Secondary structure and disorder prediction

1

.

.

.

.

.

.

.

.

10

.

.

.

.

.

.

.

.

.

20

.

.

.

.

.

.

.

.

.

30

.

.

.

.

.

.

.

.

.

40

.

.

.

.

.

.

.

.

.

50

.

.

.

.

.

.

.

.

.

60

Sequence

M

P

T

L

R

F

P

F

H

L

A

N

H

N

K

D

A

A

I

N

I

L

I

I

F

I

S

I

G

S

I

I

F

N

V

N

Y

F

H

T

T

I

V

K

N

G

Q

I

I

N

Q

P

T

N

A

F

Q

S

D

F

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

.

.

.

.

.

.

.

.

.

70

.

.

.

.

.

.

.

.

.

80

.

.

.

.

.

.

.

.

.

90

.

.

.

.

.

.

.

.

.

100

.

.

.

.

.

.

.

.

.

110

.

.

.

.

.

.

.

.

.

120

Sequence

S

L

A

A

L

W

R

N

E

N

H

A

G

V

K

D

A

N

P

V

A

V

N

Q

E

T

P

K

L

S

I

A

L

N

G

I

V

L

T

S

N

D

E

T

S

F

V

L

I

N

E

G

S

E

Q

K

R

Y

S

L

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

.

.

.

.

.

.

.

.

.

130

.

.

.

.

.

.

.

.

.

140

.

.

.

.

.

.

.

.

.

150

.

.

.

.

.

.

.

.

.

160

.

.

.

.

.

.

.

.

.

170

.

.

.

.

.

.

.

.

.

180

Sequence

N

E

A

L

E

S

A

P

G

T

F

I

R

K

I

N

K

T

S

V

V

F

E

T

H

G

H

Y

E

K

V

T

L

H

P

G

L

P

D

I

I

K

Q

P

D

S

E

S

Q

N

V

L

A

D

Y

I

I

A

T

P

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

.

.

.

.

.

.

.

.

.

190

.

.

.

.

.

.

.

.

.

200

.

.

.

.

.

.

.

.

.

210

.

.

.

.

.

.

.

.

.

220

.

.

.

.

.

.

.

.

.

230

.

.

.

.

.

.

.

.

.

240

Sequence

I

R

D

G

E

Q

I

Y

G

L

R

L

N

P

R

K

G

L

N

A

F

T

T

S

L

L

Q

P

G

D

I

A

L

R

I

N

N

L

S

L

T

H

P

D

E

V

S

Q

A

L

S

L

L

L

T

Q

Q

S

A

Q

Secondary structure

SS confidence

Disorder

?

?

?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

.

.

.

.

.

.

.

.

.

250

.

.

.

.

.

.

.

.

.

260

.

.

.

.

.

.

.

.

.

270

.

