Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Y	D	N	L	K	S	L	G	I	T	N	P	E	E	I	D	R	Y	S	L	R	Q	E	A	N	N	D	I	L	K	I	Y	F	Q	K	D	K	G	E	F	F	A	K	S	V	K	F	K	Y	P	R	Q	R	K	T	V	V	A	D
Secondary structure
SS confidence
Disorder		?	?	?	?							?													?														?	?	?		?											?	?			?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	V	G	Q	G	Y	K	E	V	Q	E	I	S	P	N	L	R	Y	I	I	D	E	L	D	Q	I	C	Q	R	D	R	S	E	V	D	L	K	R	K	I	L	D	D	L	R	H	L	E	S	V	V	T	N	K	I	S	E	I	E	A
Secondary structure
SS confidence
Disorder		?	?	?	?					?	?		?	?																	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.
Sequence		D	L	E	K	L	T	R	K
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 2dnx chain A Region: 58 - 125 Aligned: 67 Modelled: 68 Confidence: 32.4% Identity: 16% PDB header:transport protein Chain: A: PDB Molecule:syntaxin-12; PDBTitle: solution structure of rsgi ruh-063, an n-terminal domain of2 syntaxin 12 from human cdna Phyre2 PDB 3t97 chain B Region: 87 - 126 Aligned: 40 Modelled: 40 Confidence: 27.8% Identity: 15% PDB header:protein transport Chain: B: PDB Molecule:nuclear pore complex protein nup54; PDBTitle: molecular architecture of the transport channel of the nuclear pore2 complex: nup62/nup54 Phyre2 PDB 1s94 chain A Region: 66 - 125 Aligned: 56 Modelled: 60 Confidence: 24.8% Identity: 18% Fold: STAT-like Superfamily: t-snare proteins Family: t-snare proteins Phyre2 PDB 1s94 chain A Region: 66 - 125 Aligned: 56 Modelled: 60 Confidence: 24.8% Identity: 18% PDB header:endocytosis/exocytosis Chain: A: PDB Molecule:s-syntaxin; PDBTitle: crystal structure of the habc domain of neuronal syntaxin from the2 squid loligo pealei Phyre2 PDB 2dah chain A domain 1 Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 24.2% Identity: 23% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2dna chain A domain 1 Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 23.6% Identity: 14% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2bwb chain A domain 1 Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 21.9% Identity: 14% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2cwb chain A Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 21.8% Identity: 23% PDB header:protein binding Chain: A: PDB Molecule:chimera of immunoglobulin g binding protein g PDBTitle: solution structure of the ubiquitin-associated domain of2 human bmsc-ubp and its complex with ubiquitin Phyre2 PDB 1vej chain A domain 1 Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 21.3% Identity: 23% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 1wr1 chain B Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 20.4% Identity: 14% PDB header:signaling protein Chain: B: PDB Molecule:ubiquitin-like protein dsk2; PDBTitle: the complex sturcture of dsk2p uba with ubiquitin Phyre2 PDB 1m1j chain A Region: 58 - 123 Aligned: 66 Modelled: 66 Confidence: 18.5% Identity: 14% PDB header:blood clotting Chain: A: PDB Molecule:fibrinogen alpha subunit; PDBTitle: crystal structure of native chicken fibrinogen with two different2 bound ligands Phyre2 PDB 1vp7 chain D Region: 69 - 126 Aligned: 58 Modelled: 58 Confidence: 18.5% Identity: 10% PDB header:hydrolase Chain: D: PDB Molecule:exodeoxyribonuclease vii small subunit; PDBTitle: crystal structure of exodeoxyribonuclease vii small subunit2 (np_881400.1) from bordetella pertussis at 2.40 a resolution Phyre2 PDB 2dna chain A Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 17.6% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:unnamed protein product; PDBTitle: solution structure of rsgi ruh-056, a uba domain from mouse2 cdna Phyre2 PDB 2dah chain A Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 16.8% Identity: 23% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ubiquilin-3; PDBTitle: solution structure of the c-terminal uba domain in the2 human ubiquilin 3 Phyre2 PDB 2jy5 chain A Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 16.0% Identity: 18% PDB header:signaling protein Chain: A: PDB Molecule:ubiquilin-1; PDBTitle: nmr structure of ubiquilin 1 uba domain Phyre2 PDB 3a2a chain C Region: 94 - 128 Aligned: 34 Modelled: 35 Confidence: 15.8% Identity: 32% PDB header:transport protein Chain: C: PDB Molecule:voltage-gated hydrogen channel 1; PDBTitle: the structure of the carboxyl-terminal domain of the human voltage-2 gated proton channel hv1 Phyre2 PDB 1deq chain O Region: 67 - 125 Aligned: 59 Modelled: 59 Confidence: 14.3% Identity: 10% PDB header: PDB COMPND: Phyre2 PDB 2eam chain A Region: 3 - 18 