Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76192
DateThu Jan 5 12:20:18 GMT 2012
Unique Job ID3ff474ac8e7680f9

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1aorB_
Top template information
PDB header:oxidoreductase
Chain: B: PDB Molecule:aldehyde ferredoxin oxidoreductase;
PDBTitle: structure of a hyperthermophilic tungstopterin enzyme,2 aldehyde ferredoxin oxidoreductase
Confidence and coverage
Confidence:100.0% Coverage: 85%
595 residues ( 85% 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  MANGWTGNILRVNLTTGNITLEDSSKFKSFVGGMGFGYKIMYDEVPPGTKPFDEANKLVF
Secondary structure 
SS confidence 
Disorder  ????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  ATGPLTGSGAPCSSRVNITSLSTFTKGNLVVDAHMGGFFAAQMKFAGYDVIIIEGKAKSP
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  VWLKIKDDKVSLEKADFLWGKGTRATTEEICRLTSPETCVAAIGQAGENLVPLSGMLNSR
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  NHSGGAGTGAIMGSKNLKAIAVEGTKGVNIADRQEMKRLNDYMMTELIGANNNHVVPSTP
Secondary structure 
SS confidence 
Disorder 
?
??
?????
??
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  QSWAEYSDPKSRWTARKGLFWGAAEGGPIETGEIPPGNQNTVGFRTYKSVFDLGPAAEKY
Secondary structure 
SS confidence 
Disorder  ???
????????
???
?
?
?
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  TVKMSGCHSCPIRCMTQMNIPRVKEFGVPSTGGNTCVANFVHTTIFPNGPKDFEDKDDGR
Secondary structure 
SS confidence 
Disorder 
?
??
??
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  VIGNLVGLNLFDDYGLWCNYGQLHRDFTYCYSKGVFKRVLPAEEYAEIRWDQLEAGDVNF
Secondary structure 
SS confidence 
Disorder 
?????
?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  IKDFYYRLAHRVGELSHLADGSYAIAERWNLGEEYWGYAKNKLWSPFGYPVHHANEASAQ
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  VGSIVNCMFNRDCMTHTHINFIGSGLPLKLQREVAKELFGSEDAYDETKNYTPINDAKIK
Secondary structure 
SS confidence 
Disorder 
?
??
????
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  YAKWSLLRVCLHNAVTLCNWVWPMTVSPLKSRNYRGDLALEAKFFKAITGEEMTQEKLDL
Secondary structure 
SS confidence 
Disorder 
??????
??
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  AAERIFTLHRAYTVKLMQTKDMRNEHDLICSWVFDKDPQIPVFTEGTDKMDRDDMHASLT
Secondary structure 
SS confidence 
Disorder 
??
?
??????????
??
Disorder confidence 
 
   .........670.........680.........690.........700
Sequence  MFYKEMGWDPQLGCPTRETLQRLGLEDIAADLAAHNLLPA
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 1aor chain B

3D model

Region: 2 - 688
Aligned: 595
Modelled: 634
Confidence: 100.0%
Identity: 30%
PDB header:oxidoreductase
Chain: B: PDB Molecule:aldehyde ferredoxin oxidoreductase;
PDBTitle: structure of a hyperthermophilic tungstopterin enzyme,2 aldehyde ferredoxin oxidoreductase

Phyre2

PDB 1b4n chain D

3D model

Region: 2 - 698
Aligned: 601
Modelled: 630
Confidence: 100.0%
Identity: 29%
PDB header:oxidoreductase
Chain: D: PDB Molecule:formaldehyde ferredoxin oxidoreductase;
PDBTitle: formaldehyde ferredoxin oxidoreductase from pyrococcus furiosus,2 complexed with glutarate

Phyre2

PDB 1aor chain A domain 1

3D model

Region: 210 - 688
Aligned: 388
Modelled: 429
Confidence: 100.0%
Identity: 23%
Fold: Aldehyde ferredoxin oxidoreductase, C-terminal domains
Superfamily: Aldehyde ferredoxin oxidoreductase, C-terminal domains
Family: Aldehyde ferredoxin oxidoreductase, C-terminal domains