Sequence

F

T

I

R

R

N

G

V

P

R

L

I

N

V

S

V

G

E

L

T

G

M

N

G

L

R

H

E

R

T

Q

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 3stj chain C Region: 5 - 258 Aligned: 226 Modelled: 233 Confidence: 100.0% Identity: 15% PDB header:hydrolase Chain: C: PDB Molecule:protease degq; PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli Phyre2 PDB 4a8a chain I Region: 5 - 267 Aligned: 235 Modelled: 243 Confidence: 100.0% Identity: 15% 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 Phyre2 PDB 3pv5 chain B Region: 5 - 260 Aligned: 216 Modelled: 235 Confidence: 100.0% Identity: 15% PDB header:hydrolase Chain: B: PDB Molecule:degq; PDBTitle: structure of legionella fallonii degq (n189g/p190g variant) Phyre2 PDB 1ky9 chain A Region: 5 - 255 Aligned: 220 Modelled: 237 Confidence: 100.0% Identity: 13% PDB header:hydrolase Chain: A: PDB Molecule:protease do; PDBTitle: crystal structure of degp (htra) Phyre2 PDB 1lcy chain A Region: 5 - 260 Aligned: 213 Modelled: 226 Confidence: 100.0% Identity: 15% PDB header:hydrolase Chain: A: PDB Molecule:htra2 serine protease; PDBTitle: crystal structure of the mitochondrial serine protease htra2 Phyre2 PDB 3gds chain A Region: 5 - 255 Aligned: 211 Modelled: 219 Confidence: 100.0% Identity: 11% PDB header:hydrolase/hydrolase activator Chain: A: PDB Molecule:protease degs; PDBTitle: crystal structure of degs h198p/d320a mutant modified by dfp in2 complex with dnrdgnvyyf peptide Phyre2 PDB 3pv4 chain A Region: 5 - 258 Aligned: 212 Modelled: 233 Confidence: 100.0% Identity: 15% PDB header:hydrolase Chain: A: PDB Molecule:degq; PDBTitle: structure of legionella fallonii degq (delta-pdz2 variant) Phyre2 PDB 3qo6 chain B Region: 5 - 262 Aligned: 225 Modelled: 233 Confidence: 100.0% Identity: 12% PDB header:photosynthesis Chain: B: PDB Molecule:protease do-like 1, chloroplastic; PDBTitle: crystal structure analysis of the plant protease deg1 Phyre2 PDB 2z9i chain B Region: 5 - 250 Aligned: 201 Modelled: 214 Confidence: 100.0% Identity: 12% PDB header:hydrolase Chain: B: PDB Molecule:probable serine protease pepd; PDBTitle: crystal structure of rv0983 from mycobacterium tuberculosis-2 proteolytically active form Phyre2 PDB 2r3y chain C Region: 5 - 260 Aligned: 199 Modelled: 220 Confidence: 99.9% Identity: 13% PDB header:hydrolase/hydrolase activator Chain: C: PDB Molecule:protease degs; PDBTitle: crystal structure of the degs protease in complex with the2 ywf activating peptide Phyre2 PDB 2i4s chain A domain 1 Region: 162 - 256 Aligned: 95 Modelled: 95 Confidence: 99.8% Identity: 20% Fold: PDZ domain-like Superfamily: PDZ domain-like Family: EpsC C-terminal domain-like Phyre2 PDB 2i6v chain A domain 1 Region: 170 - 256 Aligned: 87 Modelled: 87 Confidence: 99.7% Identity: 22% Fold: PDZ domain-like Superfamily: PDZ domain-like Family: EpsC C-terminal domain-like Phyre2 PDB 2p3w chain B Region: 146 - 261 Aligned: 97 Modelled: 100 Confidence: 99.6% Identity: 19% PDB header:protein binding Chain: B: PDB Molecule:probable serine protease htra3; PDBTitle: crystal structure of the htra3 pdz domain bound to a phage-derived2 ligand (fgrwv) Phyre2 PDB 2joa chain A Region: 146 - 260 Aligned: 104 Modelled: 112 Confidence: 99.6% Identity: 18% PDB header:protein binding Chain: A: PDB Molecule:serine protease htra1; PDBTitle: htra1 bound to an optimized peptide: nmr assignment of pdz2 domain and ligand resonances Phyre2 PDB 1lcy chain A domain 1 Region: 150 - 258 Aligned: 98 Modelled: 109 Confidence: 99.6% Identity: 17% Fold: PDZ domain-like Superfamily: PDZ domain-like Family: HtrA-like serine proteases Phyre2 PDB 2z9i chain A domain 1 Region: 182 - 258 Aligned: 77 Modelled: 77 Confidence: 99.5% Identity: 13% Fold: PDZ domain-like Superfamily: PDZ domain-like Family: HtrA-like serine proteases Phyre2 PDB 1ky9 chain A domain 1 Region: 148 - 255 Aligned: 94 Modelled: 94 Confidence: 99.5% Identity: 11% Fold: PDZ domain-like Superfamily: PDZ domain-like Family: HtrA-like serine proteases Phyre2 PDB 2kl1 chain A Region: 185 - 264 Aligned: 79 Modelled: 80 Confidence: 99.5% Identity: 9% PDB header:protein binding Chain: A: PDB Molecule:ylbl protein; PDBTitle: solution structure of gtr34c from geobacillus thermodenitrificans.2 northeast structural genomics consortium target gtr34c Phyre2 PDB 3i18 chain A Region: 188 - 261 Aligned: 73 Modelled: 74 Confidence: 99.5% Identity: 10% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lmo2051 protein; PDBTitle: crystal structure of the pdz domain of the sdrc-like protein2 (lmo2051) from listeria monocytogenes, northeast structural3 genomics consortium target lmr166b Phyre2 PDB 2kjp chain A Region: 188 - 264 Aligned: 76 Modelled: 77 Confidence: 99.4% Identity: 8% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ylbl; PDBTitle: solution structure of protein ylbl (bsu15050) from bacillus2 subtilis, northeast structural genomics consortium target3 sr713a Phyre2 1 c3stjC_ 2 c4a8aI_ 3 c3pv5B_ 4 c1ky9A_ 5 c1lcyA_ 6 c3gdsA_ 7 c3pv4A_ 8 c3qo6B_ 9 c2z9iB_ 10 c2r3yC_ 11 d2i4sa1 12 d2i6va1 13 c2p3wB_ 14 c2joaA_ 15 d1lcya1 16 d2z9ia1 17 d1ky9a1 18 c2kl1A_ 19 c3i18A_ 20 c2kjpA_ 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 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268

Detailed template information

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

1 c3stjC_ 100.0 15 PDB header:hydrolase Chain: C: PDB Molecule:protease degq; PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli 2 c4a8aI_ 100.0 15 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 3 c3pv5B_ 100.0 15 PDB header:hydrolase Chain: B: PDB Molecule:degq; PDBTitle: structure of legionella fallonii degq (n189g/p190g variant) 4 c1ky9A_ 100.0 13 PDB header:hydrolase Chain: A: PDB Molecule:protease do; PDBTitle: crystal structure of degp (htra) 5 c1lcyA_ 100.0 15 PDB header:hydrolase Chain: A: PDB Molecule:htra2 serine protease; PDBTitle: crystal structure of the mitochondrial serine protease htra2 6 c3gdsA_ 100.0 11 PDB header:hydrolase/hydrolase activator Chain: A: PDB Molecule:protease degs; PDBTitle: crystal structure of degs h198p/d320a mutant modified by dfp in2 complex with dnrdgnvyyf peptide 7 c3pv4A_ 100.0 15 PDB header:hydrolase Chain: A: PDB Molecule:degq; PDBTitle: structure of legionella fallonii degq (delta-pdz2 variant) 8 c3qo6B_ 100.0 12 PDB header:photosynthesis Chain: B: PDB Molecule:protease do-like 1, chloroplastic; PDBTitle: crystal structure analysis of the plant protease deg1 9 c2z9iB_ 100.0 12 PDB header:hydrolase Chain: B: PDB Molecule:probable serine protease pepd; PDBTitle: crystal structure of rv0983 from mycobacterium tuberculosis-2 proteolytically active form 10 c2r3yC_ 99.9 13 PDB header:hydrolase/hydrolase activator Chain: C: PDB Molecule:protease degs; PDBTitle: crystal structure of the degs protease in complex with the2 ywf activating peptide 11 d2i4sa1 99.8 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:EpsC C-terminal domain-like 12 d2i6va1 99.7 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:EpsC C-terminal domain-like 13 c2p3wB_ 99.6 19 PDB header:protein binding Chain: B: PDB Molecule:probable serine protease htra3; PDBTitle: crystal structure of the htra3 pdz domain bound to a phage-derived2 ligand (fgrwv) 14 c2joaA_ 99.6 18 PDB header:protein binding Chain: A: PDB Molecule:serine protease htra1; PDBTitle: htra1 bound to an optimized peptide: nmr assignment of pdz2 domain and ligand resonances 15 d1lcya1 99.6 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 16 d2z9ia1 99.5 13 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 17 d1ky9a1 99.5 11 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 18 c2kl1A_ 99.5 9 PDB header:protein binding Chain: A: PDB Molecule:ylbl protein; PDBTitle: solution structure of gtr34c from geobacillus thermodenitrificans.2 northeast structural genomics consortium target gtr34c 19 c3i18A_ 99.5 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lmo2051 protein; PDBTitle: crystal structure of the pdz domain of the sdrc-like protein2 (lmo2051) from listeria monocytogenes, northeast structural3 genomics consortium target lmr166b 20 c2kjpA_ 99.4 8 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ylbl; PDBTitle: solution structure of protein ylbl (bsu15050) from bacillus2 subtilis, northeast structural genomics consortium target3 sr713a 21 d1ky9a2 not modelled 99.4 14 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Prokaryotic proteases 22 c2rceI_ not modelled 99.3 13 PDB header:hydrolase Chain: I: PDB Molecule:protease degs; PDBTitle: dfp modified degs delta pdz 23 c3ossC_ not modelled 99.3 30 PDB header:protein transport Chain: C: PDB Molecule:type 2 secretion system, gspc; PDBTitle: the crystal structure of enterotoxigenic escherichia coli gspc-gspd2 complex from the type ii secretion system 24 d1sota1 not modelled 99.3 12 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 25 d2hgaa1 not modelled 99.3 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:MTH1368 C-terminal domain-like 26 d1ky9b2 not modelled 99.2 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 27 c3mmgB_ not modelled 99.2 9 PDB header:viral protein, hydrolase Chain: B: PDB Molecule:nuclear inclusion protein a; PDBTitle: crystal structure of tobacco vein mottling virus protease 28 d1fc6a3 not modelled 99.2 11 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:Tail specific protease PDZ domain 29 c3rleA_ not modelled 99.1 17 PDB header:membrane protein Chain: A: PDB Molecule:golgi reassembly-stacking protein 2; PDBTitle: crystal structure of grasp55 grasp domain (residues 7-208) 30 c2zplA_ not modelled 99.1 12 PDB header:hydrolase Chain: A: PDB Molecule:regulator of sigma e protease; PDBTitle: crystal structure analysis of pdz domain a 31 d1l1ja_ not modelled 99.1 15 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Prokaryotic proteases 32 c2zpmA_ not modelled 99.1 19 PDB header:hydrolase Chain: A: PDB Molecule:regulator of sigma e protease; PDBTitle: crystal structure analysis of pdz domain b 33 d1q31a_ not modelled 99.1 11 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral proteases 34 d2qf3a1 not modelled 99.0 14 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Prokaryotic proteases 35 d2z9ia2 not modelled 98.9 12 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Prokaryotic proteases 36 d1lvmb_ not modelled 98.9 11 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Viral proteases 37 c3nwuB_ not modelled 98.8 15 PDB header:hydrolase Chain: B: PDB Molecule:serine protease htra1; PDBTitle: substrate induced remodeling of the active site regulates htra12 activity 38 c3nziA_ not modelled 98.8 13 PDB header:hydrolase/hydrolase substrate Chain: A: PDB Molecule:serine protease htra1; PDBTitle: substrate induced remodeling of the active site regulates htra12 activity 39 c2yuyA_ not modelled 98.8 16 PDB header:signaling protein Chain: A: PDB Molecule:rho gtpase activating protein 21; PDBTitle: solution structure of pdz domain of rho gtpase activating2 protein 21 40 c3stiC_ not modelled 98.8 15 PDB header:hydrolase Chain: C: PDB Molecule:protease degq; PDBTitle: crystal structure of the protease domain of degq from escherichia coli 41 c2eaqA_ not modelled 98.8 22 PDB header:metal binding protein Chain: A: PDB Molecule:lim domain only protein 7; PDBTitle: crystal structure of pdz domain of kiaa0858 (lim), ms07932 from homo sapiens 42 d1qtfa_ not modelled 98.7 10 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Prokaryotic proteases 43 d1wifa_ not modelled 98.7 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 44 d1x5qa1 not modelled 98.7 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 45 c3shuB_ not modelled 98.6 20 PDB header:cell adhesion Chain: B: PDB Molecule:tight junction protein zo-1; PDBTitle: crystal structure of zo-1 pdz3 46 d1wfga_ not modelled 98.6 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 47 c2b0fA_ not modelled 98.6 3 PDB header:hydrolase/hydrolase inhibitor Chain: A: PDB Molecule:picornain 3c (protease 3c) (p3c); PDBTitle: nmr structure of the human rhinovirus 3c protease (serotype 14) with2 covalently bound ace-lealfq-ethylpropionate inhibitor 48 c3diwB_ not modelled 98.6 16 PDB header:signaling protein/cell adhesion Chain: B: PDB Molecule:tax1-binding protein 3; PDBTitle: c-terminal beta-catenin bound tip-1 structure 49 c3l4fD_ not modelled 98.6 10 PDB header:signaling protein/protein binding Chain: D: PDB Molecule:sh3 and multiple ankyrin repeat domains protein PDBTitle: crystal structure of betapix coiled-coil domain and shank2 pdz complex 50 c2krgA_ not modelled 98.6 13 PDB header:signaling protein Chain: A: PDB Molecule:na(+)/h(+) exchange regulatory cofactor nhe-rf1; PDBTitle: solution structure of human sodium/ hydrogen exchange2 regulatory factor 1(150-358) 51 c2komA_ not modelled 98.6 15 PDB header:signaling protein Chain: A: PDB Molecule:partitioning defective 3 homolog; PDBTitle: solution structure of humar par-3b pdz2 (residues 451-549) 52 d1ueqa_ not modelled 98.6 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 53 c2q3gA_ not modelled 98.6 10 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 54 d1q3oa_ not modelled 98.6 11 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 55 d1rgwa_ not modelled 98.6 12 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 56 d1m5za_ not modelled 98.6 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 57 c2eehA_ not modelled 98.6 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 58 d2f5ya1 not modelled 98.5 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 59 d1ozia_ not modelled 98.5 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 60 c2kjdA_ not modelled 98.5 12 PDB header:signaling protein Chain: A: PDB Molecule:sodium/hydrogen exchange regulatory cofactor nhe- PDBTitle: solution structure of extended pdz2 domain from nherf1 (150-2 270) 61 d1uf1a_ not modelled 98.5 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 62 d1lcya2 not modelled 98.5 14 Fold:Trypsin-like serine proteases Superfamily:Trypsin-like serine proteases Family:Prokaryotic proteases 63 c3khfA_ not modelled 98.5 13 PDB header:transferase Chain: A: PDB Molecule:microtubule-associated serine/threonine-protein PDBTitle: the crystal structure of the pdz domain of human microtubule2 associated serine/threonine kinase 3 (mast3) 64 c3shwA_ not modelled 98.5 21 PDB header:cell adhesion Chain: A: PDB Molecule:tight junction protein zo-1; PDBTitle: crystal structure of zo-1 pdz3-sh3-guk supramodule complex with2 connexin-45 peptide 65 d1p1da2 not modelled 98.5 23 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 66 c2vwrA_ not modelled 98.5 24 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 67 c2v90E_ not modelled 98.5 13 PDB header:protein-binding Chain: E: PDB Molecule:pdz domain-containing protein 3; PDBTitle: crystal structure of the 3rd pdz domain of intestine- and2 kidney-enriched pdz domain ikepp (pdzd3) 68 c2w5eB_ not modelled 98.5 9 PDB header:hydrolase Chain: B: PDB Molecule:putative serine protease; PDBTitle: structural and biochemical analysis of human pathogenic2 astrovirus serine protease at 2.0 angstrom resolution 69 c2qt5A_ not modelled 98.5 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 70 d1t2ma1 not modelled 98.5 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 71 d2fe5a1 not modelled 98.5 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 72 c3k6zA_ not modelled 98.5 14 PDB header:hydrolase Chain: A: PDB Molecule:possible membrane-associated serine protease; PDBTitle: crystal structure of rv3671c protease, inactive form 73 d1ihja_ not modelled 98.5 13 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 74 c2egkC_ not modelled 98.5 12 PDB header:protein binding Chain: C: PDB Molecule:general receptor for phosphoinositides 1- PDBTitle: crystal structure of tamalin pdz-intrinsic ligand fusion2 protein 75 c1p1dA_ not modelled 98.5 22 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 76 c2v1wB_ not modelled 98.5 14 PDB header:structural protein Chain: B: PDB Molecule:pdz and lim domain protein 4; PDBTitle: crystal structure of human lim protein ril (pdlim4) pdz2 domain bound to the c-terminal peptide of human alpha-3 actinin-1 77 d1wf7a_ not modelled 98.5 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 78 d2cssa1 not modelled 98.5 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 79 d1w9ea1 not modelled 98.4 21 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 80 c1u38A_ not modelled 98.4 21 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 81 c3qglD_ not modelled 98.4 13 PDB header:protein binding Chain: D: PDB Molecule:sorting nexin-27; PDBTitle: crystal structure of pdz domain of sorting nexin 27 (snx27) in complex2 with the eseskv peptide corresponding to the c-terminal tail of girk3 82 d1q7xa_ not modelled 98.4 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 83 c2dm8A_ not modelled 98.4 21 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 84 c2o2tB_ not modelled 98.4 22 PDB header:structural protein Chain: B: PDB Molecule:multiple pdz domain protein; PDBTitle: the crystal structure of the 1st pdz domain of mpdz 85 d1p1da1 not modelled 98.4 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 86 c1u37A_ not modelled 98.4 21 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 87 d1wf8a1 not modelled 98.4 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 88 d2byga1 not modelled 98.4 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 89 c3eggC_ not modelled 98.4 20 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 90 c2ogpA_ not modelled 98.4 17 PDB header:signaling protein Chain: A: PDB Molecule:partitioning-defective 3 homolog; PDBTitle: solution structure of the second pdz domain of par-3 91 c2iwnA_ not modelled 98.4 18 PDB header:signaling protein Chain: A: PDB Molecule:multiple pdz domain protein; PDBTitle: 3rd pdz domain of multiple pdz domain protein mpdz (casp2 target) 92 c2he4A_ not modelled 98.4 12 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:na(+)/h(+) exchange regulatory cofactor nhe-rf2; PDBTitle: the crystal structure of the second pdz domain of human2 nherf-2 (slc9a3r2) interacting with a mode 1 pdz binding3 motif 93 c2gzvA_ not modelled 98.4 11 PDB header:signaling protein Chain: A: PDB Molecule:prkca-binding protein; PDBTitle: the cystal structure of the pdz domain of human pick1 (casp target) 94 c2omjA_ not modelled 98.4 18 PDB header:cell adhesion Chain: A: PDB Molecule:rho guanine nucleotide exchange factor 12; PDBTitle: solution structure of larg pdz domain 95 c3cyyA_ not modelled 98.4 13 PDB header:peptide binding protein Chain: A: PDB Molecule:tight junction protein zo-1; PDBTitle: the crystal structure of zo-1 pdz2 in complex with the cx43 peptide 96 d1uhpa_ not modelled 98.4 17 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 97 c2i04B_ not modelled 98.4 13 PDB header:peptide binding protein Chain: B: PDB Molecule:membrane-associated guanylate kinase, ww and pdz PDBTitle: x-ray crystal structure of magi-1 pdz1 bound to the c-2 terminal peptide of hpv18 e6 98 c2osgB_ not modelled 98.4 18 PDB header:cell adhesion Chain: B: PDB Molecule:tight junction protein zo-2; PDBTitle: solution structure and binding property of the domain-2 swapped dimer of zo2pdz2 99 c2jilA_ not modelled 98.4 15 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) 100 d1ry4a_ not modelled 98.4 14 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 101 d1d5ga_ not modelled 98.4 20 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 102 c2ka9A_ not modelled 98.4 19 PDB header:cell adhesion Chain: A: PDB Molecule:disks large homolog 4; PDBTitle: solution structure of psd-95 pdz12 complexed with cypin2 peptide 103 c2z17A_ not modelled 98.4 13 PDB header:protein binding Chain: A: PDB Molecule:pleckstrin homology sec7 and coiled-coil domains- PDBTitle: crystal sturcture of pdz domain from human pleckstrin2 homology, sec7 104 d1g9oa_ not modelled 98.4 9 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 105 c2jreA_ not modelled 98.4 15 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 106 c2iwoA_ not modelled 98.4 14 PDB header:signaling protein Chain: A: PDB Molecule:multiple pdz domain protein; PDBTitle: 12th pdz domain of multiple pdz domain protein mpdz (casp2 target) 107 c2vsvB_ not modelled 98.3 11 PDB header:protein-binding Chain: B: PDB Molecule:rhophilin-2; PDBTitle: crystal structure of the pdz domain of human rhophilin-2 108 c3r0hA_ not modelled 98.3 16 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 109 c2k1zA_ not modelled 98.3 19 PDB header:signaling protein Chain: A: PDB Molecule:partitioning-defective 3 homolog; PDBTitle: solution structure of par-3 pdz3 110 d1qaua_ not modelled 98.3 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 111 d1b8qa_ not modelled 98.3 21 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 112 c2jxoA_ not modelled 98.3 9 PDB header:protein binding Chain: A: PDB Molecule:ezrin-radixin-moesin-binding phosphoprotein 50; PDBTitle: structure of the second pdz domain of nherf-1 113 d1um1a_ not modelled 98.3 18 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 114 d1uepa_ not modelled 98.3 15 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 115 c3k1rA_ not modelled 98.3 23 PDB header:structural protein Chain: A: PDB Molecule:harmonin; PDBTitle: structure of harmonin npdz1 in complex with the sam-pbm of2 sans 116 c2jikB_ not modelled 98.3 17 PDB header:membrane protein Chain: B: PDB Molecule:synaptojanin-2 binding protein; PDBTitle: crystal structure of pdz domain of synaptojanin-2 binding2 protein 117 d1whda_ not modelled 98.3 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 118 d1wh1a_ not modelled 98.3 16 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 119 c3ggeA_ not modelled 98.3 13 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 120 d1x5ra1 not modelled 98.3 17 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

---

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