Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP15640
DateWed Jan 25 15:20:39 GMT 2012
Unique Job IDa54bb91d5d77412d

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2xd4A_
Top template information
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase
Confidence and coverage
Confidence:100.0% Coverage: 98%
421 residues ( 98% 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  MKVLVIGNGGREHALAWKAAQSPLVETVFVAPGNAGTALEPALQNVAIGVTDIPALLDFA
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  QNEKIDLTIVGPEAPLVKGVVDTFRAAGLKIFGPTAGAAQLEGSKAFTKDFLARHKIPTA
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  EYQNFTEVEPALAYLREKGAPIVIKADGLAAGKGVIVAMTLEEAEAAVHDMLAGNAFGDA
Secondary structure 
SS confidence 
Disorder 
???
??????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  GHRIVIEEFLDGEEASFIVMVDGEHVLPMATSQDHKRVGDKDTGPNTGGMGAYSPAPVVT
Secondary structure 
SS confidence 
Disorder  ??
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  DDVHQRTMERIIWPTVKGMAAEGNTYTGFLYAGLMIDKQGNPKVIEFNCRFGDPETQPIM
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  LRMKSDLVELCLAACESKLDEKTSEWDERASLGVVMAAGGYPGDYRTGDVIHGLPLEEVA
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  GGKVFHAGTKLADDEQVVTNGGRVLCVTALGHTVAEAQKRAYALMTDIHWDDCFCRKDIG
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........
Sequence  WRAIEREQN
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 2xd4 chain A

3D model

Region: 1 - 428
Aligned: 421
Modelled: 428
Confidence: 100.0%
Identity: 54%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase

Phyre2

PDB 2yya chain B

3D model

Region: 1 - 426
Aligned: 421
Modelled: 426
Confidence: 100.0%
Identity: 53%
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: 1 - 420
Aligned: 416
Modelled: 420
Confidence: 100.0%
Identity: 41%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine-glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine-glycine ligase from2 ehrlichia chaffeensis

Phyre2

PDB 1gso chain A

3D model

Region: 1 - 426
Aligned: 417
Modelled: 426
Confidence: 100.0%
Identity: 100%
PDB header:ligase
Chain: A: PDB Molecule:protein (glycinamide ribonucleotide synthetase);
PDBTitle: glycinamide ribonucleotide synthetase (gar-syn) from e.2 coli.

Phyre2

PDB 2ys6 chain A

3D model

Region: 1 - 425
Aligned: 414
Modelled: 425
Confidence: 100.0%
Identity: 56%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylglycinamide synthetase;
PDBTitle: crystal structure of gar synthetase from geobacillus kaustophilus

Phyre2

PDB 2qk4 chain A

3D model

Region: 2 - 424
Aligned: 412
Modelled: 423
Confidence: 100.0%
Identity: 50%
PDB header:ligase
Chain: A: PDB Molecule:trifunctional purine biosynthetic protein adenosine-3;
PDBTitle: human glycinamide ribonucleotide synthetase

Phyre2

PDB 2ip4 chain A

3D model

Region: 1 - 426
Aligned: 414
Modelled: 421
Confidence: 100.0%
Identity: 50%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of glycinamide ribonucleotide synthetase from2 thermus thermophilus hb8

Phyre2

PDB 1vkz chain A

3D model

Region: 1 - 419
Aligned: 390
Modelled: 405
Confidence: 100.0%
Identity: 35%
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 3ouz chain A

3D model

Region: 2 - 428
Aligned: 411
Modelled: 427
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: A: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of biotin carboxylase-adp complex from campylobacter2 jejuni

Phyre2

PDB 1ulz chain A

3D model

Region: 1 - 428
Aligned: 410
Modelled: 425
Confidence: 100.0%
Identity: 16%
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 3g8c chain B

3D model

Region: 2 - 426
Aligned: 408
Modelled: 425
Confidence: 100.0%
Identity: 14%
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 2vpq chain A

