Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP00490
DateThu Jan 5 10:56:40 GMT 2012
Unique Job ID4bf25789b0d67ce6

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1l5wa_
Top template information
Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Oligosaccharide phosphorylase
Confidence and coverage
Confidence:100.0% Coverage:100%
796 residues (100% 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  MSQPIFNDKQFQEALSRQWQRYGLNSAAEMTPRQWWLAVSEALAEMLRAQPFAKPVANQR
Secondary structure 
SS confidence 
Disorder  ???????
????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  HVNYISMEFLIGRLTGNNLLNLGWYQDVQDSLKAYDINLTDLLEEEIDPALGNGGLGRLA
Secondary structure 
SS confidence 
Disorder 
????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  ACFLDSMATVGQSATGYGLNYQYGLFRQSFVDGKQVEAPDDWHRSNYPWFRHNEALDVQV
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  GIGGKVTKDGRWEPEFTITGQAWDLPVVGYRNGVAQPLRLWQATHAHPFDLTKFNDGDFL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  RAEQQGINAEKLTKVLYPNDNHTAGKKLRLMQQYFQCACSVADILRRHHLAGRKLHELAD
Secondary structure 
SS confidence 
Disorder 
????
?
?
??
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  YEVIQLNDTHPTIAIPELLRVLIDEHQMSWDDAWAITSKTFAYTNHTLMPEALERWDVKL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  VKGLLPRHMQIINEINTRFKTLVEKTWPGDEKVWAKLAVVHDKQVHMANLCVVGGFAVNG
Secondary structure 
SS confidence 
Disorder 
?
??
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  VAALHSDLVVKDLFPEYHQLWPNKFHNVTNGITPRRWIKQCNPALAALLDKSLQKEWAND
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  LDQLINLEKFADDAKFRQQYREIKQANKVRLAEFVKVRTGIEINPQAIFDIQIKRLHEYK
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  RQHLNLLHILALYKEIRENPQADRVPRVFLFGAKAAPGYYLAKNIIFAINKVADVINNDP
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  LVGDKLKVVFLPDYCVSAAEKLIPAADISEQISTAGKEASGTGNMKLALNGALTVGTLDG
Secondary structure 
SS confidence 
Disorder  ??
?
????
?
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  ANVEIAEKVGEENIFIFGHTVEQVKAILAKGYDPVKWRKKDKVLDAVLKELESGKYSDGD
Secondary structure 
SS confidence 
Disorder 
?
?
?
Disorder confidence 
 
   .........730.........740.........750.........760.........770.........780
Sequence  KHAFDQMLHSIGKQGGDPYLVMADFAAYVEAQKQVDVLYRDQEAWTRAAILNTARCGMFS
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........790.......
Sequence  SDRSIRDYQARIWQAKR
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 1l5w chain A

3D model

Region: 2 - 797
Aligned: 796
Modelled: 796
Confidence: 100.0%
Identity: 100%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Oligosaccharide phosphorylase

Phyre2

PDB 3dds chain B

3D model

Region: 7 - 796
Aligned: 785
Modelled: 788
Confidence: 100.0%
Identity: 44%
PDB header:transferase
Chain: B: PDB Molecule:glycogen phosphorylase, liver form;
PDBTitle: crystal structure of glycogen phosphorylase complexed with an2 anthranilimide based inhibitor gsk261

Phyre2

PDB 2ati chain A domain 1

3D model

Region: 7 - 796
Aligned: 777
Modelled: 790
Confidence: 100.0%
Identity: 44%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Oligosaccharide phosphorylase

Phyre2

PDB 2gj4 chain A domain 1

3D model

Region: 7 - 797
Aligned: 776
Modelled: 791
Confidence: 100.0%
Identity: 44%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Oligosaccharide phosphorylase

Phyre2

PDB 2c4m chain A

3D model

Region: 12 - 796
Aligned: 772
Modelled: 785
Confidence: 100.0%
Identity: 45%
PDB header:transferase
Chain: A: PDB Molecule:glycogen phosphorylase;
PDBTitle: starch phosphorylase: structural studies explain oxyanion-2 dependent kinetic stability and regulatory control.

