Phyre 2 Results for O13556

Email	l.a.kelley@imperial.ac.uk
Description	O13556
Date	Mon Jul 2 19:10:14 BST 2012
Unique Job ID	1ccd13067106070c

Summary

Top model

Image coloured by rainbow N → C terminus

Model (left) based on template d1j0sa_

Top template information

Fold:beta-Trefoil
Superfamily:Cytokine
Family:Interleukin-1 (IL-1)

Confidence and coverage

Confidence:

26.3%

Coverage:

15%

30 residues ( 15% of your sequence) have been modelled with 26.3% confidence by the single highest scoring template.

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3D viewing

Interactive 3D view in Jmol

Sequence analysis

Secondary structure and disorder prediction

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

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

Secondary structure

SS confidence

Disorder ? ? ? ?
?
? ?

Disorder confidence

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

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

Secondary structure

SS confidence

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

Disorder confidence

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

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

Secondary structure

SS confidence

Disorder
? ? ? ? ? ? ? ? ?

Disorder confidence

. . . . . . . . . 190 . . . . . . . . . 200 . .

Sequence P I V R S L Q K S T I R K Y G Y N L A A Y T

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 1j0s chain A

Region: 74 - 106
Aligned: 30
Modelled: 33
Confidence: 26.3%
Identity: 30%
Fold: beta-Trefoil
Superfamily: Cytokine
Family: Interleukin-1 (IL-1)

Phyre2

PDB 1rwz chain A domain 1

Region: 87 - 126
Aligned: 40
Modelled: 40
Confidence: 20.3%
Identity: 13%
Fold: DNA clamp
Superfamily: DNA clamp
Family: DNA polymerase processivity factor

Phyre2

PDB 2h6o chain A

Region: 76 - 102
Aligned: 27
Modelled: 27
Confidence: 19.3%
Identity: 22%
PDB header:viral protein
Chain: A: PDB Molecule:major outer envelope glycoprotein gp350;
PDBTitle: epstein barr virus major envelope glycoprotein

Phyre2

PDB 2vfb chain A

Region: 72 - 119
Aligned: 48
Modelled: 48
Confidence: 14.2%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:arylamine n-acetyltransferase;
PDBTitle: the structure of mycobacterium marinum arylamine n-2 acetyltransferase

Phyre2

PDB 1ud9 chain A domain 1

Region: 87 - 123
Aligned: 37
Modelled: 37
Confidence: 12.0%
Identity: 5%
Fold: DNA clamp
Superfamily: DNA clamp
Family: DNA polymerase processivity factor

Phyre2

PDB 3bbn chain C

Region: 53 - 82
Aligned: 30
Modelled: 30
Confidence: 11.8%
Identity: 13%
PDB header:ribosome
Chain: C: PDB Molecule:ribosomal protein s3;
PDBTitle: homology model for the spinach chloroplast 30s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome.

Phyre2

PDB 3jrz chain A

Region: 81 - 110
Aligned: 26
Modelled: 30
Confidence: 10.2%
Identity: 23%
PDB header:toxin
Chain: A: PDB Molecule:ccdb;
PDBTitle: ccdbvfi-formii-ph5.6

Phyre2

PDB 2gy9 chain C

Region: 53 - 82
Aligned: 30
Modelled: 30
Confidence: 10.2%
Identity: 20%
PDB header:ribosome
Chain: C: PDB Molecule:30s ribosomal subunit protein s3;
PDBTitle: structure of the 30s subunit of a pre-translocational e.2 coli ribosome obtained by fitting atomic models for rna and3 protein components into cryo-em map emd-1056

Phyre2

PDB 1plq chain A domain 1

Region: 87 - 126
Aligned: 40
Modelled: 30
Confidence: 10.1%
Identity: 15%
Fold: DNA clamp
Superfamily: DNA clamp
Family: DNA polymerase processivity factor

Phyre2

PDB 1t3b chain A domain 2

Region: 25 - 53
Aligned: 27
Modelled: 29
Confidence: 8.6%
Identity: 19%
Fold: Cystatin-like
Superfamily: DsbC/DsbG N-terminal domain-like
Family: DsbC/DsbG N-terminal domain-like

Phyre2

PDB 2uwj chain G

Region: 155 - 161
Aligned: 7
Modelled: 7
Confidence: 8.3%
Identity: 57%
PDB header:chaperone
Chain: G: PDB Molecule:type iii export protein pscg;
PDBTitle: structure of the heterotrimeric complex which regulates2 type iii secretion needle formation

Phyre2

PDB 2nw8 chain A domain 1

Region: 3 - 26
Aligned: 24
Modelled: 24
Confidence: 8.2%
Identity: 25%
Fold: Indolic compounds 2,3-dioxygenase-like
Superfamily: Indolic compounds 2,3-dioxygenase-like
Family: Bacterial tryptophan 2,3-dioxygenase