Aligned: 16 Modelled: 16 Confidence: 11.7% Identity: 31% PDB header:signaling protein Chain: A: PDB Molecule:putative 47 kda protein; PDBTitle: solution structure of the n-terminal sam-domain of a human2 putative 47 kda protein Phyre2 PDB 1ydi chain B Region: 105 - 122 Aligned: 18 Modelled: 18 Confidence: 11.6% Identity: 22% PDB header:cell adhesion, structural protein Chain: B: PDB Molecule:alpha-actinin 4; PDBTitle: human vinculin head domain (vh1, 1-258) in complex with2 human alpha-actinin's vinculin-binding site (residues 731-3 760) Phyre2 PDB 1o5h chain A Region: 54 - 124 Aligned: 66 Modelled: 71 Confidence: 10.4% Identity: 15% Fold: Methenyltetrahydrofolate cyclohydrolase-like Superfamily: Methenyltetrahydrofolate cyclohydrolase-like Family: Methenyltetrahydrofolate cyclohydrolase-like Phyre2 1 c2dnxA_ 2 c3t97B_ 3 d1s94a_ 4 c1s94A_ 5 d2daha1 6 d2dnaa1 7 d2bwba1 8 c2cwbA_ 9 d1veja1 10 c1wr1B_ 11 c1m1jA_ 12 c1vp7D_ 13 c2dnaA_ 14 c2dahA_ 15 c2jy5A_ 16 c3a2aC_ 17 c1deqO_ 18 c2eamA_ 19 c1ydiB_ 20 d1o5ha_ 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

Detailed template information

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

1 c2dnxA_ 32.4 16 PDB header:transport protein Chain: A: PDB Molecule:syntaxin-12; PDBTitle: solution structure of rsgi ruh-063, an n-terminal domain of2 syntaxin 12 from human cdna 2 c3t97B_ 27.8 15 PDB header:protein transport Chain: B: PDB Molecule:nuclear pore complex protein nup54; PDBTitle: molecular architecture of the transport channel of the nuclear pore2 complex: nup62/nup54 3 d1s94a_ 24.8 18 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 4 c1s94A_ 24.8 18 PDB header:endocytosis/exocytosis Chain: A: PDB Molecule:s-syntaxin; PDBTitle: crystal structure of the habc domain of neuronal syntaxin from the2 squid loligo pealei 5 d2daha1 24.2 23 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 6 d2dnaa1 23.6 14 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 7 d2bwba1 21.9 14 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 8 c2cwbA_ 21.8 23 PDB header:protein binding Chain: A: PDB Molecule:chimera of immunoglobulin g binding protein g PDBTitle: solution structure of the ubiquitin-associated domain of2 human bmsc-ubp and its complex with ubiquitin 9 d1veja1 21.3 23 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 10 c1wr1B_ 20.4 14 PDB header:signaling protein Chain: B: PDB Molecule:ubiquitin-like protein dsk2; PDBTitle: the complex sturcture of dsk2p uba with ubiquitin 11 c1m1jA_ 18.5 14 PDB header:blood clotting Chain: A: PDB Molecule:fibrinogen alpha subunit; PDBTitle: crystal structure of native chicken fibrinogen with two different2 bound ligands 12 c1vp7D_ 18.5 10 PDB header:hydrolase Chain: D: PDB Molecule:exodeoxyribonuclease vii small subunit; PDBTitle: crystal structure of exodeoxyribonuclease vii small subunit2 (np_881400.1) from bordetella pertussis at 2.40 a resolution 13 c2dnaA_ 17.6 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:unnamed protein product; PDBTitle: solution structure of rsgi ruh-056, a uba domain from mouse2 cdna 14 c2dahA_ 16.8 23 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:ubiquilin-3; PDBTitle: solution structure of the c-terminal uba domain in the2 human ubiquilin 3 15 c2jy5A_ 16.0 18 PDB header:signaling protein Chain: A: PDB Molecule:ubiquilin-1; PDBTitle: nmr structure of ubiquilin 1 uba domain 16 c3a2aC_ 15.8 32 PDB header:transport protein Chain: C: PDB Molecule:voltage-gated hydrogen channel 1; PDBTitle: the structure of the carboxyl-terminal domain of the human voltage-2 gated proton channel hv1 17 c1deqO_ 14.3 10 PDB header: PDB COMPND: 18 c2eamA_ 11.7 31 PDB header:signaling protein Chain: A: PDB Molecule:putative 47 kda protein; PDBTitle: solution structure of the n-terminal sam-domain of a human2 putative 47 kda protein 19 c1ydiB_ 11.6 22 PDB header:cell adhesion, structural protein Chain: B: PDB Molecule:alpha-actinin 4; PDBTitle: human vinculin head domain (vh1, 1-258) in complex with2 human alpha-actinin's vinculin-binding site (residues 731-3 760) 20 d1o5ha_ 10.4 15 Fold:Methenyltetrahydrofolate cyclohydrolase-like Superfamily:Methenyltetrahydrofolate cyclohydrolase-like Family:Methenyltetrahydrofolate cyclohydrolase-like 21 c1fllA_ not modelled 10.3 13 PDB header:apoptosis Chain: A: PDB Molecule:tnf receptor associated factor 3; PDBTitle: molecular basis for cd40 signaling mediated by traf3 22 c4a1cD_ not modelled 9.8 19 PDB header:ribosome Chain: D: PDB Molecule:60s ribosomal protein l11; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 4. 