Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	I	N	V	A	E	L	L	N	G	N	Y	I	L	L	L	F	V	V	L	A	L	G	L	C	L	G	K	L	R	L	G	S	I	Q	L	G	N	S	I	G	V	L	V	V	S	L	L	L	G	Q	Q	H	F	S	I	N	T	D
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	L	N	L	G	F	M	L	F	I	F	C	V	G	V	E	A	G	P	N	F	F	S	I	F	F	R	D	G	K	N	Y	L	M	L	A	L	V	M	V	G	S	A	L	V	I	A	L	G	L	G	K	L	F	G	W	D	I	G	L
Secondary structure
SS confidence
Disorder																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	A	G	M	L	A	G	S	M	T	S	T	P	V	L	V	G	A	G	D	T	L	R	H	S	G	M	E	S	R	Q	L	S	L	A	L	D	N	L	S	L	G	Y	A	L	T	Y	L	I	G	L	V	S	L	I	V	G	A	R	Y
Secondary structure
SS confidence
Disorder							?	?	?	?	?	?	?	?									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		L	P	K	L	Q	H	Q	D	L	Q	T	S	A	Q	Q	I	A	R	E	R	G	L	D	T	D	A	N	R	K	V	Y	L	P	V	I	R	A	Y	R	V	G	P	E	L	V	A	W	T	D	G	K	N	L	R	E	L	G	I	Y	R
Secondary structure
SS confidence
Disorder								?			?	?							?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		Q	T	G	C	Y	I	E	R	I	R	R	N	G	I	L	A	N	P	D	G	D	A	V	L	Q	M	G	D	E	I	A	L	V	G	Y	P	D	A	H	A	R	L	D	P	S	F	R	N	G	K	E	V	F	D	R	D	L	L	D	M
Secondary structure
SS confidence
Disorder																			?																												?						?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		R	I	V	T	E	E	V	V	V	K	N	H	N	A	V	G	K	R	L	A	Q	L	K	L	T	D	H	G	C	F	L	N	R	V	I	R	S	Q	I	E	M	P	I	D	D	N	V	V	L	N	K	G	D	V	L	Q	V	S	G	D
Secondary structure
SS confidence
Disorder		?	?	?	?												?																					?				?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		A	R	R	V	K	T	I	A	D	R	I	G	F	I	S	I	H	S	Q	V	T	D	L	L	A	F	C	A	F	F	V	I	G	L	M	I	G	M	I	T	F	Q	F	S	T	F	S	F	G	M	G	N	A	A	G	L	L	F	A	G
Secondary structure
SS confidence
Disorder															?	?	?	?	?	?	?	?	?																		?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		I	M	L	G	F	M	R	A	N	H	P	T	F	G	Y	I	P	Q	G	A	L	S	M	V	K	E	F	G	L	M	V	F	M	A	G	V	G	L	S	A	G	S	G	I	N	N	G	L	G	A	I	G	G	Q	M	L	I	A	G	L
Secondary structure
SS confidence
Disorder																												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		I	V	S	L	V	P	V	V	I	C	F	L	F	G	A	Y	V	L	R	M	N	R	A	L	L	F	G	A	M	M	G	A	R	T	C	A	P	A	M	E	I	I	S	D	T	A	R	S	N	I	P	A	L	G	Y	A	G	T	Y	A
Secondary structure
SS confidence
Disorder																																													?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	550	.	.	.	.	.	.	.	.	.	560	.
