Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP05042
DateThu Jan 5 10:58:37 GMT 2012
Unique Job IDe72b0832986c4c85

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1j3ua_
Top template information
Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
Confidence and coverage
Confidence:100.0% Coverage: 99%
462 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  MNTVRSEKDSMGAIDVPADKLWGAQTQRSLEHFRISTEKMPTSLIHALALTKRAAAKVNE
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Disorder  ???????







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   .........70.........80.........90.........100.........110.........120
Sequence  DLGLLSEEKASAIRQAADEVLAGQHDDEFPLAIWQTGSGTQSNMNMNEVLANRASELLGG
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????????
















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   .........130.........140.........150.........160.........170.........180
Sequence  VRGMERKVHPNDDVNKSQSSNDVFPTAMHVAALLALRKQLIPQLKTLTQTLNEKSRAFAD
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   .........190.........200.........210.........220.........230.........240
Sequence  IVKIGRTHLQDATPLTLGQEISGWVAMLEHNLKHIEYSLPHVAELALGGTAVGTGLNTHP
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??













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   .........250.........260.........270.........280.........290.........300
Sequence  EYARRVADELAVITCAPFVTAPNKFEALATCDALVQAHGALKGLAASLMKIANDVRWLAS
Secondary structure 













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?

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   .........310.........320.........330.........340.........350.........360
Sequence  GPRCGIGEISIPENEPGSSIMPGKVNPTQCEALTMLCCQVMGNDVAINMGGASGNFELNV
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Disorder 










?????

































????
?????
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   .........370.........380.........390.........400.........410.........420
Sequence  FRPMVIHNFLQSVRLLADGMESFNKHCAVGIEPNRERINQLLNESLMLVTALNTHIGYDK
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   .........430.........440.........450.........460.......
Sequence  AAEIAKKAHKEGLTLKAAALALGYLSEAEFDSWVRPEQMVGSMKAGR
Secondary structure 

















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Disorder 






































????????
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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 1j3u chain A

3D model

Region: 4 - 466
Aligned: 462
Modelled: 463
Confidence: 100.0%
Identity: 41%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1vdk chain A

3D model

Region: 5 - 462
Aligned: 455
Modelled: 458
Confidence: 100.0%
Identity: 58%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1yfm chain A

3D model

Region: 3 - 460
Aligned: 448
Modelled: 458
Confidence: 100.0%
Identity: 59%
PDB header:lyase
Chain: A: PDB Molecule:fumarase;
PDBTitle: recombinant yeast fumarase

Phyre2

PDB 1yfm chain A

3D model

Region: 3 - 460
Aligned: 448
Modelled: 458
Confidence: 100.0%
Identity: 59%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1fuo chain A

3D model

Region: 4 - 459
Aligned: 456
Modelled: 456
Confidence: 100.0%
Identity: 100%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1jsw chain A

3D model

Region: 1 - 455
Aligned: 454
Modelled: 455
Confidence: 100.0%
Identity: 40%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 3no9 chain C

3D model

Region: 2 - 462
Aligned: 448
Modelled: 448
Confidence: 100.0%
Identity: 48%
PDB header:lyase
Chain: C: PDB Molecule:fumarate hydratase class ii;
PDBTitle: crystal structure of apo fumarate hydratase from mycobacterium2 tuberculosis

Phyre2

PDB 3ocf chain B

3D model

Region: 4 - 441
Aligned: 427
Modelled: 438
Confidence: 100.0%
Identity: 45%
PDB header:lyase
Chain: B: PDB Molecule:fumarate lyase:delta crystallin;
PDBTitle: crystal structure of fumarate lyase:delta crystallin from brucella2 melitensis in native form

Phyre2

PDB 3e04 chain C

3D model

Region: 3 - 415
Aligned: 412
Modelled: 413
Confidence: 100.0%
Identity: 59%
PDB header:lyase
Chain: C: PDB Molecule:fumarate hydratase;
PDBTitle: crystal structure of human fumarate hydratase

