Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AG24
DateThu Jan 5 11:27:55 GMT 2012
Unique Job IDfdb762c2dbd95496

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1vj7B_
Top template information
PDB header:hydrolase, transferase
Chain: B: PDB Molecule:bifunctional rela/spot;
PDBTitle: crystal structure of the bifunctional catalytic fragment of relseq,2 the rela/spot homolog from streptococcus equisimilis.
Confidence and coverage
Confidence:100.0% Coverage: 43%
302 residues ( 43% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
533 residues ( 76%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MYLFESLNQLIQTYLPEDQIKRLRQAYLVARDAHEGQTRSSGEPYITHPVAVACILAEMK
Secondary structure 
SS confidence 
Disorder  ???
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  LDYETLMAALLHDVIEDTPATYQDMEQLFGKSVAELVEGVSKLDKLKFRDKKEAQAENFR
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  KMIMAMVQDIRVILIKLADRTHNMRTLGSLRPDKRRRIARETLEIYSPLAHRLGIHHIKT
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  ELEELGFEALYPNRYRVIKEVVKAARGNRKEMIQKILSEIEGRLQEAGIPCRVSGREKHL
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  YSIYCKMVLKEQRFHSIMDIYAFRVIVNDSDTCYRVLGQMHSLYKPRPGRVKDYIAIPKA
Secondary structure 
SS confidence 
Disorder 
?
?
?
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  NGYQSLHTSMIGPHGVPVEVQIRTEDMDQMAEMGVAAHWAYKEHGETSTTAQIRAQRWMQ
Secondary structure 
SS confidence 
Disorder 
?????????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  SLLELQQSAGSSFEFIESVKSDLFPDEIYVFTPEGRIVELPAGATPVDFAYAVHTDIGHA
Secondary structure 
SS confidence 
Disorder 
?????
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  CVGARVDRQPYPLSQPLTSGQTVEIITAPGARPNAAWLNFVVSSKARAKIRQLLKNLKRD
Secondary structure 
SS confidence 
Disorder 
?
??????
???
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  DSVSLGRRLLNHALGGSRKLNEIPQENIQRELDRMKLATLDDLLAEIGLGNAMSVVVAKN
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  LQHGDASIPPATQSHGHLPIKGADGVLITFAKCCRPIPGDPIIAHVSPGKGLVIHHESCR
Secondary structure 
SS confidence 
Disorder 
??????????????
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  NIRGYQKEPEKFMAVEWDKETAQEFITEIKVEMFNHQGALANLTAAINTTTSNIQSLNTE
Secondary structure 
SS confidence 
Disorder 
?????
???
?
Disorder confidence 
 
   .........670.........680.........690.........700..
Sequence  EKDGRVYSAFIRLTARDRVHLANIMRKIRVMPDVIKVTRNRN
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

RankAligned region

PDB 1vj7 chain B

3D model

Region: 2 - 339
Aligned: 302
Modelled: 318
Confidence: 100.0%
Identity: 50%
PDB header:hydrolase, transferase
Chain: B: PDB Molecule:bifunctional rela/spot;
PDBTitle: crystal structure of the bifunctional catalytic fragment of relseq,2 the rela/spot homolog from streptococcus equisimilis.

Phyre2

PDB 1vj7 chain A domain 1

3D model

Region: 2 - 191
Aligned: 170
Modelled: 176
Confidence: 100.0%
Identity: 55%
Fold: HD-domain/PDEase-like
Superfamily: HD-domain/PDEase-like
Family: HD domain

Phyre2

PDB 3nr1 chain A

3D model

Region: 19 - 198
Aligned: 171
Modelled: 180
Confidence: 100.0%
Identity: 33%
PDB header:hydrolase
Chain: A: PDB Molecule:hd domain-containing protein 3;
PDBTitle: a metazoan ortholog of spot hydrolyzes ppgpp and plays a role in2 starvation responses

Phyre2

PDB 1vj7 chain A domain 2

3D model

Region: 191 - 344
Aligned: 151
Modelled: 154
Confidence: 100.0%
Identity: 45%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: RelA/SpoT domain

Phyre2

PDB 3nqw chain B

3D model

Region: 21 - 185
Aligned: 157
Modelled: 165
Confidence: 100.0%
Identity: 34%
PDB header:hydrolase
Chain: B: PDB Molecule:cg11900;
PDBTitle: a metazoan ortholog of spot hydrolyzes ppgpp and plays a role in2 starvation responses

Phyre2

PDB 2be3 chain A domain 1

3D model

Region: 194 - 385
Aligned: 188
Modelled: 192
Confidence: 100.0%
Identity: 24%
Fold: Nucleotidyltransferase
Superfamily: Nucleotidyltransferase
Family: RelA/SpoT domain

Phyre2

PDB 3l9d chain A

3D model

Region: 195 - 383
Aligned: 178
Modelled: 189
Confidence: 99.9%
Identity: 26%
PDB header:transferase
Chain: A: PDB Molecule:putative gtp pyrophosphokinase;
PDBTitle: the crystal structure of smu.1046c from streptococcus mutans ua159

Phyre2

PDB 2kmm chain A

3D model

Region: 387 - 454
Aligned: 68
Modelled: 68
Confidence: 99.9%
Identity: 46%
PDB header:hydrolase
Chain: A: PDB Molecule:guanosine-3',5'-bis(diphosphate) 3'-
PDBTitle: solution nmr structure of the tgs domain of pg1808 from2 porphyromonas gingivalis. northeast structural genomics3 consortium target pgr122a (418-481)

Phyre2

PDB 3hvz chain B

3D model

Region: 386 - 449
Aligned: 64
Modelled: 64
Confidence: 99.9%
Identity: 38%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the tgs domain of the clolep_03100 protein from2 clostridium leptum, northeast structural genomics consortium target3 qlr13a

Phyre2

PDB 2eki chain A

3D model

Region: 386 - 452
Aligned: 67
Modelled: 67
Confidence: 99.8%
Identity: 21%
PDB header:signaling protein
Chain: A: PDB Molecule:developmentally-regulated gtp-binding protein 1;
PDBTitle: solution structures of the tgs domain of human2 developmentally-regulated gtp-binding protein 1

Phyre2

PDB 1tke chain A domain 1

3D model

Region: 388 - 448
Aligned: 61
Modelled: 61
Confidence: 99.7%
Identity: 21%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: TGS-like
Family: TGS domain

Phyre2

PDB 1wxq chain A domain 2

3D model

Region: 396 - 447
Aligned: 52
Modelled: 52
Confidence: 99.7%
Identity: 27%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: TGS-like
Family: G domain-linked domain

Phyre2

PDB 1nyr chain A domain 2

3D model

Region: 388 - 446
Aligned: 59
Modelled: 59
Confidence: 99.6%
Identity: 24%
Fold: beta-Grasp (ubiquitin-like)
Superfamily: TGS-like
Family: TGS domain

Phyre2

PDB 3ibw chain A

3D model

Region: 623 - 702
Aligned: 79
Modelled: 80
Confidence: 99.5%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:gtp pyrophosphokinase;
PDBTitle: crystal structure of the act domain from gtp2 pyrophosphokinase of chlorobium tepidum. northeast3 structural genomics consortium target ctr148a

Phyre2

PDB 1wwt chain A

3D model

Region: 385 - 454
Aligned: 70
Modelled: 70
Confidence: 99.4%
Identity: 23%
PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase, cytoplasmic;
PDBTitle: solution structure of the tgs domain from human threonyl-2 trna synthetase

Phyre2

PDB 1u8s chain A domain 2

3D model

Region: 621 - 700
Aligned: 79
Modelled: 80
Confidence: 98.6%
Identity: 13%
Fold: Ferredoxin-like
Superfamily: ACT-like
Family: Glycine cleavage system transcriptional repressor

Phyre2

PDB 1tke chain A

3D model

Region: 388 - 450
Aligned: 63
Modelled: 63
Confidence: 98.5%
Identity: 21%
PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase complexed with serine

Phyre2

PDB 2dwq chain B

3D model

Region: 360 - 448
Aligned: 87
Modelled: 89
Confidence: 98.4%
Identity: 20%
PDB header:hydrolase
Chain: B: PDB Molecule:gtp-binding protein;
PDBTitle: thermus thermophilus ychf gtp-binding protein

Phyre2

PDB 2ohf chain A

3D model

Region: 386 - 448
Aligned: 63
Modelled: 63
Confidence: 98.3%
Identity: 19%
PDB header:hydrolase
Chain: A: PDB Molecule:gtp-binding protein 9;
PDBTitle: crystal structure of human ola1 in complex with amppcp

Phyre2

PDB 1wxq chain A

3D model

Region: 360 - 447
Aligned: 87
Modelled: 88
Confidence: 98.2%
Identity: 25%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:gtp-binding protein;
PDBTitle: crystal structure of gtp binding protein from pyrococcus horikoshii2 ot3

Phyre2

PDB 1u8s chain B

3D model

Region: 600 - 702
Aligned: 103
Modelled: 103
Confidence: 97.9%
Identity: 12%
PDB header:transcription
Chain: B: PDB Molecule:glycine cleavage system transcriptional
PDBTitle: crystal structure of putative glycine cleavage system2 transcriptional repressor

Phyre2
1
c1vj7B_
2
d1vj7a1
3
c3nr1A_
4
d1vj7a2
5
c3nqwB_
6
d2be3a1
7
c3l9dA_
8
c2kmmA_
9
c3hvzB_
10
c2ekiA_
11
d1tkea1
12
d1wxqa2
13
d1nyra2
14
c3ibwA_
15
c1wwtA_
16
d1u8sa2
17
c1tkeA_
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c2dwqB_
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c2ohfA_
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c1wxqA_
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c1u8sB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1vj7B_
100.0 50 PDB header:hydrolase, transferase
Chain: B: PDB Molecule:bifunctional rela/spot;
PDBTitle: crystal structure of the bifunctional catalytic fragment of relseq,2 the rela/spot homolog from streptococcus equisimilis.
2d1vj7a1
100.0 55 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
3c3nr1A_
100.0 33 PDB header:hydrolase
Chain: A: PDB Molecule:hd domain-containing protein 3;
PDBTitle: a metazoan ortholog of spot hydrolyzes ppgpp and plays a role in2 starvation responses
4d1vj7a2
100.0 45 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:RelA/SpoT domain
5c3nqwB_
100.0 34 PDB header:hydrolase
Chain: B: PDB Molecule:cg11900;
PDBTitle: a metazoan ortholog of spot hydrolyzes ppgpp and plays a role in2 starvation responses
6d2be3a1
100.0 24 Fold:Nucleotidyltransferase
Superfamily:Nucleotidyltransferase
Family:RelA/SpoT domain
7c3l9dA_
99.9 26 PDB header:transferase
Chain: A: PDB Molecule:putative gtp pyrophosphokinase;
PDBTitle: the crystal structure of smu.1046c from streptococcus mutans ua159
8c2kmmA_
99.9 46 PDB header:hydrolase
Chain: A: PDB Molecule:guanosine-3',5'-bis(diphosphate) 3'-
PDBTitle: solution nmr structure of the tgs domain of pg1808 from2 porphyromonas gingivalis. northeast structural genomics3 consortium target pgr122a (418-481)
9c3hvzB_
99.9 38 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the tgs domain of the clolep_03100 protein from2 clostridium leptum, northeast structural genomics consortium target3 qlr13a
10c2ekiA_
99.8 21 PDB header:signaling protein
Chain: A: PDB Molecule:developmentally-regulated gtp-binding protein 1;
PDBTitle: solution structures of the tgs domain of human2 developmentally-regulated gtp-binding protein 1
11d1tkea1
99.7 21 Fold:beta-Grasp (ubiquitin-like)
Superfamily:TGS-like
Family:TGS domain
12d1wxqa2
99.7 27 Fold:beta-Grasp (ubiquitin-like)
Superfamily:TGS-like
Family:G domain-linked domain
13d1nyra2
99.6 24 Fold:beta-Grasp (ubiquitin-like)
Superfamily:TGS-like
Family:TGS domain
14c3ibwA_
99.5 19 PDB header:transferase
Chain: A: PDB Molecule:gtp pyrophosphokinase;
PDBTitle: crystal structure of the act domain from gtp2 pyrophosphokinase of chlorobium tepidum. northeast3 structural genomics consortium target ctr148a
15c1wwtA_
99.4 23 PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase, cytoplasmic;
PDBTitle: solution structure of the tgs domain from human threonyl-2 trna synthetase
16d1u8sa2
98.6 13 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Glycine cleavage system transcriptional repressor
17c1tkeA_
98.5 21 PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase complexed with serine
18c2dwqB_
98.4 20 PDB header:hydrolase
Chain: B: PDB Molecule:gtp-binding protein;
PDBTitle: thermus thermophilus ychf gtp-binding protein
19c2ohfA_
98.3 19 PDB header:hydrolase
Chain: A: PDB Molecule:gtp-binding protein 9;
PDBTitle: crystal structure of human ola1 in complex with amppcp
20c1wxqA_
98.2 25 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:gtp-binding protein;
PDBTitle: crystal structure of gtp binding protein from pyrococcus horikoshii2 ot3
21d1sc6a3
not modelled 98.1 16 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain
22c1jalA_
not modelled 98.1 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ychf protein;
PDBTitle: ychf protein (hi0393)
23c1ni3A_
not modelled 97.9 23 PDB header:hydrolase
Chain: A: PDB Molecule:ychf gtp-binding protein;
PDBTitle: structure of the schizosaccharomyces pombe ychf gtpase
24c1u8sB_
97.9 12 PDB header:transcription
Chain: B: PDB Molecule:glycine cleavage system transcriptional
PDBTitle: crystal structure of putative glycine cleavage system2 transcriptional repressor
25d2f1fa1
not modelled 97.9 24 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:IlvH-like
26d1ygya3
not modelled 97.8 21 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Phosphoglycerate dehydrogenase, regulatory (C-terminal) domain
27d2pc6a2
not modelled 97.8 19 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:IlvH-like
28d2fgca2
not modelled 97.8 18 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:IlvH-like
29c1qf6A_
not modelled 97.7 22 PDB header:ligase/rna
Chain: A: PDB Molecule:threonyl-trna synthetase;
PDBTitle: structure of e. coli threonyl-trna synthetase complexed with its2 cognate trna
30c2pc6C_
not modelled 97.7 19 PDB header:lyase
Chain: C: PDB Molecule:probable acetolactate synthase isozyme iii (small subunit);
PDBTitle: crystal structure of putative acetolactate synthase- small subunit2 from nitrosomonas europaea
31c1nyqA_
not modelled 97.7 24 PDB header:ligase
Chain: A: PDB Molecule:threonyl-trna synthetase 1;
PDBTitle: structure of staphylococcus aureus threonyl-trna synthetase2 complexed with an analogue of threonyl adenylate
32c2fgcA_
not modelled 97.6 19 PDB header:transferase
Chain: A: PDB Molecule:acetolactate synthase, small subunit;
PDBTitle: crystal structure of acetolactate synthase- small subunit from2 thermotoga maritima
33c2f1fA_
not modelled 97.5 24 PDB header:transferase
Chain: A: PDB Molecule:acetolactate synthase isozyme iii small subunit;
PDBTitle: crystal structure of the regulatory subunit of2 acetohydroxyacid synthase isozyme iii from e. coli
34d1zpva1
not modelled 97.4 12 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:SP0238-like
35c2nyiB_
not modelled 97.3 15 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:unknown protein;
PDBTitle: crystal structure of an unknown protein from galdieria2 sulphuraria
36c1y7pB_
not modelled 97.2 15 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein af1403;
PDBTitle: 1.9 a crystal structure of a protein of unknown function2 af1403 from archaeoglobus fulgidus, probable metabolic3 regulator
37d1u8sa1
not modelled 97.2 7 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Glycine cleavage system transcriptional repressor
38c3n0vD_
not modelled 96.8 5 PDB header:hydrolase
Chain: D: PDB Molecule:formyltetrahydrofolate deformylase;
PDBTitle: crystal structure of a formyltetrahydrofolate deformylase (pp_0327)2 from pseudomonas putida kt2440 at 2.25 a resolution
39c1ybaC_
not modelled 96.6 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: the active form of phosphoglycerate dehydrogenase
40c3k5pA_
not modelled 96.5 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of amino acid-binding act: d-isomer specific 2-2 hydroxyacid dehydrogenase catalytic domain from brucella melitensis
41c3nrbD_
not modelled 96.3 6 PDB header:hydrolase
Chain: D: PDB Molecule:formyltetrahydrofolate deformylase;
PDBTitle: crystal structure of a formyltetrahydrofolate deformylase (puru,2 pp_1943) from pseudomonas putida kt2440 at 2.05 a resolution
42c1ygyA_
not modelled 96.3 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:d-3-phosphoglycerate dehydrogenase;
PDBTitle: crystal structure of d-3-phosphoglycerate dehydrogenase from2 mycobacterium tuberculosis
43d1phza1
not modelled 96.1 14 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Phenylalanine metabolism regulatory domain
44c2qmxB_
not modelled 96.1 16 PDB header:ligase
Chain: B: PDB Molecule:prephenate dehydratase;
PDBTitle: the crystal structure of l-phe inhibited prephenate dehydratase from2 chlorobium tepidum tls
45c3o1lB_
not modelled 96.0 10 PDB header:hydrolase
Chain: B: PDB Molecule:formyltetrahydrofolate deformylase;
PDBTitle: crystal structure of a formyltetrahydrofolate deformylase (pspto_4314)2 from pseudomonas syringae pv. tomato str. dc3000 at 2.20 a resolution
46d2f06a2
not modelled 95.9 16 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:BT0572-like
47c3mwbA_
not modelled 95.8 14 PDB header:lyase
Chain: A: PDB Molecule:prephenate dehydratase;
PDBTitle: the crystal structure of prephenate dehydratase in complex with l-phe2 from arthrobacter aurescens to 2.0a
48d1zud21
not modelled 95.5 15 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:ThiS
49c1rwuA_
not modelled 95.5 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical upf0250 protein ybed;
PDBTitle: solution structure of conserved protein ybed from e. coli
50d1rwua_
not modelled 95.5 13 Fold:Ferredoxin-like
Superfamily:YbeD/HP0495-like
Family:YbeD-like
51d2qmwa2
not modelled 95.5 7 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Phenylalanine metabolism regulatory domain
52d2qgsa1
not modelled 95.4 19 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
53c3louB_
not modelled 95.4 9 PDB header:hydrolase
Chain: B: PDB Molecule:formyltetrahydrofolate deformylase;
PDBTitle: crystal structure of formyltetrahydrofolate deformylase (yp_105254.1)2 from burkholderia mallei atcc 23344 at 1.90 a resolution
54c3luyA_
not modelled 95.2 19 PDB header:isomerase
Chain: A: PDB Molecule:probable chorismate mutase;
PDBTitle: putative chorismate mutase from bifidobacterium adolescentis
55c2f06B_
not modelled 95.1 16 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:conserved hypothetical protein;
PDBTitle: crystal structure of protein bt0572 from bacteroides thetaiotaomicron
56c3obiC_
not modelled 94.8 9 PDB header:hydrolase
Chain: C: PDB Molecule:formyltetrahydrofolate deformylase;
PDBTitle: crystal structure of a formyltetrahydrofolate deformylase (np_949368)2 from rhodopseudomonas palustris cga009 at 1.95 a resolution
57c3mtjA_
not modelled 94.5 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: the crystal structure of a homoserine dehydrogenase from thiobacillus2 denitrificans to 2.15a
58d2f06a1
not modelled 94.5 13 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:BT0572-like
59c2qmwA_
not modelled 94.4 8 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:prephenate dehydratase;
PDBTitle: the crystal structure of the prephenate dehydratase (pdt) from2 staphylococcus aureus subsp. aureus mu50
60d2hj1a1
not modelled 93.6 19 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:HI0395-like
61c2hj1A_
not modelled 93.6 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a 3d domain-swapped dimer of protein hi0395 from2 haemophilus influenzae
62c3cwiA_
not modelled 93.6 11 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
63d1tygb_
not modelled 93.3 15 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:ThiS
64c2phmA_
not modelled 93.3 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (phenylalanine-4-hydroxylase);
PDBTitle: structure of phenylalanine hydroxylase dephosphorylated
65c1tdjA_
not modelled 92.3 11 PDB header:allostery
Chain: A: PDB Molecule:biosynthetic threonine deaminase;
PDBTitle: threonine deaminase (biosynthetic) from e. coli
66d1vjka_
not modelled 91.5 24 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:MoaD
67c1tygG_
not modelled 91.4 15 PDB header:biosynthetic protein
Chain: G: PDB Molecule:yjbs;
PDBTitle: structure of the thiazole synthase/this complex
68c2kl0A_
not modelled 90.9 20 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
69c2qieB_
not modelled 90.9 18 PDB header:transferase
Chain: B: PDB Molecule:molybdopterin synthase small subunit;
PDBTitle: staphylococcus aureus molybdopterin synthase in complex2 with precursor z
70d3djba1
not modelled 90.8 20 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
71d2cu3a1
not modelled 90.7 22 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:ThiS
72c3po0A_
not modelled 90.6 16 PDB header:protein binding
Chain: A: PDB Molecule:small archaeal modifier protein 1;
PDBTitle: crystal structure of samp1 from haloferax volcanii
73c2dqbB_
not modelled 90.4 34 PDB header:hydrolase, dna binding protein
Chain: B: PDB Molecule:deoxyguanosinetriphosphate triphosphohydrolase, putative;
PDBTitle: crystal structure of dntp triphosphohydrolase from thermus2 thermophilus hb8, which is homologous to dgtp triphosphohydrolase
74c3ccgA_
not modelled 89.0 31 PDB header:hydrolase
Chain: A: PDB Molecule:hd superfamily hydrolase;
PDBTitle: crystal structure of predicted hd superfamily hydrolase involved in2 nad metabolism (np_347894.1) from clostridium acetobutylicum at 1.503 a resolution
75d1dm9a_
not modelled 88.9 12 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Heat shock protein 15 kD
76c1dm9A_
not modelled 88.9 12 PDB header:structural genomics
Chain: A: PDB Molecule:hypothetical 15.5 kd protein in mrca-pcka
PDBTitle: heat shock protein 15 kd
77d1y7pa2
not modelled 87.8 16 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:AF1403 N-terminal domain-like
78d2joqa1
not modelled 87.7 13 Fold:Ferredoxin-like
Superfamily:YbeD/HP0495-like
Family:HP0495-like
79c2ogiA_
not modelled 87.3 39 PDB header:hydrolase
Chain: A: PDB Molecule:hypothetical protein sag1661;
PDBTitle: crystal structure of a putative metal dependent phosphohydrolase2 (sag1661) from streptococcus agalactiae serogroup v at 1.85 a3 resolution
80d1jala2
not modelled 85.9 20 Fold:beta-Grasp (ubiquitin-like)
Superfamily:TGS-like
Family:G domain-linked domain
81c2k6pA_
not modelled 84.4 14 PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein hp_1423;
PDBTitle: solution structure of hypothetical protein, hp1423
82c3mzoA_
not modelled 83.7 13 PDB header:hydrolase
Chain: A: PDB Molecule:lin2634 protein;
PDBTitle: crystal structure of a hd-domain phosphohydrolase (lin2634) from2 listeria innocua at 1.98 a resolution
83c2dtjA_
not modelled 82.4 14 PDB header:transferase
Chain: A: PDB Molecule:aspartokinase;
PDBTitle: crystal structure of regulatory subunit of aspartate kinase2 from corynebacterium glutamicum
84c3gqsB_
not modelled 82.1 14 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:adenylate cyclase-like protein;
PDBTitle: crystal structure of the fha domain of ct664 protein from chlamydia2 trachomatis
85d1ni3a2
not modelled 81.9 19 Fold:beta-Grasp (ubiquitin-like)
Superfamily:TGS-like
Family:G domain-linked domain
86d1fm0d_
not modelled 81.6 29 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:MoaD
87d1rwsa_
not modelled 81.0 26 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:ThiS
88c3p96A_
not modelled 80.1 11 PDB header:hydrolase
Chain: A: PDB Molecule:phosphoserine phosphatase serb;
PDBTitle: crystal structure of phosphoserine phosphatase serb from mycobacterium2 avium, native form
89c2o08B_
not modelled 79.8 34 PDB header:hydrolase
Chain: B: PDB Molecule:bh1327 protein;
PDBTitle: crystal structure of a putative hd superfamily hydrolase (bh1327) from2 bacillus halodurans at 1.90 a resolution
90c3l76B_
not modelled 79.5 10 PDB header:transferase
Chain: B: PDB Molecule:aspartokinase;
PDBTitle: crystal structure of aspartate kinase from synechocystis
91c3fm8A_
not modelled 78.6 13 PDB header:transport protein/hydrolase activator
Chain: A: PDB Molecule:kinesin-like protein kif13b;
PDBTitle: crystal structure of full length centaurin alpha-1 bound with the fha2 domain of kif13b (capri target)
92d3b57a1
not modelled 78.0 17 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
93c3mgjA_
not modelled 77.7 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein mj1480;
PDBTitle: crystal structure of the saccharop_dh_n domain of mj14802 protein from methanococcus jannaschii. northeast structural3 genomics consortium target mjr83a.
94d2piea1
not modelled 76.8 14 Fold:SMAD/FHA domain
Superfamily:SMAD/FHA domain
Family:FHA domain
95d2paqa1
not modelled 76.7 27 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
96d2gz4a1
not modelled 76.6 25 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
97d1c06a_
not modelled 75.7 27 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Ribosomal protein S4
98c2g1eA_
not modelled 75.2 9 PDB header:transferase
Chain: A: PDB Molecule:hypothetical protein ta0895;
PDBTitle: solution structure of ta0895
99d2pjqa1
not modelled 74.1 26 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
100c2eh0A_
not modelled 73.7 17 PDB header:transport protein
Chain: A: PDB Molecule:kinesin-like protein kif1b;
PDBTitle: solution structure of the fha domain from human kinesin-2 like protein kif1b
101c3bbnD_
not modelled 73.6 14 PDB header:ribosome
Chain: D: PDB Molecule:ribosomal protein s4;
PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome.
102c2bs2E_
not modelled 73.3 14 PDB header:oxidoreductase
Chain: E: PDB Molecule:quinol-fumarate reductase iron-sulfur subunit b;
PDBTitle: quinol:fumarate reductase from wolinella succinogenes
103d2g1la1
not modelled 72.7 17 Fold:SMAD/FHA domain
Superfamily:SMAD/FHA domain
Family:FHA domain
104c2jsxA_
not modelled 72.3 13 PDB header:chaperone
Chain: A: PDB Molecule:protein napd;
PDBTitle: solution structure of the e. coli tat proofreading2 chaperone protein napd
105d2uubd1
not modelled 72.0 14 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Ribosomal protein S4
106d2fug33
not modelled 71.0 28 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin domains from multidomain proteins
107d2heka1
not modelled 70.2 31 Fold:HD-domain/PDEase-like
Superfamily:HD-domain/PDEase-like
Family:HD domain
108c2cqzA_
not modelled 69.9 20 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:177aa long hypothetical protein;
PDBTitle: crystal structure of ph0347 protein from pyrococcus horikoshii ot3
109d1p9ka_
not modelled 69.3 29 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:YbcJ-like
110d1xo3a_
not modelled 69.1 12 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:C9orf74 homolog
111c2jqlA_
not modelled 68.4 13 PDB header:cell cycle
Chain: A: PDB Molecule:dna damage response protein kinase dun1;
PDBTitle: nmr structure of the yeast dun1 fha domain in complex with2 a doubly phosphorylated (pt) peptide derived from rad533 scd1
112c3dwmA_
not modelled 67.5 24 PDB header:transferase
Chain: A: PDB Molecule:9.5 kda culture filtrate antigen cfp10a;
PDBTitle: crystal structure of mycobacterium tuberculosis cyso, an antigen
113d2gy9d1
not modelled 67.3 18 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Ribosomal protein S4
114c3dh3C_
not modelled 67.2 9 PDB header:isomerase/rna
Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f;
PDBTitle: crystal structure of rluf in complex with a 22 nucleotide2 rna substrate
115d1yjma1
not modelled 67.0 22 Fold:SMAD/FHA domain
Superfamily:SMAD/FHA domain
Family:FHA domain
116d1gxca_
not modelled 66.9 17 Fold:SMAD/FHA domain
Superfamily:SMAD/FHA domain
Family:FHA domain
117c1gxcA_
not modelled 66.9 17 PDB header:phosphoprotein-binding domain
Chain: A: PDB Molecule:serine/threonine-protein kinase chk2;
PDBTitle: fha domain from human chk2 kinase in complex with a2 synthetic phosphopeptide
118d1vioa2
not modelled 66.8 5 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Pseudouridine synthase RsuA N-terminal domain
119c2re1A_
not modelled 66.2 6 PDB header:transferase
Chain: A: PDB Molecule:aspartokinase, alpha and beta subunits;
PDBTitle: crystal structure of aspartokinase alpha and beta subunits
120c2o6iA_
not modelled 66.1 41 PDB header:hydrolase
Chain: A: PDB Molecule:hd domain protein;
PDBTitle: structure of an enterococcus faecalis hd domain phosphohydrolase

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