Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	S	L	I	N	N	A	M	S	G	L	N	A	A	Q	A	A	L	N	T	A	S	N	N	I	S	S	Y	N	V	A	G	Y	T	R	Q	T	T	I	M	A	Q	A	N	S	T	L	G	A	G	G	W	V	G	N	G	V	Y	V
Secondary structure
SS confidence
Disorder		?	?	?																				?																		?	?	?	?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	G	V	Q	R	E	Y	D	A	F	I	T	N	Q	L	R	A	A	Q	T	Q	S	S	G	L	T	A	R	Y	E	Q	M	S	K	I	D	N	M	L	S	T	S	T	S	S	L	A	T	Q	M	Q	D	F	F	T	S	L	Q	T	L
Secondary structure
SS confidence
Disorder																																									?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	S	N	A	E	D	P	A	A	R	Q	A	L	I	G	K	S	E	G	L	V	N	Q	F	K	T	T	D	Q	Y	L	R	D	Q	D	K	Q	V	N	I	A	I	G	A	S	V	D	Q	I	N	N	Y	A	K	Q	I	A	S	L	N
Secondary structure
SS confidence
Disorder					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	Q	I	S	R	L	T	G	V	G	A	G	A	S	P	N	N	L	L	D	Q	R	D	Q	L	V	S	E	L	N	Q	I	V	G	V	E	V	S	V	Q	D	G	G	T	Y	N	I	T	M	A	N	G	Y	S	L	V	Q	G	S	T
Secondary structure
SS confidence
Disorder						?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	R	Q	L	A	A	V	P	S	S	A	D	P	S	R	T	T	V	A	Y	V	D	G	T	A	G	N	I	E	I	P	E	K	L	L	N	T	G	S	L	G	G	I	L	T	F	R	S	Q	D	L	D	Q	T	R	N	T	L	G	Q
Secondary structure
SS confidence
Disorder								?	?	?	?	?	?	?	?									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		L	A	L	A	F	A	E	A	F	N	T	Q	H	K	A	G	F	D	A	N	G	D	A	G	E	D	F	F	A	I	G	K	P	A	V	L	Q	N	T	K	N	K	G	D	V	A	I	G	A	T	V	T	D	A	S	A	V	L	A	T
Secondary structure
SS confidence
Disorder																?			?	?			?								?	?	?	?	?	?	?	?	?		?																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		D	Y	K	I	S	F	D	N	N	Q	W	Q	V	T	R	L	A	S	N	T	T	F	T	V	T	P	D	A	N	G	K	V	A	F	D	G	L	E	L	T	F	T	G	T	P	A	V	N	D	S	F	T	L	K	P	V	S	D	A	I
Secondary structure
SS confidence
Disorder																			?	?	?			?	?			?	?	?	?								?		?	?		?	?	?	?	?	?	?					?			?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		V	N	M	D	V	L	I	T	D	E	A	K	I	A	M	A	S	E	E	D	A	G	D	S	D	N	R	N	G	Q	A	L	L	D	L	Q	S	N	S	K	T	V	G	G	A	K	S	F	N	D	A	Y	A	S	L	V	S	D	I	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?							?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		N	K	T	A	T	L	K	T	S	S	A	T	Q	G	N	V	V	T	Q	L	S	N	Q	Q	Q	S	I	S	G	V	N	L	D	E	E	Y	G	N	L	Q	R	F	Q	Q	Y	Y	L	A	N	A	Q	V	L	Q	T	A	N	A	I	F
Secondary structure
SS confidence
Disorder		?	?																								?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		D	A	L	I	N	I	R
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 2d4y chain A Region: 68 - 506 Aligned: 428 Modelled: 437 Confidence: 100.0% Identity: 75% PDB header:structural protein Chain: A: PDB Molecule:flagellar hook-associated protein 1; PDBTitle: crystal structure of a 49k fragment of hap1 (flgk) Phyre2 PDB 3a69 chain A Region: 4 - 547 Aligned: 343 Modelled: 358 Confidence: 100.0% Identity: 19% PDB header:motor protein Chain: A: PDB Molecule:flagellar hook protein flge; PDBTitle: atomic model of the bacterial flagellar hook based on2 docking an x-ray derived structure and terminal two alpha-3 helices into an 7.1 angstrom resolution cryoem map Phyre2 PDB 1wlg chain A Region: 75 - 508 Aligned: 288 Modelled: 304 Confidence: 99.4% Identity: 15% Fold: Flagellar hook protein flgE Superfamily: Flagellar hook protein flgE Family: Flagellar hook protein flgE Phyre2 PDB 1ucu chain A Region: 121 - 546 Aligned: 405 Modelled: 409 Confidence: 95.9% Identity: 14% Fold: Phase 1 flagellin Superfamily: Phase 1 flagellin Family: Phase 1 flagellin Phyre2 PDB 3k8v chain B Region: 470 - 529 Aligned: 60 Modelled: 60 Confidence: 88.6% Identity: 18% PDB header:structural protein Chain: B: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c20 Phyre2 PDB 1ory chain B Region: 510 - 546 Aligned: 37 Modelled: 37 Confidence: 55.5% Identity: 19% PDB header:chaperone Chain: B: PDB Molecule:flagellin; PDBTitle: flagellar export chaperone in complex with its cognate binding partner Phyre2 PDB 2cos chain A Region: 538 - 545 Aligned: 8 Modelled: 8 Confidence: 13.4% Identity: 25% PDB header:transferase Chain: A: PDB Molecule:serine/threonine protein kinase lats2; PDBTitle: solution structure of rsgi ruh-038, a uba domain from mouse2 lats2 (large tumor suppressor homolog 2) Phyre2 PDB 1y02 chain A Region: 514 - 524 Aligned: 11 Modelled: 11 Confidence: 8.0% Identity: 45% PDB header:metal binding protein Chain: A: PDB Molecule:fyve-ring finger protein sakura; PDBTitle: crystal structure of a fyve-type domain from caspase2 regulator carp2 Phyre2 PDB 2c5r chain A domain 1 Region: 514 - 526 Aligned: 13 Modelled: 13 Confidence: 7.8% Identity: 31% Fold: Phage replication organizer domain Superfamily: Phage replication organizer domain Family: Phage replication organizer domain Phyre2 PDB 1lvo chain A Region: 25 - 39 Aligned: 15 Modelled: 15 Confidence: 7.1% Identity: 13% Fold: Trypsin-like serine proteases Superfamily: Trypsin-like serine proteases Family: Viral cysteine protease of trypsin fold Phyre2 PDB 2kxw chain B Region: 514 - 526 Aligned: 13 Modelled: 13 Confidence: 7.0% Identity: 23% PDB header:calcium-binding protein/metal transport Chain: B: PDB Molecule:sodium channel protein type 2 subunit alpha; PDBTitle: structure of the c-domain fragment of apo calmodulin bound to the iq2 motif of nav1.2 Phyre2 PDB 2q6f chain B Region: 25 - 39 Aligned: 15 Modelled: 15 Confidence: 6.9% Identity: 7% PDB header:hydrolase Chain: B: PDB Molecule:infectious bronchitis virus (ibv) main protease; PDBTitle: crystal structure of infectious bronchitis virus (ibv) main2 protease in complex with a michael acceptor inhibitor n3 Phyre2 PDB 3kf6 chain B Region: 29 - 51 Aligned: 23 Modelled: 23 Confidence: 6.8% Identity: 26% PDB header:structural protein Chain: B: PDB Molecule:protein ten1; PDBTitle: crystal structure of s. pombe stn1-ten1 complex Phyre2 PDB 2duc chain A domain 1 Region: 25 - 39 Aligned: 15 Modelled: 15 Confidence: 6.5% Identity: 13% Fold: Trypsin-like serine proteases Superfamily: Trypsin-like serine proteases Family: Viral cysteine protease of trypsin fold Phyre2 PDB 1nrj chain A Region: 26 - 34 Aligned: 9 Modelled: 9 Confidence: 6.4% Identity: 22% Fold: Profilin-like Superfamily: SNARE-like Family: SRP alpha N-terminal domain-like Phyre2 PDB 2kgb chain I Region: 536 - 547 Aligned: 12 Modelled: 12 Confidence: 5.5% Identity: 42% PDB header:contractile protein/ca binding protein Chain: I: PDB Molecule:troponin i, cardiac muscle; PDBTitle: nmr solution of the regulatory domain cardiac f77w-troponin2 c in complex with the cardiac troponin i 144-163 switch3 peptide Phyre2 PDB 2l1r chain B Region: 536 - 547 Aligned: 12 Modelled: 12 Confidence: 5.5% Identity: 42% PDB header:metal binding protein Chain: B: PDB Molecule:troponin i; PDBTitle: the structure of the calcium-sensitizer, dfbp-o, in complex with the2 n-domain of troponin c and the switch region of troponin i Phyre2 1 c2d4yA_ 2 c3a69A_ 3 d1wlga_ 4 d1ucua_ 5 c3k8vB_ 6 c1oryB_ 7 c2cosA_ 8 c1y02A_ 9 d2c5ra1 10 d1lvoa_ 11 c2kxwB_ 12 c2q6fB_ 13 c3kf6B_ 14 d2duca1 15 d1nrja_ 16 c2kgbI_ 17 c2l1rB_