Phyre2

PDB 3gtd chain B

3D model

Region: 3 - 406
Aligned: 400
Modelled: 404
Confidence: 100.0%
Identity: 56%
PDB header:lyase
Chain: B: PDB Molecule:fumarate hydratase class ii;
PDBTitle: 2.4 angstrom crystal structure of fumarate hydratase from rickettsia2 prowazekii

Phyre2

PDB 1jsw chain C

3D model

Region: 4 - 414
Aligned: 410
Modelled: 411
Confidence: 100.0%
Identity: 41%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 3r6y chain G

3D model

Region: 4 - 395
Aligned: 381
Modelled: 392
Confidence: 100.0%
Identity: 41%
PDB header:lyase
Chain: G: PDB Molecule:aspartase;
PDBTitle: crystal structure of chymotrypsin-treated aspartase from bacillus sp.2 ym55-1

Phyre2

PDB 2pfm chain A

3D model

Region: 21 - 463
Aligned: 405
Modelled: 427
Confidence: 100.0%
Identity: 19%
PDB header:lyase
Chain: A: PDB Molecule:adenylosuccinate lyase;
PDBTitle: crystal structure of adenylosuccinate lyase (purb) from bacillus2 anthracis

Phyre2

PDB 1tj7 chain A

3D model

Region: 21 - 463
Aligned: 413
Modelled: 434
Confidence: 100.0%
Identity: 20%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1re5 chain A

3D model

Region: 19 - 463
Aligned: 404
Modelled: 420
Confidence: 100.0%
Identity: 24%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1q5n chain A

3D model

Region: 21 - 463
Aligned: 401
Modelled: 422
Confidence: 100.0%
Identity: 22%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 2e9f chain C

3D model

Region: 42 - 463
Aligned: 392
Modelled: 415
Confidence: 100.0%
Identity: 24%
PDB header:lyase
Chain: C: PDB Molecule:argininosuccinate lyase;
PDBTitle: crystal structure of t.th.hb8 argininosuccinate lyase complexed with2 l-arginine

Phyre2

PDB 1c3c chain A

3D model

Region: 21 - 463
Aligned: 398
Modelled: 422
Confidence: 100.0%
Identity: 20%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1i0a chain A

3D model

Region: 21 - 463
Aligned: 411
Modelled: 434
Confidence: 100.0%
Identity: 21%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2

PDB 1tjv chain A

3D model

Region: 26 - 463
Aligned: 406
Modelled: 438
Confidence: 100.0%
Identity: 21%
Fold: L-aspartase-like
Superfamily: L-aspartase-like
Family: L-aspartase/fumarase

Phyre2
1

d1j3ua_
2

d1vdka_
3

c1yfmA_
4

d1yfma_
5

d1fuoa_
6

d1jswa_
7

c3no9C_
8

c3ocfB_
9

c3e04C_
10

c3gtdB_
11

d1jswc_
12

c3r6yG_
13

c2pfmA_
14

d1tj7a_
15

d1re5a_
16

d1q5na_
17

c2e9fC_
18

d1c3ca_
19

d1i0aa_
20

d1tjva_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1j3ua_



100.0 41 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
2d1vdka_



100.0 58 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
3c1yfmA_



100.0 59 PDB header:lyase
Chain: A: PDB Molecule:fumarase;
PDBTitle: recombinant yeast fumarase
4d1yfma_



100.0 59 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
5d1fuoa_



100.0 100 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
6d1jswa_



100.0 40 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
7c3no9C_



100.0 48 PDB header:lyase
Chain: C: PDB Molecule:fumarate hydratase class ii;
PDBTitle: crystal structure of apo fumarate hydratase from mycobacterium2 tuberculosis
8c3ocfB_



100.0 45 PDB header:lyase
Chain: B: PDB Molecule:fumarate lyase:delta crystallin;
PDBTitle: crystal structure of fumarate lyase:delta crystallin from brucella2 melitensis in native form
9c3e04C_



