Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	G	N	L	G	Q	A	K	K	Y	L	G	Q	A	A	K	M	L	I	G	I	P	D	Y	D	N	Y	V	E	H	M	K	T	N	H	P	D	K	P	Y	M	S	Y	E	E	F	F	R	E	R	Q	N	A	R	Y	G	G	D	G
Secondary structure
SS confidence
Disorder		?	?																																																					?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		K	G	G	M	R	C	C
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 1i1r chain B Region: 17 - 41 Aligned: 25 Modelled: 25 Confidence: 38.1% Identity: 12% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Long-chain cytokines Phyre2 PDB 2knc chain B Region: 44 - 63 Aligned: 20 Modelled: 20 Confidence: 28.4% Identity: 20% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3g9w chain C Region: 44 - 65 Aligned: 22 Modelled: 22 Confidence: 27.0% Identity: 18% PDB header:cell adhesion Chain: C: PDB Molecule:integrin beta-1d; PDBTitle: crystal structure of talin2 f2-f3 in complex with the integrin beta1d2 cytoplasmic tail Phyre2 PDB 1alu chain A Region: 17 - 40 Aligned: 24 Modelled: 24 Confidence: 25.5% Identity: 17% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Long-chain cytokines Phyre2 PDB 1m8o chain B Region: 44 - 65 Aligned: 22 Modelled: 22 Confidence: 23.5% Identity: 18% PDB header:membrane protein Chain: B: PDB Molecule:platele integrin beta3 subunit: cytoplasmic PDBTitle: platelet integrin alfaiib-beta3 cytoplasmic domain Phyre2 PDB 3izb chain U Region: 35 - 63 Aligned: 28 Modelled: 29 Confidence: 21.9% Identity: 25% PDB header:ribosome Chain: U: PDB Molecule:40s ribosomal protein s24; PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 4a19 chain Q Region: 2 - 27 Aligned: 26 Modelled: 26 Confidence: 20.6% Identity: 23% PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l36; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. Phyre2 PDB 2g1d chain A domain 1 Region: 35 - 61 Aligned: 26 Modelled: 27 Confidence: 19.1% Identity: 23% Fold: Ribosomal proteins S24e, L23 and L15e Superfamily: Ribosomal proteins S24e, L23 and L15e Family: Ribosomal protein S24e Phyre2 PDB 2ghf chain A Region: 23 - 43 Aligned: 21 Modelled: 21 Confidence: 19.1% Identity: 29% PDB header:transcription, metal binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 1; PDBTitle: solution structure of the complete zinc-finger region of2 human zinc-fingers and homeoboxes 1 (zhx1) Phyre2 PDB 2ffs chain A domain 1 Region: 35 - 49 Aligned: 15 Modelled: 15 Confidence: 15.4% Identity: 13% Fold: TBP-like Superfamily: Bet v1-like Family: PA1206-like Phyre2 PDB 1bh0 chain A Region: 23 - 35 Aligned: 13 Modelled: 13 Confidence: 15.0% Identity: 31% PDB header:synthetic hormone Chain: A: PDB Molecule:glucagon; PDBTitle: structure of a glucagon analog Phyre2 PDB 2v94 chain A domain 1 Region: 35 - 61 Aligned: 26 Modelled: 27 Confidence: 14.4% Identity: 19% Fold: Ribosomal proteins S24e, L23 and L15e Superfamily: Ribosomal proteins S24e, L23 and L15e Family: Ribosomal protein S24e Phyre2 PDB 1s4x chain A Region: 44 - 63 Aligned: 20 Modelled: 20 Confidence: 13.7% Identity: 20% PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: nmr structure of the integrin b3 cytoplasmic domain in dpc2 micelles Phyre2 PDB 2l3y chain A Region: 17 - 38 Aligned: 22 Modelled: 22 Confidence: 13.5% Identity: 41% PDB header:transcription Chain: A: PDB Molecule:interleukin-6; PDBTitle: solution structure of mouse il-6 Phyre2 PDB 3izc chain K Region: 2 - 27 Aligned: 26 Modelled: 26 Confidence: 11.9% Identity: 15% PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 2ct1 chain A Region: 23 - 43 Aligned: 21 Modelled: 21 Confidence: 11.4% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:transcriptional repressor ctcf; PDBTitle: solution structure of the zinc finger domain of2 transcriptional repressor ctcf protein Phyre2 PDB 1tjl chain D Region: 13 - 55 Aligned: 35 Modelled: 43 Confidence: 11.3% Identity: 26% PDB header:transcription Chain: D: PDB Molecule:dnak suppressor protein; PDBTitle: crystal structure of transcription factor dksa from e. coli Phyre2 PDB 1puo chain A Region: 26 - 55 Aligned: 30 Modelled: 30 Confidence: 11.0% Identity: 17% PDB header:allergen Chain: A: PDB Molecule:major allergen i polypeptide, fused chain 2, PDBTitle: crystal structure of fel d 1- the major cat allergen Phyre2 PDB 1rhg chain A Region: 17 - 39 Aligned: 23 Modelled: 23 Confidence: 9.8% Identity: 13% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Long-chain cytokines Phyre2 PDB 2b97 chain A domain 1 Region: 37 - 67 Aligned: 25 Modelled: 31 Confidence: 7.1% Identity: 16% Fold: Hydrophobin II, HfbII Superfamily: Hydrophobin II, HfbII Family: Hydrophobin II, HfbII Phyre2 1 d1i1rb_ 2 c2kncB_ 3 c3g9wC_ 4 d1alua_ 5 c1m8oB_ 6 c3izbU_ 7 c4a19Q_ 8 d2g1da1 9 c2ghfA_ 10 d2ffsa1 11 c1bh0A_ 12 d2v94a1 13 c1s4xA_ 14 c2l3yA_ 15 c3izck_ 16 c2ct1A_ 17 c1tjlD_ 18 c1puoA_ 19 d1rhga_ 20 d2b97a1 21 22 23 24 25 26 27 28 29 30 31 32 33