3D model

Region: 2 - 428
Aligned: 411
Modelled: 427
Confidence: 100.0%
Identity: 17%
PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase;
PDBTitle: crystal structure of biotin carboxylase from s. aureus2 complexed with amppnp

Phyre2

PDB 1kjj chain A

3D model

Region: 2 - 412
Aligned: 371
Modelled: 410
Confidence: 100.0%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s

Phyre2

PDB 2dzd chain B

3D model

Region: 2 - 426
Aligned: 403
Modelled: 425
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of the biotin carboxylase domain of2 pyruvate carboxylase

Phyre2

PDB 3bg5 chain C

3D model

Region: 2 - 413
Aligned: 395
Modelled: 403
Confidence: 100.0%
Identity: 15%
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: 2 - 406
Aligned: 372
Modelled: 399
Confidence: 100.0%
Identity: 20%
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 2hjw chain A

3D model

Region: 2 - 428
Aligned: 410
Modelled: 427
Confidence: 100.0%
Identity: 13%
PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: crystal structure of the bc domain of acc2

Phyre2

PDB 2gpw chain C

3D model

Region: 2 - 428
Aligned: 405
Modelled: 427
Confidence: 100.0%
Identity: 15%
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.

Phyre2

PDB 3gid chain B

3D model

Region: 2 - 425
Aligned: 401
Modelled: 424
Confidence: 100.0%
Identity: 13%
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