Phyre2

PDB 1ygp chain A

3D model

Region: 1 - 796
Aligned: 790
Modelled: 796
Confidence: 100.0%
Identity: 43%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Oligosaccharide phosphorylase

Phyre2

PDB 3o3c chain D

3D model

Region: 275 - 790
Aligned: 348
Modelled: 372
Confidence: 99.5%
Identity: 13%
PDB header:transferase
Chain: D: PDB Molecule:glycogen [starch] synthase isoform 2;
PDBTitle: glycogen synthase basal state udp complex

Phyre2

PDB 3nb0 chain A

3D model

Region: 275 - 790
Aligned: 352
Modelled: 373
Confidence: 99.4%
Identity: 16%
PDB header:transferase
Chain: A: PDB Molecule:glycogen [starch] synthase isoform 2;
PDBTitle: glucose-6-phosphate activated form of yeast glycogen synthase

Phyre2

PDB 1rzu chain A

3D model

Region: 109 - 790
Aligned: 448
Modelled: 494
Confidence: 98.8%
Identity: 16%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Glycosyl transferases group 1

Phyre2

PDB 2x6r chain A

3D model

Region: 523 - 790
Aligned: 182
Modelled: 200
Confidence: 98.8%
Identity: 18%
PDB header:isomerase
Chain: A: PDB Molecule:trehalose-synthase tret;
PDBTitle: crystal structure of trehalose synthase tret from p.2 horikoshi produced by soaking in trehalose

Phyre2

PDB 1uqu chain B

3D model

Region: 295 - 792
Aligned: 313
Modelled: 331
Confidence: 98.7%
Identity: 13%
PDB header:synthase
Chain: B: PDB Molecule:alpha, alpha-trehalose-phosphate synthase;
PDBTitle: trehalose-6-phosphate from e. coli bound with udp-glucose.

Phyre2

PDB 1uqt chain A

3D model

Region: 295 - 792
Aligned: 312
Modelled: 329
Confidence: 98.6%
Identity: 18%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Trehalose-6-phosphate synthase, OtsA

Phyre2

PDB 2xmp chain B

3D model

Region: 523 - 795
Aligned: 187
Modelled: 205
Confidence: 98.6%
Identity: 17%
PDB header:sugar binding protein
Chain: B: PDB Molecule:trehalose-synthase tret;
PDBTitle: crystal structure of trehalose synthase tret mutant e326a2 from p.horishiki in complex with udp

Phyre2

PDB 2qzs chain A

3D model

Region: 508 - 790
Aligned: 192
Modelled: 220
Confidence: 98.4%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:glycogen synthase;
PDBTitle: crystal structure of wild-type e.coli gs in complex with adp2 and glucose(wtgsb)

Phyre2

PDB 2bis chain A domain 1

3D model

Region: 109 - 790
Aligned: 413
Modelled: 457
Confidence: 98.1%
Identity: 19%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Glycosyl transferases group 1

Phyre2

PDB 2r60 chain A

3D model

Region: 506 - 792
Aligned: 203
Modelled: 221
Confidence: 98.1%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:glycosyl transferase, group 1;
PDBTitle: structure of apo sucrose phosphate synthase (sps) of2 halothermothrix orenii

Phyre2

PDB 3s29 chain C

3D model

Region: 520 - 794
Aligned: 196
Modelled: 213
Confidence: 97.9%
Identity: 14%
PDB header:transferase
Chain: C: PDB Molecule:sucrose synthase 1;
PDBTitle: the crystal structure of sucrose synthase-1 from arabidopsis thaliana2 and its functional implications.

Phyre2

PDB 3c4v chain B

3D model

Region: 523 - 790
Aligned: 173
Modelled: 181
Confidence: 97.8%
Identity: 23%
PDB header:transferase
Chain: B: PDB Molecule:predicted glycosyltransferases;
PDBTitle: structure of the retaining glycosyltransferase msha:the2 first step in mycothiol biosynthesis. organism:3 corynebacterium glutamicum : complex with udp and 1l-ins-1-4 p.

