Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP31119
DateThu Jan 5 11:47:06 GMT 2012
Unique Job IDe7fb12ac9a0e9d00

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2vsqA_
Top template information
PDB header:ligase
Chain: A: PDB Molecule:surfactin synthetase subunit 3;
PDBTitle: structure of surfactin a synthetase c (srfa-c), a2 nonribosomal peptide synthetase termination module
Confidence and coverage
Confidence:100.0% Coverage: 73%
522 residues ( 73% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
686 residues ( 95%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MLFSFFRNLCRVLYRVRVTGDTQALKGERVLITPNHVSFIDGILLGLFLPVRPVFAVYTS
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  ISQQWYMRWLKSFIDFVPLDPTQPMAIKHLVRLVEQGRPVVIFPEGRITTTGSLMKIYDG
Secondary structure 
SS confidence 
Disorder 
??
?????????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  AGFVAAKSGATVIPVRIEGAELTHFSRLKGLVKRRLFPQITLHILPPTQVAMPDAPRARD
Secondary structure 
SS confidence 
Disorder 
?
?
??
?
??????????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  RRKIAGEMLHQIMMEARMAVRPRETLYESLLSAMYRFGAGKKCVEDVNFTPDSYRKLLTK
Secondary structure 
SS confidence 
Disorder 
??
????
?????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  TLFVGRILEKYSVEGERIGLMLPNAGISAAVIFGAIARRRMPAMMNYTAGVKGLTSAITA
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  AEIKTIFTSRQFLDKGKLWHLPEQLTQVRWVYLEDLKADVTTADKVWIFAHLLMPRLAQV
Secondary structure 
SS confidence 
Disorder 
??
????
??????????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  KQQPEEEALILFTSGSEGHPKGVVHSHKSILANVEQIKTIADFTTNDRFMSALPLFHSFG
Secondary structure 
SS confidence 
Disorder  ?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  LTVGLFTPLLTGAEVFLYPSPLHYRIVPELVYDRSCTVLFGTSTFLGHYARFANPYDFYR
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  LRYVVAGAEKLQESTKQLWQDKFGLRILEGYGVTECAPVVSINVPMAAKPGTVGRILPGM
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  DARLLSVPGIEEGGRLQLKGPNIMNGYLRVEKPGVLEVPTAENVRGEMERGWYDTGDIVR
Secondary structure 
SS confidence 
Disorder 
?????
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  FDEQGFVQIQGRAKRFAKIAGEMVSLEMVEQLALGVSPDKVHATAIKSDASKGEALVLFT
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........
Sequence  TDNELTRDKLQQYAREHGVPELAVPRDIRYLKQMPLLGSGKPDFVTLKSWVDEAEQHDE
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 2vsq chain A

3D model

Region: 171 - 718
Aligned: 522
Modelled: 531
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: A: PDB Molecule:surfactin synthetase subunit 3;
PDBTitle: structure of surfactin a synthetase c (srfa-c), a2 nonribosomal peptide synthetase termination module

Phyre2

PDB 1pg4 chain A

3D model

Region: 205 - 718
Aligned: 506
Modelled: 514
Confidence: 100.0%
Identity: 18%
Fold: Acetyl-CoA synthetase-like
Superfamily: Acetyl-CoA synthetase-like
Family: Acetyl-CoA synthetase-like

Phyre2

PDB 1ry2 chain A

3D model

Region: 205 - 715
Aligned: 503
Modelled: 511
Confidence: 100.0%
Identity: 19%
Fold: Acetyl-CoA synthetase-like
Superfamily: Acetyl-CoA synthetase-like
Family: Acetyl-CoA synthetase-like

Phyre2

PDB 3tsy chain A

3D model

Region: 200 - 715
Aligned: 501
Modelled: 516
Confidence: 100.0%
Identity: 19%
PDB header:ligase, transferase
Chain: A: PDB Molecule:fusion protein 4-coumarate--coa ligase 1, resveratrol
PDBTitle: 4-coumaroyl-coa ligase::stilbene synthase fusion protein

Phyre2

PDB 3cw9 chain A domain 1

3D model

Region: 203 - 711
Aligned: 487
Modelled: 509
Confidence: 100.0%
Identity: 19%
Fold: Acetyl-CoA synthetase-like
Superfamily: Acetyl-CoA synthetase-like
Family: Acetyl-CoA synthetase-like

