Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	D	I	A	L	T	V	S	I	L	A	L	V	A	V	V	G	L	F	I	G	N	V	K	F	R	G	I	G	L	G	I	G	G	V	L	F	G	G	I	I	V	G	H	F	V	S	Q	A	G	M	T	L	S	S	D	M	L	H
Secondary structure
SS confidence
Disorder		?	?	?	?																						?																						?		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	I	Q	E	F	G	L	I	L	F	V	Y	T	I	G	I	Q	V	G	P	G	F	F	A	S	L	R	V	S	G	L	R	L	N	L	F	A	V	L	I	V	I	I	G	G	L	V	T	A	I	L	H	K	L	F	D	I	P	L	P
Secondary structure
SS confidence
Disorder																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	V	L	G	I	F	S	G	A	V	T	N	T	P	A	L	G	A	G	Q	Q	I	L	R	D	L	G	T	P	M	E	M	V	D	Q	M	G	M	S	Y	A	M	A	Y	P	F	G	I	C	G	I	L	F	T	M	W	M	L	R	V
Secondary structure
SS confidence
Disorder								?	?																	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	F	R	V	N	V	E	T	E	A	Q	Q	H	E	S	S	R	T	N	G	G	A	L	I	K	T	I	N	I	R	V	E	N	P	N	L	H	D	L	A	I	K	D	V	P	I	L	N	G	D	K	I	I	C	S	R	L	K	R	E
Secondary structure
SS confidence
Disorder				?	?			?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																										?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		E	T	L	K	V	P	S	P	D	T	I	I	Q	L	G	D	L	L	H	L	V	G	Q	P	A	D	L	H	N	A	Q	L	V	I	G	Q	E	V	D	T	S	L	S	T	K	G	T	D	L	R	V	E	R	V	V	V	T	N	E	N
Secondary structure
SS confidence
Disorder																																								?	?	?	?	?	?	?	?	?										?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	L	G	K	R	I	R	D	L	H	F	K	E	R	Y	D	V	V	I	S	R	L	N	R	A	G	V	E	L	V	A	S	G	D	I	S	L	Q	F	G	D	I	L	N	L	V	G	R	P	S	A	I	D	A	V	A	N	V	L	G
Secondary structure
SS confidence
Disorder				?							?															?				?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		N	A	Q	Q	K	L	Q	Q	V	Q	M	L	P	V	F	I	G	I	G	L	G	V	L	L	G	S	I	P	V	F	V	P	G	F	P	A	A	L	K	L	G	L	A	G	G	P	L	I	M	A	L	I	L	G	R	I	G	S	I	G
Secondary structure
SS confidence
Disorder			?	?	?	?	?	?	?	?	?	?	?																			?	?	?	?	?																							?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		K	L	Y	W	F	M	P	P	S	A	N	L	A	L	R	E	L	G	I	V	L	F	L	S	V	V	G	L	K	S	G	G	D	F	V	N	T	L	V	N	G	E	G	L	S	W	I	G	Y	G	A	L	I	T	A	V	P	L	I	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		V	G	I	L	A	R	M	L	A	K	M	N	Y	L	T	M	C	G	M	L	A	G	S	M	T	D	P	P	A	L	A	F	A	N	N	L	H	P	T	S	G	A	A	A	L	S	Y	A	T	V	Y	P	L	V	M	F	L	R	I	I
Secondary structure
SS confidence
Disorder																						?	?													?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.
