Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A836
DateThu Jan 5 11:06:47 GMT 2012
Unique Job ID70d99f1e27f9a5ca

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2nu9E_
Top template information
PDB header:ligase
Chain: E: PDB Molecule:succinyl-coa synthetase beta chain;
PDBTitle: c123at mutant of e. coli succinyl-coa synthetase2 orthorhombic crystal form
Confidence and coverage
Confidence:100.0% Coverage: 99%
385 residues ( 99% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MNLHEYQAKQLFARYGLPAPVGYACTTPREAEEAASKIGAGPWVVKCQVHAGGRGKAGGV
Secondary structure 
SS confidence 
Disorder  ????
????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  KVVNSKEDIRAFAENWLGKRLVTYQTDANGQPVNQILVEAATDIAKELYLGAVVDRSSRR
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  VVFMASTEGGVEIEKVAEETPHLIHKVALDPLTGPMPYQGRELAFKLGLEGKLVQQFTKI
Secondary structure 
SS confidence 
Disorder 
????
??
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  FMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGADGNALFRQPDLREMRDQSQEDP
Secondary structure 
SS confidence 
Disorder 
?
?
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  REAQAAQWELNYVALDGNIGCMVNGAGLAMGTMDIVKLHGGEPANFLDVGGGATKERVTE
Secondary structure 
SS confidence 
Disorder  ?????
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  AFKIILSDDKVKAVLVNIFGGIVRCDLIADGIIGAVAEVGVNVPVVVRLEGNNAELGAKK
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........370.........380........
Sequence  LADSGLNIIAAKGLTDAAQQVVAAVEGK
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 2nu9 chain E

3D model

Region: 1 - 385
Aligned: 385
Modelled: 385
Confidence: 100.0%
Identity: 100%
PDB header:ligase
Chain: E: PDB Molecule:succinyl-coa synthetase beta chain;
PDBTitle: c123at mutant of e. coli succinyl-coa synthetase2 orthorhombic crystal form

Phyre2

PDB 1euc chain B

3D model

Region: 1 - 385
Aligned: 384
Modelled: 385
Confidence: 100.0%
Identity: 45%
PDB header:ligase
Chain: B: PDB Molecule:succinyl-coa synthetase, beta chain;
PDBTitle: crystal structure of dephosphorylated pig heart, gtp-2 specific succinyl-coa synthetase

Phyre2

PDB 3mwd chain A

3D model

Region: 3 - 388
Aligned: 371
Modelled: 386
Confidence: 100.0%
Identity: 25%
PDB header:transferase
Chain: A: PDB Molecule:atp-citrate synthase;
PDBTitle: truncated human atp-citrate lyase with citrate bound

Phyre2

PDB 1euc chain B domain 2

3D model

Region: 1 - 237
Aligned: 237
Modelled: 237
Confidence: 100.0%
Identity: 36%
Fold: ATP-grasp
Superfamily: Glutathione synthetase ATP-binding domain-like
Family: Succinyl-CoA synthetase, beta-chain, N-terminal domain

Phyre2

PDB 2nu7 chain B domain 2

3D model

Region: 1 - 238
Aligned: 238
Modelled: 238
Confidence: 100.0%
Identity: 100%
Fold: ATP-grasp
Superfamily: Glutathione synthetase ATP-binding domain-like
Family: Succinyl-CoA synthetase, beta-chain, N-terminal domain

Phyre2

PDB 1wr2 chain A

3D model

Region: 3 - 220
Aligned: 210
Modelled: 218
Confidence: 100.0%
Identity: 20%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph1789;
PDBTitle: crystal structure of ph1788 from pyrococcus horikoshii ot3

Phyre2

PDB 2nu7 chain B domain 1

3D model

Region: 239 - 388
Aligned: 150
Modelled: 150
Confidence: 100.0%
Identity: 100%
Fold: Flavodoxin-like
Superfamily: Succinyl-CoA synthetase domains
Family: Succinyl-CoA synthetase domains

Phyre2

PDB 1euc chain B domain 1

3D model

Region: 239 - 385
Aligned: 146
Modelled: 147
Confidence: 100.0%
Identity: 55%
Fold: Flavodoxin-like
Superfamily: Succinyl-CoA synthetase domains
Family: Succinyl-CoA synthetase domains

