Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionA6X982
DateSun Jul 8 11:45:03 BST 2012
Unique Job ID8a2b2600b63557d9

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2vfyA_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:akap18 delta;
PDBTitle: akap18 delta central domain
Confidence and coverage
Confidence:100.0% Coverage: 94%
192 residues ( 94% 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  MRYPNLLFLALPISEHYIEESLKYFKLTSNDPMILSGFRGPRVSHLTIGMIPVKNDEDVL
Secondary structure 
SS confidence 
Disorder  ??????
???
??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  KCMDFLYNKEDEIRKSYGEKKITIDLKGTSFFGKSPQEAKVLYATPVDKHNEWLKVIFTE
Secondary structure 
SS confidence 
Disorder 
?
????
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  HNLFTKDARPLTLHCTLLNSRYIKYQGRRIRFFNSEPFMEKYGQFLWAHNIELDKLSIMK
Secondary structure 
SS confidence 
Disorder 
?
?
?????????????
?
Disorder confidence 
 
   .........190.........200....
Sequence  TGAVGEPGNMYYEELASIPLLVND
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 2vfy chain A

3D model

Region: 3 - 202
Aligned: 192
Modelled: 200
Confidence: 100.0%
Identity: 19%
PDB header:hydrolase
Chain: A: PDB Molecule:akap18 delta;
PDBTitle: akap18 delta central domain

Phyre2

PDB 1vdx chain A

3D model

Region: 7 - 202
Aligned: 177
Modelled: 195
Confidence: 100.0%
Identity: 18%
PDB header:ligase
Chain: A: PDB Molecule:hypothetical protein ph0099;
PDBTitle: crystal structure of a pyrococcus horikoshii protein with2 similarities to 2'5' rna-ligase

Phyre2

PDB 1iuh chain A

3D model

Region: 7 - 200
Aligned: 168
Modelled: 179
Confidence: 100.0%
Identity: 17%
Fold: LigT-like
Superfamily: LigT-like
Family: 2'-5' RNA ligase LigT

Phyre2

PDB 2d4g chain A

3D model

Region: 7 - 200
Aligned: 165
Modelled: 194
Confidence: 99.9%
Identity: 15%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein bsu11850;
PDBTitle: structure of yjcg protein, a putative 2'-5' rna ligase from2 bacillus subtilis

Phyre2

PDB 1jh6 chain A

3D model

Region: 1 - 200
Aligned: 170
Modelled: 186
Confidence: 99.8%
Identity: 18%
Fold: LigT-like
Superfamily: LigT-like
Family: tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase

Phyre2

PDB 2fsq chain A domain 1

3D model

Region: 5 - 138
Aligned: 125
Modelled: 133
Confidence: 97.6%
Identity: 14%
Fold: LigT-like
Superfamily: LigT-like
Family: Atu0111-like

Phyre2

PDB 2vv5 chain A domain 2

3D model

Region: 51 - 134
Aligned: 82
Modelled: 84
Confidence: 66.5%
Identity: 16%
Fold: Ferredoxin-like
Superfamily: Mechanosensitive channel protein MscS (YggB), C-terminal domain
Family: Mechanosensitive channel protein MscS (YggB), C-terminal domain

Phyre2

PDB 3i24 chain B

3D model

Region: 51 - 123
Aligned: 73
Modelled: 73
Confidence: 46.1%
Identity: 12%
PDB header:hydrolase
Chain: B: PDB Molecule:hit family hydrolase;
PDBTitle: crystal structure of a hit family hydrolase protein from2 vibrio fischeri. northeast structural genomics consortium3 target id vfr176

Phyre2

PDB 2ilx chain A domain 1

3D model

Region: 4 - 103
Aligned: 91
Modelled: 100
Confidence: 44.4%
Identity: 15%
Fold: LigT-like
Superfamily: LigT-like
Family: 2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain

Phyre2

PDB 2dh9 chain A

3D model

Region: 4 - 87
Aligned: 73
Modelled: 79
Confidence: 39.2%
Identity: 8%
PDB header:rna binding protein
Chain: A: PDB Molecule:heterogeneous nuclear ribonucleoprotein m;
PDBTitle: solution structure of the c-terminal rna binding domain in2 heterogeneous nuclear ribonucleoprotein m