Phyre2

PDB 1mdb chain A

3D model

Region: 196 - 714
Aligned: 502
Modelled: 519
Confidence: 100.0%
Identity: 19%
Fold: Acetyl-CoA synthetase-like
Superfamily: Acetyl-CoA synthetase-like
Family: Acetyl-CoA synthetase-like

Phyre2

PDB 3e7w chain A

3D model

Region: 205 - 717
Aligned: 483
Modelled: 494
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1;
PDBTitle: crystal structure of dlta: implications for the reaction2 mechanism of non-ribosomal peptide synthetase (nrps)3 adenylation domains

Phyre2

PDB 3etc chain B

3D model

Region: 187 - 696
Aligned: 499
Modelled: 510
Confidence: 100.0%
Identity: 18%
PDB header:ligase
Chain: B: PDB Molecule:amp-binding protein;
PDBTitle: 2.1 a structure of acyl-adenylate synthetase from methanosarcina2 acetivorans containing a link between lys256 and cys298

Phyre2

PDB 3ni2 chain A

3D model

Region: 199 - 709
Aligned: 494
Modelled: 511
Confidence: 100.0%
Identity: 22%
PDB header:ligase
Chain: A: PDB Molecule:4-coumarate:coa ligase;
PDBTitle: crystal structures and enzymatic mechanisms of a populus tomentosa 4-2 coumarate:coa ligase

Phyre2

PDB 3gqw chain B

3D model

Region: 198 - 715
Aligned: 491
Modelled: 502
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: B: PDB Molecule:fatty acid amp ligase;
PDBTitle: crystal structure of a fatty acid amp ligase from e. coli with an acyl2 adenylate product bound

Phyre2

PDB 3kxw chain A

3D model

Region: 197 - 715
Aligned: 497
Modelled: 503
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: A: PDB Molecule:saframycin mx1 synthetase b;
PDBTitle: the crystal structure of fatty acid amp ligase from legionella2 pneumophila

Phyre2

PDB 3ite chain B

3D model

Region: 207 - 708
Aligned: 471
Modelled: 488
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: B: PDB Molecule:sidn siderophore synthetase;
PDBTitle: the third adenylation domain of the fungal sidn non-2 ribosomal peptide synthetase

Phyre2

PDB 3eyn chain B

3D model

Region: 206 - 713
Aligned: 491
Modelled: 507
Confidence: 100.0%
Identity: 18%
PDB header:ligase
Chain: B: PDB Molecule:acyl-coenzyme a synthetase acsm2a;
PDBTitle: crystal structure of human acyl-coa synthetase medium-chain2 family member 2a (l64p mutation) in a complex with coa

Phyre2

PDB 2d1t chain A

3D model

Region: 200 - 713
Aligned: 502
Modelled: 514
Confidence: 100.0%
Identity: 20%
PDB header:oxidoreductase
Chain: A: PDB Molecule:luciferin 4-monooxygenase;
PDBTitle: crystal structure of the thermostable japanese firefly2 luciferase red-color emission s286n mutant complexed with3 high-energy intermediate analogue

Phyre2

PDB 1amu chain A

3D model

Region: 186 - 709
Aligned: 491
Modelled: 505
Confidence: 100.0%
Identity: 18%
Fold: Acetyl-CoA synthetase-like
Superfamily: Acetyl-CoA synthetase-like
Family: Acetyl-CoA synthetase-like

Phyre2

PDB 2v7b chain B

3D model

Region: 205 - 709
Aligned: 474
Modelled: 491
Confidence: 100.0%
Identity: 20%
PDB header:ligase
Chain: B: PDB Molecule:benzoate-coenzyme a ligase;
PDBTitle: crystal structures of a benzoate coa ligase from2 burkholderia xenovorans lb400

Phyre2

PDB 1amu chain B

3D model

Region: 186 - 709
Aligned: 490
Modelled: 499
Confidence: 100.0%
Identity: 16%
PDB header:peptide synthetase
Chain: B: PDB Molecule:gramicidin synthetase 1;
PDBTitle: phenylalanine activating domain of gramicidin synthetase 12 in a complex with amp and phenylalanine

Phyre2

PDB 1v25 chain A

3D model

Region: 200 - 683
Aligned: 456
Modelled: 484
Confidence: 100.0%
Identity: 22%
Fold: Acetyl-CoA synthetase-like
Superfamily: Acetyl-CoA synthetase-like
Family: Acetyl-CoA synthetase-like

