Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	I	K	H	E	H	I	E	S	V	L	F	A	L	A	A	E	K	G	Q	A	W	V	A	N	A	I	T	E	E	Y	L	R	Q	G	G	G	E	L	P	L	V	P	G	K	D	W	N	N	Q	Q	N	I	Y	H	R	W	L	K
Secondary structure
SS confidence
Disorder		?	?	?	?																																		?						?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	E	T	K	T	Q	R	E	K	I	Q	K	L	I	P	A	I	L	A	I	L	P	R	E	L	R	H	R	L	C	I	F	D	T	L	E	R	R	A	L	L	A	A	Q	E	A	L	S	T	A	I	D	A	H	D	D	A	V	Q	A
Secondary structure
SS confidence
Disorder			?																			?	?							?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140
Sequence		V	Y	R	K	A	H	F	S	G	G	G	S	S	D	D	S	V	I	V	H
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 3c4r chain C Region: 2 - 127 Aligned: 123 Modelled: 125 Confidence: 100.0% Identity: 34% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein encoded by2 cryptic prophage Phyre2 PDB 2fi2 chain A domain 1 Region: 27 - 103 Aligned: 76 Modelled: 77 Confidence: 93.8% Identity: 21% Fold: Acyl carrier protein-like Superfamily: Retrovirus capsid dimerization domain-like Family: SCAN domain Phyre2 PDB 3lhr chain A Region: 27 - 112 Aligned: 85 Modelled: 86 Confidence: 93.8% Identity: 25% PDB header:transcription regulator Chain: A: PDB Molecule:zinc finger protein 24; PDBTitle: crystal structure of the scan domain from human znf24 Phyre2 PDB 1y7q chain A domain 1 Region: 27 - 108 Aligned: 81 Modelled: 82 Confidence: 93.0% Identity: 19% Fold: Acyl carrier protein-like Superfamily: Retrovirus capsid dimerization domain-like Family: SCAN domain Phyre2 PDB 1nln chain A Region: 41 - 76 Aligned: 35 Modelled: 36 Confidence: 52.0% Identity: 23% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Adenain-like Phyre2 PDB 3ikm chain D Region: 23 - 42 Aligned: 20 Modelled: 20 Confidence: 29.7% Identity: 25% PDB header:transferase Chain: D: PDB Molecule:dna polymerase subunit gamma-1; PDBTitle: crystal structure of human mitochondrial dna polymerase2 holoenzyme Phyre2 PDB 2ek0 chain B Region: 20 - 45 Aligned: 26 Modelled: 26 Confidence: 22.0% Identity: 31% PDB header:metal binding protein Chain: B: PDB Molecule:stage v sporulation protein s (spovs) related protein; PDBTitle: stage v sporolation protein s (spovs) from thermus thermophilus zinc2 form Phyre2 PDB 2ao9 chain A domain 1 Region: 9 - 110 Aligned: 101 Modelled: 102 Confidence: 22.0% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Nanomeric phage protein-like Phyre2 PDB 2nr5 chain A domain 1 Region: 35 - 64 Aligned: 30 Modelled: 0 Confidence: 20.6% Identity: 23% Fold: Ferritin-like Superfamily: SO2669-like Family: SO2669-like Phyre2 PDB 2lke chain A Region: 124 - 134 Aligned: 11 Modelled: 11 Confidence: 19.4% Identity: 36% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-m; PDBTitle: structures and interaction analyses of the integrin alpha-m beta-22 cytoplasmic tails Phyre2 PDB 2kng chain A Region: 10 - 34 Aligned: 25 Modelled: 25 Confidence: 18.9% Identity: 12% PDB header:dna binding protein Chain: A: PDB Molecule:protein lsr2; PDBTitle: solution structure of c-domain of lsr2 Phyre2 PDB 2lch chain A Region: 6 - 77 Aligned: 72 Modelled: 72 Confidence: 16.8% Identity: 13% PDB header:de novo protein Chain: A: PDB Molecule:protein or38; PDBTitle: solution nmr structure of a protein with a redesigned hydrophobic2 core, northeast structural genomics