Sequence		T	P	Q	L	L	A	V	L	F	W	S	I	G
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 1vct chain A domain 2 Region: 285 - 365 Aligned: 81 Modelled: 81 Confidence: 99.5% Identity: 19% Fold: TrkA C-terminal domain-like Superfamily: TrkA C-terminal domain-like Family: TrkA C-terminal domain-like Phyre2 PDB 2fy8 chain A domain 2 Region: 283 - 360 Aligned: 78 Modelled: 78 Confidence: 99.5% Identity: 22% Fold: TrkA C-terminal domain-like Superfamily: TrkA C-terminal domain-like Family: TrkA C-terminal domain-like Phyre2 PDB 2bkn chain A Region: 285 - 357 Aligned: 73 Modelled: 73 Confidence: 99.4% Identity: 19% PDB header:membrane protein Chain: A: PDB Molecule:hypothetical protein ph0236; PDBTitle: structure analysis of unknown function protein Phyre2 PDB 3jxo chain B Region: 276 - 359 Aligned: 82 Modelled: 84 Confidence: 99.1% Identity: 26% PDB header:transport protein Chain: B: PDB Molecule:trka-n domain protein; PDBTitle: crystal structure of an octomeric two-subunit trka k+ channel ring2 gating assembly, tm1088a:tm1088b, from thermotoga maritima Phyre2 PDB 2fy8 chain A Region: 283 - 360 Aligned: 78 Modelled: 78 Confidence: 99.0% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:calcium-gated potassium channel mthk; PDBTitle: crystal structure of mthk rck domain in its ligand-free gating-ring2 form Phyre2 PDB 1lnq chain C Region: 282 - 360 Aligned: 79 Modelled: 79 Confidence: 99.0% Identity: 23% PDB header:metal transport Chain: C: PDB Molecule:potassium channel related protein; PDBTitle: crystal structure of mthk at 3.3 a Phyre2 PDB 3l4b chain G Region: 292 - 359 Aligned: 65 Modelled: 68 Confidence: 98.3% Identity: 28% PDB header:transport protein Chain: G: PDB Molecule:trka k+ channel protien tm1088b; PDBTitle: crystal structure of an octomeric two-subunit trka k+ channel ring2 gating assembly, tm1088a:tm1088b, from thermotoga maritima Phyre2 PDB 3mt5 chain A Region: 174 - 364 Aligned: 191 Modelled: 191 Confidence: 97.5% Identity: 11% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:potassium large conductance calcium-activated channel, PDBTitle: crystal structure of the human bk gating apparatus Phyre2 PDB 3u6n chain C Region: 174 - 269 Aligned: 96 Modelled: 96 Confidence: 97.3% Identity: 11% PDB header:transport protein Chain: C: PDB Molecule:high-conductance ca2+-activated k+ channel protein; PDBTitle: open structure of the bk channel gating ring Phyre2 PDB 3naf chain A Region: 174 - 266 Aligned: 93 Modelled: 93 Confidence: 86.1% Identity: 17% PDB header:ion transport Chain: A: PDB Molecule:calcium-activated potassium channel subunit alpha-1; PDBTitle: structure of the intracellular gating ring from the human high-2 conductance ca2+ gated k+ channel (bk channel) Phyre2 PDB 2ka9 chain A Region: 203 - 344 Aligned: 138 Modelled: 142 Confidence: 75.1% Identity: 13% PDB header:cell adhesion Chain: A: PDB Molecule:disks large homolog 4; PDBTitle: solution structure of psd-95 pdz12 complexed with cypin2 peptide Phyre2 PDB 1zud chain 2 domain 1 Region: 218 - 261 Aligned: 44 Modelled: 44 Confidence: 72.1% Identity: 14% Fold: beta-Grasp (ubiquitin-like) Superfamily: MoaD/ThiS Family: ThiS Phyre2 PDB 2w8i chain G Region: 246 - 345 Aligned: 100 Modelled: 100 Confidence: 67.3% Identity: 20% PDB header:membrane protein Chain: G: PDB Molecule:putative outer membrane lipoprotein wza; PDBTitle: crystal structure of wza24-345. Phyre2 PDB 2j58 chain G Region: 246 - 345 Aligned: 100 Modelled: 100 Confidence: 64.7% Identity: 20% PDB header:membrane protein Chain: G: PDB Molecule:outer membrane lipoprotein wza; PDBTitle: the structure of wza Phyre2 PDB 2cu3 chain A domain 1 Region: 215 - 261 Aligned: 47 Modelled: 47 Confidence: 64.2% Identity: 21% Fold: beta-Grasp (ubiquitin-like) Superfamily: MoaD/ThiS Family: ThiS Phyre2 PDB 2kl0 chain A Region: 215 - 261 Aligned: 47 Modelled: 47 Confidence: 63.7% Identity: 6% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative thiamin biosynthesis this; PDBTitle: solution nmr structure of rhodopseudomonas palustris rpa3574,2 northeast structural genomics consortium (nesg) target rpr325 Phyre2 PDB 2zc3 chain F Region: 214 - 346 Aligned: 103 Modelled: 103 Confidence: 