Phyre2

PDB 1w96 chain B

3D model

Region: 2 - 425
Aligned: 404
Modelled: 424
Confidence: 100.0%
Identity: 16%
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
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c2xd4A_
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c2yyaB_
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c3lp8A_
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c1gsoA_
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c2ys6A_
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c2qk4A_
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c2ip4A_
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c1vkzA_
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c3ouzA_
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c1ulzA_
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c3g8cB_
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c2vpqA_
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c1kjjA_
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c2dzdB_
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c3bg5C_
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c1m6vE_
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c2hjwA_
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c2gpwC_
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c3gidB_
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c1w96B_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2xd4A_
100.0 54 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase
2c2yyaB_
100.0 53 PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of gar synthetase from aquifex aeolicus
3c3lp8A_
100.0 41 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine-glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine-glycine ligase from2 ehrlichia chaffeensis
4c1gsoA_
100.0 100 PDB header:ligase
Chain: A: PDB Molecule:protein (glycinamide ribonucleotide synthetase);
PDBTitle: glycinamide ribonucleotide synthetase (gar-syn) from e.2 coli.
5c2ys6A_
100.0 56 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylglycinamide synthetase;
PDBTitle: crystal structure of gar synthetase from geobacillus kaustophilus
6c2qk4A_
100.0 50 PDB header:ligase
Chain: A: PDB Molecule:trifunctional purine biosynthetic protein adenosine-3;
PDBTitle: human glycinamide ribonucleotide synthetase
7c2ip4A_
100.0 50 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of glycinamide ribonucleotide synthetase from2 thermus thermophilus hb8
8c1vkzA_
100.0 35 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
9c3ouzA_
100.0 15 PDB header:ligase
Chain: A: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of biotin carboxylase-adp complex from campylobacter2 jejuni
10c1ulzA_
100.0 16 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase n-terminal domain;
PDBTitle: crystal structure of the biotin carboxylase subunit of pyruvate2 carboxylase
11c3g8cB_
100.0 14 PDB header:ligase
Chain: B: PDB Molecule:biotin carboxylase;
PDBTitle: crystal stucture of biotin carboxylase in complex with2 biotin, bicarbonate, adp and mg ion
12c2vpqA_
100.0 17 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase;
PDBTitle: crystal structure of biotin carboxylase from s. aureus2 complexed with amppnp
13c1kjjA_
100.0 17 PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s
14c2dzdB_
100.0 15 PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of the biotin carboxylase domain of2 pyruvate carboxylase
15c3bg5C_
100.0 15 PDB header:ligase
Chain: C: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of staphylococcus aureus pyruvate2 carboxylase
16c1m6vE_
100.0 20 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
17c2hjwA_
100.0 13 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: crystal structure of the bc domain of acc2
18c2gpwC_
100.0 15 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.
19c3gidB_
100.0 13 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
20c1w96B_
100.0 16 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
21c3n6rK_
not modelled 100.0 17 PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
22c3uvzB_
not modelled 100.0 17 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase, atpase2 subunit from burkholderia ambifaria
23c3u9sE_
not modelled 100.0 17 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
24c3k5iB_
not modelled 100.0 17 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
25c3orqA_
not modelled 100.0 14 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
26c2dwcB_
not modelled 100.0 18 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
27c3q2oB_
not modelled 100.0 14 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase
28c3etjB_
not modelled 100.0 15 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure e. coli purk in complex with mg, adp, and2 pi
29c2z04A_
not modelled 100.0 21 PDB header:lyase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure of phosphoribosylaminoimidazole2 carboxylase atpase subunit from aquifex aeolicus
30c3i12A_
not modelled 100.0 15 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
31d1a9xa5
not modelled 100.0 21 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
32c2pn1A_
not modelled 100.0 19 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
33d1vkza3
not modelled 100.0 33 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
34c1ehiB_
not modelled 100.0 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
35c3lwbA_
not modelled 100.0 18 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
36c2i80B_
not modelled 100.0 12 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