Phyre2

PDB 3nyr chain A

3D model

Region: 206 - 696
Aligned: 449
Modelled: 468
Confidence: 100.0%
Identity: 22%
PDB header:ligase
Chain: A: PDB Molecule:malonyl-coa ligase;
PDBTitle: malonyl-coa ligase ternary product complex with malonyl-coa and amp2 bound

Phyre2

PDB 3ipl chain B

3D model

Region: 210 - 693
Aligned: 439
Modelled: 459
Confidence: 100.0%
Identity: 21%
PDB header:ligase
Chain: B: PDB Molecule:2-succinylbenzoate--coa ligase;
PDBTitle: crystal structure of o-succinylbenzoic acid-coa ligase from2 staphylococcus aureus subsp. aureus mu50

Phyre2

PDB 1iuq chain A

3D model

Region: 22 - 194
Aligned: 166
Modelled: 164
Confidence: 98.4%
Identity: 14%
Fold: Glycerol-3-phosphate (1)-acyltransferase
Superfamily: Glycerol-3-phosphate (1)-acyltransferase
Family: Glycerol-3-phosphate (1)-acyltransferase

Phyre2
1
c2vsqA_
2
d1pg4a_
3
d1ry2a_
4
c3tsyA_
5
d3cw9a1
6
d1mdba_
7
c3e7wA_
8
c3etcB_
9
c3ni2A_
10
c3gqwB_
11
c3kxwA_
12
c3iteB_
13
c3eynB_
14
c2d1tA_
15
d1amua_
16
c2v7bB_
17
c1amuB_
18
d1v25a_
19
c3nyrA_
20
c3iplB_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
d1iuqa_
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
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63
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68
69
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73
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2vsqA_
100.0 16 PDB header:ligase
Chain: A: PDB Molecule:surfactin synthetase subunit 3;
PDBTitle: structure of surfactin a synthetase c (srfa-c), a2 nonribosomal peptide synthetase termination module
2d1pg4a_
100.0 18 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
3d1ry2a_
100.0 19 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
4c3tsyA_
100.0 19 PDB header:ligase, transferase
Chain: A: PDB Molecule:fusion protein 4-coumarate--coa ligase 1, resveratrol
PDBTitle: 4-coumaroyl-coa ligase::stilbene synthase fusion protein
5d3cw9a1
100.0 19 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
6d1mdba_
100.0 19 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
7c3e7wA_
100.0 16 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1;
PDBTitle: crystal structure of dlta: implications for the reaction2 mechanism of non-ribosomal peptide synthetase (nrps)3 adenylation domains
8c3etcB_
100.0 18 PDB header:ligase
Chain: B: PDB Molecule:amp-binding protein;
PDBTitle: 2.1 a structure of acyl-adenylate synthetase from methanosarcina2 acetivorans containing a link between lys256 and cys298
9c3ni2A_
100.0 22 PDB header:ligase
Chain: A: PDB Molecule:4-coumarate:coa ligase;
PDBTitle: crystal structures and enzymatic mechanisms of a populus tomentosa 4-2 coumarate:coa ligase
10c3gqwB_
100.0 20 PDB header:ligase
Chain: B: PDB Molecule:fatty acid amp ligase;
PDBTitle: crystal structure of a fatty acid amp ligase from e. coli with an acyl2 adenylate product bound
11c3kxwA_
100.0 16 PDB header:ligase
Chain: A: PDB Molecule:saframycin mx1 synthetase b;
PDBTitle: the crystal structure of fatty acid amp ligase from legionella2 pneumophila
12c3iteB_
100.0 20 PDB header:ligase
Chain: B: PDB Molecule:sidn siderophore synthetase;
PDBTitle: the third adenylation domain of the fungal sidn non-2 ribosomal peptide synthetase
13c3eynB_
100.0 18 PDB header:ligase
Chain: B: PDB Molecule:acyl-coenzyme a synthetase acsm2a;
PDBTitle: crystal structure of human acyl-coa synthetase medium-chain2 family member 2a (l64p mutation) in a complex with coa
14c2d1tA_
100.0 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:luciferin 4-monooxygenase;
PDBTitle: crystal structure of the thermostable japanese firefly2 luciferase red-color emission s286n mutant complexed with3 high-energy intermediate analogue
15d1amua_