Phyre2

PDB 3oy2 chain A

3D model

Region: 515 - 790
Aligned: 213
Modelled: 227
Confidence: 97.7%
Identity: 13%
PDB header:viral protein,transferase
Chain: A: PDB Molecule:glycosyltransferase b736l;
PDBTitle: crystal structure of a putative glycosyltransferase from paramecium2 bursaria chlorella virus ny2a

Phyre2

PDB 2f9f chain A domain 1

3D model

Region: 522 - 686
Aligned: 137
Modelled: 165
Confidence: 96.8%
Identity: 14%
Fold: UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase
Family: Glycosyl transferases group 1

Phyre2
1
d1l5wa_
2
c3ddsB_
3
d2atia1
4
d2gj4a1
5
c2c4mA_
6
d1ygpa_
7
c3o3cD_
8
c3nb0A_
9
d1rzua_
10
c2x6rA_
11
c1uquB_
12
d1uqta_
13
c2xmpB_
14
c2qzsA_
15
d2bisa1
16
c2r60A_
17
c3s29C_
18
c3c4vB_
19
c3oy2A_
20
d2f9fa1
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
1d1l5wa_
100.0 100 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Oligosaccharide phosphorylase
2c3ddsB_
100.0 44 PDB header:transferase
Chain: B: PDB Molecule:glycogen phosphorylase, liver form;
PDBTitle: crystal structure of glycogen phosphorylase complexed with an2 anthranilimide based inhibitor gsk261
3d2atia1
100.0 44 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Oligosaccharide phosphorylase
4d2gj4a1
100.0 44 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Oligosaccharide phosphorylase
5c2c4mA_
100.0 45 PDB header:transferase
Chain: A: PDB Molecule:glycogen phosphorylase;
PDBTitle: starch phosphorylase: structural studies explain oxyanion-2 dependent kinetic stability and regulatory control.
6d1ygpa_
100.0 43 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Oligosaccharide phosphorylase
7c3o3cD_
99.5 13 PDB header:transferase
Chain: D: PDB Molecule:glycogen [starch] synthase isoform 2;
PDBTitle: glycogen synthase basal state udp complex
8c3nb0A_
99.4 16 PDB header:transferase
Chain: A: PDB Molecule:glycogen [starch] synthase isoform 2;
PDBTitle: glucose-6-phosphate activated form of yeast glycogen synthase
9d1rzua_
98.8 16 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Glycosyl transferases group 1
10c2x6rA_
98.8 18 PDB header:isomerase
Chain: A: PDB Molecule:trehalose-synthase tret;
PDBTitle: crystal structure of trehalose synthase tret from p.2 horikoshi produced by soaking in trehalose
11c1uquB_
98.7 13 PDB header:synthase
Chain: B: PDB Molecule:alpha, alpha-trehalose-phosphate synthase;
PDBTitle: trehalose-6-phosphate from e. coli bound with udp-glucose.
12d1uqta_
98.6 18 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Trehalose-6-phosphate synthase, OtsA
13c2xmpB_
98.6 17 PDB header:sugar binding protein
Chain: B: PDB Molecule:trehalose-synthase tret;
PDBTitle: crystal structure of trehalose synthase tret mutant e326a2 from p.horishiki in complex with udp
14c2qzsA_
98.4 18 PDB header:transferase
Chain: A: PDB Molecule:glycogen synthase;
PDBTitle: crystal structure of wild-type e.coli gs in complex with adp2 and glucose(wtgsb)
15d2bisa1
98.1 19 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Glycosyl transferases group 1
16c2r60A_
98.1 20 PDB header:transferase
Chain: A: PDB Molecule:glycosyl transferase, group 1;
PDBTitle: structure of apo sucrose phosphate synthase (sps) of2 halothermothrix orenii
17c3s29C_
97.9 14 PDB header:transferase
Chain: C: PDB Molecule:sucrose synthase 1;
PDBTitle: the crystal structure of sucrose synthase-1 from arabidopsis thaliana2 and its functional implications.
18c3c4vB_
97.8 23 PDB header:transferase