Phyre2

PDB 1b25 chain A domain 1

3D model

Region: 212 - 698
Aligned: 394
Modelled: 426
Confidence: 100.0%
Identity: 23%
Fold: Aldehyde ferredoxin oxidoreductase, C-terminal domains
Superfamily: Aldehyde ferredoxin oxidoreductase, C-terminal domains
Family: Aldehyde ferredoxin oxidoreductase, C-terminal domains

Phyre2

PDB 1b25 chain A domain 2

3D model

Region: 2 - 211
Aligned: 207
Modelled: 210
Confidence: 100.0%
Identity: 40%
Fold: Aldehyde ferredoxin oxidoreductase, N-terminal domain
Superfamily: Aldehyde ferredoxin oxidoreductase, N-terminal domain
Family: Aldehyde ferredoxin oxidoreductase, N-terminal domain

Phyre2

PDB 1aor chain A domain 2

3D model

Region: 2 - 209
Aligned: 206
Modelled: 208
Confidence: 100.0%
Identity: 44%
Fold: Aldehyde ferredoxin oxidoreductase, N-terminal domain
Superfamily: Aldehyde ferredoxin oxidoreductase, N-terminal domain
Family: Aldehyde ferredoxin oxidoreductase, N-terminal domain

Phyre2

PDB 2fug chain 3 domain 2

3D model

Region: 299 - 324
Aligned: 26
Modelled: 26
Confidence: 55.6%
Identity: 15%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 2e7z chain A

3D model

Region: 302 - 324
Aligned: 23
Modelled: 23
Confidence: 51.8%
Identity: 30%
PDB header:lyase
Chain: A: PDB Molecule:acetylene hydratase ahy;
PDBTitle: acetylene hydratase from pelobacter acetylenicus

Phyre2

PDB 2vpy chain E

3D model

Region: 298 - 324
Aligned: 27
Modelled: 27
Confidence: 48.4%
Identity: 15%
PDB header:oxidoreductase
Chain: E: PDB Molecule:thiosulfate reductase;
PDBTitle: polysulfide reductase with bound quinone inhibitor,2 pentachlorophenol (pcp)

Phyre2

PDB 2nya chain F

3D model

Region: 298 - 324
Aligned: 27
Modelled: 27
Confidence: 47.6%
Identity: 15%
PDB header:oxidoreductase
Chain: F: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the periplasmic nitrate reductase2 (nap) from escherichia coli

Phyre2

PDB 1ogy chain A domain 2

3D model

Region: 300 - 324
Aligned: 25
Modelled: 25
Confidence: 45.9%
Identity: 12%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 1ogy chain A

3D model

Region: 304 - 324
Aligned: 21
Modelled: 21
Confidence: 39.2%
Identity: 14%
PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the heterodimeric nitrate reductase2 from rhodobacter sphaeroides

Phyre2

PDB 1g8k chain A domain 2

3D model

Region: 301 - 330
Aligned: 30
Modelled: 30
Confidence: 32.3%
Identity: 20%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 1g8j chain C

3D model

Region: 301 - 352
Aligned: 52
Modelled: 52
Confidence: 32.1%
Identity: 15%
PDB header:oxidoreductase
Chain: C: PDB Molecule:arsenite oxidase;
PDBTitle: crystal structure analysis of arsenite oxidase from2 alcaligenes faecalis

Phyre2

PDB 2iv2 chain X

3D model

Region: 307 - 324
Aligned: 18
Modelled: 18
Confidence: 30.2%
Identity: 22%
PDB header:oxidoreductase
Chain: X: PDB Molecule:formate dehydrogenase h;
PDBTitle: reinterpretation of reduced form of formate dehydrogenase h2 from e. coli