100.0 59 PDB header:lyase
Chain: C: PDB Molecule:fumarate hydratase;
PDBTitle: crystal structure of human fumarate hydratase
10c3gtdB_



100.0 56 PDB header:lyase
Chain: B: PDB Molecule:fumarate hydratase class ii;
PDBTitle: 2.4 angstrom crystal structure of fumarate hydratase from rickettsia2 prowazekii
11d1jswc_



100.0 41 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
12c3r6yG_



100.0 41 PDB header:lyase
Chain: G: PDB Molecule:aspartase;
PDBTitle: crystal structure of chymotrypsin-treated aspartase from bacillus sp.2 ym55-1
13c2pfmA_



100.0 19 PDB header:lyase
Chain: A: PDB Molecule:adenylosuccinate lyase;
PDBTitle: crystal structure of adenylosuccinate lyase (purb) from bacillus2 anthracis
14d1tj7a_



100.0 20 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
15d1re5a_



100.0 24 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
16d1q5na_



100.0 22 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
17c2e9fC_



100.0 24 PDB header:lyase
Chain: C: PDB Molecule:argininosuccinate lyase;
PDBTitle: crystal structure of t.th.hb8 argininosuccinate lyase complexed with2 l-arginine
18d1c3ca_



100.0 20 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
19d1i0aa_



100.0 21 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
20d1tjva_



100.0 21 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
21d1hy0a_



not modelled 100.0 20 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
22d1k62a_



not modelled 100.0 20 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
23c3c8tA_



not modelled 100.0 22 PDB header:lyase
Chain: A: PDB Molecule:fumarate lyase;
PDBTitle: crystal structure of fumarate lyase from mesorhizobium sp. bnc1
24c3bhgA_



not modelled 100.0 15 PDB header:lyase
Chain: A: PDB Molecule:adenylosuccinate lyase;
PDBTitle: crystal structure of adenylosuccinate lyase from legionella2 pneumophila
25c2vd6B_



not modelled 100.0 17 PDB header:lyase
Chain: B: PDB Molecule:adenylosuccinate lyase;
PDBTitle: human adenylosuccinate lyase in complex with its substrate2 n6-(1,2-dicarboxyethyl)-amp, and its products amp and3 fumarate.
26c2qgaC_



not modelled 100.0 16 PDB header:lyase
Chain: C: PDB Molecule:adenylosuccinate lyase;
PDBTitle: plasmodium vivax adenylosuccinate lyase pv003765 with amp bound
27c2ptsA_



not modelled 100.0 15 PDB header:lyase
Chain: A: PDB Molecule:adenylosuccinate lyase;
PDBTitle: crystal structure of wild type escherichia coli adenylosuccinate lyase
28d1dofa_



not modelled 100.0 21 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
29c1yisA_



not modelled 100.0 14 PDB header:lyase
Chain: A: PDB Molecule:adenylosuccinate lyase;
PDBTitle: structural genomics of caenorhabditis elegans: adenylosuccinate lyase
30c2fenA_



not modelled 100.0 21 PDB header:isomerase
Chain: A: PDB Molecule:3-carboxy-cis,cis-muconate lactonizing enzyme;
PDBTitle: 3-carboxy-cis,cis-muconate lactonizing enzyme from agrobacterium2 radiobacter s2
31d1f1oa_



not modelled 100.0 19 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
32d1gkma_



not modelled 52.1 19 Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:HAL/PAL-like
33c3exmA_



not modelled 27.1 24 PDB header:hydrolase
Chain: A: PDB Molecule:phosphatase sc4828;
PDBTitle: crystal structure of the phosphatase sc4828 with the non-hydrolyzable2 nucleotide gpcp
34c2xgvA_



not modelled 25.7 27 PDB header:viral protein
Chain: A: PDB Molecule:psiv capsid n-terminal domain;
PDBTitle: structure of the n-terminal domain of capsid protein from2 rabbit endogenous lentivirus (relik)
35d1lbua1