100.0 18 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
16c2v7bB_
100.0 20 PDB header:ligase
Chain: B: PDB Molecule:benzoate-coenzyme a ligase;
PDBTitle: crystal structures of a benzoate coa ligase from2 burkholderia xenovorans lb400
17c1amuB_
100.0 16 PDB header:peptide synthetase
Chain: B: PDB Molecule:gramicidin synthetase 1;
PDBTitle: phenylalanine activating domain of gramicidin synthetase 12 in a complex with amp and phenylalanine
18d1v25a_
100.0 22 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
19c3nyrA_
100.0 22 PDB header:ligase
Chain: A: PDB Molecule:malonyl-coa ligase;
PDBTitle: malonyl-coa ligase ternary product complex with malonyl-coa and amp2 bound
20c3iplB_
100.0 21 PDB header:ligase
Chain: B: PDB Molecule:2-succinylbenzoate--coa ligase;
PDBTitle: crystal structure of o-succinylbenzoic acid-coa ligase from2 staphylococcus aureus subsp. aureus mu50
21d1lcia_
not modelled 100.0 18 Fold:Acetyl-CoA synthetase-like
Superfamily:Acetyl-CoA synthetase-like
Family:Acetyl-CoA synthetase-like
22c3g7sA_
not modelled 100.0 21 PDB header:ligase
Chain: A: PDB Molecule:long-chain-fatty-acid--coa ligase (fadd-1);
PDBTitle: crystal structure of a long-chain-fatty-acid-coa ligase2 (fadd1) from archaeoglobus fulgidus
23c3dhvA_
not modelled 100.0 15 PDB header:ligase
Chain: A: PDB Molecule:d-alanine-poly(phosphoribitol) ligase;
PDBTitle: crystal structure of dlta protein in complex with d-alanine2 adenylate
24c3l8cA_
not modelled 100.0 16 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1;
PDBTitle: structure of probable d-alanine--poly(phosphoribitol) ligase2 subunit-1 from streptococcus pyogenes
25c3o82B_
not modelled 100.0 16 PDB header:ligase
Chain: B: PDB Molecule:peptide arylation enzyme;
PDBTitle: structure of base n-terminal domain from acinetobacter baumannii bound2 to 5'-o-[n-(2,3-dihydroxybenzoyl)sulfamoyl] adenosine
26c3o82A_
not modelled 100.0 16 PDB header:ligase
Chain: A: PDB Molecule:peptide arylation enzyme;
PDBTitle: structure of base n-terminal domain from acinetobacter baumannii bound2 to 5'-o-[n-(2,3-dihydroxybenzoyl)sulfamoyl] adenosine
27c3ivrA_
not modelled 100.0 17 PDB header:ligase
Chain: A: PDB Molecule:putative long-chain-fatty-acid coa ligase;
PDBTitle: crystal structure of putative long-chain-fatty-acid coa ligase from2 rhodopseudomonas palustris cga009
28c3e53A_
not modelled 100.0 22 PDB header:ligase
Chain: A: PDB Molecule:fatty-acid-coa ligase fadd28;
PDBTitle: crystal structure of n-terminal domain of a fatty acyl amp2 ligase faal28 from mycobacterium tuberculosis
29c2y4oA_
not modelled 100.0 14 PDB header:ligase
Chain: A: PDB Molecule:phenylacetate-coenzyme a ligase;
PDBTitle: crystal structure of paak2 in complex with phenylacetyl adenylate
30c2y27B_
not modelled 100.0 15 PDB header:ligase
Chain: B: PDB Molecule:phenylacetate-coenzyme a ligase;
PDBTitle: crystal structure of paak1 in complex with atp from2 burkholderia cenocepacia
31c3qovD_
not modelled 100.0 13 PDB header:ligase
Chain: D: PDB Molecule:phenylacetate-coenzyme a ligase;
PDBTitle: crystal structure of a hypothetical acyl-coa ligase (bt_0428) from2 bacteroides thetaiotaomicron vpi-5482 at 2.20 a resolution
32c3hguB_
not modelled 100.0 15 PDB header:biosynthetic protein
Chain: B: PDB Molecule:ehpf;
PDBTitle: structure of phenazine antibiotic biosynthesis protein
33c3laxA_
not modelled 99.4 12 PDB header:ligase
Chain: A: PDB Molecule:phenylacetate-coenzyme a ligase;
PDBTitle: the crystal structure of a domain of phenylacetate-coenzyme2 a ligase from bacteroides vulgatus atcc 8482
34d1iuqa_
98.4 14 Fold:Glycerol-3-phosphate (1)-acyltransferase
Superfamily:Glycerol-3-phosphate (1)-acyltransferase
Family:Glycerol-3-phosphate (1)-acyltransferase
35d2z67a1