consortium target or38 Phyre2 PDB 2j8p chain A Region: 70 - 89 Aligned: 20 Modelled: 20 Confidence: 16.7% Identity: 30% PDB header:nuclear protein Chain: A: PDB Molecule:cleavage stimulation factor 64 kda subunit; PDBTitle: nmr structure of c-terminal domain of human cstf-64 Phyre2 PDB 1pqv chain S Region: 37 - 91 Aligned: 55 Modelled: 55 Confidence: 15.2% Identity: 16% PDB header:transferase/transcription Chain: S: PDB Molecule:transcription elongation factor s-ii; PDBTitle: rna polymerase ii-tfiis complex Phyre2 PDB 1y1y chain S Region: 37 - 91 Aligned: 55 Modelled: 55 Confidence: 15.2% Identity: 16% PDB header:transferase/transcription/dna-rna hybrid Chain: S: PDB Molecule:transcription elongation factor s-ii; PDBTitle: rna polymerase ii-tfiis-dna/rna complex Phyre2 PDB 3pcq chain M Region: 62 - 79 Aligned: 18 Modelled: 18 Confidence: 13.3% Identity: 33% PDB header:photosynthesis Chain: M: PDB Molecule:photosystem i reaction center subunit xii; PDBTitle: femtosecond x-ray protein nanocrystallography Phyre2 PDB 2qxv chain B Region: 50 - 57 Aligned: 8 Modelled: 8 Confidence: 12.7% Identity: 50% PDB header:gene regulation Chain: B: PDB Molecule:enhancer of zeste homolog 2; PDBTitle: structural basis of ezh2 recognition by eed Phyre2 PDB 3ndq chain A Region: 52 - 93 Aligned: 41 Modelled: 42 Confidence: 11.6% Identity: 12% PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor a protein 1; PDBTitle: structure of human tfiis domain ii Phyre2 PDB 2ejq chain A domain 1 Region: 67 - 91 Aligned: 25 Modelled: 25 Confidence: 11.5% Identity: 16% Fold: Zincin-like Superfamily: Metalloproteases ("zincins"), catalytic domain Family: TTHA0227-like Phyre2 PDB 2fs1 chain A Region: 68 - 84 Aligned: 17 Modelled: 17 Confidence: 11.4% Identity: 41% PDB header:protein binding Chain: A: PDB Molecule:psd-1; PDBTitle: solution structure of psd-1 Phyre2 1 c3c4rC_ 2 d2fi2a1 3 c3lhrA_ 4 d1y7qa1 5 d1nlna_ 6 c3ikmD_ 7 c2ek0B_ 8 d2ao9a1 9 d2nr5a1 10 c2lkeA_ 11 c2kngA_ 12 c2lchA_ 13 c2j8pA_ 14 c1pqvS_ 15 c1y1yS_ 16 c3pcqM_ 17 c2qxvB_ 18 c3ndqA_ 19 d2ejqa1 20 c2fs1A_ 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 50

Detailed template information

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

1 c3c4rC_ 100.0 34 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein encoded by2 cryptic prophage 2 d2fi2a1 93.8 21 Fold:Acyl carrier protein-like Superfamily:Retrovirus capsid dimerization domain-like Family:SCAN domain 3 c3lhrA_ 93.8 25 PDB header:transcription regulator Chain: A: PDB Molecule:zinc finger protein 24; PDBTitle: crystal structure of the scan domain from human znf24 4 d1y7qa1 93.0 19 Fold:Acyl carrier protein-like Superfamily:Retrovirus capsid dimerization domain-like Family:SCAN domain 5 d1nlna_ 52.0 23 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Adenain-like 6 c3ikmD_ 29.7 25 PDB header:transferase Chain: D: PDB Molecule:dna polymerase subunit gamma-1; PDBTitle: crystal structure of human mitochondrial dna polymerase2 holoenzyme 7 c2ek0B_ 22.0 31 PDB header:metal binding protein Chain: B: PDB Molecule:stage v sporulation protein s (spovs) related protein; PDBTitle: stage v sporolation protein s (spovs) from thermus thermophilus zinc2 form 8 d2ao9a1 22.0 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Nanomeric phage protein-like 9 