not modelled 25.1 21 Fold:PGBD-like
Superfamily:PGBD-like
Family:Peptidoglycan binding domain, PGBD
36d1h8ba_



not modelled 22.2 21 Fold:EF Hand-like
Superfamily:EF-hand
Family:EF-hand modules in multidomain proteins
37d2ce7a1



not modelled 20.5 21 Fold:FtsH protease domain-like
Superfamily:FtsH protease domain-like
Family:FtsH protease domain-like
38d1e8ga1



not modelled 19.8 21 Fold:Ferredoxin-like
Superfamily:FAD-linked oxidases, C-terminal domain
Family:Vanillyl-alcohol oxidase-like
39c2ctoA_



not modelled 19.8 42 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:novel protein;
PDBTitle: solution structure of the hmg box like domain from human2 hypothetical protein flj14904
40d1wvfa1



not modelled 19.3 16 Fold:Ferredoxin-like
Superfamily:FAD-linked oxidases, C-terminal domain
Family:Vanillyl-alcohol oxidase-like
41c2di4B_



not modelled 19.1 17 PDB header:hydrolase
Chain: B: PDB Molecule:cell division protein ftsh homolog;
PDBTitle: crystal structure of the ftsh protease domain
42d2di4a1



not modelled 18.5 16 Fold:FtsH protease domain-like
Superfamily:FtsH protease domain-like
Family:FtsH protease domain-like
43c3bkhA_



not modelled 16.2 22 PDB header:hydrolase
Chain: A: PDB Molecule:lytic transglycosylase;
PDBTitle: crystal structure of the bacteriophage phikz lytic2 transglycosylase, gp144
44c3lq9B_



not modelled 15.7 21 PDB header:signaling protein
Chain: B: PDB Molecule:dna-damage-inducible transcript 4 protein;
PDBTitle: crystal strucure of human redd1, a hypoxia-induced regulator2 of mtor
45c3bbnC_



not modelled 14.3 40 PDB header:ribosome
Chain: C: PDB Molecule:ribosomal protein s3;
PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome.
46c2zttA_



not modelled 12.8 20 PDB header:transferase
Chain: A: PDB Molecule:rna-directed rna polymerase catalytic subunit;
PDBTitle: crystal structure of rna polymerase pb1-pb2 subunits from2 influenza a virus
47d3e9va1



not modelled 12.7 22 Fold:BTG domain-like
Superfamily:BTG domain-like
Family:BTG domain-like
48c3fbtB_



not modelled 11.6 20 PDB header:oxidoreductase, lyase
Chain: B: PDB Molecule:chorismate mutase and shikimate 5-dehydrogenase
PDBTitle: crystal structure of a chorismate mutase/shikimate 5-2 dehydrogenase fusion protein from clostridium3 acetobutylicum
49c2ev9B_



not modelled 11.5 29 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate 5-dehydrogenase;
PDBTitle: crystal structure of shikimate 5-dehydrogenase (aroe) from thermus2 thermophilus hb8 in complex with nadp(h) and shikimate
50c1byvA_



not modelled 10.7 30 PDB header:hormone/growth factor
Chain: A: PDB Molecule:protein (calcitonin);
PDBTitle: glycosylated eel calcitonin
51d1nvta2



not modelled 10.7 13 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
52d1npya2



not modelled 10.5 50 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
53d1n7ka_



not modelled 9.8 20 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
54c1htrP_



not modelled 9.2 14 PDB header:aspartyl protease
Chain: P: PDB Molecule:progastricsin (pro segment);
PDBTitle: crystal and molecular structures of human progastricsin at 1.622 angstroms resolution
55d1vi2a2



not modelled 9.2 14 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
56c1lbuA_



not modelled 8.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase;
PDBTitle: hydrolase metallo (zn) dd-peptidase
57d2z15a1



