ReDisulphID

a tool for identifying drug-targetable redox-active disulphides

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DNA polymerase subunit gamma-1

Intermolecular
Cysteine 548 and cysteine 399 of DNA polymerase subunit gamma-2, mitochondrial
Intramolecular
Cysteine 202 and cysteine 224
Cysteine 418 and cysteine 1077
Cysteine 418 and cysteine 1078
Cysteine 208 and cysteine 224
Cysteine 1077 and cysteine 1078
Cysteine 1188 and cysteine 1197
Cysteine 471 and cysteine 577
Cysteine 202 and cysteine 208
A redox-regulated disulphide may form between cysteine 548 of DNA polymerase subunit gamma-1 and cysteine 399 of DNA polymerase subunit gamma-2, mitochondrial. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
36
PDB code
4ztu
Structure name
structural basis for processivity and antiviral drug toxicity in human mitochondrial dna replicase
Structure deposition date
2015-05-15
Thiol separation (Å)
10
Half-sphere exposure sum ?
61
Minimum pKa ?
10
% buried
57
Peptide A name
DNA polymerase subunit gamma-1
Peptide B name
DNA polymerase subunit gamma-2, mitochondrial
Peptide A accession
P54098
Peptide B accession
Q9UHN1
Peptide A residue number
548
Peptide B residue number
399

Ligandability

Cysteine 548 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 399 of DNA polymerase subunit gamma-2, mitochondrial

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 202 and 224.

Details

Redox score ?
74
PDB code
3ikm
Structure name
crystal structure of human mitochondrial dna polymerase holoenzyme
Structure deposition date
2009-08-06
Thiol separation (Å)
5
Half-sphere exposure sum ?
67
Minimum pKa ?
7
% buried
70
Peptide accession
P54098
Residue number A
202
Residue number B
224
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 202 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 224 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 418 and 1077.

Details

Redox score ?
73
PDB code
5c53
Structure name
probing the structural and molecular basis of nucleotide selectivity by human mitochondrial dna polymerase gamma
Structure deposition date
2015-06-19
Thiol separation (Å)
4
Half-sphere exposure sum ?
67
Minimum pKa ?
8
% buried
100
Peptide accession
P54098
Residue number A
418
Residue number B
1077
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 418 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 1077 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 418 and 1078. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
59
PDB code
5c52
Structure name
probing the structural and molecular basis of nucleotide selectivity by human mitochondrial dna polymerase gamma
Structure deposition date
2015-06-19
Thiol separation (Å)
6
Half-sphere exposure sum ?
77
Minimum pKa ?
8
% buried
82
Peptide accession
P54098
Residue number A
418
Residue number B
1078
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 418 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 1078 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 208 and 224. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
53
PDB code
3ikm
Structure name
crystal structure of human mitochondrial dna polymerase holoenzyme
Structure deposition date
2009-08-06
Thiol separation (Å)
6
Half-sphere exposure sum ?
74
Minimum pKa ?
11
% buried
63
Peptide accession
P54098
Residue number A
208
Residue number B
224
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 208 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 224 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 1077 and 1078. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
44
PDB code
5c51
Structure name
probing the structural and molecular basis of nucleotide selectivity by human mitochondrial dna polymerase gamma
Structure deposition date
2015-06-19
Thiol separation (Å)
8
Half-sphere exposure sum ?
74
Minimum pKa ?
10
% buried
80
Peptide accession
P54098
Residue number A
1077
Residue number B
1078
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 1077 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 1078 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 1188 and 1197. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
40
PDB code
5c51
Structure name
probing the structural and molecular basis of nucleotide selectivity by human mitochondrial dna polymerase gamma
Structure deposition date
2015-06-19
Thiol separation (Å)
9
Half-sphere exposure sum ?
73
Minimum pKa ?
10
% buried
74
Peptide accession
P54098
Residue number A
1188
Residue number B
1197
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 1188 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 1197 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 471 and 577. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
37
PDB code
5c51
Structure name
probing the structural and molecular basis of nucleotide selectivity by human mitochondrial dna polymerase gamma
Structure deposition date
2015-06-19
Thiol separation (Å)
9
Half-sphere exposure sum ?
65
Minimum pKa ?
12
% buried
94
Peptide accession
P54098
Residue number A
471
Residue number B
577
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 471 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 577 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

A redox-regulated disulphide may form within DNA polymerase subunit gamma-1 between cysteines 202 and 208. However, the redox score of this cysteine pair is lower than any known redox-active intermolecular disulphide. ?

Details

Redox score ?
37
PDB code
5c52
Structure name
probing the structural and molecular basis of nucleotide selectivity by human mitochondrial dna polymerase gamma
Structure deposition date
2015-06-19
Thiol separation (Å)
10
Half-sphere exposure sum ?
65
Minimum pKa ?
10
% buried
55
Peptide accession
P54098
Residue number A
202
Residue number B
208
Peptide name
DNA polymerase subunit gamma-1

Ligandability

Cysteine 202 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

Cysteine 208 of DNA polymerase subunit gamma-1

Not ligandable in the dataset of Yang et al.

Not ligandable in the dataset of Yan et al.

Not ligandable in the dataset of Backus et al.

Not ligandable in the dataset of Vinogradova et al.

Not ligandable in the dataset of Cao et al.

Not ligandable in the dataset of Kuljanin et al.

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