Detailed template information

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

1 d1i1rb_ 38.1 12 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 2 c2kncB_ 28.4 20 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 3 c3g9wC_ 27.0 18 PDB header:cell adhesion Chain: C: PDB Molecule:integrin beta-1d; PDBTitle: crystal structure of talin2 f2-f3 in complex with the integrin beta1d2 cytoplasmic tail 4 d1alua_ 25.5 17 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 5 c1m8oB_ 23.5 18 PDB header:membrane protein Chain: B: PDB Molecule:platele integrin beta3 subunit: cytoplasmic PDBTitle: platelet integrin alfaiib-beta3 cytoplasmic domain 6 c3izbU_ 21.9 25 PDB header:ribosome Chain: U: PDB Molecule:40s ribosomal protein s24; PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 7 c4a19Q_ 20.6 23 PDB header:ribosome Chain: Q: PDB Molecule:60s ribosomal protein l36; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. 8 d2g1da1 19.1 23 Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:Ribosomal protein S24e 9 c2ghfA_ 19.1 29 PDB header:transcription, metal binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 1; PDBTitle: solution structure of the complete zinc-finger region of2 human zinc-fingers and homeoboxes 1 (zhx1) 10 d2ffsa1 15.4 13 Fold:TBP-like Superfamily:Bet v1-like Family:PA1206-like 11 c1bh0A_ 15.0 31 PDB header:synthetic hormone Chain: A: PDB Molecule:glucagon; PDBTitle: structure of a glucagon analog 12 d2v94a1 14.4 19 Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:Ribosomal protein S24e 13 c1s4xA_ 13.7 20 PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: nmr structure of the integrin b3 cytoplasmic domain in dpc2 micelles 14 c2l3yA_ 13.5 41 PDB header:transcription Chain: A: PDB Molecule:interleukin-6; PDBTitle: solution structure of mouse il-6 15 c3izck_ 11.9 15 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein rpl16 (l13p); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 16 c2ct1A_ 11.4 14 PDB header:transcription Chain: A: PDB Molecule:transcriptional repressor ctcf; PDBTitle: solution structure of the zinc finger domain of2 transcriptional repressor ctcf protein 17 c1tjlD_ 11.3 26 PDB header:transcription Chain: D: PDB Molecule:dnak suppressor protein; PDBTitle: crystal structure of transcription factor dksa from e. coli 18 c1puoA_ 11.0 17 PDB header:allergen Chain: A: PDB Molecule:major allergen i polypeptide, fused chain 2, PDBTitle: crystal structure of fel d 1- the major cat allergen 19 d1rhga_ 9.8 13 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 20 d2b97a1 7.1 16 Fold:Hydrophobin II, HfbII Superfamily:Hydrophobin II, HfbII Family:Hydrophobin II, HfbII 21 d1bgea_ not modelled 7.0 13 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 22 d2ejna1 not modelled 6.9 17 Fold:Uteroglobin-like Superfamily:Uteroglobin-like Family:Uteroglobin-like 23 c2gvmA_ not modelled 6.7 16 PDB header:surface active protein Chain: A: PDB Molecule:hydrophobin-1; PDBTitle: crystal structure of hydrophobin hfbi with detergent 24 d1odma_ not modelled 6.7 15 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Penicillin synthase-like 25 d2diia1 not modelled 6.6 45 Fold:BSD domain-like Superfamily:BSD domain-like Family:BSD domain 26 d1mtyd_ not modelled 6.5 11 Fold:Ferritin-like Superfamily:Ferritin-like Family:Ribonucleotide reductase-like 27 c2ctrA_ not modelled 6.4 18 PDB header:chaperone Chain: A: PDB Molecule:dnaj homolog subfamily b member 9; PDBTitle: solution structure of j-domain from human dnaj subfamily b2 menber 9 28 d1bgca_ not modelled 6.4 13 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Long-chain cytokines 29 c1nauA_ not modelled 6.2 17 PDB header:hormone/growth factor Chain: A: PDB Molecule:glucagon; PDBTitle: nmr solution structure of the glucagon antagonist [deshis1,2 desphe6, glu9]glucagon amide in the presence of3 perdeuterated dodecylphosphocholine micelles 30 c2hu9B_ not modelled 6.1 43 PDB header:metal transport Chain: B: PDB Molecule:mercuric transport protein periplasmic component; PDBTitle: x-ray structure of the archaeoglobus fulgidus copz n-2 terminal domain 31 c2diiA_ not modelled 5.5 45 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 32 d1fmta1 not modelled 5.2 23 Fold:FMT C-terminal domain-like Superfamily:FMT C-terminal domain-like Family:Post formyltransferase domain 33 c2ctdA_ not modelled 5.0 25 PDB header:metal binding protein Chain: A: PDB Molecule:zinc finger protein 512; PDBTitle: solution structure of two zf-c2h2 domains from human zinc2 finger protein 512

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