Phyre2

PDB 3ohe chain A

3D model

Region: 51 - 121
Aligned: 71
Modelled: 70
Confidence: 34.0%
Identity: 14%
PDB header:hydrolase
Chain: A: PDB Molecule:histidine triad (hit) protein;
PDBTitle: crystal structure of a histidine triad protein (maqu_1709) from2 marinobacter aquaeolei vt8 at 1.20 a resolution

Phyre2

PDB 1lql chain E

3D model

Region: 43 - 87
Aligned: 45
Modelled: 45
Confidence: 27.0%
Identity: 11%
PDB header:unknown function
Chain: E: PDB Molecule:osmotical inducible protein c like family;
PDBTitle: crystal structure of osmc like protein from mycoplasma2 pneumoniae

Phyre2

PDB 1lql chain A

3D model

Region: 43 - 87
Aligned: 45
Modelled: 45
Confidence: 27.0%
Identity: 11%
Fold: OsmC-like
Superfamily: OsmC-like
Family: Ohr/OsmC resistance proteins

Phyre2

PDB 2jx2 chain A

3D model

Region: 2 - 86
Aligned: 70
Modelled: 76
Confidence: 23.7%
Identity: 10%
PDB header:transcription
Chain: A: PDB Molecule:negative elongation factor e;
PDBTitle: solution conformation of rna-bound nelf-e rrm

Phyre2

PDB 3eer chain A

3D model

Region: 44 - 89
Aligned: 46
Modelled: 46
Confidence: 22.8%
Identity: 9%
PDB header:oxidoreductase
Chain: A: PDB Molecule:organic hydroperoxide resistance protein, putative;
PDBTitle: high resolution structure of putative organic hydroperoxide resistance2 protein from vibrio cholerae o1 biovar eltor str. n16961

Phyre2

PDB 1fp2 chain A domain 2

3D model

Region: 2 - 138
Aligned: 129
Modelled: 135
Confidence: 21.1%
Identity: 19%
Fold: S-adenosyl-L-methionine-dependent methyltransferases
Superfamily: S-adenosyl-L-methionine-dependent methyltransferases
Family: Plant O-methyltransferase, C-terminal domain

Phyre2

PDB 2zyz chain A

3D model

Region: 110 - 204
Aligned: 88
Modelled: 95
Confidence: 18.8%
Identity: 13%
PDB header:splicing
Chain: A: PDB Molecule:putative uncharacterized protein pae0789;
PDBTitle: pyrobaculum aerophilum splicing endonuclease

Phyre2

PDB 3m05 chain A

3D model

Region: 50 - 92
Aligned: 43
Modelled: 41
Confidence: 18.5%
Identity: 9%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pepe_1480;
PDBTitle: the crystal structure of a functionally unknown protein2 pepe_1480 from pediococcus pentosaceus atcc 25745

Phyre2

PDB 1huu chain A

3D model

Region: 59 - 92
Aligned: 33
Modelled: 34
Confidence: 18.1%
Identity: 18%
Fold: IHF-like DNA-binding proteins
Superfamily: IHF-like DNA-binding proteins
Family: Prokaryotic DNA-bending protein

Phyre2

PDB 1wvf chain A domain 1

3D model

Region: 10 - 128
Aligned: 111
Modelled: 119
Confidence: 17.6%
Identity: 14%
Fold: Ferredoxin-like
Superfamily: FAD-linked oxidases, C-terminal domain
Family: Vanillyl-alcohol oxidase-like

Phyre2
1
c2vfyA_
2
c1vdxA_
3
d1iuha_
4
c2d4gA_
5
d1jh6a_
6
d2fsqa1
7
d2vv5a2
8
c3i24B_
9
d2ilxa1
10
c2dh9A_
11
c3oheA_
12
c1lqlE_
13
d1lqla_
14
c2jx2A_
15
c3eerA_
16
d1fp2a2
17
c2zyzA_
18
c3m05A_
19
d1huua_
20
d1wvfa1
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