Phyre2

PDB 2csu chain B

3D model

Region: 200 - 386
Aligned: 171
Modelled: 187
Confidence: 99.7%
Identity: 26%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:457aa long hypothetical protein;
PDBTitle: crystal structure of ph0766 from pyrococcus horikoshii ot3

Phyre2

PDB 2csu chain A domain 3

3D model

Region: 256 - 386
Aligned: 129
Modelled: 131
Confidence: 99.7%
Identity: 26%
Fold: Flavodoxin-like
Superfamily: Succinyl-CoA synthetase domains
Family: Succinyl-CoA synthetase domains

Phyre2

PDB 3bg5 chain C

3D model

Region: 6 - 200
Aligned: 171
Modelled: 195
Confidence: 99.2%
Identity: 18%
PDB header:ligase
Chain: C: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of staphylococcus aureus pyruvate2 carboxylase

Phyre2

PDB 1m6v chain E

3D model

Region: 6 - 170
Aligned: 149
Modelled: 165
Confidence: 99.1%
Identity: 15%
PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase

Phyre2

PDB 1a9x chain A domain 5

3D model

Region: 6 - 170
Aligned: 149
Modelled: 165
Confidence: 99.1%
Identity: 15%
Fold: ATP-grasp
Superfamily: Glutathione synthetase ATP-binding domain-like
Family: BC ATP-binding domain-like

Phyre2

PDB 3g8c chain B

3D model

Region: 6 - 200
Aligned: 171
Modelled: 195
Confidence: 99.0%
Identity: 18%
PDB header:ligase
Chain: B: PDB Molecule:biotin carboxylase;
PDBTitle: crystal stucture of biotin carboxylase in complex with2 biotin, bicarbonate, adp and mg ion

Phyre2

PDB 1w96 chain B

3D model

Region: 6 - 171
Aligned: 147
Modelled: 162
Confidence: 99.0%
Identity: 18%
PDB header:ligase
Chain: B: PDB Molecule:acetyl-coenzyme a carboxylase;
PDBTitle: crystal structure of biotin carboxylase domain of acetyl-2 coenzyme a carboxylase from saccharomyces cerevisiae in3 complex with soraphen a

Phyre2

PDB 1ulz chain A

3D model

Region: 6 - 200
Aligned: 170
Modelled: 185
Confidence: 99.0%
Identity: 19%
PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase n-terminal domain;
PDBTitle: crystal structure of the biotin carboxylase subunit of pyruvate2 carboxylase

Phyre2

PDB 2dzd chain B

3D model

Region: 6 - 200
Aligned: 149
Modelled: 150
Confidence: 99.0%
Identity: 21%
PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of the biotin carboxylase domain of2 pyruvate carboxylase

Phyre2

PDB 1vkz chain A

3D model

Region: 6 - 117
Aligned: 99
Modelled: 105
Confidence: 99.0%
Identity: 25%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine--glycine ligase (tm1250) from2 thermotoga maritima at 2.30 a resolution

Phyre2

PDB 2yya chain B

3D model

Region: 6 - 117
Aligned: 99
Modelled: 105
Confidence: 99.0%
Identity: 25%
PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of gar synthetase from aquifex aeolicus

Phyre2

PDB 3lp8 chain A

3D model

Region: 6 - 125
Aligned: 107
Modelled: 120
Confidence: 98.9%
Identity: 26%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine-glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine-glycine ligase from2 ehrlichia chaffeensis