58.5% Identity: 9% PDB header:biosynthetic protein Chain: F: PDB Molecule:penicillin-binding protein 2x; PDBTitle: penicillin-binding protein 2x (pbp 2x) acyl-enzyme complex2 (biapenem) from streptococcus pneumoniae Phyre2 PDB 3cwi chain A Region: 218 - 261 Aligned: 44 Modelled: 44 Confidence: 58.3% Identity: 9% PDB header:biosynthetic protein Chain: A: PDB Molecule:thiamine-biosynthesis protein this; PDBTitle: crystal structure of thiamine biosynthesis protein (this)2 from geobacter metallireducens. northeast structural3 genomics consortium target gmr137 Phyre2 PDB 1rp5 chain A domain 2 Region: 214 - 261 Aligned: 48 Modelled: 48 Confidence: 57.5% Identity: 15% Fold: Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily: Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family: Penicillin-binding protein 2x (pbp-2x), c-terminal domain Phyre2 PDB 3r0h chain A Region: 227 - 344 Aligned: 112 Modelled: 118 Confidence: 53.9% Identity: 17% PDB header:peptide binding protein Chain: A: PDB Molecule:inactivation-no-after-potential d protein; PDBTitle: structure of inad pdz45 in complex with ng2 peptide Phyre2 1 d1vcta2 2 d2fy8a2 3 c2bknA_ 4 c3jxoB_ 5 c2fy8A_ 6 c1lnqC_ 7 c3l4bG_ 8 c3mt5A_ 9 c3u6nC_ 10 c3nafA_ 11 c2ka9A_ 12 d1zud21 13 c2w8iG_ 14 c2j58G_ 15 d2cu3a1 16 c2kl0A_ 17 c2zc3F_ 18 c3cwiA_ 19 d1rp5a2 20 c3r0hA_ 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 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99

Detailed template information

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

1 d1vcta2 99.5 19 Fold:TrkA C-terminal domain-like Superfamily:TrkA C-terminal domain-like Family:TrkA C-terminal domain-like 2 d2fy8a2 99.5 22 Fold:TrkA C-terminal domain-like Superfamily:TrkA C-terminal domain-like Family:TrkA C-terminal domain-like 3 c2bknA_ 99.4 19 PDB header:membrane protein Chain: A: PDB Molecule:hypothetical protein ph0236; PDBTitle: structure analysis of unknown function protein 4 c3jxoB_ 99.1 26 PDB header:transport protein Chain: B: PDB Molecule:trka-n domain protein; PDBTitle: crystal structure of an octomeric two-subunit trka k+ channel ring2 gating assembly, tm1088a:tm1088b, from thermotoga maritima 5 c2fy8A_ 99.0 22 PDB header:transport protein Chain: A: PDB Molecule:calcium-gated potassium channel mthk; PDBTitle: crystal structure of mthk rck domain in its ligand-free gating-ring2 form 6 c1lnqC_ 99.0 23 PDB header:metal transport Chain: C: PDB Molecule:potassium channel related protein; PDBTitle: crystal structure of mthk at 3.3 a 7 c3l4bG_ 98.3 28 PDB header:transport protein Chain: G: PDB Molecule:trka k+ channel protien tm1088b; PDBTitle: crystal structure of an octomeric two-subunit trka k+ channel ring2 gating assembly, tm1088a:tm1088b, from thermotoga maritima 8 c3mt5A_ 97.5 11 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:potassium large conductance calcium-activated channel, PDBTitle: crystal structure of the human bk gating apparatus 9 c3u6nC_ 97.3 11 PDB header:transport protein Chain: C: PDB Molecule:high-conductance ca2+-activated k+ channel protein; PDBTitle: open structure of the bk channel gating ring 10 c3nafA_ 86.1 17 PDB header:ion transport Chain: A: PDB Molecule:calcium-activated potassium channel subunit alpha-1; PDBTitle: structure of the intracellular gating ring from the human high-2 conductance ca2+ gated k+ channel (bk channel) 11 c2ka9A_ 75.1 13 PDB header:cell adhesion Chain: A: PDB Molecule:disks large homolog 4; PDBTitle: solution structure of psd-95 pdz12 complexed with cypin2 peptide 12 d1zud21 72.1 14 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 13 c2w8iG_ 67.3 20 PDB header:membrane protein Chain: G: PDB Molecule:putative outer membrane lipoprotein wza; PDBTitle: crystal structure of wza24-345. 