Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	Y	R	S	A	P	L	Y	E	D	V	I	W	R	T	H	L	Q	P	Q	D	P	T	L	A	Q	A	V	R	A	T	I	A	K	H	R	E	H	L	L	E	F	I	R	L	D	E	P	A	P	L	N	A	M	T	L	A	Q	W
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?												?	?	?	?	?	?									?	?	?	?	?														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	S	P	N	V	L	S	S	L	L	A	V	Y	S	D	H	I	Y	R	N	Q	P	M	M	I	R	E	N	K	P	L	I	S	L	W	A	Q	W	Y	I	G	L	M	V	P	P	L	M	L	A	L	L	T	Q	E	K	A	L	D	V
Secondary structure
SS confidence
Disorder																					?	?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	P	E	H	F	H	A	E	F	H	E	T	G	R	V	A	C	F	W	V	D	V	C	E	D	K	N	A	T	P	H	S	P	Q	H	R	M	E	T	L	I	S	Q	A	L	V	P	V	V	Q	A	L	E	A	T	G	E	I	N	G
Secondary structure
SS confidence
Disorder																										?	?		?	?																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		K	L	I	W	S	N	T	G	Y	L	I	N	W	Y	L	T	E	M	K	Q	L	L	G	E	A	T	V	E	S	L	R	H	A	L	F	F	E	K	T	L	T	N	G	E	D	N	P	L	W	R	T	V	V	L	R	D	G	L	L	V
Secondary structure
SS confidence
Disorder																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.
Sequence		R	R	T	C	C	Q	R	Y	R	L	P	D	V	Q	Q	C	G	D	C	T	L	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 3ffe chain B Region: 69 - 221 Aligned: 141 Modelled: 153 Confidence: 97.5% Identity: 13% PDB header:biosynthetic protein Chain: B: PDB Molecule:acsd; PDBTitle: structure of achromobactin synthetase protein d, (acsd) Phyre2 PDB 2w02 chain A Region: 62 - 195 Aligned: 127 Modelled: 134 Confidence: 97.4% Identity: 12% PDB header:metal transport Chain: A: PDB Molecule:acsd; PDBTitle: co-complex structure of achromobactin synthetase protein d (2 acsd) with atp from pectobacterium chrysanthemi Phyre2 PDB 2x0o chain A Region: 95 - 197 Aligned: 102 Modelled: 103 Confidence: 96.7% Identity: 14% PDB header:biosynthetic protein Chain: A: PDB Molecule:alcaligin biosynthesis protein; PDBTitle: apo structure of the alcaligin biosynthesis protein c (alcc)2 from bordetella bronchiseptica Phyre2 PDB 1r2a chain A Region: 63 - 104 Aligned: 35 Modelled: 42 Confidence: 66.4% Identity: 31% Fold: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Phyre2 PDB 2hwn chain A domain 1 Region: 63 - 104 Aligned: 35 Modelled: 42 Confidence: 65.3% Identity: 31% Fold: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Phyre2 PDB 1kg2 chain A Region: 242 - 262 Aligned: 17 Modelled: 17 Confidence: 35.3% Identity: 24% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Mismatch glycosylase Phyre2 PDB 1kea chain A Region: 242 - 262 Aligned: 17 Modelled: 17 Confidence: 33.9% Identity: 24% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Mismatch glycosylase Phyre2 PDB 2abk chain A Region: 242 - 262 Aligned: 17 Modelled: 17 Confidence: 25.3% Identity: 29% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Endonuclease III Phyre2 PDB 1rrq chain A Region: 242 - 262 Aligned: 17 Modelled: 21 Confidence: 24.8% Identity: 24% PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair Phyre2 PDB 1rrq chain A domain 1 Region: 242 - 262 Aligned: 17 Modelled: 21 Confidence: 22.3% Identity: 24% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Mismatch glycosylase Phyre2 PDB 1orn chain A Region: 251 - 262 Aligned: 12 Modelled: 12 Confidence: 18.1% Identity: 33% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Endonuclease III Phyre2 PDB 3kk4 chain B Region: 242 - 248 Aligned: 7 Modelled: 7 Confidence: 13.8% Identity: 71% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein bp1543; PDBTitle: uncharacterized protein bp1543 from bordetella pertussis tohama i Phyre2 PDB 3n5n chain X Region: 251 - 262 Aligned: 12 Modelled: 12 Confidence: 13.4% Identity: 25% PDB header:hydrolase Chain: X: PDB Molecule:a/g-specific adenine dna glycosylase; PDBTitle: crystal structure analysis of the catalytic domain and interdomain2 connector of human muty homologue Phyre2 PDB 2o8r chain A domain 4 Region: 240 - 252 Aligned: 13 Modelled: 10 Confidence: 11.7% Identity: 38% Fold: Phospholipase D/nuclease Superfamily: Phospholipase D/nuclease Family: Polyphosphate kinase C-terminal domain Phyre2 PDB 2dcv chain A Region: 242 - 248 Aligned: 7 Modelled: 7 Confidence: 11.3% Identity: 57% PDB header:antimicrobial protein Chain: A: PDB Molecule:tachystatin-b1; PDBTitle: the solution structure of horseshoe crab antimicrobial2 peptide tachystatin b with the inhibitory cystine-knot3 motif Phyre2 PDB 1xdp chain A domain 4 Region: 240 - 254 Aligned: 15 Modelled: 15 Confidence: 11.0% Identity: 27% Fold: Phospholipase D/nuclease Superfamily: Phospholipase D/nuclease Family: Polyphosphate kinase C-terminal domain Phyre2 PDB 1xn7 chain A Region: 254 - 260 Aligned: 7 Modelled: 7 Confidence: 10.7% Identity: 29% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Hypothetical protein YhgG Phyre2 PDB 2i9w chain A Region: 11 - 58 Aligned: 48 Modelled: 48 Confidence: 10.5% Identity: 17% PDB header:metal binding protein Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a sec-c motif containing protein (psyc_2064) from2 psychrobacter arcticus at 1.75 a resolution Phyre2 PDB 3gj4 chain D Region: 243 - 259 Aligned: 16 Modelled: 17 Confidence: 10.3% Identity: 25% PDB header:transport protein Chain: D: PDB Molecule:nuclear pore complex protein nup153; PDBTitle: crystal structure of human rangdp-nup153znf3 complex Phyre2 PDB 1hlq chain A Region: 245 - 261 Aligned: 16 Modelled: 17 Confidence: 9.1% Identity: 31% Fold: HIPIP (high potential iron protein) Superfamily: HIPIP (high potential iron protein) Family: HIPIP (high potential iron protein) Phyre2 1 c3ffeB_ 2 c2w02A_ 3 c2x0oA_ 4 d1r2aa_ 5 d2hwna1 6 d1kg2a_ 7 d1keaa_ 8 d2abka_ 9 c1rrqA_ 10 d1rrqa1 11 d1orna_ 12 c3kk4B_ 13 c3n5nX_ 14 d2o8ra4 15 c2dcvA_ 16 d1xdpa4 17 d1xn7a_ 18 c2i9wA_ 19 c3gj4D_ 20 d1hlqa_ 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 51 52 53 54 55

Detailed template information

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

1 c3ffeB_ 97.5 13 PDB header:biosynthetic protein Chain: B: PDB Molecule:acsd; PDBTitle: structure of achromobactin synthetase protein d, (acsd) 2 c2w02A_ 97.4 12 PDB header:metal transport Chain: A: PDB Molecule:acsd; PDBTitle: co-complex structure of achromobactin synthetase protein d (2 acsd) with atp from pectobacterium chrysanthemi 3 c2x0oA_ 96.7 14 PDB header:biosynthetic protein Chain: A: PDB Molecule:alcaligin biosynthesis protein; PDBTitle: apo structure of the alcaligin biosynthesis protein c (alcc)2 from bordetella bronchiseptica 4 d1r2aa_ 66.4 31 Fold:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit 5 d2hwna1 65.3 31 Fold:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit 6 d1kg2a_ 35.3 24 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 7 d1keaa_ 33.9 24 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 8 d2abka_ 25.3 29 