Phyre2
1
c2nu9E_
2
c1eucB_
3
c3mwdA_
4
d1eucb2
5
d2nu7b2
6
c1wr2A_
7
d2nu7b1
8
d1eucb1
9
c2csuB_
10
d2csua3
11
c3bg5C_
12
c1m6vE_
13
d1a9xa5
14
c3g8cB_
15
c1w96B_
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c1ulzA_
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c2dzdB_
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c1vkzA_
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c2yyaB_
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c3lp8A_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2nu9E_
100.0 100 PDB header:ligase
Chain: E: PDB Molecule:succinyl-coa synthetase beta chain;
PDBTitle: c123at mutant of e. coli succinyl-coa synthetase2 orthorhombic crystal form
2c1eucB_
100.0 45 PDB header:ligase
Chain: B: PDB Molecule:succinyl-coa synthetase, beta chain;
PDBTitle: crystal structure of dephosphorylated pig heart, gtp-2 specific succinyl-coa synthetase
3c3mwdA_
100.0 25 PDB header:transferase
Chain: A: PDB Molecule:atp-citrate synthase;
PDBTitle: truncated human atp-citrate lyase with citrate bound
4d1eucb2
100.0 36 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Succinyl-CoA synthetase, beta-chain, N-terminal domain
5d2nu7b2
100.0 100 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Succinyl-CoA synthetase, beta-chain, N-terminal domain
6c1wr2A_
100.0 20 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph1789;
PDBTitle: crystal structure of ph1788 from pyrococcus horikoshii ot3
7d2nu7b1
100.0 100 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
8d1eucb1
100.0 55 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
9c2csuB_
99.7 26 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:457aa long hypothetical protein;
PDBTitle: crystal structure of ph0766 from pyrococcus horikoshii ot3
10d2csua3
99.7 26 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
11c3bg5C_
99.2 18 PDB header:ligase
Chain: C: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of staphylococcus aureus pyruvate2 carboxylase
12c1m6vE_
99.1 15 PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase
13d1a9xa5
99.1 15 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
14c3g8cB_
99.0 18 PDB header:ligase
Chain: B: PDB Molecule:biotin carboxylase;
PDBTitle: crystal stucture of biotin carboxylase in complex with2 biotin, bicarbonate, adp and mg ion
15c1w96B_
99.0 18 PDB header:ligase
Chain: B: PDB Molecule:acetyl-coenzyme a carboxylase;
PDBTitle: crystal structure of biotin carboxylase domain of acetyl-2 coenzyme a carboxylase from saccharomyces cerevisiae in3 complex with soraphen a
16c1ulzA_
99.0 19 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase n-terminal domain;
PDBTitle: crystal structure of the biotin carboxylase subunit of pyruvate2 carboxylase
17c2dzdB_
99.0 21 PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of the biotin carboxylase domain of2 pyruvate carboxylase
18c1vkzA_
99.0 25 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine--glycine ligase (tm1250) from2 thermotoga maritima at 2.30 a resolution
19c2yyaB_
99.0 25 PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of gar synthetase from aquifex aeolicus
20c3lp8A_
98.9 26 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine-glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine-glycine ligase from2 ehrlichia chaffeensis
21c2xd4A_
not modelled 98.9 29 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase
22c2ip4A_
not modelled 98.9 32 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of glycinamide ribonucleotide synthetase from2 thermus thermophilus hb8
23c2hjwA_
not modelled 98.9 20 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: crystal structure of the bc domain of acc2
24c3dmyA_
not modelled 98.9 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:protein fdra;
PDBTitle: crystal structure of a predicated acyl-coa synthetase from e.coli
25d1a9xa6
not modelled 98.9 28 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
26c1kjjA_
not modelled 98.9 19 PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s
27d1w96a3
not modelled 98.9 19 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