Detailed template information

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

1 c2d4yA_ 100.0 75 PDB header:structural protein Chain: A: PDB Molecule:flagellar hook-associated protein 1; PDBTitle: crystal structure of a 49k fragment of hap1 (flgk) 2 c3a69A_ 100.0 19 PDB header:motor protein Chain: A: PDB Molecule:flagellar hook protein flge; PDBTitle: atomic model of the bacterial flagellar hook based on2 docking an x-ray derived structure and terminal two alpha-3 helices into an 7.1 angstrom resolution cryoem map 3 d1wlga_ 99.4 15 Fold:Flagellar hook protein flgE Superfamily:Flagellar hook protein flgE Family:Flagellar hook protein flgE 4 d1ucua_ 95.9 14 Fold:Phase 1 flagellin Superfamily:Phase 1 flagellin Family:Phase 1 flagellin 5 c3k8vB_ 88.6 18 PDB header:structural protein Chain: B: PDB Molecule:flagellin homolog; PDBTitle: crysatl structure of a bacterial cell-surface flagellin n20c20 6 c1oryB_ 55.5 19 PDB header:chaperone Chain: B: PDB Molecule:flagellin; PDBTitle: flagellar export chaperone in complex with its cognate binding partner 7 c2cosA_ 13.4 25 PDB header:transferase Chain: A: PDB Molecule:serine/threonine protein kinase lats2; PDBTitle: solution structure of rsgi ruh-038, a uba domain from mouse2 lats2 (large tumor suppressor homolog 2) 8 c1y02A_ 8.0 45 PDB header:metal binding protein Chain: A: PDB Molecule:fyve-ring finger protein sakura; PDBTitle: crystal structure of a fyve-type domain from caspase2 regulator carp2 9 d2c5ra1 7.8 31 Fold:Phage replication organizer domain Superfamily:Phage replication organizer domain Family:Phage replication organizer domain 10 d1lvoa_ 7.1 13 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral cysteine protease of trypsin fold 11 c2kxwB_ 7.0 23 PDB header:calcium-binding protein/metal transport Chain: B: PDB Molecule:sodium channel protein type 2 subunit alpha; PDBTitle: structure of the c-domain fragment of apo calmodulin bound to the iq2 motif of nav1.2 12 c2q6fB_ 6.9 7 PDB header:hydrolase Chain: B: PDB Molecule:infectious bronchitis virus (ibv) main protease; PDBTitle: crystal structure of infectious bronchitis virus (ibv) main2 protease in complex with a michael acceptor inhibitor n3 13 c3kf6B_ 6.8 26 PDB header:structural protein Chain: B: PDB Molecule:protein ten1; PDBTitle: crystal structure of s. pombe stn1-ten1 complex 14 d2duca1 6.5 13 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral cysteine protease of trypsin fold 15 d1nrja_ 6.4 22 Fold:Profilin-like Superfamily:SNARE-like Family:SRP alpha N-terminal domain-like 16 c2kgbI_ 5.5 42 PDB header:contractile protein/ca binding protein Chain: I: PDB Molecule:troponin i, cardiac muscle; PDBTitle: nmr solution of the regulatory domain cardiac f77w-troponin2 c in complex with the cardiac troponin i 144-163 switch3 peptide 17 c2l1rB_ 5.5 42 PDB header:metal binding protein Chain: B: PDB Molecule:troponin i; PDBTitle: the structure of the calcium-sensitizer, dfbp-o, in complex with the2 n-domain of troponin c and the switch region of troponin i

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