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 9 c1rrqA_ 24.8 24 PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair 10 d1rrqa1 22.3 24 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 11 d1orna_ 18.1 33 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 12 c3kk4B_ 13.8 71 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein bp1543; PDBTitle: uncharacterized protein bp1543 from bordetella pertussis tohama i 13 c3n5nX_ 13.4 25 PDB header:hydrolase Chain: X: PDB Molecule:a/g-specific adenine dna glycosylase; PDBTitle: crystal structure analysis of the catalytic domain and interdomain2 connector of human muty homologue 14 d2o8ra4 11.7 38 Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:Polyphosphate kinase C-terminal domain 15 c2dcvA_ 11.3 57 PDB header:antimicrobial protein Chain: A: PDB Molecule:tachystatin-b1; PDBTitle: the solution structure of horseshoe crab antimicrobial2 peptide tachystatin b with the inhibitory cystine-knot3 motif 16 d1xdpa4 11.0 27 Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:Polyphosphate kinase C-terminal domain 17 d1xn7a_ 10.7 29 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Hypothetical protein YhgG 18 c2i9wA_ 10.5 17 PDB header:metal binding protein Chain: A: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a sec-c motif containing protein (psyc_2064) from2 psychrobacter arcticus at 1.75 a resolution 19 c3gj4D_ 10.3 25 PDB header:transport protein Chain: D: PDB Molecule:nuclear pore complex protein nup153; PDBTitle: crystal structure of human rangdp-nup153znf3 complex 20 d1hlqa_ 9.1 31 Fold:HIPIP (high potential iron protein) Superfamily:HIPIP (high potential iron protein) Family:HIPIP (high potential iron protein) 21 d1hpia_ not modelled 9.0 29 Fold:HIPIP (high potential iron protein) Superfamily:HIPIP (high potential iron protein) Family:HIPIP (high potential iron protein) 22 c2eqeA_ not modelled 9.0 26 PDB header:hydrolase Chain: A: PDB Molecule:tumor necrosis factor, alpha-induced protein 3; PDBTitle: solution structure of the fourth a20-type zinc finger2 domain from human tumor necrosis factor, alpha-induced3 protein3 23 d1b24a1 not modelled 8.6 32 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Group I mobile intron endonuclease 24 d1u55a_ not modelled 7.9 14 Fold:Ligand-binding domain in the NO signalling and Golgi transport Superfamily:Ligand-binding domain in the NO signalling and Golgi transport Family:H-NOX domain 25 d2nz1d1 not modelled 7.9 50 Fold:IL8-like Superfamily:Interleukin 8-like chemokines Family:Interleukin 8-like chemokines 26 d1lghb_ not modelled 7.8 6 Fold:Light-harvesting complex subunits Superfamily:Light-harvesting complex subunits Family:Light-harvesting complex subunits 27 d1b8ta1 not modelled 7.7 38 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 28 d1b0ya_ not modelled 7.5 24 Fold:HIPIP (high potential iron protein) Superfamily:HIPIP (high potential iron protein) Family:HIPIP (high potential iron protein) 29 d1q5na_ not modelled 7.4 17 Fold:L-aspartase-like Superfamily:L-aspartase-like Family:L-aspartase/fumarase 30 c1pyaD_ not modelled 7.3 20 PDB header:carboxy-lyase Chain: D: PDB Molecule:pyruvoyl-dependent histidine decarboxylase (l- PDBTitle: refined structure of the pyruvoyl-dependent histidine2 decarboxylase from lactobacillus 30a 31 c2o8rA_ not modelled 7.3 38 PDB header:transferase Chain: A: PDB Molecule:polyphosphate