Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	Q	I	I	R	G	K	L	V	I	F	L	I	T	L	C	L	F	V	V	Y	L	G	F	D	N	N	S	N	S	D	I	V	F	Y	G	H	K	T	P	K	S	V	E	I	Y	L	S	E	K	N	I	I	Y	K	I	I	N	D
Secondary structure
SS confidence
Disorder		?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	K	I	S	R	G	N	G	H	F	I	S	I	M	V	N	N	Y	R	T	H	C	G	V	V	D	I	N	L	N	F	F	N	D	I	L	Y	S	V	R	L	K	N	I	S	K	L	E	N	M	E	F	C	A	T	K	Q	R	V	Y
Secondary structure
SS confidence
Disorder				?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160
Sequence		F	S	D	K	N	K	K	A	S	Y	K	I	I	N	Y	G	D	Y	Y	D	V	D	Y	Y	D	N	N	L	K	N	E	V	F	D	W	I	G	K	W	S
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 3gt2 chain A Region: 32 - 54 Aligned: 23 Modelled: 23 Confidence: 25.0% Identity: 35% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the p60 domain from m. avium2 paratuberculosis antigen map1272c Phyre2 PDB 2yxy chain A Region: 130 - 155 Aligned: 21 Modelled: 26 Confidence: 16.8% Identity: 48% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical conserved protein, gk0453; PDBTitle: crystarl structure of hypothetical conserved protein, gk0453 Phyre2 PDB 3ipj chain B Region: 107 - 126 Aligned: 20 Modelled: 20 Confidence: 16.4% Identity: 30% PDB header:transferase Chain: B: PDB Molecule:pts system, iiabc component; PDBTitle: the crystal structure of one domain of the pts system, iiabc component2 from clostridium difficile Phyre2 PDB 2eqn chain A Region: 72 - 122 Aligned: 50 Modelled: 51 Confidence: 14.8% Identity: 16% PDB header:transcription Chain: A: PDB Molecule:hypothetical protein loc92345; PDBTitle: solution structure of the naf1 domain of hypothetical2 protein bc008207 [homo sapiens] Phyre2 PDB 3pbi chain A Region: 32 - 54 Aligned: 23 Modelled: 23 Confidence: 14.7% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:invasion protein; PDBTitle: structure of the peptidoglycan hydrolase ripb (rv1478) from2 mycobacterium tuberculosis at 1.6 resolution Phyre2 PDB 1iba chain A Region: 107 - 126 Aligned: 20 Modelled: 20 Confidence: 8.7% Identity: 35% PDB header:phoshphotransferase Chain: A: PDB Molecule:glucose permease; PDBTitle: glucose permease (domain iib), nmr, 11 structures Phyre2 PDB 3e8v chain A Region: 124 - 141 Aligned: 18 Modelled: 18 Confidence: 8.6% Identity: 28% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:possible transglutaminase-family protein; PDBTitle: crystal structure of a possible transglutaminase-family2 protein proteolytic fragment from bacteroides fragilis Phyre2 PDB 2xiv chain A Region: 25 - 54 Aligned: 30 Modelled: 28 Confidence: 8.4% Identity: 27% PDB header:structural protein Chain: A: PDB Molecule:hypothetical invasion protein; PDBTitle: structure of rv1477, hypothetical invasion protein of2 mycobacterium tuberculosis Phyre2 PDB 2yuj chain A Region: 79 - 86 Aligned: 8 Modelled: 8 Confidence: 7.7% Identity: 63% PDB header:protein binding Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like; PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1 Phyre2 PDB 1drs chain A Region: 34 - 70 Aligned: 37 Modelled: 37 Confidence: 7.7% Identity: 32% Fold: Snake toxin-like Superfamily: Snake toxin-like Family: Dendroaspin Phyre2 PDB 3npf chain B Region: 25 - 54 Aligned: 30 Modelled: 30 Confidence: 7.0% Identity: 47% PDB header:hydrolase Chain: B: PDB Molecule:putative dipeptidyl-peptidase vi; PDBTitle: crystal structure of a putative dipeptidyl-peptidase vi (bacova_00612)2 from bacteroides ovatus at 1.72 a resolution Phyre2 PDB 1d0n chain A domain 6 Region: 106 - 160 Aligned: 55 Modelled: 55 Confidence: 7.0% Identity: 24% Fold: Gelsolin-like Superfamily: Actin depolymerizing proteins Family: Gelsolin-like Phyre2 PDB 1zc1 chain A Region: 76 - 86 Aligned: 11 Modelled: 11 Confidence: 6.5% Identity: 36% PDB header:protein turnover Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1; PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites Phyre2 PDB 1sf9 chain A Region: 130 - 155 Aligned: 21 Modelled: 26 Confidence: 6.4% Identity: 43% Fold: SH3-like barrel Superfamily: Hypothetical protein YfhH Family: Hypothetical protein YfhH Phyre2 PDB 1ik9 chain C Region: 135 - 156 Aligned: 21 Modelled: 22 Confidence: 5.8% Identity: 57% PDB header:gene regulation/ligase Chain: C: PDB Molecule:dna ligase iv; PDBTitle: crystal structure of a xrcc4-dna ligase iv complex Phyre2 PDB 1gjw chain A domain 1 Region: 155 - 160 Aligned: 6 Modelled: 6 Confidence: 5.7% Identity: 83% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 1ig8 chain A domain 1 Region: 110 - 159 Aligned: 50 Modelled: 50 Confidence: 5.5% Identity: 10% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 2esl chain A domain 1 Region: 80 - 95 Aligned: 16 Modelled: 16 Confidence: 5.1% Identity: 25% Fold: Cyclophilin-like Superfamily: Cyclophilin-like Family: Cyclophilin (peptidylprolyl isomerase) Phyre2 PDB 1tif chain A Region: 119 - 138 Aligned: 20 Modelled: 20 Confidence: 5.1% Identity: 25% Fold: beta-Grasp (ubiquitin-like) Superfamily: Translation initiation factor IF3, N-terminal domain Family: Translation initiation factor IF3, N-terminal domain Phyre2 PDB 2kmf chain A Region: 148 - 159 Aligned: 12 Modelled: 12 Confidence: 5.0% Identity: 17% PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii Phyre2 1 c3gt2A_ 2 c2yxyA_ 3 c3ipjB_ 4 c2eqnA_ 5 c3pbiA_ 6 c1ibaA_ 7 c3e8vA_ 8 c2xivA_ 9 c2yujA_ 10 d1drsa_ 11 c3npfB_ 12 d1d0na6 13 c1zc1A_ 14 d1sf9a_ 15 c1ik9C_ 16 d1gjwa1 17 d1ig8a1 18 d2esla1 19 d1tifa_ 20 c2kmfA_