not modelled 8.4 13 Fold:BTG domain-like
Superfamily:BTG domain-like
Family:BTG domain-like
58c1wjvA_



not modelled 8.4 44 PDB header:dna binding protein
Chain: A: PDB Molecule:cell growth regulating nucleolar protein lyar;
PDBTitle: solution structure of the n-terminal zinc finger domain of2 mouse cell growth regulating nucleolar protein lyar
59d1wjfa_



not modelled 8.3 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:N-terminal Zn binding domain of HIV integrase
Family:N-terminal Zn binding domain of HIV integrase
60c3m1eA_



not modelled 8.2 9 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: crystal structure of benm_dbd
61d1k6ya1



not modelled 8.1 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:N-terminal Zn binding domain of HIV integrase
Family:N-terminal Zn binding domain of HIV integrase
62c1nvtA_



not modelled 8.0 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate 5'-dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase (aroe or2 mj1084) in complex with nadp+
63c3no7A_



not modelled 7.9 19 PDB header:dna binding protein
Chain: A: PDB Molecule:putative plasmid related protein;
PDBTitle: crystal structure of the centromere-binding protein parb from plasmid2 pcxc100
64d1e0ea_



not modelled 7.8 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:N-terminal Zn binding domain of HIV integrase
Family:N-terminal Zn binding domain of HIV integrase
65c1yrlD_



not modelled 7.8 16 PDB header:oxidoreductase
Chain: D: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: escherichia coli ketol-acid reductoisomerase
66d1rxqa_



not modelled 7.5 16 Fold:DinB/YfiT-like putative metalloenzymes
Superfamily:DinB/YfiT-like putative metalloenzymes
Family:YfiT-like putative metal-dependent hydrolases
67d2qalc1



not modelled 7.1 38 Fold:Alpha-lytic protease prodomain-like
Superfamily:Prokaryotic type KH domain (KH-domain type II)
Family:Prokaryotic type KH domain (KH-domain type II)
68d1p77a2



not modelled 7.1 14 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
69c3pwzA_



not modelled 6.9 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase 3;
PDBTitle: crystal structure of an ael1 enzyme from pseudomonas putida
70d2b0ja1



not modelled 6.8 21 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like
Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like
Family:HMD dimerization domain-like
71c2dxbR_



not modelled 6.7 15 PDB header:hydrolase
Chain: R: PDB Molecule:thiocyanate hydrolase subunit gamma;
PDBTitle: recombinant thiocyanate hydrolase comprising partially-modified cobalt2 centers
72c3u62A_



not modelled 6.7 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from thermotoga maritima
73d2d28c1



not modelled 6.6 28 Fold:Alpha-lytic protease prodomain-like
Superfamily:EspE N-terminal domain-like
Family:GSPII protein E N-terminal domain-like
74d1nyta2



not modelled 6.6 14 Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
75c3pmoA_



not modelled 6.6 9 PDB header:transferase
Chain: A: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] glucosamine n-acyltransferase;
PDBTitle: the structure of lpxd from pseudomonas aeruginosa at 1.3 a resolution
76c2nloA_



not modelled 6.4 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of the quinate dehydrogenase from corynebacterium2 glutamicum
77c1p74B_



not modelled 6.4 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate 5-dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase (aroe) from2 haemophilus influenzae
78d1u5ta1



not modelled 6.3 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Vacuolar sorting protein domain
79c2w6aB_



not modelled 6.3 17 PDB header:signaling protein
Chain: B: PDB Molecule:arf gtpase-activating protein git1;
PDBTitle: x-ray structure of the dimeric git1 coiled-coil domain
80c3tozA_



not modelled 6.3 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate dehydrogenase;
PDBTitle: 2.2 angstrom crystal structure of shikimate 5-dehydrogenase from2 listeria monocytogenes in complex with nad.
81c2eggA_