kinase; PDBTitle: crystal structure of polyphosphate kinase from2 porphyromonas gingivalis 32 d1otka_ not modelled 6.8 24 Fold:Ferritin-like Superfamily:Ferritin-like Family:Ribonucleotide reductase-like 33 c2o0cB_ not modelled 6.8 12 PDB header:signaling protein Chain: B: PDB Molecule:alr2278 protein; PDBTitle: crystal structure of the h-nox domain from nostoc sp. pcc 71202 complexed to no 34 c3mkyP_ not modelled 6.6 26 PDB header:dna binding protein/dna Chain: P: PDB Molecule:protein sopb; PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form 35 d3hipa_ not modelled 6.6 24 Fold:HIPIP (high potential iron protein) Superfamily:HIPIP (high potential iron protein) Family:HIPIP (high potential iron protein) 36 c2kilA_ not modelled 6.4 14 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: nmr structure of the h103g mutant so2144 h-nox domain from2 shewanella oneidensis in the fe(ii)co ligation state 37 c2hgoA_ not modelled 6.3 50 PDB header:toxin Chain: A: PDB Molecule:cassiicolin; PDBTitle: nmr structure of cassiicolin 38 c2e2fA_ not modelled 6.3 19 PDB header:antifungal protein Chain: A: PDB Molecule:diapausin; PDBTitle: solution structure of dsp 39 d1uzka3 not modelled 6.0 18 Fold:TB module/8-cys domain Superfamily:TB module/8-cys domain Family:TB module/8-cys domain 40 d3ceda1 not modelled 5.9 23 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 41 d2v4jb1 not modelled 5.8 60 Fold:Ferredoxin-like Superfamily:4Fe-4S ferredoxins Family:Ferredoxin domains from multidomain proteins 42 d1fxia_ not modelled 5.8 25 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related 43 d1f1oa_ not modelled 5.7 11 Fold:L-aspartase-like Superfamily:L-aspartase-like Family:L-aspartase/fumarase 44 d2qeec1 not modelled 5.7 7 Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:Uronate isomerase-like 45 d1js2a_ not modelled 5.5 24 Fold:HIPIP (high potential iron protein) Superfamily:HIPIP (high potential iron protein) Family:HIPIP (high potential iron protein) 46 d1i7ha_ not modelled 5.5 25 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin-related 47 d2qswa1 not modelled 5.4 2 Fold:Ferredoxin-like Superfamily:ACT-like Family:NIL domain-like 48 d1re5a_ not modelled 5.4 17 Fold:L-aspartase-like Superfamily:L-aspartase-like Family:L-aspartase/fumarase 49 d1rooa_ not modelled 5.4 43 Fold:Crisp domain-like Superfamily:Crisp domain-like Family:Sea anemone toxin k 50 d1wwia1 not modelled 5.2 17 Fold:Histone-fold Superfamily:Histone-fold Family:Bacterial histone-fold protein 51 c2odmA_ not modelled 5.2 71 PDB header:unknown function Chain: A: PDB Molecule:upf0358 protein mw0995; PDBTitle: crystal structure of s. aureus ylan, an essential leucine rich protein2 involved in the control of cell shape 52 d1xhja_ not modelled 5.2 43 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 53 c3ah7A_ not modelled 5.1 38 PDB header:metal binding protein Chain: A: PDB Molecule:[2fe-2s]ferredoxin; PDBTitle: crystal structure of the isc-like [2fe-2s] ferredoxin (fdxb) from2 pseudomonas putida jcm 20004 54 d1kf6b2 not modelled 5.1 38 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins 55 c1wrgA_ not modelled 5.0 12 PDB header:membrane protein Chain: A: PDB Molecule:light-harvesting protein b-880, beta chain; PDBTitle: light-harvesting complex 1 beta subunit from wild-type2 rhodospirillum rubrum

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