14 c2j58G_ 64.7 20 PDB header:membrane protein Chain: G: PDB Molecule:outer membrane lipoprotein wza; PDBTitle: the structure of wza 15 d2cu3a1 64.2 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 16 c2kl0A_ 63.7 6 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative thiamin biosynthesis this; PDBTitle: solution nmr structure of rhodopseudomonas palustris rpa3574,2 northeast structural genomics consortium (nesg) target rpr325 17 c2zc3F_ 58.5 9 PDB header:biosynthetic protein Chain: F: PDB Molecule:penicillin-binding protein 2x; PDBTitle: penicillin-binding protein 2x (pbp 2x) acyl-enzyme complex2 (biapenem) from streptococcus pneumoniae 18 c3cwiA_ 58.3 9 PDB header:biosynthetic protein Chain: A: PDB Molecule:thiamine-biosynthesis protein this; PDBTitle: crystal structure of thiamine biosynthesis protein (this)2 from geobacter metallireducens. northeast structural3 genomics consortium target gmr137 19 d1rp5a2 57.5 15 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 20 c3r0hA_ 53.9 17 PDB header:peptide binding protein Chain: A: PDB Molecule:inactivation-no-after-potential d protein; PDBTitle: structure of inad pdz45 in complex with ng2 peptide 21 d1tygb_ not modelled 53.6 12 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 22 d1pyya2 not modelled 51.4 13 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 23 c1tygG_ not modelled 49.6 10 PDB header:biosynthetic protein Chain: G: PDB Molecule:yjbs; PDBTitle: structure of the thiazole synthase/this complex 24 d1k25a2 not modelled 48.8 13 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 25 d1k25a1 not modelled 47.8 12 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 26 d1pyya1 not modelled 45.6 8 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 27 c2anrA_ not modelled 45.1 14 PDB header:rna-binding protein/rna Chain: A: PDB Molecule:neuro-oncological ventral antigen 1; PDBTitle: crystal structure (ii) of nova-1 kh1/kh2 domain tandem with 25nt rna2 hairpin 28 d1r61a_ not modelled 34.6 11 Fold:The "swivelling" beta/beta/alpha domain Superfamily:Putative cyclase Family:Putative cyclase 29 c1u3bA_ not modelled 30.4 12 PDB header:protein transport Chain: A: PDB Molecule:amyloid beta a4 precursor protein-binding, PDBTitle: auto-inhibition mechanism of x11s/mints family scaffold2 proteins revealed by the closed conformation of the tandem3 pdz domains 30 c2dazA_ not modelled 29.1 13 PDB header:protein binding Chain: A: PDB Molecule:inad-like protein; PDBTitle: solution structure of the 7th pdz domain of inad-like2 protein 31 c2c2xB_ not modelled 27.8 10 PDB header:oxidoreductase Chain: B: PDB Molecule:methylenetetrahydrofolate dehydrogenase- PDBTitle: three dimensional structure of bifunctional2 methylenetetrahydrofolate dehydrogenase-cyclohydrolase3 from mycobacterium tuberculosis 32 c2qndA_ not modelled 27.3 19 PDB header:rna binding protein Chain: A: PDB Molecule:fmr1 protein; PDBTitle: crystal structure of the kh1-kh2 domains from human fragile x mental2 retardation protein 33 c3krmB_ not modelled 25.5 14 PDB header:rna binding protein Chain: B: PDB Molecule:insulin-like growth factor 2 mrna-binding protein PDBTitle: imp1 kh34 34 d1v62a_ not modelled 23.8 15 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 35 d1wpga1 not modelled 21.5 19 Fold:Double-stranded beta-helix Superfamily:Calcium ATPase, transduction domain A Family:Calcium ATPase, transduction domain A 36 c3tl6B_ not modelled 21.0 12 PDB header:transferase Chain: B: PDB Molecule:purine nucleoside phosphorylase; PDBTitle: crystal structure of purine nucleoside phosphorylase from entamoeba2 histolytica 37 d1v6ba_ not modelled 20.6 15 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 38 c2eehA_ not modelled 19.9 12 PDB header:metal binding protein Chain: A: PDB Molecule:pdz domain-containing protein 7; PDBTitle: solution structure of first pdz domain of pdz domain2 containing protein 7 39 d1x6da1 not modelled 19.7 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:Interleukin 16 40 d1sdwa2 not modelled 19.4 21 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:PHM/PNGase F Family:Peptidylglycine alpha-hydroxylating monooxygenase, PHM 41 c2hc8A_ not modelled 18.5 21 PDB header:transport protein Chain: A: PDB Molecule:cation-transporting atpase, p-type; PDBTitle: structure of the a. fulgidus copa a-domain 42 d2h1qa1 not modelled 18.2 23 Fold:PLP-dependent transferase-like Superfamily:Dhaf3308-like Family:Dhaf3308-like 43 d2i0ia1 not modelled 17.4 12 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 44 c2kegA_ not modelled 17.4 22 PDB header:antimicrobial protein Chain: A: PDB Molecule:plnk; PDBTitle: nmr structure of plantaricin k in dpc-micelles 45 c2jkdB_ not modelled 16.7 26 PDB header:gene regulation Chain: B: PDB Molecule:pre-mrna leakage protein 1; PDBTitle: structure of the yeast pml1 splicing factor and its2 integration into the res complex 46 c1yj5C_ not modelled 16.2 38 PDB header:transferase Chain: C: PDB Molecule:5' polynucleotide kinase-3' phosphatase fha domain; PDBTitle: molecular architecture of mammalian polynucleotide kinase, a dna2 repair enzyme 47 d1pm3a_ not modelled 16.0 19 Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:MTH1895 48 d1y7ma2 not modelled 15.8 24 Fold:LysM domain Superfamily:LysM domain Family:LysM domain 49 c2jvzA_ not modelled 15.7 20 PDB header:splicing Chain: A: PDB Molecule:far upstream element-binding protein 2; PDBTitle: solution nmr structure of the second and third kh domains2 of ksrp 50 d1edza1 not modelled 15.1 6 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Aminoacid dehydrogenase-like, C-terminal domain 51 c2djtA_ not modelled 15.0 10 PDB header:signaling protein Chain: A: PDB Molecule:unnamed protein product; PDBTitle: solution structures of the pdz domain of human unnamed2 protein product 52 d1ky9a1 not modelled 14.9 15 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 53 d2ix0a3 not modelled 14.8 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 54 c2fpeB_ not modelled 14.6 12 PDB header:signaling protein Chain: B: PDB Molecule:c-jun-amino-terminal kinase interacting protein PDBTitle: conserved dimerization of the ib1 src-homology 3 domain 55 c3kt9A_ not modelled 14.2 24 PDB header:hydrolase Chain: A: PDB Molecule:aprataxin; PDBTitle: aprataxin fha domain 56 d2piaa1 not modelled 13.9 15 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 57 c2xlkB_ not modelled 13.7 16 PDB header:hydrolase/rna Chain: B: PDB Molecule:csy4 endoribonuclease; PDBTitle: crystal structure of the csy4-crrna complex, orthorhombic form 58 c2dmzA_ not modelled 13.7 9 PDB header:protein binding Chain: A: PDB Molecule:inad-like protein; PDBTitle: solution structure of the third pdz domain of human inad-2 like protein 59 d1yjma1 not modelled 13.6 38 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:FHA domain 60 d1ujxa_ not modelled 13.5 41 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:FHA domain 61 d1vhwa_ not modelled 13.4 25 Fold:Phosphorylase/hydrolase-like Superfamily:Purine and uridine phosphorylases Family:Purine and uridine phosphorylases 62 c2yt7A_ not modelled 13.2 10 PDB header:protein transport Chain: A: PDB Molecule:amyloid beta a4 precursor protein-binding family PDBTitle: solution structure of the pdz domain of amyloid beta a42 precursor protein-binding family a member 3 63 c2gzvA_ not modelled 13.0 14 PDB header:signaling protein Chain: A: PDB Molecule:prkca-binding protein; PDBTitle: the cystal structure of the pdz domain of human pick1 (casp target) 64 c2d8iA_ not modelled 12.9 15 PDB header:immune system, signaling protein Chain: A: PDB Molecule:t-cell lymphoma invasion and metastasis 1 PDBTitle: solution structure of the pdz domain of t-cell lymphoma2 invasion and metastasis 1 varian 65 c1zcdA_ not modelled 12.9 20 PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa 66 d1wgka_ not modelled 12.6 26 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:C9orf74 homolog 67 d1efna_ not modelled 12.5 20 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 68 c3cqtA_ not modelled 12.4 15 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase fyn; PDBTitle: n53i v55l mutant of fyn sh3 domain 69 d1wi2a_ not modelled 12.4 11 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 70 d1shfa_ not modelled 12.3 14 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 71 c4a8aI_ not modelled 12.2 18 PDB header:hydrolase/hydrolase Chain: I: PDB Molecule:periplasmic ph-dependent serine endoprotease degq; PDBTitle: asymmetric cryo-em reconstruction of e. coli degq 12-mer in complex2 with lysozyme 72 c2y0oA_ not modelled 12.1 23 PDB header:isomerase Chain: A: PDB Molecule:probable d-lyxose ketol-isomerase; PDBTitle: the structure of a d-lyxose isomerase from the sigmab2 regulon of bacillus subtilis 