0
O8 D:V4O250 1.7 0.5 1.0
O9 D:V4O250 1.8 0.5 1.0
V3 D:V4O250 3.4 0.5 1.0
V1 D:V4O250 3.5 0.5 1.0
OG1 D:THR41 3.5 75.1 1.0
N D:THR41 4.0 70.6 1.0
CB D:SER40 4.0 57.4 1.0
O6 D:V4O250 4.0 0.5 1.0
CA D:GLY38 4.1 50.9 1.0
C D:GLY38 4.1 95.1 1.0
O D:GLY38 4.1 52.6 1.0
N D:SER40 4.1 44.3 1.0
O1 D:V4O250 4.2 0.5 1.0
N D:GLY38 4.3 49.5 1.0
O5 D:V4O250 4.3 0.5 1.0
O3 D:V4O250 4.3 0.5 1.0
O7 D:V4O250 4.4 0.5 1.0
CB D:THR41 4.5 70.6 1.0
CA D:SER40 4.5 45.3 1.0
OG D:SER40 4.5 58.2 1.0
O0 D:V4O250 4.5 0.5 1.0
N D:LYS39 4.7 47.5 1.0
C D:SER40 4.7 95.1 1.0
CA D:THR41 4.8 70.2 1.0
O D:GLY36 4.9 68.8 1.0
V2 D:V4O250 5.0 0.5 1.0

Reference:

K.P.Locher, A.T.Lee, D.C.Rees. The E. Coli Btucd Structure: A Framework For Abc Transporter Architecture and Mechanism. Science V. 296 1091 2002.
ISSN: ISSN 0036-8075
PubMed: 12004122
DOI: 10.1126/SCIENCE.1071142
Page generated: Fri Oct 11 11:25:27 2024

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