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2vfyA_
100.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:akap18 delta;
PDBTitle: akap18 delta central domain
2c1vdxA_
100.0 18 PDB header:ligase
Chain: A: PDB Molecule:hypothetical protein ph0099;
PDBTitle: crystal structure of a pyrococcus horikoshii protein with2 similarities to 2'5' rna-ligase
3d1iuha_
100.0 17 Fold:LigT-like
Superfamily:LigT-like
Family:2'-5' RNA ligase LigT
4c2d4gA_
99.9 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein bsu11850;
PDBTitle: structure of yjcg protein, a putative 2'-5' rna ligase from2 bacillus subtilis
5d1jh6a_
99.8 18 Fold:LigT-like
Superfamily:LigT-like
Family:tRNA splicing product Appr>p cyclic nucleotide phosphodiesterase
6d2fsqa1
97.6 14 Fold:LigT-like
Superfamily:LigT-like
Family:Atu0111-like
7d2vv5a2
66.5 16 Fold:Ferredoxin-like
Superfamily:Mechanosensitive channel protein MscS (YggB), C-terminal domain
Family:Mechanosensitive channel protein MscS (YggB), C-terminal domain
8c3i24B_
46.1 12 PDB header:hydrolase
Chain: B: PDB Molecule:hit family hydrolase;
PDBTitle: crystal structure of a hit family hydrolase protein from2 vibrio fischeri. northeast structural genomics consortium3 target id vfr176
9d2ilxa1
44.4 15 Fold:LigT-like
Superfamily:LigT-like
Family:2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain
10c2dh9A_
39.2 8 PDB header:rna binding protein
Chain: A: PDB Molecule:heterogeneous nuclear ribonucleoprotein m;
PDBTitle: solution structure of the c-terminal rna binding domain in2 heterogeneous nuclear ribonucleoprotein m
11c3oheA_
34.0 14 PDB header:hydrolase
Chain: A: PDB Molecule:histidine triad (hit) protein;
PDBTitle: crystal structure of a histidine triad protein (maqu_1709) from2 marinobacter aquaeolei vt8 at 1.20 a resolution
12c1lqlE_
27.0 11 PDB header:unknown function
Chain: E: PDB Molecule:osmotical inducible protein c like family;
PDBTitle: crystal structure of osmc like protein from mycoplasma2 pneumoniae
13d1lqla_
27.0 11 Fold:OsmC-like
Superfamily:OsmC-like
Family:Ohr/OsmC resistance proteins
14c2jx2A_
23.7 10 PDB header:transcription
Chain: A: PDB Molecule:negative elongation factor e;
PDBTitle: solution conformation of rna-bound nelf-e rrm
15c3eerA_
22.8 9 PDB header:oxidoreductase
Chain: A: PDB Molecule:organic hydroperoxide resistance protein, putative;
PDBTitle: high resolution structure of putative organic hydroperoxide resistance2 protein from vibrio cholerae o1 biovar eltor str. n16961
16d1fp2a2
21.1 19 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:Plant O-methyltransferase, C-terminal domain
17c2zyzA_
18.8 13 PDB header:splicing
Chain: A: PDB Molecule:putative uncharacterized protein pae0789;
PDBTitle: pyrobaculum aerophilum splicing endonuclease
18c3m05A_
18.5 9 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein pepe_1480;
PDBTitle: the crystal structure of a functionally unknown protein2 pepe_1480 from pediococcus pentosaceus atcc 25745
19d1huua_
18.1 18 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
20d1wvfa1
17.6 14 Fold:Ferredoxin-like
Superfamily:FAD-linked oxidases, C-terminal domain
Family:Vanillyl-alcohol oxidase-like
21c3ke3A_
not modelled 15.4 9 PDB header:transferase
Chain: A: PDB Molecule:putative serine-pyruvate aminotransferase;
PDBTitle: crystal structure of putative serine-pyruvate aminotransferase2 (yp_263484.1) from psychrobacter arcticum 273-4 at 2.20 a resolution
22c3cjeA_
not modelled 14.6 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:osmc-like protein;
PDBTitle: crystal structure of an osmc-like hydroperoxide resistance protein2 (jann_2040) from jannaschia sp. ccs1 at 1.70 a resolution
23d2bz2a1
not modelled 12.8 13 Fold:Ferredoxin-like
Superfamily:RNA-binding domain, RBD
Family:Canonical RBD
24d1p71a_
not modelled 12.5 16 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
25d1owfb_
not modelled 12.4 13 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
26c1zoqA_
not modelled 11.5 7 PDB header:transcription/transferase