Phyre2

PDB 3ph0 chain C

Region: 155 - 162
Aligned: 8
Modelled: 8
Confidence: 8.2%
Identity: 38%
PDB header:chaperone
Chain: C: PDB Molecule:ascg;
PDBTitle: crystal structure of the heteromolecular chaperone, asce-ascg, from2 the type iii secretion system in aeromonas hydrophila

Phyre2

PDB 1r0v chain A domain 3

Region: 28 - 57
Aligned: 30
Modelled: 30
Confidence: 8.1%
Identity: 23%
Fold: MutS N-terminal domain-like
Superfamily: tRNA-intron endonuclease N-terminal domain-like
Family: tRNA-intron endonuclease N-terminal domain-like

Phyre2

PDB 1hnw chain C

Region: 53 - 82
Aligned: 30
Modelled: 30
Confidence: 8.0%
Identity: 20%
PDB header:ribosome
Chain: C: PDB Molecule:30s ribosomal protein s3;
PDBTitle: structure of the thermus thermophilus 30s ribosomal subunit2 in complex with tetracycline

Phyre2

PDB 1pnx chain C

Region: 53 - 82
Aligned: 30
Modelled: 30
Confidence: 7.6%
Identity: 20%
PDB header:ribosome
Chain: C: PDB Molecule:30s ribosomal protein s3;
PDBTitle: crystal structure of the wild type ribosome from e. coli,2 30s subunit of 70s ribosome. this file, 1pnx, contains3 only molecules of the 30s ribosomal subunit. the 50s4 subunit is in the pdb file 1pny.

Phyre2

PDB 2qbf chain C

Region: 53 - 82
Aligned: 30
Modelled: 30
Confidence: 7.5%
Identity: 20%
PDB header:ribosome
Chain: C: PDB Molecule:30s ribosomal protein s3;
PDBTitle: crystal structure of the bacterial ribosome from escherichia2 coli in complex with ribosome recycling factor (rrf). this3 file contains the 30s subunit of the second 70s ribosome.4 the entire crystal structure contains two 70s ribosomes and5 is described in remark 400.

Phyre2

PDB 1gjw chain A domain 1

Region: 36 - 57
Aligned: 22
Modelled: 30
Confidence: 6.5%
Identity: 36%
Fold: Glycosyl hydrolase domain
Superfamily: Glycosyl hydrolase domain
Family: alpha-Amylases, C-terminal beta-sheet domain

Phyre2

PDB 2nw7 chain C

Region: 3 - 26
Aligned: 24
Modelled: 24
Confidence: 6.4%
Identity: 25%
PDB header:oxidoreductase
Chain: C: PDB Molecule:tryptophan 2,3-dioxygenase;
PDBTitle: crystal structure of tryptophan 2,3-dioxygenase (tdo) from2 xanthomonas campestris in complex with ferric heme.3 northeast structural genomics target xcr13

Phyre2

PDB 1kuz chain B

Region: 124 - 142
Aligned: 19
Modelled: 19
Confidence: 6.2%
Identity: 21%
PDB header:cell adhesion
Chain: B: PDB Molecule:integrin beta-3;
PDBTitle: solution structure of the membrane proximal regions of2 alpha-iib and beta-3 integrins

Phyre2

	1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence	M	K	V	S	D	R	R	K	F	E	K	A	N	F	D	E	F	E	S	A	L	N	N	K	N	D	L	V	H	C	P	S	I	T	L	F	E	S	I	P	T	E	V	R	S	F	Y	E	D	E	K	S	G	L	I	K	V	V	K	F
Secondary structure
SS confidence
Disorder	?	?	?	?					?																																																		?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence	R	T	G	A	M	D	R	K	R	S	F	E	K	V	V	I	S	V	M	V	G	K	N	V	K	K	F	L	T	F	V	E	D	E	P	D	F	Q	G	G	P	I	P	S	K	Y	L	V	P	K	K	I	N	L	M	V	Y	T	L	F
Secondary structure
SS confidence
Disorder	?	?	?	?	?	?	?	?																													?	?	?	?			?					?
Disorder confidence

	.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence	Q	V	H	T	L	K	F	N	R	K	D	Y	D	T	L	S	L	F	Y	L	N	R	G	Y	Y	N	E	L	S	F	R	V	L	E	R	C	H	E	I	A	S	A	R	P	N	D	S	S	T	M	R	T	F	T	D	F	V	S	G	A
Secondary structure
SS confidence
Disorder																																										?	?	?	?	?	?	?	?	?
Disorder confidence

	.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.
Sequence	P	I	V	R	S	L	Q	K	S	T	I	R	K	Y	G	Y	N	L	A	A	Y	T
Secondary structure
SS confidence
Disorder																		?	?	?	?	?
Disorder confidence