28d2j9ga3
not modelled 98.9 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
29c2vpqA_
not modelled 98.8 21 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase;
PDBTitle: crystal structure of biotin carboxylase from s. aureus2 complexed with amppnp
30c1ehiB_
not modelled 98.8 15 PDB header:ligase
Chain: B: PDB Molecule:d-alanine:d-lactate ligase;
PDBTitle: d-alanine:d-lactate ligase (lmddl2) of vancomycin-resistant2 leuconostoc mesenteroides
31c3ouzA_
not modelled 98.7 22 PDB header:ligase
Chain: A: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of biotin carboxylase-adp complex from campylobacter2 jejuni
32c3ln6A_
not modelled 98.7 23 PDB header:ligase
Chain: A: PDB Molecule:glutathione biosynthesis bifunctional protein gshab;
PDBTitle: crystal structure of a bifunctional glutathione synthetase from2 streptococcus agalactiae
33c2ys6A_
not modelled 98.7 32 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylglycinamide synthetase;
PDBTitle: crystal structure of gar synthetase from geobacillus kaustophilus
34c3ln7A_
not modelled 98.7 19 PDB header:ligase
Chain: A: PDB Molecule:glutathione biosynthesis bifunctional protein gshab;
PDBTitle: crystal structure of a bifunctional glutathione synthetase from2 pasteurella multocida
35d1ulza3
not modelled 98.7 15 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
36d1vkza3
not modelled 98.7 26 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
37c3q2oB_
not modelled 98.6 18 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase
38c3n6rK_
not modelled 98.6 18 PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
39c3u9sE_
not modelled 98.6 21 PDB header:ligase
Chain: E: PDB Molecule:methylcrotonyl-coa carboxylase, alpha-subunit;
PDBTitle: crystal structure of p. aeruginosa 3-methylcrotonyl-coa carboxylase2 (mcc) 750 kd holoenzyme, coa complex
40c3i12A_
not modelled 98.6 16 PDB header:ligase
Chain: A: PDB Molecule:d-alanine-d-alanine ligase a;
PDBTitle: the crystal structure of the d-alanyl-alanine synthetase a from2 salmonella enterica subsp. enterica serovar typhimurium str. lt2
41c2cqyA_
not modelled 98.6 21 PDB header:ligase
Chain: A: PDB Molecule:propionyl-coa carboxylase alpha chain,
PDBTitle: solution structure of b domain from human propionyl-coa2 carboxylase alpha subunit
42d1iowa2
not modelled 98.6 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
43c2dlnA_
not modelled 98.6 17 PDB header:ligase(peptidoglycan synthesis)
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: vancomycin resistance: structure of d-alanine:d-alanine2 ligase at 2.3 angstroms resolution
44c3gidB_
not modelled 98.6 20 PDB header:ligase
Chain: B: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: the biotin carboxylase (bc) domain of human acetyl-coa2 carboxylase 2 (acc2) in complex with soraphen a
45c2pvpB_
not modelled 98.5 17 PDB header:ligase
Chain: B: PDB Molecule:d-alanine-d-alanine ligase;
PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori
46c3orqA_
not modelled 98.5 16 PDB header:ligase,biosynthetic protein
Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide synthetase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthetase from2 staphylococcus aureus complexed with adp
47c2qk4A_
not modelled 98.5 26 PDB header:ligase
Chain: A: PDB Molecule:trifunctional purine biosynthetic protein adenosine-3;
PDBTitle: human glycinamide ribonucleotide synthetase
48d1oi7a2
not modelled 98.5 15 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
49c2gpwC_
not modelled 98.5 17 PDB header:ligase
Chain: C: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of the biotin carboxylase subunit, f363a2 mutant, of acetyl-coa carboxylase from escherichia coli.
50c2i80B_
not modelled 98.5 16 PDB header:ligase
Chain: B: PDB Molecule:d-alanine-d-alanine ligase;
PDBTitle: allosteric inhibition of staphylococcus aureus d-alanine:d-alanine2 ligase revealed by crystallographic studies
51d1kjqa3
not modelled 98.4 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
52c2dwcB_
not modelled 98.4 19 PDB header:transferase
Chain: B: PDB Molecule:433aa long hypothetical phosphoribosylglycinamide formyl
PDBTitle: crystal structure of probable phosphoribosylglycinamide formyl2 transferase from pyrococcus horikoshii ot3 complexed with adp
53c3e5nA_
not modelled 98.4 18 PDB header:ligase
Chain: A: PDB Molecule:d-alanine-d-alanine ligase a;
PDBTitle: crystal strucutre of d-alanine-d-alanine ligase from2 xanthomonas oryzae pv. oryzae kacc10331
54d1ehia2
not modelled 98.4 12 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
55d3etja3
not modelled 98.3 16 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
56d1euca2
not modelled 98.3 20 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
57c3tqtB_
not modelled 98.2 11 PDB header:ligase
Chain: B: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: structure of the d-alanine-d-alanine ligase from coxiella burnetii
58c1gsoA_
not modelled 98.2 27 PDB header:ligase
Chain: A: PDB Molecule:protein (glycinamide ribonucleotide synthetase);
PDBTitle: glycinamide ribonucleotide synthetase (gar-syn) from e.2 coli.
59c3etjB_
not modelled 98.2 17 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure e. coli purk in complex with mg, adp, and2 pi
60c3se7A_
not modelled 98.2 16 PDB header:ligase
Chain: A: PDB Molecule:vana;
PDBTitle: ancient vana
61d2r85a2
not modelled 98.2 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
62d2r7ka2
not modelled 98.2 18 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
63c3k5iB_
not modelled 98.1 20 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosyl-aminoimidazole carboxylase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthase from2 aspergillus clavatus in complex with adp and 5-3 aminoimadazole ribonucleotide
64c1e4eB_
not modelled 98.1 19 PDB header:ligase
Chain: B: PDB Molecule:vancomycin/teicoplanin a-type resistance protein vana;
PDBTitle: d-alanyl-d-lacate ligase
65d1e4ea2
not modelled 98.1 16 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
66c1i7nA_
not modelled 98.1 13 PDB header:neuropeptide
Chain: A: PDB Molecule:synapsin ii;
PDBTitle: crystal structure analysis of the c domain of synapsin ii2 from rat brain
67c3lwbA_
not modelled 98.1 24 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of apo d-alanine:d-alanine ligase (ddl) from2 mycobacterium tuberculosis
68c1oi7A_
not modelled 98.1 15 PDB header:synthetase
Chain: A: PDB Molecule:succinyl-coa synthetase alpha chain;
PDBTitle: the crystal structure of succinyl-coa synthetase alpha2 subunit from thermus thermophilus
69d1gsoa3
not modelled 98.0 19 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
70c2fpgA_
not modelled 98.0 19 PDB header:ligase
Chain: A: PDB Molecule:succinyl-coa ligase [gdp-forming] alpha-chain,
PDBTitle: crystal structure of pig gtp-specific succinyl-coa2 synthetase in complex with gdp
71d2csua2
not modelled 98.0 15 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
72c2yv2A_
not modelled 97.9 16 PDB header:ligase
Chain: A: PDB Molecule:succinyl-coa synthetase alpha chain;
PDBTitle: crystal structure of succinyl-coa synthetase alpha chain from2 aeropyrum pernix k1
73c2yv1A_
not modelled 97.8 22 PDB header:ligase
Chain: A: PDB Molecule:succinyl-coa ligase [adp-forming] subunit alpha;
PDBTitle: crystal structure of succinyl-coa synthetase alpha chain from2 methanocaldococcus jannaschii dsm 2661
74c3k3pA_
not modelled 97.8 18 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of the apo form of d-alanine:d-alanine ligase (ddl)2 from streptococcus mutans
75c3r23B_
not modelled 97.8 15 PDB header:ligase
Chain: B: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of d-alanine--d-alanine ligase from bacillus2 anthracis
76d2nu7a2
not modelled 97.8 21 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
77c3mwdB_
not modelled 97.8 18 PDB header:transferase
Chain: B: PDB Molecule:atp-citrate synthase;
PDBTitle: truncated human atp-citrate lyase with citrate bound
78c2zdqA_
not modelled 97.7 21 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of d-alanine:d-alanine ligase with atp2 and d-alanine:d-alanine from thermus thermophius hb8