Sequence		I	A	N	V	L	L	T	L	A	G	T	I	I	V	M	V	W	P	G	L	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: 299 - 377 Aligned: 79 Modelled: 79 Confidence: 99.5% Identity: 23% 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: 297 - 372 Aligned: 76 Modelled: 76 Confidence: 99.5% Identity: 13% Fold: TrkA C-terminal domain-like Superfamily: TrkA C-terminal domain-like Family: TrkA C-terminal domain-like Phyre2 PDB 2bkn chain A Region: 193 - 284 Aligned: 92 Modelled: 92 Confidence: 99.5% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:hypothetical protein ph0236; PDBTitle: structure analysis of unknown function protein Phyre2 PDB 3jxo chain B Region: 296 - 371 Aligned: 75 Modelled: 76 Confidence: 99.3% Identity: 20% 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: 211 - 287 Aligned: 77 Modelled: 77 Confidence: 99.1% Identity: 23% 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: 210 - 287 Aligned: 78 Modelled: 78 Confidence: 99.1% 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: 305 - 371 Aligned: 65 Modelled: 67 Confidence: 98.5% Identity: 20% 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: 221 - 375 Aligned: 155 Modelled: 155 Confidence: 97.7% Identity: 10% 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: 221 - 375 Aligned: 147 Modelled: 155 Confidence: 97.7% Identity: 9% 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 2ka9 chain A Region: 218 - 356 Aligned: 133 Modelled: 139 Confidence: 87.5% Identity: 14% 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 3naf chain A Region: 221 - 278 Aligned: 58 Modelled: 58 Confidence: 85.1% Identity: 14% 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 1u3b chain A Region: 214 - 356 Aligned: 129 Modelled: 139 Confidence: 77.7% Identity: 15% 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 Phyre2 PDB 1zud chain 2 domain 1 Region: 230 - 273 Aligned: 44 Modelled: 44 Confidence: 76.7% Identity: 20% Fold: beta-Grasp (ubiquitin-like) Superfamily: MoaD/ThiS Family: ThiS Phyre2 PDB 2cu3 chain A domain 1 Region: 222 - 273 Aligned: 52 Modelled: 52 Confidence: 76.0% Identity: 19% Fold: beta-Grasp (ubiquitin-like) Superfamily: MoaD/ThiS Family: ThiS Phyre2 PDB 2kl0 chain A Region: 227 - 273 Aligned: 47 Modelled: 47 Confidence: 72.0% Identity: 13% 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 3r0h chain A Region: 205 - 356 Aligned: 146 Modelled: 148 Confidence: 70.3% Identity: 18% 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 PDB 3cwi chain A Region: 230 - 273 Aligned: 44 Modelled: 44 Confidence: 64.6% Identity: 16% 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 1tyg chain B Region: 231 - 273 Aligned: 43 Modelled: 43 Confidence: 62.9% Identity: 21% Fold: beta-Grasp (ubiquitin-like) Superfamily: MoaD/ThiS Family: ThiS Phyre2 PDB 2zc3 chain F Region: 228 - 358 Aligned: 100 Modelled: 100 Confidence: 59.1% 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 1p1d chain A Region: 214 - 356 Aligned: 136 Modelled: 143 Confidence: 56.0% Identity: 15% PDB header:protein binding Chain: A: PDB Molecule:glutamate receptor interacting protein; PDBTitle: structural insights into the inter-domain chaperoning of2 tandem pdz domains in glutamate receptor interacting3 proteins Phyre2 1 d1vcta2 2 d2fy8a2 3 c2bknA_ 4 c3jxoB_ 5 c2fy8A_ 6 c1lnqC_ 7 c3l4bG_ 8 c3mt5A_ 9 c3u6nC_ 10 c2ka9A_ 11 c3nafA_ 12 c1u3bA_ 13 d1zud21 14 d2cu3a1 15 c2kl0A_ 16 c3r0hA_ 17 c3cwiA_ 18 d1tygb_ 19 c2zc3F_ 20 c1p1dA_ 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 23 Fold:TrkA C-terminal domain-like Superfamily:TrkA C-terminal domain-like Family:TrkA C-terminal domain-like 2 d2fy8a2 99.5 13 Fold:TrkA C-terminal domain-like Superfamily:TrkA C-terminal domain-like Family:TrkA C-terminal domain-like 3 c2bknA_ 99.5 18 PDB header:membrane protein Chain: A: PDB Molecule:hypothetical protein ph0236; PDBTitle: structure analysis of unknown function protein 4 c3jxoB_ 99.3 20 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_ 99.1 23 