d2nr5a1 20.6 23 Fold:Ferritin-like Superfamily:SO2669-like Family:SO2669-like 10 c2lkeA_ 19.4 36 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-m; PDBTitle: structures and interaction analyses of the integrin alpha-m beta-22 cytoplasmic tails 11 c2kngA_ 18.9 12 PDB header:dna binding protein Chain: A: PDB Molecule:protein lsr2; PDBTitle: solution structure of c-domain of lsr2 12 c2lchA_ 16.8 13 PDB header:de novo protein Chain: A: PDB Molecule:protein or38; PDBTitle: solution nmr structure of a protein with a redesigned hydrophobic2 core, northeast structural genomics consortium target or38 13 c2j8pA_ 16.7 30 PDB header:nuclear protein Chain: A: PDB Molecule:cleavage stimulation factor 64 kda subunit; PDBTitle: nmr structure of c-terminal domain of human cstf-64 14 c1pqvS_ 15.2 16 PDB header:transferase/transcription Chain: S: PDB Molecule:transcription elongation factor s-ii; PDBTitle: rna polymerase ii-tfiis complex 15 c1y1yS_ 15.2 16 PDB header:transferase/transcription/dna-rna hybrid Chain: S: PDB Molecule:transcription elongation factor s-ii; PDBTitle: rna polymerase ii-tfiis-dna/rna complex 16 c3pcqM_ 13.3 33 PDB header:photosynthesis Chain: M: PDB Molecule:photosystem i reaction center subunit xii; PDBTitle: femtosecond x-ray protein nanocrystallography 17 c2qxvB_ 12.7 50 PDB header:gene regulation Chain: B: PDB Molecule:enhancer of zeste homolog 2; PDBTitle: structural basis of ezh2 recognition by eed 18 c3ndqA_ 11.6 12 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor a protein 1; PDBTitle: structure of human tfiis domain ii 19 d2ejqa1 11.5 16 Fold:Zincin-like Superfamily:Metalloproteases ("zincins"), catalytic domain Family:TTHA0227-like 20 c2fs1A_ 11.4 41 PDB header:protein binding Chain: A: PDB Molecule:psd-1; PDBTitle: solution structure of psd-1 21 d1yqga1 not modelled 11.4 19 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:ProC C-terminal domain-like 22 d1tqga_ not modelled 11.1 17 Fold:Four-helical up-and-down bundle Superfamily:Histidine-containing phosphotransfer domain, HPT domain Family:Chemotaxis protein CheA P1 domain 23 d2jn6a1 not modelled 10.9 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 24 c2ao9H_ not modelled 10.8 13 PDB header:structural genomics, unknown function Chain: H: PDB Molecule:phage protein; PDBTitle: structural genomics, the crystal structure of a phage protein2 (phbc6a51) from bacillus cereus atcc 14579 25 c2dmeA_ not modelled 10.4 7 PDB header:metal binding protein Chain: A: PDB Molecule:phd finger protein 3; PDBTitle: solution structure of the tfiis domain ii of human phd2 finger protein 3 26 c2rodB_ not modelled 10.1 24 PDB header:apoptosis Chain: B: PDB Molecule:noxa; PDBTitle: solution structure of mcl-1 complexed with noxaa 27 d1pu1a_ not modelled 9.3 16 Fold:Hypothetical protein MTH677 Superfamily:Hypothetical protein MTH677 Family:Hypothetical protein MTH677 28 d2fy9a1 not modelled 9.2 40 Fold:Double-split beta-barrel Superfamily:AbrB/MazE/MraZ-like Family:AbrB N-terminal domain-like 29 d1yfba1 not modelled 8.7 40 Fold:Double-split beta-barrel Superfamily:AbrB/MazE/MraZ-like Family:AbrB N-terminal domain-like 30 c3sohB_ not modelled 8.3 20 PDB header:motor protein Chain: B: PDB Molecule:flagellar motor switch protein flig; PDBTitle: architecture of the flagellar rotor 31 