Detailed template information

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

1 c3gt2A_ 25.0 35 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the p60 domain from m. avium2 paratuberculosis antigen map1272c 2 c2yxyA_ 16.8 48 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical conserved protein, gk0453; PDBTitle: crystarl structure of hypothetical conserved protein, gk0453 3 c3ipjB_ 16.4 30 PDB header:transferase Chain: B: PDB Molecule:pts system, iiabc component; PDBTitle: the crystal structure of one domain of the pts system, iiabc component2 from clostridium difficile 4 c2eqnA_ 14.8 16 PDB header:transcription Chain: A: PDB Molecule:hypothetical protein loc92345; PDBTitle: solution structure of the naf1 domain of hypothetical2 protein bc008207 [homo sapiens] 5 c3pbiA_ 14.7 30 PDB header:hydrolase Chain: A: PDB Molecule:invasion protein; PDBTitle: structure of the peptidoglycan hydrolase ripb (rv1478) from2 mycobacterium tuberculosis at 1.6 resolution 6 c1ibaA_ 8.7 35 PDB header:phoshphotransferase Chain: A: PDB Molecule:glucose permease; PDBTitle: glucose permease (domain iib), nmr, 11 structures 7 c3e8vA_ 8.6 28 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:possible transglutaminase-family protein; PDBTitle: crystal structure of a possible transglutaminase-family2 protein proteolytic fragment from bacteroides fragilis 8 c2xivA_ 8.4 27 PDB header:structural protein Chain: A: PDB Molecule:hypothetical invasion protein; PDBTitle: structure of rv1477, hypothetical invasion protein of2 mycobacterium tuberculosis 9 c2yujA_ 7.7 63 PDB header:protein binding Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like; PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1 10 d1drsa_ 7.7 32 Fold:Snake toxin-like Superfamily:Snake toxin-like Family:Dendroaspin 11 c3npfB_ 7.0 47 PDB header:hydrolase Chain: B: PDB Molecule:putative dipeptidyl-peptidase vi; PDBTitle: crystal structure of a putative dipeptidyl-peptidase vi (bacova_00612)2 from bacteroides ovatus at 1.72 a resolution 12 d1d0na6 7.0 24 Fold:Gelsolin-like Superfamily:Actin depolymerizing proteins Family:Gelsolin-like 13 c1zc1A_ 6.5 36 PDB header:protein turnover Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1; PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites 14 d1sf9a_ 6.4 43 Fold:SH3-like barrel Superfamily:Hypothetical protein YfhH Family:Hypothetical protein YfhH 15 c1ik9C_ 5.8 57 PDB header:gene regulation/ligase Chain: C: PDB Molecule:dna ligase iv; PDBTitle: crystal structure of a xrcc4-dna ligase iv complex 16 d1gjwa1 5.7 83 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 17 d1ig8a1 5.5 10 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 18 d2esla1 5.1 25 Fold:Cyclophilin-like Superfamily:Cyclophilin-like Family:Cyclophilin (peptidylprolyl isomerase) 19 d1tifa_ 5.1 25 Fold:beta-Grasp (ubiquitin-like) Superfamily:Translation initiation factor IF3, N-terminal domain Family:Translation initiation factor IF3, N-terminal domain 20 c2kmfA_ 5.0 17 PDB header:photosynthesis Chain: A: PDB Molecule:photosystem ii 11 kda protein; PDBTitle: solution structure of psb27 from cyanobacterial photosystem2 ii

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

---

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