Phyre2

PDB 2iv2 chain X domain 2

3D model

Region: 304 - 324
Aligned: 21
Modelled: 21
Confidence: 29.9%
Identity: 19%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 3dfu chain B

3D model

Region: 88 - 130
Aligned: 43
Modelled: 43
Confidence: 29.9%
Identity: 14%
PDB header:oxidoreductase
Chain: B: PDB Molecule:uncharacterized protein from 6-phosphogluconate
PDBTitle: crystal structure of a putative rossmann-like dehydrogenase (cgl2689)2 from corynebacterium glutamicum at 2.07 a resolution

Phyre2

PDB 2jio chain A domain 2

3D model

Region: 307 - 324
Aligned: 18
Modelled: 18
Confidence: 29.7%
Identity: 22%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 2v45 chain A

3D model

Region: 304 - 324
Aligned: 21
Modelled: 21
Confidence: 29.6%
Identity: 19%
PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: a new catalytic mechanism of periplasmic nitrate reductase2 from desulfovibrio desulfuricans atcc 27774 from3 crystallographic and epr data and based on detailed4 analysis of the sixth ligand

Phyre2

PDB 1du9 chain A

3D model

Region: 306 - 315
Aligned: 10
Modelled: 10
Confidence: 28.7%
Identity: 50%
PDB header:toxin
Chain: A: PDB Molecule:bmp02 neurotoxin;
PDBTitle: solution structure of bmp02, a natural scorpion toxin which2 blocks apamin-sensitive calcium-activated potassium3 channels, 25 structures

