Phyre 2 Results for P0ADT2

Email	l.a.kelley@imperial.ac.uk
Description	P0ADT2
Date	Wed Jan 25 15:20:29 GMT 2012
Unique Job ID	69ac7fdaf84e6344

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template c2lbgA_

Top template information

PDB header:membrane protein
Chain: A: PDB Molecule:major prion protein;
PDBTitle: structure of the chr of the prion protein in dpc micelles

Confidence and coverage

Confidence:

16.3%

Coverage:

12 residues ( 5% of your sequence) have been modelled with 16.3% confidence by the single highest scoring template.

You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.

Please note: You must be registered and logged in to use Phyrealarm.

Warning: 59% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.

3D viewing

Interactive 3D view in Jmol

Sequence analysis

Secondary structure and disorder prediction

1 . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60

Sequence M K R T K S I R H A S F R K N W S A R H L T P V A L A V A T V F M L A G C E K S D E T V S L Y Q N A D D C S A A N P G K

Secondary structure

SS confidence

Disorder ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ?
? ?
? ? ? ? ?

Disorder confidence

. . . . . . . . . 70 . . . . . . . . . 80 . . . . . . . . . 90 . . . . . . . . . 100 . . . . . . . . . 110 . . . . . . . . . 120

Sequence S A E C T T A Y N N A L K E A E R T A P K Y A T R E D C V A E F G E G Q C Q Q A P A Q A G M A P E N Q A Q A Q Q S S G S

Secondary structure

SS confidence

Disorder
?
?
? ?
? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ?

Disorder confidence

. . . . . . . . . 130 . . . . . . . . . 140 . . . . . . . . . 150 . . . . . . . . . 160 . . . . . . . . . 170 . . . . . . . . . 180

Sequence F W M P L M A G Y M M G R L M G G G A G F A Q Q P L F S S K N P A S P A Y G K Y T D A T G K N Y G A A Q P G R T M T V P

Secondary structure

SS confidence

Disorder
? ? ? ? ? ? ? ? ?
? ? ? ? ? ? ? ? ? ? ? ? ?
?
? ? ? ? ? ? ?
? ? ? ? ? ? ? ?

Disorder confidence

. . . . . . . . . 190 . . . . . . . . . 200 . . . . . . . . . 210 . . . . . . . . . 220 . . .

Sequence K T A M A P K P A T T T T V T R G G F G E S V A K Q S T M Q R S A T G T S S R S M G G

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

Rank	Aligned region

PDB 2lbg chain A

Region: 126 - 137
Aligned: 12
Modelled: 12
Confidence: 16.3%
Identity: 42%
PDB header:membrane protein
Chain: A: PDB Molecule:major prion protein;
PDBTitle: structure of the chr of the prion protein in dpc micelles

Phyre2

PDB 3ehw chain A

Region: 194 - 202
Aligned: 9
Modelled: 9
Confidence: 11.6%
Identity: 67%
PDB header:hydrolase
Chain: A: PDB Molecule:dutp pyrophosphatase;
PDBTitle: human dutpase in complex with alpha,beta-imido-dutp and mg2+:2 visualization of the full-length c-termini in all monomers and3 suggestion for an additional metal ion binding site

Phyre2

PDB 1gvf chain A

Region: 2 - 84
Aligned: 69
Modelled: 83
Confidence: 11.2%
Identity: 14%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class II FBP aldolase

Phyre2

PDB 1f7r chain A

Region: 194 - 202
Aligned: 9
Modelled: 9
Confidence: 8.8%
Identity: 44%
Fold: beta-clip
Superfamily: dUTPase-like
Family: dUTPase-like

Phyre2

PDB 3lyi chain A

Region: 61 - 78
Aligned: 18
Modelled: 18
Confidence: 8.7%
Identity: 17%
PDB header:transcription
Chain: A: PDB Molecule:bromodomain-containing protein 1;
PDBTitle: pwwp domain of human bromodomain-containing protein 1

Phyre2

PDB 1dqe chain A

Region: 50 - 72
Aligned: 23
Modelled: 23
Confidence: 6.7%
Identity: 17%
Fold: EF Hand-like
Superfamily: Insect pheromone/odorant-binding proteins
Family: Insect pheromone/odorant-binding proteins

Phyre2

PDB 2kxh chain B

Region: 67 - 81
Aligned: 15
Modelled: 15
Confidence: 6.0%
Identity: 40%
PDB header:protein binding
Chain: B: PDB Molecule:peptide of far upstream element-binding protein 1;
PDBTitle: solution structure of the first two rrm domains of fir in the complex2 with fbp nbox peptide

Phyre2

PDB 1bik chain A domain 2

Region: 32 - 56
Aligned: 22
Modelled: 25
Confidence: 6.0%
Identity: 18%
Fold: BPTI-like
Superfamily: BPTI-like
Family: Small Kunitz-type inhibitors & BPTI-like toxins

Phyre2

PDB 2wcl chain A

Region: 50 - 72
Aligned: 23
Modelled: 23
Confidence: 5.5%
Identity: 17%
PDB header:transport protein
Chain: A: PDB Molecule:general odorant-binding protein 1;
PDBTitle: structure of bmori gobp2 (general odorant binding protein 2)2 with (8e,10z)-hexadecadien-1-ol

Phyre2

Detailed template information

#	Template	Alignment Coverage	3D Model	Confidence	% i.d.	Template Information

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]

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