37c1e4eB_
not modelled 100.0 15 PDB header:ligase
Chain: B: PDB Molecule:vancomycin/teicoplanin a-type resistance protein vana;
PDBTitle: d-alanyl-d-lacate ligase
38c2dlnA_
not modelled 100.0 16 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
39c2zdqA_
not modelled 100.0 17 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
40c3tqtB_
not modelled 100.0 13 PDB header:ligase
Chain: B: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: structure of the d-alanine-d-alanine ligase from coxiella burnetii
41d1gsoa3
not modelled 100.0 96 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
42c3se7A_
not modelled 100.0 17 PDB header:ligase
Chain: A: PDB Molecule:vana;
PDBTitle: ancient vana
43c3e5nA_
not modelled 100.0 16 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
44d1a9xa6
not modelled 100.0 21 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
45c2qf7A_
not modelled 100.0 18 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase protein;
PDBTitle: crystal structure of a complete multifunctional pyruvate carboxylase2 from rhizobium etli
46c2pvpB_
not modelled 100.0 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
47c3df7A_
not modelled 100.0 15 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
48c2r85B_
not modelled 100.0 13 PDB header:unknown function
Chain: B: PDB Molecule:purp protein pf1517;
PDBTitle: crystal structure of purp from pyrococcus furiosus complexed with amp
49c3r23B_
not modelled 100.0 17 PDB header:ligase
Chain: B: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of d-alanine--d-alanine ligase from bacillus2 anthracis
50d1w96a3
not modelled 100.0 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
51c3k3pA_
not modelled 100.0 13 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
52d1ulza3
not modelled 100.0 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
53d2j9ga3
not modelled 100.0 19 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
54c1uc8B_
not modelled 100.0 19 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
55d1kjqa3
not modelled 100.0 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
56d3etja3
not modelled 99.9 16 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
57d2r7ka2
not modelled 99.9 12 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
58d2r85a2
not modelled 99.9 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
59d1e4ea2
not modelled 99.9 19 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
60d1ehia2
not modelled 99.9 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
61d1iowa2
not modelled 99.9 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
62d1uc8a2
not modelled 99.9 24 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Lysine biosynthesis enzyme LysX ATP-binding domain
63c3ln6A_
not modelled 99.9 26 PDB header:ligase
Chain: A: PDB Molecule:glutathione biosynthesis bifunctional protein gshab;
PDBTitle: crystal structure of a bifunctional glutathione synthetase from2 streptococcus agalactiae
64c1pk8D_
not modelled 99.9 13 PDB header:membrane protein
Chain: D: PDB Molecule:rat synapsin i;
PDBTitle: crystal structure of rat synapsin i c domain complexed to2 ca.atp
65c1i7nA_
not modelled 99.9 11 PDB header:neuropeptide
Chain: A: PDB Molecule:synapsin ii;
PDBTitle: crystal structure analysis of the c domain of synapsin ii2 from rat brain
66c3ln7A_
not modelled 99.9 27 PDB header:ligase
Chain: A: PDB Molecule:glutathione biosynthesis bifunctional protein gshab;
PDBTitle: crystal structure of a bifunctional glutathione synthetase from2 pasteurella multocida
67c2p0aA_
not modelled 99.9 17 PDB header:neuropeptide
Chain: A: PDB Molecule:synapsin-3;
PDBTitle: the crystal structure of human synapsin iii (syn3) in complex with2 amppnp
68c1z2pX_
not modelled 99.8 10 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
69d1gsoa2
not modelled 99.8 100 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
70c1gshA_
not modelled 99.8 13 PDB header:glutathione biosynthesis ligase
Chain: A: PDB Molecule:glutathione biosynthetic ligase;
PDBTitle: structure of escherichia coli glutathione synthetase at ph 7.5
71d1i7na2
not modelled 99.8 15 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Synapsin C-terminal domain
72d1pk8a2
not modelled 99.8 12 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Synapsin C-terminal domain
73c2qb5B_
not modelled 99.8 16 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+
74d1gsaa2
not modelled 99.7 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
75d1gsoa1
not modelled 99.7 98 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:BC C-terminal domain-like
76c3t9aA_
not modelled 99.7 15 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
77c2cqyA_
not modelled 99.6 27 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
78d1vkza1
not modelled 99.5 42 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:BC C-terminal domain-like
79d1vkza2
not modelled 99.5 36 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
80c2r7mA_
not modelled 99.4 13 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
81c1wr2A_
not modelled 99.4 20 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph1789;
PDBTitle: crystal structure of ph1788 from pyrococcus horikoshii ot3
82d1a9xa4
not modelled 99.3 17 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
83d1kjqa2
not modelled 99.2 23 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
84c2nu9E_
not modelled 99.1 24 PDB header:ligase
Chain: E: PDB Molecule:succinyl-coa synthetase beta chain;
PDBTitle: c123at mutant of e. coli succinyl-coa synthetase2 orthorhombic crystal form