23 c2dl0A_ not modelled 9.5 31 PDB header:signaling protein Chain: A: PDB Molecule:sam and sh3 domain-containing protein 1; PDBTitle: solution structure of the sam-domain of the sam and sh32 domain containing protein 1 24 c1n73C_ not modelled 8.7 10 PDB header:blood clotting Chain: C: PDB Molecule:fibrin gamma chain; PDBTitle: fibrin d-dimer, lamprey complexed with the peptide ligand: gly-his-2 arg-pro-amide 25 c2k4pA_ not modelled 8.2 19 PDB header:signaling protein Chain: A: PDB Molecule:phosphatidylinositol-3,4,5-trisphosphate 5- PDBTitle: solution structure of ship2-sam 26 d1q08a_ not modelled 8.1 21 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 27 d1tafa_ not modelled 8.0 27 Fold:Histone-fold Superfamily:Histone-fold Family:TBP-associated factors, TAFs 28 d2pa2a1 not modelled 7.7 26 Fold:alpha/beta-Hammerhead Superfamily:Ribosomal protein L16p/L10e Family:Ribosomal protein L10e 29 c3c98B_ not modelled 7.5 12 PDB header:endocytosis/exocytosis Chain: B: PDB Molecule:syntaxin-1a; PDBTitle: revised structure of the munc18a-syntaxin1 complex 30 c2qkqA_ not modelled 7.4 19 PDB header:transferase Chain: A: PDB Molecule:ephrin type-b receptor 4; PDBTitle: structure of the sam domain of human ephrin type-b receptor2 4 31 d1xn7a_ not modelled 7.4 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Hypothetical protein YhgG 32 c2d46A_ not modelled 7.3 58 PDB header:metal transport Chain: A: PDB Molecule:calcium channel, voltage-dependent, beta 4 PDBTitle: solution structure of the human beta4a-a domain 33 d1b0xa_ not modelled 7.2 31 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 34 c1b0xA_ not modelled 7.2 31 PDB header:transferase Chain: A: PDB Molecule:protein (epha4 receptor tyrosine kinase); PDBTitle: the crystal structure of an eph receptor sam domain reveals2 a mechanism for modular dimerization. 35 d1v38a_ not modelled 6.8 38 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 36 d1ug7a_ not modelled 6.8 46 Fold:Four-helical up-and-down bundle Superfamily:Domain from hypothetical 2610208m17rik protein Family:Domain from hypothetical 2610208m17rik protein 37 c2cp8A_ not modelled 6.7 15 PDB header:protein binding Chain: A: PDB Molecule:next to brca1 gene 1 protein; PDBTitle: solution structure of the rsgi ruh-046, a uba domain from2 human next to brca1 gene 1 protein (kiaa0049 protein)3 r923h variant 38 c2ke7A_ not modelled 6.6 31 PDB header:protein binding Chain: A: PDB Molecule:ankyrin repeat and sterile alpha motif domain- PDBTitle: nmr structure of the first sam domain from aida1 39 c1sfcD_ not modelled 6.1 18 PDB header:transport protein Chain: D: PDB Molecule:protein (snap-25b); PDBTitle: neuronal synaptic fusion complex 40 d1ez3a_ not modelled 6.0 17 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 41 c2fxpA_ not modelled 5.8 15 PDB header:viral protein Chain: A: PDB Molecule:spike glycoprotein; PDBTitle: solution structure of the sars-coronavirus hr2 domain 42 c3dpqE_ not modelled 5.7 24 PDB header:chaperone, peptide binding protein Chain: E: PDB Molecule:chaperone protein dnak; PDBTitle: crystal structure of the substrate binding domain of e.2 coli dnak in complex with a long pyrrhocoricin-derived3 inhibitor peptide (form b) 43 c2e8nA_ not modelled 5.6 31 PDB header:transferase, signaling protein Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: solution structure of the c-terminal sam-domain of ephaa2:2 ephrin type-a receptor 2 precursor (ec 2.7.10.1) 44 c3pvpA_ not modelled 5.6 13 PDB header:dna binding protein/dna Chain: A: PDB Molecule:chromosomal replication initiator protein dnaa; PDBTitle: structure of mycobacterium tuberculosis dnaa-dbd in complex with box22 dna 45 c2npsD_ not modelled 5.5 19 PDB header:transport protein Chain: D: PDB Molecule:syntaxin-6; PDBTitle: crystal structure of the early endosomal snare complex 46 c2zshB_ not modelled 5.3 27 PDB header:hormone receptor Chain: B: PDB Molecule:della protein gai; PDBTitle: structural basis of gibberellin(ga3)-induced della2 recognition by the gibberellin receptor 47 d1sgga_ not modelled 5.3 13 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 48 d1gm5a1 not modelled 5.2 17 Fold:Four-helical up-and-down bundle Superfamily:RecG, N-terminal domain Family:RecG, N-terminal domain 49 c3zqsB_ not modelled 5.2 19 PDB header:ligase Chain: B: PDB Molecule:e3 ubiquitin-protein ligase fancl; PDBTitle: human fancl central domain

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