Chain: B: PDB Molecule:predicted glycosyltransferases;
PDBTitle: structure of the retaining glycosyltransferase msha:the2 first step in mycothiol biosynthesis. organism:3 corynebacterium glutamicum : complex with udp and 1l-ins-1-4 p.
19c3oy2A_
97.7 13 PDB header:viral protein,transferase
Chain: A: PDB Molecule:glycosyltransferase b736l;
PDBTitle: crystal structure of a putative glycosyltransferase from paramecium2 bursaria chlorella virus ny2a
20d2f9fa1
96.8 14 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Glycosyl transferases group 1
21d2bfwa1
not modelled 96.8 19 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Glycosyl transferases group 1
22c3okaA_
not modelled 96.7 22 PDB header:transferase
Chain: A: PDB Molecule:gdp-mannose-dependent alpha-(1-6)-phosphatidylinositol
PDBTitle: crystal structure of corynebacterium glutamicum pimb' in complex with2 gdp-man (triclinic crystal form)
23c2gejA_
not modelled 96.6 17 PDB header:transferase
Chain: A: PDB Molecule:phosphatidylinositol mannosyltransferase (pima);
PDBTitle: crystal structure of phosphatidylinositol mannosyltransferase (pima)2 from mycobacterium smegmatis in complex with gdp-man
24c2jjmH_
not modelled 96.6 19 PDB header:transferase
Chain: H: PDB Molecule:glycosyl transferase, group 1 family protein;
PDBTitle: crystal structure of a family gt4 glycosyltransferase from2 bacillus anthracis orf ba1558.
25d2iw1a1
not modelled 96.1 16 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:Glycosyl transferases group 1
26c2x0dA_
not modelled 95.3 13 PDB header:transferase
Chain: A: PDB Molecule:wsaf;
PDBTitle: apo structure of wsaf
27c3ot5D_
not modelled 91.7 13 PDB header:isomerase
Chain: D: PDB Molecule:udp-n-acetylglucosamine 2-epimerase;
PDBTitle: 2.2 angstrom resolution crystal structure of putative udp-n-2 acetylglucosamine 2-epimerase from listeria monocytogenes
28c2vsnB_
not modelled 89.7 20 PDB header:transferase
Chain: B: PDB Molecule:xcogt;
PDBTitle: structure and topological arrangement of an o-glcnac2 transferase homolog: insight into molecular control of3 intracellular glycosylation
29d1f6da_
not modelled 86.5 18 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDP-N-acetylglucosamine 2-epimerase
30c3rhzB_
not modelled 86.0 13 PDB header:transferase
Chain: B: PDB Molecule:nucleotide sugar synthetase-like protein;
PDBTitle: structure and functional analysis of a new subfamily of2 glycosyltransferases required for glycosylation of serine-rich3 streptococcal adhesions
31c3pe3D_
not modelled 78.7 13 PDB header:transferase
Chain: D: PDB Molecule:udp-n-acetylglucosamine--peptide n-
PDBTitle: structure of human o-glcnac transferase and its complex with a peptide2 substrate
32c3dzcA_
not modelled 70.9 14 PDB header:isomerase
Chain: A: PDB Molecule:udp-n-acetylglucosamine 2-epimerase;
PDBTitle: 2.35 angstrom resolution structure of wecb (vc0917), a udp-n-2 acetylglucosamine 2-epimerase from vibrio cholerae.
33c3r6mD_
not modelled 57.3 20 PDB header:hydrolase
Chain: D: PDB Molecule:yeaz, resuscitation promoting factor;
PDBTitle: crystal structure of vibrio parahaemolyticus yeaz
34c1okjB_
not modelled 54.5 21 PDB header:hydrolase
Chain: B: PDB Molecule:hypothetical protease yeaz;
PDBTitle: crystal structure of the essential e. coli yeaz2 protein by mad method using the gadolinium complex3 "dotma"
35d1w36c1
not modelled 51.3 17 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
36c3qhpB_
not modelled 46.9 11 PDB header:transferase