c2ro5B_ not modelled 8.1 33 PDB header:transcription Chain: B: PDB Molecule:stage v sporulation protein t; PDBTitle: rdc-refined solution structure of the n-terminal dna2 recognition domain of the bacillus subtilis transition-3 state regulator spovt 32 c2jssA_ not modelled 8.0 12 PDB header:chaperone/nuclear protein Chain: A: PDB Molecule:chimera of histone h2b.1 and histone h2a.z; PDBTitle: nmr structure of chaperone chz1 complexed with histone2 h2a.z-h2b 33 c3fblA_ not modelled 7.7 33 PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of orf132 of the archaeal virus acidianus2 filamentous virus 1 (afv1) 34 c1jb0M_ not modelled 7.7 32 PDB header:photosynthesis Chain: M: PDB Molecule:photosystem 1 reaction centre subunit xii; PDBTitle: crystal structure of photosystem i: a photosynthetic reaction center2 and core antenna system from cyanobacteria 35 d1jb0m_ not modelled 7.7 32 Fold:Single transmembrane helix Superfamily:Subunit XII of photosystem I reaction centre, PsaM Family:Subunit XII of photosystem I reaction centre, PsaM 36 d2ahra1 not modelled 7.6 17 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:ProC C-terminal domain-like 37 d1tp6a_ not modelled 7.3 24 Fold:Cystatin-like Superfamily:NTF2-like Family:PA1314-like 38 d1llaa1 not modelled 6.9 17 Fold:Hemocyanin, N-terminal domain Superfamily:Hemocyanin, N-terminal domain Family:Hemocyanin, N-terminal domain 39 c3bowC_ not modelled 6.3 33 PDB header:hydrolase/hydrolase inhibitor Chain: C: PDB Molecule:calpastatin; PDBTitle: structure of m-calpain in complex with calpastatin 40 d2obpa1 not modelled 6.1 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ReutB4095-like 41 c2xoaA_ not modelled 6.1 25 PDB header:metal transport Chain: A: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of the n-terminal three domains of the2 skeletal muscle ryanodine receptor (ryr1) 42 d1hc1a1 not modelled 6.1 20 Fold:Hemocyanin, N-terminal domain Superfamily:Hemocyanin, N-terminal domain Family:Hemocyanin, N-terminal domain 43 d1keaa_ not modelled 6.0 13 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 44 c3fidA_ not modelled 5.9 27 PDB header:membrane protein Chain: A: PDB Molecule:putative outer membrane protein (lpxr); PDBTitle: lpxr from salmonella typhimurium 45 d2r31a1 not modelled 5.9 15 Fold:ATP12-like Superfamily:ATP12-like Family:ATP12-like 46 c1whsB_ not modelled 5.6 17 PDB header:serine carboxypeptidase Chain: B: PDB Molecule:serine carboxypeptidase ii; PDBTitle: structure of the complex of l-benzylsuccinate with wheat serine2 carboxypeptidase ii at 2.0 angstroms resolution 47 c1btqA_ not modelled 5.2 44 PDB header:anion transport Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 48 c1btrA_ not modelled 5.2 44 PDB header:anion transport Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 49 d1ouoa_ not modelled 5.1 21 Fold:His-Me finger endonucleases Superfamily:His-Me finger endonucleases Family:Endonuclease I 50 c2gqcA_ not modelled 5.1 27 PDB header:hydrolase Chain: A: PDB Molecule:rhomboid intramembrane protease; PDBTitle: solution structure of the n-terminal domain of rhomboid intramembrane2 protease from p. aeruginosa

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

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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