79c3uvzB_
not modelled 97.7 13 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase, atpase2 subunit from burkholderia ambifaria
80c2r85B_
not modelled 97.6 17 PDB header:unknown function
Chain: B: PDB Molecule:purp protein pf1517;
PDBTitle: crystal structure of purp from pyrococcus furiosus complexed with amp
81d1uc8a2
not modelled 97.6 24 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Lysine biosynthesis enzyme LysX ATP-binding domain
82c2p0aA_
not modelled 97.6 12 PDB header:neuropeptide
Chain: A: PDB Molecule:synapsin-3;
PDBTitle: the crystal structure of human synapsin iii (syn3) in complex with2 amppnp
83c2pn1A_
not modelled 97.5 26 PDB header:ligase
Chain: A: PDB Molecule:carbamoylphosphate synthase large subunit;
PDBTitle: crystal structure of carbamoylphosphate synthase large subunit (split2 gene in mj) (zp_00538348.1) from exiguobacterium sp. 255-15 at 2.00 a3 resolution
84c1z2pX_
not modelled 97.5 17 PDB header:transferase
Chain: X: PDB Molecule:inositol 1,3,4-trisphosphate 5/6-kinase;
PDBTitle: inositol 1,3,4-trisphosphate 5/6-kinase in complex with mg2+/amp-2 pcp/ins(1,3,4)p3
85c2nu8D_
not modelled 97.5 21 PDB header:ligase
Chain: D: PDB Molecule:succinyl-coa ligase [adp-forming] subunit alpha;
PDBTitle: c123at mutant of e. coli succinyl-coa synthetase
86c1uc8B_
not modelled 97.3 24 PDB header:biosynthetic protein
Chain: B: PDB Molecule:lysine biosynthesis enzyme;
PDBTitle: crystal structure of a lysine biosynthesis enzyme, lysx,2 from thermus thermophilus hb8
87c1pk8D_
not modelled 97.3 15 PDB header:membrane protein
Chain: D: PDB Molecule:rat synapsin i;
PDBTitle: crystal structure of rat synapsin i c domain complexed to2 ca.atp
88d1i7na2
not modelled 97.0 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Synapsin C-terminal domain
89d1gsaa2
not modelled 96.5 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
90d1pk8a2
not modelled 96.2 18 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Synapsin C-terminal domain
91c2r7mA_
not modelled 95.9 18 PDB header:ligase
Chain: A: PDB Molecule:5-formaminoimidazole-4-carboxamide-1-(beta)-d-
PDBTitle: crystal structure of faicar synthetase (purp) from m.2 jannaschii complexed with amp
92c2qb5B_
not modelled 95.7 15 PDB header:transferase
Chain: B: PDB Molecule:inositol-tetrakisphosphate 1-kinase;
PDBTitle: crystal structure of human inositol 1,3,4-trisphosphate 5/6-kinase2 (itpk1) in complex with adp and mn2+
93c1gshA_
not modelled 95.7 10 PDB header:glutathione biosynthesis ligase
Chain: A: PDB Molecule:glutathione biosynthetic ligase;
PDBTitle: structure of escherichia coli glutathione synthetase at ph 7.5
94c3df7A_
not modelled 95.5 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative atp-grasp superfamily protein;
PDBTitle: crystal structure of a putative atp-grasp superfamily2 protein from archaeoglobus fulgidus
95c3bezC_
not modelled 94.6 34 PDB header:hydrolase
Chain: C: PDB Molecule:protease 4;
PDBTitle: crystal structure of escherichia coli signal peptide peptidase (sppa),2 semet crystals
96c3t9aA_
not modelled 94.4 13 PDB header:transferase
Chain: A: PDB Molecule:inositol pyrophosphate kinase;
PDBTitle: crystal structure of the catalytic domain of human diphosphoinositol2 pentakisphosphate kinase 2 (ppip5k2) in complex with amppnp at ph 7.0
97c2z04A_
not modelled 91.7 35 PDB header:lyase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure of phosphoribosylaminoimidazole2 carboxylase atpase subunit from aquifex aeolicus
98c3l6uA_
not modelled 91.4 15 PDB header:transport protein
Chain: A: PDB Molecule:abc-type sugar transport system periplasmic
PDBTitle: crystal structure of abc-type sugar transport system,2 periplasmic component from exiguobacterium sibiricum
99c3kuxA_
not modelled 86.2 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxidoreductase;
PDBTitle: structure of the ypo2259 putative oxidoreductase from yersinia pestis
100c3clkB_
not modelled 85.3 13 PDB header:transcription regulator
Chain: B: PDB Molecule:transcription regulator;