Phyre2
1
c1aorB_
2
c1b4nD_
3
d1aora1
4
d1b25a1
5
d1b25a2
6
d1aora2
7
d2fug32
8
c2e7zA_
9
c2vpyE_
10
c2nyaF_
11
d1ogya2
12
c1ogyA_
13
d1g8ka2
14
c1g8jC_
15
c2iv2X_
16
d2iv2x2
17
c3dfuB_
18
d2jioa2
19
c2v45A_
20
c1du9A_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
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
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1aorB_
100.0 30 PDB header:oxidoreductase
Chain: B: PDB Molecule:aldehyde ferredoxin oxidoreductase;
PDBTitle: structure of a hyperthermophilic tungstopterin enzyme,2 aldehyde ferredoxin oxidoreductase
2c1b4nD_
100.0 29 PDB header:oxidoreductase
Chain: D: PDB Molecule:formaldehyde ferredoxin oxidoreductase;
PDBTitle: formaldehyde ferredoxin oxidoreductase from pyrococcus furiosus,2 complexed with glutarate
3d1aora1
100.0 23 Fold:Aldehyde ferredoxin oxidoreductase, C-terminal domains
Superfamily:Aldehyde ferredoxin oxidoreductase, C-terminal domains
Family:Aldehyde ferredoxin oxidoreductase, C-terminal domains
4d1b25a1
100.0 23 Fold:Aldehyde ferredoxin oxidoreductase, C-terminal domains
Superfamily:Aldehyde ferredoxin oxidoreductase, C-terminal domains
Family:Aldehyde ferredoxin oxidoreductase, C-terminal domains
5d1b25a2
100.0 40 Fold:Aldehyde ferredoxin oxidoreductase, N-terminal domain
Superfamily:Aldehyde ferredoxin oxidoreductase, N-terminal domain
Family:Aldehyde ferredoxin oxidoreductase, N-terminal domain
6d1aora2
100.0 44 Fold:Aldehyde ferredoxin oxidoreductase, N-terminal domain
Superfamily:Aldehyde ferredoxin oxidoreductase, N-terminal domain
Family:Aldehyde ferredoxin oxidoreductase, N-terminal domain
7d2fug32
55.6 15 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
8c2e7zA_
51.8 30 PDB header:lyase
Chain: A: PDB Molecule:acetylene hydratase ahy;
PDBTitle: acetylene hydratase from pelobacter acetylenicus
9c2vpyE_
48.4 15 PDB header:oxidoreductase
Chain: E: PDB Molecule:thiosulfate reductase;
PDBTitle: polysulfide reductase with bound quinone inhibitor,2 pentachlorophenol (pcp)
10c2nyaF_
47.6 15 PDB header:oxidoreductase
Chain: F: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the periplasmic nitrate reductase2 (nap) from escherichia coli
11d1ogya2
45.9 12 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
12c1ogyA_
39.2 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the heterodimeric nitrate reductase2 from rhodobacter sphaeroides
13d1g8ka2
32.3 20 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
14c1g8jC_
32.1 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:arsenite oxidase;
PDBTitle: crystal structure analysis of arsenite oxidase from2 alcaligenes faecalis
15c2iv2X_
30.2 22 PDB header:oxidoreductase
Chain: X: PDB Molecule:formate dehydrogenase h;
PDBTitle: reinterpretation of reduced form of formate dehydrogenase h2 from e. coli
16d2iv2x2
29.9 19 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
17c3dfuB_
29.9 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:uncharacterized protein from 6-phosphogluconate
PDBTitle: crystal structure of a putative rossmann-like dehydrogenase (cgl2689)2 from corynebacterium glutamicum at 2.07 a resolution
18d2jioa2
29.7 22 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
19c2v45A_
29.6 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: a new catalytic mechanism of periplasmic nitrate reductase2 from desulfovibrio desulfuricans atcc 27774 from3 crystallographic and epr data and based on detailed4 analysis of the sixth ligand
20c1du9A_
28.7 50 PDB header:toxin
Chain: A: PDB Molecule:bmp02 neurotoxin;
PDBTitle: solution structure of bmp02, a natural scorpion toxin which2 blocks apamin-sensitive calcium-activated potassium3 channels, 25 structures
21c1h0hA_
not modelled 28.5 15 PDB header:dehydrogenase
Chain: A: PDB Molecule:formate dehydrogenase (large subunit);
PDBTitle: tungsten containing formate dehydrogenase from2 desulfovibrio gigas
22c2ktcA_
not modelled 25.6 38 PDB header:toxin
Chain: A: PDB Molecule:potassium channel toxin alpha-ktx 9.4;
PDBTitle: solution structure of a novel hkv1.1 inhibiting scorpion toxin from2 mesibuthus tamulus
23c2g5cD_
not modelled 25.5 22 PDB header:oxidoreductase
Chain: D: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from aquifex aeolicus
24c2h2wA_
not modelled 24.8 33 PDB header:transferase