Chain: B: PDB Molecule:type 1 capsular polysaccharide biosynthesis protein j
PDBTitle: crystal structure of the catalytic domain of cholesterol-alpha-2 glucosyltransferase from helicobacter pylori
37d1x99a_
not modelled 33.5 33 Fold:Cytolysin/lectin
Superfamily:Cytolysin/lectin
Family:Fungal fruit body lectin
38d1y2ta_
not modelled 32.8 33 Fold:Cytolysin/lectin
Superfamily:Cytolysin/lectin
Family:Fungal fruit body lectin
39d1v4va_
not modelled 32.1 12 Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDP-N-acetylglucosamine 2-epimerase
40c1yz4A_
not modelled 31.7 11 PDB header:hydrolase
Chain: A: PDB Molecule:dual specificity phosphatase-like 15 isoform a;
PDBTitle: crystal structure of dusp15
41c2z8tX_
not modelled 31.3 13 PDB header:hydrolase
Chain: X: PDB Molecule:protein-glutaminase;
PDBTitle: crystal structure of protein-glutaminase of c.proteolyticum2 strain 9670
42c2ofeA_
not modelled 27.5 33 PDB header:sugar binding protein
Chain: A: PDB Molecule:sclerotium rolfsii lectin;
PDBTitle: the crystal structure of sclerotium rolfsii lectin in complex with n-2 acetyl-d-glucosamine
43d1kx5b_
not modelled 26.9 14 Fold:Histone-fold
Superfamily:Histone-fold
Family:Nucleosome core histones
44c2iv3B_
not modelled 26.0 14 PDB header:transferase
Chain: B: PDB Molecule:glycosyltransferase;
PDBTitle: crystal structure of avigt4, a glycosyltransferase involved2 in avilamycin a biosynthesis
45c3g8qA_
not modelled 25.0 42 PDB header:rna binding protein
Chain: A: PDB Molecule:predicted rna-binding protein, contains thump
PDBTitle: a cytidine deaminase edits c-to-u in transfer rnas in2 archaea
46c2g6zB_
not modelled 23.2 13 PDB header:hydrolase
Chain: B: PDB Molecule:dual specificity protein phosphatase 5;
PDBTitle: crystal structure of human dusp5
47d2f8la1
not modelled 21.5 30 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:N-6 DNA Methylase-like
48c1zhcA_
not modelled 20.9 14 PDB header:unknown function
Chain: A: PDB Molecule:hypothetical protein hp1242;
PDBTitle: solution structure of hp1242 from helicobacter pylori
49c2npiB_
not modelled 20.9 16 PDB header:transcription
Chain: B: PDB Molecule:protein clp1;
PDBTitle: clp1-atp-pcf11 complex
50c2oudA_
not modelled 20.6 22 PDB header:hydrolase
Chain: A: PDB Molecule:dual specificity protein phosphatase 10;
PDBTitle: crystal structure of the catalytic domain of human mkp5
51d1id3b_
not modelled 20.1 14 Fold:Histone-fold
Superfamily:Histone-fold
Family:Nucleosome core histones
52c3pn1A_
not modelled 18.6 19 PDB header:ligase/ligase inhibitor
Chain: A: PDB Molecule:dna ligase;
PDBTitle: novel bacterial nad+-dependent dna ligase inhibitors with broad2 spectrum potency and antibacterial efficacy in vivo
53c1keeH_
not modelled 17.0 17 PDB header:ligase
Chain: H: PDB Molecule:carbamoyl-phosphate synthetase small chain;
PDBTitle: inactivation of the amidotransferase activity of carbamoyl phosphate2 synthetase by the antibiotic acivicin
54c3se4B_
not modelled 16.8 29 PDB header:immune system receptor
Chain: B: PDB Molecule:interferon omega-1;
PDBTitle: human ifnw-ifnar ternary complex
55c1r30A_
not modelled 16.3 9 PDB header:transferase
Chain: A: PDB Molecule:biotin synthase;
PDBTitle: the crystal structure of biotin synthase, an s-2 adenosylmethionine-dependent radical enzyme
56d1r30a_
not modelled 16.3 9 Fold:TIM beta/alpha-barrel
Superfamily:Radical SAM enzymes
Family:Biotin synthase
57d1bh9b_
not modelled 16.1 18 Fold:Histone-fold
Superfamily:Histone-fold