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_ 99.1 23 PDB header:metal transport Chain: C: PDB Molecule:potassium channel related protein; PDBTitle: crystal structure of mthk at 3.3 a 7 c3l4bG_ 98.5 20 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_ 97.7 10 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_ 97.7 9 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 c2ka9A_ 87.5 14 PDB header:cell adhesion Chain: A: PDB Molecule:disks large homolog 4; PDBTitle: solution structure of psd-95 pdz12 complexed with cypin2 peptide 11 c3nafA_ 85.1 14 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) 12 c1u3bA_ 77.7 15 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 13 d1zud21 76.7 20 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 14 d2cu3a1 76.0 19 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 15 c2kl0A_ 72.0 13 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 16 c3r0hA_ 70.3 18 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 17 c3cwiA_ 64.6 16 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 18 d1tygb_ 62.9 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 19 c2zc3F_ 59.1 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 20 c1p1dA_ 56.0 15 PDB header:protein binding Chain: A: PDB Molecule:glutamate receptor interacting protein; PDBTitle: structural insights into the inter-domain chaperoning of2 tandem pdz domains in glutamate receptor interacting3 proteins 21 c1tygG_ not modelled 53.0 20 PDB header:biosynthetic protein Chain: G: PDB Molecule:yjbs; PDBTitle: structure of the thiazole synthase/this complex 22 d1v62a_ not modelled 50.8 15 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 23 c2jreA_ not modelled 48.1 14 PDB header:de novo protein Chain: A: PDB Molecule:c60-1 pdz domain peptide; PDBTitle: c60-1, a pdz domain designed using statistical coupling2 analysis 24 c2d8iA_ not modelled 44.8 17 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 25 c2ejyA_ not modelled 43.1 24 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 26 d1qlca_ not modelled 40.9 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 27 c3ggeA_ not modelled 40.6 19 PDB header:protein binding Chain: A: PDB Molecule:pdz domain-containing protein gipc2; PDBTitle: crystal structure of the pdz domain of pdz domain-containing protein2 gipc2 28 c2qt5A_ not modelled 39.5 18 PDB header:peptide binding protein Chain: A: PDB Molecule:glutamate receptor-interacting protein 1; PDBTitle: crystal structure of grip1 pdz12 in complex with the fras12 peptide 29 d1wi2a_ not modelled 39.2 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 30 d1uhpa_ not modelled 38.5 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 31 d1i16a_ not modelled 38.3 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:Interleukin 16 32 d1d5ga_ not modelled 37.1 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 33 d1um1a_ not modelled 35.6 23 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 34 c2xkxB_ not modelled 34.9 16 PDB header:structural protein Chain: B: PDB Molecule:disks large homolog 4; PDBTitle: single particle analysis of psd-95 in negative stain 35 c2xrfA_ not modelled 34.9 26 PDB header:transferase Chain: A: PDB Molecule:uridine phosphorylase 2; PDBTitle: crystal structure of human uridine phosphorylase 2 36 d1wf8a1 not modelled 33.8 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 37 c2fneB_ not modelled 31.8 15 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:multiple pdz domain protein; PDBTitle: the crystal structure of the 13th pdz domain of mpdz 38 c4a8aI_ not modelled 30.7 19 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 39 c2dazA_ not modelled 30.0 16 PDB header:protein binding Chain: A: PDB Molecule:inad-like protein; PDBTitle: solution structure of the 7th pdz domain of inad-like2 protein 40 c2d92A_ not modelled 28.9 16 PDB header:protein binding Chain: A: PDB Molecule:inad-like protein; PDBTitle: solution structure of the fifth pdz domain of inad-like2 protein 41 d2byga1 not modelled 28.6 19 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 42 c2yt7A_ not modelled 28.6 18 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 43 c2dluA_ not modelled 28.1 22 PDB header:protein binding Chain: A: PDB Molecule:inad-like protein; PDBTitle: solution structure of the second pdz domain of human inad-2 like protein 44 d2fe5a1 not modelled 27.9 23 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 45 d1v6ba_ not modelled 27.8 12 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 46 c3tl6B_ not modelled 27.8 21 PDB header:transferase Chain: B: PDB Molecule:purine nucleoside phosphorylase; PDBTitle: crystal structure of purine nucleoside phosphorylase from entamoeba2 histolytica 47 c2djtA_ not modelled 27.7 16 PDB header:signaling protein Chain: A: PDB Molecule:unnamed protein product; PDBTitle: solution structures of the pdz domain of human unnamed2 protein product 48 d1rp5a2 not modelled 27.0 9 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 49 c2dm8A_ not modelled 26.6 13 PDB header:protein binding Chain: A: PDB Molecule:inad-like protein; PDBTitle: solution structure of the eighth pdz domain of human inad-2 like protein 50 d1uita_ not modelled 26.4 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 51 c3kzeA_ not modelled 25.9 21 PDB header:signaling protein Chain: A: PDB Molecule:t-lymphoma invasion and metastasis-inducing protein 1; PDBTitle: crystal structure of t-cell lymphoma invasion and metastasis-1 pdz in2 complex with ssrkeyya peptide 52 d1pyya2 not modelled 25.4 9 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 53 d1tp5a1 not modelled 24.7 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 54 d1x6da1 not modelled 24.6 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:Interleukin 16 55 c2rqeA_ not modelled 24.4 15 PDB header:sugar binding protein Chain: A: PDB Molecule:beta-1,3-glucan-binding protein; PDBTitle: solution structure of the silkworm bgrp/gnbp3 n-terminal2 domain reveals the mechanism for b-1,3-glucan specific3 recognition 56 d1ufxa_ not modelled 24.3 27 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 57 d1g9oa_ not modelled 24.0 23 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 58 c2ogpA_ not modelled 23.3 17 PDB header:signaling protein Chain: A: PDB Molecule:partitioning-defective 3 homolog; PDBTitle: solution structure of the second pdz domain of par-3 59 c3krmB_ not modelled 23.1 12 PDB header:rna binding protein Chain: B: PDB Molecule:insulin-like growth factor 2 mrna-binding protein PDBTitle: imp1 kh34 60 d1zoka1 not modelled 23.0 19 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 61 c2opgB_ not modelled 22.7 13 PDB header:structural protein Chain: B: PDB Molecule:multiple pdz domain protein; PDBTitle: the crystal structure of the 10th pdz domain of mpdz 62 d1x5qa1 not modelled 22.5 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 63 d1rzxa_ not modelled 22.4 25 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 64 c2dmzA_ not modelled 21.8 12 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 65 d2i0ia1 not modelled 21.7 27 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 66 d1va8a1 not modelled 21.7 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 67 d1be9a_ not modelled 21.5 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 68 d1r61a_ not modelled 21.0 20 Fold:The "swivelling" beta/beta/alpha domain Superfamily:Putative cyclase Family:Putative cyclase 69 c3npgD_ not modelled 20.3 17 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 70 d2fnea1 not modelled 20.1 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 71 d1wgka_ not modelled 19.8 13 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:C9orf74 homolog 72 c2vwrA_ not modelled 19.7 15 PDB header:protein-binding Chain: A: PDB Molecule:ligand of numb protein x 2; PDBTitle: crystal structure of the second pdz domain of numb-binding2 protein 2 73 c2hc8A_ not modelled 19.6 16 PDB header:transport protein Chain: A: PDB Molecule:cation-transporting atpase, p-type; PDBTitle: structure of the a. fulgidus copa a-domain 74 c2yubA_ not modelled 19.6 10 PDB header:transferase Chain: A: PDB Molecule:lim domain kinase 2; PDBTitle: solution structure of the pdz domain from mouse lim domain2 kinase 75 c2eehA_ not modelled 19.4 22 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 76 d1n7ea_ not modelled 19.2 15 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 77 c1mhsA_ not modelled 18.9 18 PDB header:membrane protein, proton transport Chain: A: PDB Molecule:plasma membrane atpase; PDBTitle: model of neurospora crassa proton atpase 78 c3ixzA_ not modelled 18.8 15 PDB header:hydrolase Chain: A: PDB Molecule:potassium-transporting atpase alpha; PDBTitle: pig gastric h+/k+-atpase complexed with aluminium fluoride 79 c2k1zA_ not modelled 17.4 16 PDB header:signaling protein Chain: A: PDB Molecule:partitioning-defective 3 homolog; PDBTitle: solution structure of par-3 pdz3 80 c2egkC_ not modelled 17.1 18 PDB header:protein binding Chain: C: PDB Molecule:general receptor for phosphoinositides 1- PDBTitle: crystal structure of tamalin pdz-intrinsic ligand fusion2 protein 81 d1whaa_ not modelled 17.1 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 82 c2jilA_ not modelled 16.4 20 PDB header:membrane protein Chain: A: PDB Molecule:glutamate receptor interacting protein-1; PDBTitle: crystal structure of 2nd pdz domain of glutamate receptor2 interacting protein-1 (grip1) 83 c2vspA_ not modelled 16.3 24 PDB header:transport protein Chain: A: PDB Molecule:pdz domain-containing protein 1; PDBTitle: crystal structure of the fourth pdz domain of pdz domain-2 containing protein 1 84 c2xlkB_ not modelled 16.2 16 PDB header:hydrolase/rna Chain: B: PDB Molecule:csy4 endoribonuclease; PDBTitle: crystal structure of the csy4-crrna complex, orthorhombic form 85 d1ozia_ not modelled 16.0 23 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 86 d1wpga1 not modelled 15.9 19 Fold:Double-stranded beta-helix Superfamily:Calcium ATPase, transduction domain A Family:Calcium ATPase, transduction domain A 87 d1ueqa_ not modelled 15.8 13 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 88 c2q3gA_ not modelled 15.4 22 PDB header:structural genomics Chain: A: PDB Molecule:pdz and lim domain protein 7; PDBTitle: structure of the pdz domain of human pdlim7 bound to a c-2 terminal extension from human beta-tropomyosin 89 c2k9xA_ not modelled 15.2 26 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of urm1 from trypanosoma brucei 90 d2piaa1 not modelled 15.2 29 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Riboflavin synthase domain-like Family:Ferredoxin reductase FAD-binding domain-like 91 d1qava_ not modelled 14.8 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 92 d1wi4a1 not modelled 14.8 23 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 93 c3kw0D_ not modelled 14.5 38 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 94 d1kwaa_ not modelled 14.5 24 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 95 d1y7ma2 not modelled 14.4 10 Fold:LysM domain Superfamily:LysM domain Family:LysM domain 96 c3pr9A_ not modelled 14.3 24 PDB header:chaperone Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase; PDBTitle: structural analysis of protein folding by the methanococcus jannaschii2 chaperone fkbp26 97 d2h1qa1 not modelled 14.1 15 Fold:PLP-dependent transferase-like Superfamily:Dhaf3308-like Family:Dhaf3308-like 98 c2gzvA_ not modelled 14.1 31 PDB header:signaling protein Chain: A: PDB Molecule:prkca-binding protein; PDBTitle: the cystal structure of the pdz domain of human pick1 (casp target) 99 c3eggC_ not modelled 13.9 17 PDB header:hydrolase Chain: C: PDB Molecule:spinophilin; PDBTitle: crystal structure of a complex between protein phosphatase 1 alpha2 (pp1) and the pp1 binding and pdz domains of spinophilin

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