85d1eucb2
not modelled 99.0 22 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Succinyl-CoA synthetase, beta-chain, N-terminal domain
86c1eucB_
not modelled 99.0 24 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
87d2nu7b2
not modelled 99.0 25 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Succinyl-CoA synthetase, beta-chain, N-terminal domain
88d1a9xa3
not modelled 99.0 15 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
89c2pbzC_
not modelled 98.5 14 PDB header:ligase
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of an imp biosynthesis protein purp from2 thermococcus kodakaraensis
90d2pbza2
not modelled 98.5 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
91c3tinA_
not modelled 98.3 17 PDB header:ligase
Chain: A: PDB Molecule:ttl protein;
PDBTitle: tubulin tyrosine ligase
92c3mwdA_
not modelled 98.3 22 PDB header:transferase
Chain: A: PDB Molecule:atp-citrate synthase;
PDBTitle: truncated human atp-citrate lyase with citrate bound
93d1ulza2
not modelled 98.1 17 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
94d2j9ga2
not modelled 98.1 16 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
95c3ic5A_
not modelled 97.7 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative saccharopine dehydrogenase;
PDBTitle: n-terminal domain of putative saccharopine dehydrogenase from ruegeria2 pomeroyi.
96d1w96a2
not modelled 97.4 17 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
97c2axqA_
not modelled 97.2 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine dehydrogenase;
PDBTitle: apo histidine-tagged saccharopine dehydrogenase (l-glu2 forming) from saccharomyces cerevisiae
98c2z2vA_
not modelled 97.1 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein ph1688;
PDBTitle: crystal structure of l-lysine dehydrogenase from2 hyperthermophilic archaeon pyrococcus horikoshii
99c1e5lA_
not modelled 97.1 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:saccharopine reductase;
PDBTitle: apo saccharopine reductase from magnaporthe grisea
100c3nklA_
not modelled 97.1 12 PDB header:oxidoreductase/lyase
Chain: A: PDB Molecule:udp-d-quinovosamine 4-dehydrogenase;
PDBTitle: crystal structure of udp-d-quinovosamine 4-dehydrogenase from vibrio2 fischeri
101d1kewa_
not modelled 97.0 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
102c3ezyB_
not modelled 96.9 15 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:dehydrogenase;
PDBTitle: crystal structure of probable dehydrogenase tm_0414 from2 thermotoga maritima
103c3e9mC_
not modelled 96.8 9 PDB header:oxidoreductase
Chain: C: PDB Molecule:oxidoreductase, gfo/idh/moca family;
PDBTitle: crystal structure of an oxidoreductase from enterococcus2 faecalis
104c3bioB_
not modelled 96.8 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:oxidoreductase, gfo/idh/moca family;
PDBTitle: crystal structure of oxidoreductase (gfo/idh/moca family member) from2 porphyromonas gingivalis w83
105c3m2tA_
not modelled 96.8 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable dehydrogenase;
PDBTitle: the crystal structure of dehydrogenase from chromobacterium2 violaceum
106c2pk3B_
not modelled 96.8 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:gdp-6-deoxy-d-lyxo-4-hexulose reductase;
PDBTitle: crystal structure of a gdp-4-keto-6-deoxy-d-mannose reductase
107c3euwB_
not modelled 96.7 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:myo-inositol dehydrogenase;
PDBTitle: crystal structure of a myo-inositol dehydrogenase from corynebacterium2 glutamicum atcc 13032
108d1vl0a_
not modelled 96.7 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
109c2p5uC_
not modelled 96.7 13 PDB header:isomerase
Chain: C: PDB Molecule:udp-glucose 4-epimerase;
PDBTitle: crystal structure of thermus thermophilus hb8 udp-glucose 4-2 epimerase complex with nad
110d1e5qa1
not modelled 96.6 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
111c3kuxA_
not modelled 96.5 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxidoreductase;
PDBTitle: structure of the ypo2259 putative oxidoreductase from yersinia pestis
112d2dt5a2
not modelled 96.5 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Transcriptional repressor Rex, C-terminal domain
113d2jfga1
not modelled 96.5 16 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
114d1n2sa_
not modelled 96.5 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
115c2ggsB_
not modelled 96.4 23 PDB header:oxidoreductase
Chain: B: PDB Molecule:273aa long hypothetical dtdp-4-dehydrorhamnose
PDBTitle: crystal structure of hypothetical dtdp-4-dehydrorhamnose2 reductase from sulfolobus tokodaii
116d1w96c1
not modelled 96.4 12 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:BC C-terminal domain-like
117c2dc1A_
not modelled 96.4 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:l-aspartate dehydrogenase;
PDBTitle: crystal structure of l-aspartate dehydrogenase from2 hyperthermophilic archaeon archaeoglobus fulgidus
118d1lssa_
not modelled 96.4 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Potassium channel NAD-binding domain
119d2j9ga1
not modelled 96.4 10 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:BC C-terminal domain-like
120c3q2kB_
not modelled 96.4 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:oxidoreductase;
PDBTitle: crystal structure of the wlba dehydrogenase from bordetella pertussis2 in complex with nadh 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
Disclaimer
Terms and Conditions
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