not modelled 69.4 16 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:SepSecS-like
36c3ewbX_
not modelled 61.0 10 PDB header:transferase
Chain: X: PDB Molecule:2-isopropylmalate synthase;
PDBTitle: crystal structure of n-terminal domain of putative 2-2 isopropylmalate synthase from listeria monocytogenes
37d1nvma2
not modelled 43.9 10 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:HMGL-like
38d1ky8a_
not modelled 43.2 15 Fold:ALDH-like
Superfamily:ALDH-like
Family:ALDH-like
39c1nvmG_
not modelled 39.5 10 PDB header:lyase/oxidoreductase
Chain: G: PDB Molecule:4-hydroxy-2-oxovalerate aldolase;
PDBTitle: crystal structure of a bifunctional aldolase-dehydrogenase :2 sequestering a reactive and volatile intermediate
40d3bc8a1
not modelled 38.8 13 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:SepSecS-like
41c3eegB_
not modelled 36.5 12 PDB header:transferase
Chain: B: PDB Molecule:2-isopropylmalate synthase;
PDBTitle: crystal structure of a 2-isopropylmalate synthase from2 cytophaga hutchinsonii
42c2i2xD_
not modelled 36.4 13 PDB header:transferase
Chain: D: PDB Molecule:methyltransferase 1;
PDBTitle: crystal structure of methanol:cobalamin methyltransferase complex2 mtabc from methanosarcina barkeri
43c3bcxA_
not modelled 34.6 8 PDB header:transferase
Chain: A: PDB Molecule:cdp-6-deoxy-l-threo-d-glycero-4-hexulose-3-
PDBTitle: e1 dehydrase
44c2ov3A_
not modelled 34.5 15 PDB header:transport protein
Chain: A: PDB Molecule:periplasmic binding protein component of an abc
PDBTitle: crystal structure of 138-173 znua deletion mutant plus zinc2 bound
45c2ec5B_
not modelled 33.8 19 PDB header:toxin
Chain: B: PDB Molecule:dermonecrotic toxin;
PDBTitle: crystal structures reveal a thiol-protease like catalytic triad in the2 c-terminal region of pasteurella multocida toxin
46c2o1eB_
not modelled 33.6 18 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:ycdh;
PDBTitle: crystal structure of the metal-dependent lipoprotein ycdh2 from bacillus subtilis, northeast structural genomics3 target sr583
47c1bmtB_
not modelled 33.1 7 PDB header:methyltransferase
Chain: B: PDB Molecule:methionine synthase;
PDBTitle: how a protein binds b12: a 3.o angstrom x-ray structure of2 the b12-binding domains of methionine synthase
48d1ja1a1
not modelled 30.9 13 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:NADPH-cytochrome p450 reductase FAD-binding domain-like
49d1hrua_
not modelled 30.5 21 Fold:YrdC/RibB
Superfamily:YrdC/RibB
Family:YrdC-like
50c3ezxA_
not modelled 30.5 7 PDB header:transferase
Chain: A: PDB Molecule:monomethylamine corrinoid protein 1;
PDBTitle: structure of methanosarcina barkeri monomethylamine2 corrinoid protein
51c1ydnA_
not modelled 28.8 9 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of the hmg-coa lyase from brucella melitensis,2 northeast structural genomics target lr35.
52d1f06a2
not modelled 28.3 14 Fold:FwdE/GAPDH domain-like
Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
Family:Dihydrodipicolinate reductase-like
53d2trcp_
not modelled 26.8 50 Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Phosducin
54d1f20a1
not modelled 26.1 11 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:NADPH-cytochrome p450 reductase FAD-binding domain-like
55c2cw6B_
not modelled 25.7 10 PDB header:lyase
Chain: B: PDB Molecule:hydroxymethylglutaryl-coa lyase, mitochondrial;
PDBTitle: crystal structure of human hmg-coa lyase: insights into2 catalysis and the molecular basis for3 hydroxymethylglutaric aciduria
56c2ps3A_
not modelled 24.4 9 PDB header:metal transport
Chain: A: PDB Molecule:high-affinity zinc uptake system protein znua;
PDBTitle: structure and metal binding properties of znua, a2 periplasmic zinc transporter from escherichia coli
57d1pq4a_