Family:TBP-associated factors, TAFs
58d1yb3a1
not modelled 16.0 21 Fold:YktB/PF0168-like
Superfamily:YktB/PF0168-like
Family:PF0168-like
59c2a6aB_
not modelled 15.7 12 PDB header:hydrolase
Chain: B: PDB Molecule:hypothetical protein tm0874;
PDBTitle: crystal structure of glycoprotein endopeptidase (tm0874) from2 thermotoga maritima at 2.50 a resolution
60c1wrmA_
not modelled 15.5 13 PDB header:hydrolase
Chain: A: PDB Molecule:dual specificity phosphatase 22;
PDBTitle: crystal structure of jsp-1
61c3emuA_
not modelled 14.8 19 PDB header:hydrolase
Chain: A: PDB Molecule:leucine rich repeat and phosphatase domain
PDBTitle: crystal structure of a leucine rich repeat and phosphatase2 domain containing protein from entamoeba histolytica
62d1m3ga_
not modelled 14.8 14 Fold:(Phosphotyrosine protein) phosphatases II
Superfamily:(Phosphotyrosine protein) phosphatases II
Family:Dual specificity phosphatase-like
63c3rgqA_
not modelled 14.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:protein-tyrosine phosphatase mitochondrial 1;
PDBTitle: crystal structure of ptpmt1 in complex with pi(5)p
64c2hcmA_
not modelled 14.5 13 PDB header:hydrolase
Chain: A: PDB Molecule:dual specificity protein phosphatase;
PDBTitle: crystal structure of mouse putative dual specificity phosphatase2 complexed with zinc tungstate, new york structural genomics3 consortium
65c2e0tA_
not modelled 14.3 14 PDB header:hydrolase
Chain: A: PDB Molecule:dual specificity phosphatase 26;
PDBTitle: crystal structure of catalytic domain of dual specificity phosphatase2 26, ms0830 from homo sapiens
66d1o58a_
not modelled 14.2 18 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
67d2enda_
not modelled 13.9 18 Fold:T4 endonuclease V
Superfamily:T4 endonuclease V
Family:T4 endonuclease V
68d2huec1
not modelled 13.9 14 Fold:Histone-fold
Superfamily:Histone-fold
Family:Nucleosome core histones
69c1yhuA_
not modelled 13.3 17 PDB header:oxygen storage/transport
Chain: A: PDB Molecule:hemoglobin a1 chain;
PDBTitle: crystal structure of riftia pachyptila c1 hemoglobin reveals novel2 assembly of 24 subunits.
70c3piwA_
not modelled 12.1 24 PDB header:cytokine
Chain: A: PDB Molecule:type i interferon 2;
PDBTitle: zebrafish interferon 2
71d2csua3
not modelled 12.1 35 Fold:Flavodoxin-like
Superfamily:Succinyl-CoA synthetase domains
Family:Succinyl-CoA synthetase domains
72c1eysC_
not modelled 11.2 22 PDB header:electron transport
Chain: C: PDB Molecule:photosynthetic reaction center;
PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum
73d1eysc_
not modelled 11.2 22 Fold:Multiheme cytochromes
Superfamily:Multiheme cytochromes
Family:Photosynthetic reaction centre (cytochrome subunit)
74c3bacA_
not modelled 11.1 19 PDB header:ligase
Chain: A: PDB Molecule:dna ligase;
PDBTitle: structural basis for the inhibition of bacterial nad+2 dependent dna ligase
75d3cjrb1
not modelled 11.0 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Ribosomal protein L11, C-terminal domain
Family:Ribosomal protein L11, C-terminal domain
76d1v9pa3
not modelled 10.6 16 Fold:ATP-grasp
Superfamily:DNA ligase/mRNA capping enzyme, catalytic domain
Family:Adenylation domain of NAD+-dependent DNA ligase
77d3etja2
not modelled 10.5 38 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
78c2bpsA_
not modelled 10.3 22 PDB header:ubiquitin
Chain: A: PDB Molecule:yukd protein;
PDBTitle: ubiquitin-like protein yukd of bacillus subtilis
79d1ta8a_
not modelled 10.1 26 Fold:ATP-grasp