73 c2k9xA_ not modelled 12.0 23 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of urm1 from trypanosoma brucei 74 d1wi4a1 not modelled 11.9 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 75 d1k9sa_ not modelled 11.8 23 Fold:Phosphorylase/hydrolase-like Superfamily:Purine and uridine phosphorylases Family:Purine and uridine phosphorylases 76 c1edzA_ not modelled 11.6 6 PDB header:oxidoreductase Chain: A: PDB Molecule:5,10-methylenetetrahydrofolate dehydrogenase; PDBTitle: structure of the nad-dependent 5,10-2 methylenetetrahydrofolate dehydrogenase from saccharomyces3 cerevisiae 77 c2kncA_ not modelled 11.6 13 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 78 c2kfwA_ not modelled 11.2 25 PDB header:isomerase Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase PDBTitle: solution structure of full-length slyd from e.coli 79 c3elsA_ not modelled 11.1 26 PDB header:splicing Chain: A: PDB Molecule:pre-mrna leakage protein 1; PDBTitle: crystal structure of yeast pml1p, residues 51-204 80 d1qcfa1 not modelled 11.1 19 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 81 d2piea1 not modelled 10.9 20 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:FHA domain 82 d2d6fa1 not modelled 10.9 12 Fold:Sm-like fold Superfamily:GatD N-terminal domain-like Family:GatD N-terminal domain-like 83 c1mhsA_ not modelled 10.8 21 PDB header:membrane protein, proton transport Chain: A: PDB Molecule:plasma membrane atpase; PDBTitle: model of neurospora crassa proton atpase 84 d1lgpa_ not modelled 10.7 29 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:FHA domain 85 d1va8a1 not modelled 10.6 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 86 c2egeA_ not modelled 10.5 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein kiaa1666; PDBTitle: solution structure of the third sh3 domain from human2 kiaa1666 protein 87 c1w9qB_ not modelled 10.2 14 PDB header:cell adhesion Chain: B: PDB Molecule:syntenin 1; PDBTitle: crystal structure of the pdz tandem of human syntenin in2 complex with tnefaf peptide 88 d1viga_ not modelled 9.8 14 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 89 c2dgrA_ not modelled 9.8 24 PDB header:rna binding protein Chain: A: PDB Molecule:ring finger and kh domain-containing protein 1; PDBTitle: solution structure of the second kh domain in ring finger2 and kh domain containing protein 1 90 c2egaA_ not modelled 9.7 15 PDB header:signaling protein Chain: A: PDB Molecule:sh3 and px domain-containing protein 2a; PDBTitle: solution structure of the first sh3 domain from human2 kiaa0418 protein 91 d1ufxa_ not modelled 9.6 9 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 92 c3kw0D_ not modelled 9.5 25 PDB header:hydrolase Chain: D: PDB Molecule:cysteine peptidase; PDBTitle: crystal structure of cysteine peptidase (np_982244.1) from bacillus2 cereus atcc 10987 at 2.50 a resolution 93 d1g9oa_ not modelled 9.5 14 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 94 c2ejyA_ not modelled 9.5 10 PDB header:membrane protein Chain: A: PDB Molecule:55 kda erythrocyte membrane protein; PDBTitle: solution structure of the p55 pdz t85c domain complexed2 with the glycophorin c f127c peptide 95 d1rgwa_ not modelled 9.4 12 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 96 c1tuaA_ not modelled 9.3 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ape0754; PDBTitle: 1.5 a crystal structure of a protein of unknown function2 ape0754 from aeropyrum pernix 97 c3npgD_ not modelled 9.2 11 PDB header:unknown function Chain: D: PDB Molecule:uncharacterized duf364 family protein; PDBTitle: crystal structure of a protein with unknown function from duf3642 family (ph1506) from pyrococcus horikoshii at 2.70 a resolution 98 c2dmoA_ not modelled 9.2 12 PDB header:signaling protein Chain: A: PDB Molecule:neutrophil cytosol factor 2; PDBTitle: refined solution structure of the 1st sh3 domain from human2 neutrophil cytosol factor 2 (ncf-2) 99 d1rzxa_ not modelled 9.1 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ 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

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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