PDBTitle: crystal structure of a transcription regulator from lactobacillus2 plantarum
101c3c3kA_
not modelled 85.2 19 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of an uncharacterized protein from actinobacillus2 succinogenes
102c3ezxA_
not modelled 81.4 19 PDB header:transferase
Chain: A: PDB Molecule:monomethylamine corrinoid protein 1;
PDBTitle: structure of methanosarcina barkeri monomethylamine2 corrinoid protein
103d1t35a_
not modelled 79.7 17 Fold:MCP/YpsA-like
Superfamily:MCP/YpsA-like
Family:MoCo carrier protein-like
104d2nvwa1
not modelled 78.3 8 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
105c3qk7C_
not modelled 77.8 17 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulators;
PDBTitle: crystal structure of putative transcriptional regulator from yersinia2 pestis biovar microtus str. 91001
106c3bolB_
not modelled 76.8 17 PDB header:transferase
Chain: B: PDB Molecule:5-methyltetrahydrofolate s-homocysteine
PDBTitle: cobalamin-dependent methionine synthase (1-566) from2 thermotoga maritima complexed with zn2+
107c2x7xA_
not modelled 75.5 18 PDB header:transferase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: fructose binding periplasmic domain of hybrid two component2 system bt1754
108d1yqea1
not modelled 75.0 17 Fold:Phosphorylase/hydrolase-like
Superfamily:AF0625-like
Family:AF0625-like
109c3k9cA_
not modelled 73.7 18 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, laci family protein;
PDBTitle: crystal structure of laci transcriptional regulator from rhodococcus2 species.
110c2a5hC_
not modelled 73.5 18 PDB header:isomerase
Chain: C: PDB Molecule:l-lysine 2,3-aminomutase;
PDBTitle: 2.1 angstrom x-ray crystal structure of lysine-2,3-aminomutase from2 clostridium subterminale sb4, with michaelis analog (l-alpha-lysine3 external aldimine form of pyridoxal-5'-phosphate).
111c3oqbF_
not modelled 73.2 22 PDB header:oxidoreductase
Chain: F: PDB Molecule:oxidoreductase;
PDBTitle: crystal structure of putative oxidoreductase from bradyrhizobium2 japonicum usda 110
112c3evnA_
not modelled 73.0 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase, gfo/idh/moca family;
PDBTitle: crystal structure of putative oxidoreductase from streptococcus2 agalactiae 2603v/r
113c3f4lF_
not modelled 72.7 18 PDB header:oxidoreductase
Chain: F: PDB Molecule:putative oxidoreductase yhhx;
PDBTitle: crystal structure of a probable oxidoreductase yhhx in2 triclinic form. northeast structural genomics target er647
114c3d02A_
not modelled 72.7 13 PDB header:sugar binding protein
Chain: A: PDB Molecule:putative laci-type transcriptional regulator;
PDBTitle: crystal structure of periplasmic sugar-binding protein2 (yp_001338366.1) from klebsiella pneumoniae subsp. pneumoniae mgh3 78578 at 1.30 a resolution
115c3lrxC_
not modelled 72.5 9 PDB header:oxidoreductase
Chain: C: PDB Molecule:putative hydrogenase;
PDBTitle: crystal structure of the c-terminal domain (residues 78-226)2 of pf1911 hydrogenase from pyrococcus furiosus, northeast3 structural genomics consortium target pfr246a
116d3bofa2
not modelled 71.6 18 Fold:TIM beta/alpha-barrel
Superfamily:Homocysteine S-methyltransferase
Family:Homocysteine S-methyltransferase
117d1vhxa_
not modelled 71.4 15 Fold:Ribonuclease H-like motif
Superfamily:Ribonuclease H-like
Family:Putative Holliday junction resolvase RuvX
118d1jxha_
not modelled 71.3 15 Fold:Ribokinase-like
Superfamily:Ribokinase-like
Family:Thiamin biosynthesis kinases
119c2yxbA_
not modelled 70.9 21 PDB header:isomerase
Chain: A: PDB Molecule:coenzyme b12-dependent mutase;
PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix
120c3oa0B_
not modelled 70.1 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:lipopolysaccaride biosynthesis protein wbpb;
PDBTitle: crystal structure of the wlba (wbpb) dehydrogenase from thermus2 thermophilus in complex with nad and udp-glcnaca

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite


Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
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Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0