not modelled 23.2 18 Fold:Chelatase-like
Superfamily:"Helical backbone" metal receptor
Family:TroA-like
58d1ddga1
not modelled 21.7 13 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:NADPH-cytochrome p450 reductase FAD-binding domain-like
59d3bula2
not modelled 21.1 7 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
60d2ayia1
not modelled 20.8 10 Fold:Thermophilic metalloprotease-like
Superfamily:Thermophilic metalloprotease-like
Family:Thermophilic metalloprotease (M29)
61c2dkjB_
not modelled 20.4 9 PDB header:transferase
Chain: B: PDB Molecule:serine hydroxymethyltransferase;
PDBTitle: crystal structure of t.th.hb8 serine hydroxymethyltransferase
62d1jcua_
not modelled 19.5 25 Fold:YrdC/RibB
Superfamily:YrdC/RibB
Family:YrdC-like
63c3bleA_
not modelled 18.7 12 PDB header:transferase
Chain: A: PDB Molecule:citramalate synthase from leptospira interrogans;
PDBTitle: crystal structure of the catalytic domain of licms in2 complexed with malonate
64c2kkhA_
not modelled 18.5 6 PDB header:metal transport
Chain: A: PDB Molecule:putative heavy metal transporter;
PDBTitle: structure of the zinc binding domain of the atpase hma4
65c2ga7A_
not modelled 18.3 8 PDB header:hydrolase
Chain: A: PDB Molecule:copper-transporting atpase 1;
PDBTitle: solution structure of the copper(i) form of the third metal-2 binding domain of atp7a protein (menkes disease protein)
66c2ywiA_
not modelled 18.3 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical conserved protein;
PDBTitle: crystal structure of uncharacterized conserved protein from2 geobacillus kaustophilus
67c2jg7G_
not modelled 18.1 8 PDB header:oxidoreductase
Chain: G: PDB Molecule:antiquitin;
PDBTitle: crystal structure of seabream antiquitin and elucidation of2 its substrate specificity
68d1z7wa1
not modelled 17.9 13 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
69c3ivuB_
not modelled 17.8 13 PDB header:transferase
Chain: B: PDB Molecule:homocitrate synthase, mitochondrial;
PDBTitle: homocitrate synthase lys4 bound to 2-og
70c1k98A_
not modelled 17.4 9 PDB header:transferase
Chain: A: PDB Molecule:methionine synthase;
PDBTitle: adomet complex of meth c-terminal fragment
71c1l9xA_
not modelled 17.1 3 PDB header:hydrolase
Chain: A: PDB Molecule:gamma-glutamyl hydrolase;
PDBTitle: structure of gamma-glutamyl hydrolase
72d1l9xa_
not modelled 17.1 3 Fold:Flavodoxin-like
Superfamily:Class I glutamine amidotransferase-like
Family:Class I glutamine amidotransferases (GAT)
73c2zy3A_
not modelled 17.0 10 PDB header:lyase
Chain: A: PDB Molecule:l-aspartate beta-decarboxylase;
PDBTitle: dodecameric l-aspartate beta-decarboxylase
74c3hjtB_
not modelled 16.8 20 PDB header:cell adhesion, transport protein
Chain: B: PDB Molecule:lmb;
PDBTitle: structure of laminin binding protein (lmb) of streptococcus2 agalactiae a bifunctional protein with adhesin and metal3 transporting activity
75c3cx3A_
not modelled 16.5 16 PDB header:metal binding protein
Chain: A: PDB Molecule:lipoprotein;
PDBTitle: crystal structure analysis of the streptococcus pneumoniae2 adcaii protein
76c3eqnB_
not modelled 16.4 28 PDB header:hydrolase
Chain: B: PDB Molecule:glucan 1,3-beta-glucosidase;
PDBTitle: crystal structure of beta-1,3-glucanase from phanerochaete2 chrysosporium (lam55a)
77d2ewca1
not modelled 15.9 6 Fold:Bacillus chorismate mutase-like
Superfamily:YjgF-like
Family:YjgF/L-PSP
78d1cpza_
not modelled 15.9 21 Fold:Ferredoxin-like
Superfamily:HMA, heavy metal-associated domain
Family:HMA, heavy metal-associated domain
79d1h80a_
not modelled 15.0 38 Fold:Single-stranded right-handed beta-helix
Superfamily:Pectin lyase-like
Family:iota-carrageenase
80d1dfoa_
not modelled 14.9 10 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:GABA-aminotransferase-like