Chain: A: PDB Molecule:homoserine o-succinyltransferase;
PDBTitle: crystal structure of homoserine o-succinyltransferase (ec 2.3.1.46)2 (homoserine o-transsuccinylase) (hts) (tm0881) from thermotoga3 maritima at 2.52 a resolution
25d1yj5a2
not modelled 24.3 23 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Nucleotide and nucleoside kinases
26d2ghra1
not modelled 23.4 29 Fold:Flavodoxin-like
Superfamily:Class I glutamine amidotransferase-like
Family:HTS-like
27c3lx4B_
not modelled 23.4 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:fe-hydrogenase;
PDBTitle: stepwise [fefe]-hydrogenase h-cluster assembly revealed in the2 structure of hyda(deltaefg)
28c2pv7B_
not modelled 22.7 31 PDB header:isomerase, oxidoreductase
Chain: B: PDB Molecule:t-protein [includes: chorismate mutase (ec 5.4.99.5) (cm)
PDBTitle: crystal structure of chorismate mutase / prephenate dehydrogenase2 (tyra) (1574749) from haemophilus influenzae rd at 2.00 a resolution
29d1u5ta1
not modelled 22.0 5 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Vacuolar sorting protein domain
30c3gmbB_
not modelled 20.2 26 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic2 acid oxygenase
31c3iufA_
not modelled 20.0 27 PDB header:protein binding
Chain: A: PDB Molecule:zinc finger protein ubi-d4;
PDBTitle: crystal structure of the c2h2-type zinc finger domain of2 human ubi-d4
32c2f1kD_
not modelled 19.5 19 PDB header:oxidoreductase
Chain: D: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of synechocystis arogenate dehydrogenase
33c3cgxA_
not modelled 19.2 29 PDB header:transferase
Chain: A: PDB Molecule:putative nucleotide-diphospho-sugar transferase;
PDBTitle: crystal structure of putative nucleotide-diphospho-sugar transferase2 (yp_389115.1) from desulfovibrio desulfuricans g20 at 1.90 a3 resolution
34c2l6aA_
not modelled 18.5 20 PDB header:signaling protein
Chain: A: PDB Molecule:nacht, lrr and pyd domains-containing protein 12;
PDBTitle: three-dimensional structure of the n-terminal effector pyrin domain of2 nlrp12
35d2pv7a2
not modelled 18.4 31 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
36c2vq3B_
not modelled 18.2 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:metalloreductase steap3;
PDBTitle: crystal structure of the membrane proximal oxidoreductase2 domain of human steap3, the dominant ferric reductase of3 the erythroid transferrin cycle
37c2fugC_
not modelled 18.1 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh-quinone oxidoreductase chain 3;
PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus
38c3d1lB_
not modelled 17.7 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative nadp oxidoreductase bf3122;
PDBTitle: crystal structure of putative nadp oxidoreductase bf3122 from2 bacteroides fragilis
39c1np3B_
not modelled 17.1 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketol-acid reductoisomerase;
PDBTitle: crystal structure of class i acetohydroxy acid isomeroreductase from2 pseudomonas aeruginosa
40d2psba1
not modelled 17.0 22 Fold:YerB-like
Superfamily:YerB-like
Family:YerB-like
41c2psbA_
not modelled 17.0 22 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:yerb protein;
PDBTitle: crystal structure of yerb protein from bacillus subtilis.2 northeast structural genomics target sr586
42d1h0ha2
not modelled 16.6 17 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
43d2ahra2
not modelled 16.1 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
44d2f1ka2
not modelled 15.8 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
45d2pgda2
not modelled 15.7 27 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
46d1yqga2
not modelled 15.2 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
47d1g99a2
not modelled 14.8 24 Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Acetokinase-like
48c3dzbA_
not modelled 14.7 19 PDB header:biosynthetic protein
Chain: A: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from streptococcus2 thermophilus
49c2rafC_
not modelled 14.6 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:putative dinucleotide-binding oxidoreductase;
PDBTitle: crystal structure of putative dinucleotide-binding2 oxidoreductase (np_786167.1) from lactobacillus plantarum3 at 1.60 a resolution
50d2g5ca2
not modelled 14.2 27 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
51d2oiea1
not modelled 14.1 18 Fold:all-alpha NTP pyrophosphatases
Superfamily:all-alpha NTP pyrophosphatases
Family:MazG-like
52c3qhaB_
not modelled 14.1 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of a putative oxidoreductase from mycobacterium2 avium 104
53d1f0ya2
not modelled 13.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
54c1z82A_
not modelled 13.1 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase;
PDBTitle: crystal structure of glycerol-3-phosphate dehydrogenase (tm0378) from2 thermotoga maritima at 2.00 a resolution
55c3ktdC_
not modelled 13.0 15 PDB header:oxidoreductase
Chain: C: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of a putative prephenate dehydrogenase (cgl0226)2 from corynebacterium glutamicum atcc 13032 at 2.60 a resolution
56d1kqfa2
not modelled 12.9 22 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
57d1vpda2
not modelled 12.2 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
58c1wxpA_
not modelled 12.2 19 PDB header:transport protein
Chain: A: PDB Molecule:tho complex subunit 1;
PDBTitle: solution structure of the death domain of nuclear matrix2 protein p84
59c3o0yC_
not modelled 12.1 6 PDB header:lipid binding protein
Chain: C: PDB Molecule:lipoprotein;
PDBTitle: the crystal structure of the putative lipoprotein from colwellia2 psychrerythraea
60c2ofpB_
not modelled 12.1 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:ketopantoate reductase;
PDBTitle: crystal structure of escherichia coli ketopantoate2 reductase in a ternary complex with nadp+ and pantoate
61d1i36a2
not modelled 12.0 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
62c3b1fA_
not modelled 12.0 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative prephenate dehydrogenase;
PDBTitle: crystal structure of prephenate dehydrogenase from streptococcus2 mutans
63d1a9xa1
not modelled 11.9 15 Fold:Carbamoyl phosphate synthetase, large subunit connection domain
Superfamily:Carbamoyl phosphate synthetase, large subunit connection domain
Family:Carbamoyl phosphate synthetase, large subunit connection domain
64c1ks9A_
not modelled 11.7 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-dehydropantoate 2-reductase;
PDBTitle: ketopantoate reductase from escherichia coli
65c2axoA_
not modelled 11.3 83 PDB header:unknown function
Chain: A: PDB Molecule:hypothetical protein atu2684;
PDBTitle: x-ray crystal structure of protein agr_c_4864 from agrobacterium2 tumefaciens. northeast structural genomics consortium target atr35.
66c1i36A_
not modelled 11.3 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein mth1747;
PDBTitle: structure of conserved protein mth1747 of unknown function2 reveals structural similarity with 3-hydroxyacid3 dehydrogenases
67d2axoa1
not modelled 11.2 83 Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Atu2684-like
68c2fpgA_
not modelled 10.9 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
69c1wcnA_
not modelled 10.9 35 PDB header:rna-binding protein
Chain: A: PDB Molecule:transcription elongation protein nusa;
PDBTitle: nmr structure of the carboxyterminal domains of escherichia2 coli nusa
70c2uyyD_
not modelled 10.9 15 PDB header:cytokine
Chain: D: PDB Molecule:n-pac protein;
PDBTitle: structure of the cytokine-like nuclear factor n-pac
71c3k3qB_
not modelled 10.8 13 PDB header:immune system
Chain: B: PDB Molecule:botulinum neurotoxin type a;
PDBTitle: crystal structure of a llama antibody complexed with the c.2 botulinum neurotoxin serotype a catalytic domain
72c3g17H_
not modelled 10.5 12 PDB header:structural genomics, unknown function
Chain: H: PDB Molecule:similar to 2-dehydropantoate 2-reductase;
PDBTitle: structure of putative 2-dehydropantoate 2-reductase from2 staphylococcus aureus
73d2jeka1
not modelled 10.3 32 Fold:Rv1873-like
Superfamily:Rv1873-like
Family:Rv1873-like
74c2howB_
not modelled 10.3 10 PDB header:hydrolase
Chain: B: PDB Molecule:356aa long hypothetical dipeptidase;
PDBTitle: dipeptidase (ph0974) from pyrococcus horikoshii ot3
75c3idwA_
not modelled 10.3 39 PDB header:endocytosis
Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1;
PDBTitle: crystal structure of sla1 homology domain 2
76c3qf2B_
not modelled 10.1 15 PDB header:apoptosis
Chain: B: PDB Molecule:nacht, lrr and pyd domains-containing protein 3;
PDBTitle: crystal structure of nalp3 pyd
77d1bg6a2
not modelled 10.0 24 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
78c1kqgA_
not modelled 9.7 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase, nitrate-inducible, major subunit;
PDBTitle: formate dehydrogenase n from e. coli
79c2eapA_
not modelled 9.7 19 PDB header:signaling protein
Chain: A: PDB Molecule:lymphocyte cytosolic protein 2;
PDBTitle: solution structure of the n-terminal sam-domain of human2 lymphocyte cytosolic protein 2
80c2yx6C_
not modelled 9.6 13 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:hypothetical protein ph0822;
PDBTitle: crystal structure of ph0822
81d1af7a1
not modelled 9.5 16 Fold:Chemotaxis receptor methyltransferase CheR, N-terminal domain
Superfamily:Chemotaxis receptor methyltransferase CheR, N-terminal domain
Family:Chemotaxis receptor methyltransferase CheR, N-terminal domain
82c1e1hC_
not modelled 9.4 13 PDB header:hydrolase
Chain: C: PDB Molecule:botulinum neurotoxin type a light chain;
PDBTitle: crystal structure of recombinant botulinum neurotoxin type2 a light chain, self-inhibiting zn endopeptidase.
83c3ju3A_
not modelled 9.3 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 2-oxoacid ferredoxin oxidoreductase, alpha chain;
PDBTitle: crystal structure of alpha chain of probable 2-oxoacid ferredoxin2 oxidoreductase from thermoplasma acidophilum
84c3i83B_
not modelled 9.3 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-dehydropantoate 2-reductase;
PDBTitle: crystal structure of 2-dehydropantoate 2-reductase from methylococcus2 capsulatus
85d1wdka3
not modelled 9.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
86c3bd1B_
not modelled 9.2 14 PDB header:transcription
Chain: B: PDB Molecule:cro protein;
PDBTitle: structure of the cro protein from putative prophage element xfaso 1 in2 xylella fastidiosa strain ann-1
87c2q4pA_
not modelled 9.0 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:protein rs21-c6;
PDBTitle: ensemble refinement of the crystal structure of protein from mus2 musculus mm.29898
88d2a3qa1
not modelled 9.0 18 Fold:all-alpha NTP pyrophosphatases
Superfamily:all-alpha NTP pyrophosphatases
Family:MazG-like
89c2kn6A_
not modelled 9.0 28 PDB header:apoptosis
Chain: A: PDB Molecule:apoptosis-associated speck-like protein containing a card;
PDBTitle: structure of full-length human asc (apoptosis-associated speck-like2 protein containing a card)
90d1trba1
not modelled 9.0 15 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
91c3k96B_
not modelled 8.9 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:glycerol-3-phosphate dehydrogenase [nad(p)+];
PDBTitle: 2.1 angstrom resolution crystal structure of glycerol-3-phosphate2 dehydrogenase (gpsa) from coxiella burnetii
92c3ewiB_
not modelled 8.9 24 PDB header:transferase
Chain: B: PDB Molecule:n-acylneuraminate cytidylyltransferase;
PDBTitle: structural analysis of the c-terminal domain of murine cmp-2 sialic acid synthetase
93c3iukB_
not modelled 8.9 10 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of putative bacterial protein of unknown function2 (duf885, pf05960.1, ) from arthrobacter aurescens tc1, reveals fold3 similar to that of m32 carboxypeptidases
94d3c8ya1
not modelled 8.8 14 Fold:Fe-only hydrogenase
Superfamily:Fe-only hydrogenase
Family:Fe-only hydrogenase
95c2vouA_
not modelled 8.8 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,6-dihydroxypyridine hydroxylase;
PDBTitle: structure of 2,6-dihydroxypyridine-3-hydroxylase from2 arthrobacter nicotinovorans
96c3h0mE_
not modelled 8.7 15 PDB header:ligase
Chain: E: PDB Molecule:aspartyl/glutamyl-trna(asn/gln) amidotransferase
PDBTitle: structure of trna-dependent amidotransferase gatcab from2 aquifex aeolicus
97d1nvma1
not modelled 8.6 33 Fold:RuvA C-terminal domain-like
Superfamily:post-HMGL domain-like
Family:DmpG/LeuA communication domain-like
98d1y5ia2
not modelled 8.6 10 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
99c2p2vA_
not modelled 8.5 36 PDB header:transferase
Chain: A: PDB Molecule:alpha-2,3-sialyltransferase;
PDBTitle: crystal structure analysis of monofunctional alpha-2,3-2 sialyltransferase cst-i from campylobacter jejuni

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