not modelled 6.3 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:shikimate 5-dehydrogenase;
PDBTitle: crystal structure of shikimate 5-dehydrogenase (aroe) from2 geobacillus kaustophilus
82d2dy1a3



not modelled 6.3 22 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Translational machinery components
83c1ahuB_



not modelled 6.1 21 PDB header:flavoenzyme
Chain: B: PDB Molecule:vanillyl-alcohol oxidase;
PDBTitle: structure of the octameric flavoenzyme vanillyl-alcohol2 oxidase in complex with p-cresol
84c2dinA_



not modelled 6.1 40 PDB header:dna binding protein
Chain: A: PDB Molecule:cell division cycle 5-like protein;
PDBTitle: solution structure of the myb_dna-binding domain of human2 cell division cycle 5-like protein
85d2uubc1



not modelled 6.1 33 Fold:Alpha-lytic protease prodomain-like
Superfamily:Prokaryotic type KH domain (KH-domain type II)
Family:Prokaryotic type KH domain (KH-domain type II)
86c2hk8B_



not modelled 6.0 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from aquifex2 aeolicus at 2.35 angstrom resolution
87d1ugpa_



not modelled 6.0 38 Fold:Nitrile hydratase alpha chain
Superfamily:Nitrile hydratase alpha chain
Family:Nitrile hydratase alpha chain
88d1g3pa2



not modelled 6.0 20 Fold:N-terminal domains of the minor coat protein g3p
Superfamily:N-terminal domains of the minor coat protein g3p
Family:N-terminal domains of the minor coat protein g3p
89c3pgjB_



not modelled 5.9 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate dehydrogenase;
PDBTitle: 2.49 angstrom resolution crystal structure of shikimate 5-2 dehydrogenase (aroe) from vibrio cholerae o1 biovar eltor str. n169613 in complex with shikimate
90d2nr7a1



not modelled 5.9 23 Fold:Lysozyme-like
Superfamily:Lysozyme-like
Family:NMB1012-like
91c2hinA_



not modelled 5.8 25 PDB header:transcription
Chain: A: PDB Molecule:repressor protein;
PDBTitle: structure of n15 cro at 1.05 a: an ortholog of lambda cro2 with a completely different but equally effective3 dimerization mechanism
92d2bv3a3



not modelled 5.7 25 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Translational machinery components
93c3iymA_



not modelled 5.7 13 PDB header:virus
Chain: A: PDB Molecule:capsid protein;
PDBTitle: backbone trace of the capsid protein dimer of a fungal partitivirus2 from electron cryomicroscopy and homology modeling
94c2fgyA_



not modelled 5.6 15 PDB header:lyase
Chain: A: PDB Molecule:carboxysome shell polypeptide;
PDBTitle: beta carbonic anhydrase from the carboxysomal shell of2 halothiobacillus neapolitanus (csosca)
95c2zmeA_



not modelled 5.6 17 PDB header:protein transport
Chain: A: PDB Molecule:vacuolar-sorting protein snf8;
PDBTitle: integrated structural and functional model of the human escrt-ii2 complex
96c1x5bA_



not modelled 5.5 56 PDB header:protein binding
Chain: A: PDB Molecule:signal transducing adaptor molecule 2;
PDBTitle: the solution structure of the vhs domain of human signal2 transducing adaptor molecule 2
97c1npyA_



not modelled 5.5 43 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical shikimate 5-dehydrogenase-like
PDBTitle: structure of shikimate 5-dehydrogenase-like protein hi0607
98c2kheA_



not modelled 5.4 19 PDB header:hydrolase
Chain: A: PDB Molecule:toxin-like protein;
PDBTitle: solution structure of the bacterial toxin rele from thermus2 thermophilus hb8
99c3hzsA_



not modelled 5.3 11 PDB header:transferase
Chain: A: PDB Molecule:monofunctional glycosyltransferase;
PDBTitle: s. aureus monofunctional glycosyltransferase (mtga)in complex with2 moenomycin

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