81c3gjzB_
not modelled 14.6 18 PDB header:immune system
Chain: B: PDB Molecule:microcin immunity protein mccf;
PDBTitle: crystal structure of microcin immunity protein mccf from bacillus2 anthracis str. ames
82c3i7tA_
not modelled 14.5 15 PDB header:unknown function
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of rv2704, a member of highly conserved2 yjgf/yer057c/uk114 family, from mycobacterium tuberculosis
83c2ogwB_
not modelled 14.4 10 PDB header:transport protein
Chain: B: PDB Molecule:high-affinity zinc uptake system protein znua
PDBTitle: structure of abc type zinc transporter from e. coli
84d1a0rp_
not modelled 14.2 50 Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Phosducin
85c2e11B_
not modelled 14.2 18 PDB header:hydrolase
Chain: B: PDB Molecule:hydrolase;
PDBTitle: the crystal structure of xc1258 from xanthomonas campestris: a cn-2 hydrolase superfamily protein with an arsenic adduct in the active3 site
86c2iyjA_
not modelled 14.0 22 PDB header:isomerase
Chain: A: PDB Molecule:thiol disulfide interchange protein dsbc;
PDBTitle: crystal structure of the n-terminal dimer domain of e.coli2 dsbc
87d1vjoa_
not modelled 13.6 7 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
88c1sfeA_
not modelled 13.6 17 PDB header:dna-binding protein
Chain: A: PDB Molecule:ada o6-methylguanine-dna methyltransferase;
PDBTitle: ada o6-methylguanine-dna methyltransferase from escherichia coli
89c3nnkC_
not modelled 13.6 9 PDB header:transferase
Chain: C: PDB Molecule:ureidoglycine-glyoxylate aminotransferase;
PDBTitle: biochemical and structural characterization of a ureidoglycine2 aminotransferase in the klebsiella pneumoniae uric acid catabolic3 pathway
90c3mfqB_
not modelled 13.4 13 PDB header:metal binding protein
Chain: B: PDB Molecule:high-affinity zinc uptake system protein znua;
PDBTitle: a glance into the metal binding specificity of troa: where elaborate2 behaviors occur in the active center
91c3jurA_
not modelled 13.1 28 PDB header:hydrolase
Chain: A: PDB Molecule:exo-poly-alpha-d-galacturonosidase;
PDBTitle: the crystal structure of a hyperthermoactive exopolygalacturonase from2 thermotoga maritima
92d2ch1a1
not modelled 13.0 15 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:Cystathionine synthase-like
93c3b46B_
not modelled 13.0 18 PDB header:transferase
Chain: B: PDB Molecule:aminotransferase bna3;
PDBTitle: crystal structure of bna3p, a putative kynurenine2 aminotransferase from saccharomyces cerevisiae
94d1kola2
not modelled 12.9 8 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Alcohol dehydrogenase-like, C-terminal domain
95c2l69A_
not modelled 12.3 16 PDB header:de novo protein
Chain: A: PDB Molecule:rossmann 2x3 fold protein;
PDBTitle: solution nmr structure of de novo designed protein, p-loop ntpase2 fold, northeast structural genomics consortium target or28
96c3hkxA_
not modelled 12.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:amidase;
PDBTitle: crystal structure analysis of an amidase from nesterenkonia sp.
97c3kjjL_
not modelled 12.0 11 PDB header:unknown function
Chain: L: PDB Molecule:nmb1025 protein;
PDBTitle: crystal structure of nmb1025, a member of yjgf protein family, from2 neisseria meningitidis (hexagonal crystal form)
98d1li4a2
not modelled 11.6 17 Fold:Flavodoxin-like
Superfamily:Formate/glycerate dehydrogenase catalytic domain-like
Family:S-adenosylhomocystein hydrolase
99c3d64A_
not modelled 11.5 19 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of s-adenosyl-l-homocysteine hydrolase from2 burkholderia pseudomallei

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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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