Chain: A: PDB Molecule:interferon regulatory factor 3;
PDBTitle: irf3-cbp complex
27d1owfa_
not modelled 11.3 21 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
28d1b8za_
not modelled 10.2 13 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
29c2x5fB_
not modelled 9.5 16 PDB header:transferase
Chain: B: PDB Molecule:aspartate_tyrosine_phenylalanine pyridoxal-5'
PDBTitle: crystal structure of the methicillin-resistant2 staphylococcus aureus sar2028, an3 aspartate_tyrosine_phenylalanine pyridoxal-5'-phosphate4 dependent aminotransferase
30c2np2B_
not modelled 8.4 9 PDB header:dna binding protein/dna
Chain: B: PDB Molecule:hbb;
PDBTitle: hbb-dna complex
31d2cpxa1
not modelled 8.3 18 Fold:Ferredoxin-like
Superfamily:RNA-binding domain, RBD
Family:Canonical RBD
32d1mula_
not modelled 8.2 19 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
33d2opla1
not modelled 8.2 7 Fold:OsmC-like
Superfamily:OsmC-like
Family:Ohr/OsmC resistance proteins
34d1nekc_
not modelled 8.0 29 Fold:Heme-binding four-helical bundle
Superfamily:Fumarate reductase respiratory complex transmembrane subunits
Family:Succinate dehydrogenase/Fumarate reductase transmembrane subunits (SdhC/FrdC and SdhD/FrdD)
35c1sqwA_
not modelled 8.0 13 PDB header:unknown function
Chain: A: PDB Molecule:saccharomyces cerevisiae nip7p homolog;
PDBTitle: crystal structure of kd93, a novel protein expressed in the2 human pro
36c3i4sB_
not modelled 7.8 12 PDB header:hydrolase
Chain: B: PDB Molecule:histidine triad protein;
PDBTitle: crystal structure of histidine triad protein blr8122 from2 bradyrhizobium japonicum
37d2o97b1
not modelled 7.2 15 Fold:IHF-like DNA-binding proteins
Superfamily:IHF-like DNA-binding proteins
Family:Prokaryotic DNA-bending protein
38c3c4iA_
not modelled 7.2 18 PDB header:dna binding protein
Chain: A: PDB Molecule:dna-binding protein hu homolog;
PDBTitle: crystal structure analysis of n terminal region containing the2 dimerization domain and dna binding domain of hu protein(histone like3 protein-dna binding) from mycobacterium tuberculosis [h37rv]
39c3pplB_
not modelled 7.2 11 PDB header:transferase
Chain: B: PDB Molecule:aspartate aminotransferase;
PDBTitle: crystal structure of an aspartate transaminase (ncgl0237, cgl0240)2 from corynebacterium glutamicum atcc 13032 kitasato at 1.25 a3 resolution
40c1yq3C_
not modelled 7.0 36 PDB header:oxidoreductase
Chain: C: PDB Molecule:succinate dehydrogenase cytochrome b, large subunit;
PDBTitle: avian respiratory complex ii with oxaloacetate and ubiquinone
41c2po3B_
not modelled 6.9 19 PDB header:transferase
Chain: B: PDB Molecule:4-dehydrase;
PDBTitle: crystal structure analysis of desi in the presence of its2 tdp-sugar product
42d1qwta_
not modelled 6.8 7 Fold:SMAD/FHA domain
Superfamily:SMAD/FHA domain
Family:Interferon regulatory factor 3 (IRF3), transactivation domain
43d1sqwa2
not modelled 6.5 12 Fold:Cystatin-like
Superfamily:Pre-PUA domain
Family:Nip7p homolog, N-terminal domain
44d1z84a2
not modelled 6.4 11 Fold:HIT-like
Superfamily:HIT-like
Family:Hexose-1-phosphate uridylyltransferase
45d2fm8a1
not modelled 6.3 10 Fold:Secretion chaperone-like
Superfamily:Type III secretory system chaperone-like
Family:Type III secretory system chaperone
46c3ksvA_
not modelled 6.3 7 PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: hypothetical protein from leishmania major
47c2ogeC_
not modelled 6.1 14 PDB header:transferase
Chain: C: PDB Molecule:transaminase;
PDBTitle: x-ray structure of s. venezuelae desv in its internal2 aldimine form
48c2du4B_
not modelled 5.7 6 PDB header:ligase/rna
Chain: B: PDB Molecule:o-phosphoseryl-trna synthetase;
PDBTitle: crystal structure of archaeoglobus fulgidus o-phosphoseryl-2 trna synthetase complexed with trnacys
49d1ry9a_
not modelled 5.4 7 Fold:Secretion chaperone-like
Superfamily:Type III secretory system chaperone-like
Family:Type III secretory system chaperone

Binding site prediction 

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If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite