Phyre 2 Results for P39905

Email	l.a.kelley@imperial.ac.uk
Description	P39905
Date	Tue Apr 3 14:42:26 BST 2012
Unique Job ID	d01e75b9e91b9e52

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template c3rjrD_

Top template information

PDB header:cytokine
Chain: D: PDB Molecule:transforming growth factor beta-1;
PDBTitle: crystal structure of pro-tgf beta 1

Confidence and coverage

Confidence:

100.0%

Coverage:

52%

110 residues ( 52% of your sequence) have been modelled with 100.0% 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.

Warning: 57% 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 L W D V V A V C L V L L H T A S A F P L P A G K R P P E A P A E D R S L G R R R A P F A L S S D S N M P E D Y P D Q

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

Sequence P I A F D D D L S F L D D N L V Y H I L R K H S A K R C G C I

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 3rjr chain D

Region: 98 - 210
Aligned: 110
Modelled: 110
Confidence: 100.0%
Identity: 14%
PDB header:cytokine
Chain: D: PDB Molecule:transforming growth factor beta-1;
PDBTitle: crystal structure of pro-tgf beta 1

Phyre2

PDB 1agq chain B

Region: 114 - 211
Aligned: 96
Modelled: 98
Confidence: 100.0%
Identity: 92%
PDB header:growth factor
Chain: B: PDB Molecule:glial cell-derived neurotrophic factor;
PDBTitle: glial cell-derived neurotrophic factor from rat

Phyre2

PDB 1agq chain A

Region: 115 - 211
Aligned: 91
Modelled: 97
Confidence: 100.0%
Identity: 96%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 2gyr chain B

Region: 117 - 210
Aligned: 93
Modelled: 94
Confidence: 100.0%
Identity: 40%
PDB header:hormone/growth factor
Chain: B: PDB Molecule:neurotrophic factor artemin, isoform 3;
PDBTitle: crystal structure of human artemin

Phyre2

PDB 2qcq chain A

Region: 114 - 210
Aligned: 95
Modelled: 97
Confidence: 100.0%
Identity: 21%
PDB header:signaling protein
Chain: A: PDB Molecule:bone morphogenetic protein 3;
PDBTitle: crystal structure of bone morphogenetic protein-3 (bmp-3)

Phyre2

PDB 1zkz chain A

Region: 114 - 210
Aligned: 94
Modelled: 96
Confidence: 100.0%
Identity: 24%
PDB header:hormone/growth factor
Chain: A: PDB Molecule:growth/differentiation factor 2;
PDBTitle: crystal structure of bmp9

Phyre2

PDB 1lxi chain A

Region: 116 - 210
Aligned: 92
Modelled: 95
Confidence: 100.0%
Identity: 23%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 2qcw chain B

Region: 117 - 210
Aligned: 91
Modelled: 94
Confidence: 100.0%
Identity: 22%
PDB header:signaling protein
Chain: B: PDB Molecule:bone morphogenetic protein 6;
PDBTitle: crystal structure of bone morphogenetic protein-6 (bmp-6)

Phyre2

PDB 3evs chain B

Region: 118 - 210
Aligned: 90
Modelled: 93
Confidence: 100.0%
Identity: 27%
PDB header:cytokine/transferase receptor
Chain: B: PDB Molecule:growth/differentiation factor 5;
PDBTitle: crystal structure of the gdf-5:bmp receptor ib complex.

Phyre2

PDB 2h62 chain A domain 1

Region: 118 - 210
Aligned: 89
Modelled: 93
Confidence: 100.0%
Identity: 22%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 1kla chain A

Region: 104 - 210
Aligned: 104
Modelled: 107
Confidence: 100.0%
Identity: 14%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 3hh2 chain B

Region: 108 - 210
Aligned: 99
Modelled: 103
Confidence: 100.0%
Identity: 15%
PDB header:signaling protein/cytokine
Chain: B: PDB Molecule:growth/differentiation factor 8;
PDBTitle: crystal structure of the myostatin:follistatin 288 complex

Phyre2

PDB 1tgj chain A

Region: 112 - 210
Aligned: 96
Modelled: 99
Confidence: 100.0%
Identity: 18%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 2tgi chain A

Region: 112 - 210
Aligned: 96
Modelled: 96
Confidence: 100.0%
Identity: 15%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 2arp chain A domain 1

Region: 114 - 210
Aligned: 95
Modelled: 97
Confidence: 100.0%
Identity: 19%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 1ktz chain A

Region: 116 - 210
Aligned: 77
Modelled: 77
Confidence: 99.9%
Identity: 18%
Fold: Cystine-knot cytokines
Superfamily: Cystine-knot cytokines
Family: Transforming growth factor (TGF)-beta

Phyre2

PDB 1ka1 chain A

Region: 1 - 28
Aligned: 28
Modelled: 28
Confidence: 27.8%
Identity: 18%
Fold: Carbohydrate phosphatase
Superfamily: Carbohydrate phosphatase
Family: Inositol monophosphatase/fructose-1,6-bisphosphatase-like

Phyre2

PDB 1axh chain A

Region: 137 - 151
Aligned: 15
Modelled: 15
Confidence: 20.4%
Identity: 27%
Fold: Knottins (small inhibitors, toxins, lectins)
Superfamily: omega toxin-like
Family: Spider toxins

Phyre2

PDB 1drs chain A

Region: 199 - 210
Aligned: 12
Modelled: 12
Confidence: 19.2%
Identity: 25%
Fold: Snake toxin-like
Superfamily: Snake toxin-like
Family: Dendroaspin

Phyre2

PDB 1m1j chain A

Region: 140 - 170
Aligned: 31
Modelled: 31
Confidence: 14.1%
Identity: 32%
PDB header:blood clotting
Chain: A: PDB Molecule:fibrinogen alpha subunit;
PDBTitle: crystal structure of native chicken fibrinogen with two different2 bound ligands

Phyre2