Superfamily:DNA ligase/mRNA capping enzyme, catalytic domain
Family:Adenylation domain of NAD+-dependent DNA ligase
80d1vhra_
not modelled 10.1 19 Fold:(Phosphotyrosine protein) phosphatases II
Superfamily:(Phosphotyrosine protein) phosphatases II
Family:Dual specificity phosphatase-like
81c3f4yF_
not modelled 10.0 64 PDB header:viral protein
Chain: F: PDB Molecule:mutant peptide derived from hiv gp41 chr domain;
PDBTitle: hiv gp41 six-helix bundle containing a mutant chr alpha-2 peptide sequence
82d1b5la_
not modelled 9.5 29 Fold:4-helical cytokines
Superfamily:4-helical cytokines
Family:Interferons/interleukin-10 (IL-10)
83c1hfeT_
not modelled 9.5 31 PDB header:hydrogenase
Chain: T: PDB Molecule:protein (fe-only hydrogenase (e.c.1.18.99.1)
PDBTitle: 1.6 a resolution structure of the fe-only hydrogenase from2 desulfovibrio desulfuricans
84d1hfes_
not modelled 9.5 31 Fold:Non-globular all-alpha subunits of globular proteins
Superfamily:Fe-only hydrogenase smaller subunit
Family:Fe-only hydrogenase smaller subunit
85d1hbna2
not modelled 9.3 30 Fold:Ferredoxin-like
Superfamily:Methyl-coenzyme M reductase subunits
Family:Methyl-coenzyme M reductase alpha and beta chain N-terminal domain
86d1qcsa1
not modelled 9.0 13 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
87d1u3da1
not modelled 8.9 21 Fold:Cryptochrome/photolyase FAD-binding domain
Superfamily:Cryptochrome/photolyase FAD-binding domain
Family:Cryptochrome/photolyase FAD-binding domain
88d1o82a_
not modelled 8.6 70 Fold:Saposin-like
Superfamily:Bacteriocin AS-48
Family:Bacteriocin AS-48
89c2imgA_
not modelled 8.6 16 PDB header:hydrolase
Chain: A: PDB Molecule:dual specificity protein phosphatase 23;
PDBTitle: crystal structure of dual specificity protein phosphatase2 23 from homo sapiens in complex with ligand malate ion
90c3bdkB_
not modelled 8.6 12 PDB header:lyase
Chain: B: PDB Molecule:d-mannonate dehydratase;
PDBTitle: crystal structure of streptococcus suis mannonate2 dehydratase complexed with substrate analogue
91d1di1a_
not modelled 8.5 13 Fold:Terpenoid synthases
Superfamily:Terpenoid synthases
Family:Aristolochene/pentalenene synthase
92d1pq4a_
not modelled 8.5 18 Fold:Chelatase-like
Superfamily:"Helical backbone" metal receptor
Family:TroA-like
93d2ipqx1
not modelled 8.4 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:STY4665 C-terminal domain-like
94c1yl7F_
not modelled 8.4 23 PDB header:oxidoreductase
Chain: F: PDB Molecule:dihydrodipicolinate reductase;
PDBTitle: the crystal structure of mycobacterium tuberculosis2 dihydrodipicolinate reductase (rv2773c) in complex with nadh (crystal3 form c)
95d2b0ja2
not modelled 8.4 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
96d3eeqa1
not modelled 8.2 2 Fold:CobE/GbiG C-terminal domain-like
Superfamily:CobE/GbiG C-terminal domain-like
Family:CobE/GbiG C-terminal domain-like
97c2owoA_
not modelled 8.2 19 PDB header:ligase/dna
Chain: A: PDB Molecule:dna ligase;
PDBTitle: last stop on the road to repair: structure of e.coli dna ligase bound2 to nicked dna-adenylate
98c2ktlA_
not modelled 8.2 21 PDB header:ligase
Chain: A: PDB Molecule:tyrosyl-trna synthetase;
PDBTitle: structure of c-terminal domain from mttyrrs of a. nidulans
99c2diiA_
not modelled 8.1 20 PDB header:transcription
Chain: A: PDB Molecule:tfiih basal transcription factor complex p62
PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit

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