Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionQ8NBR0
DateWed Jun 6 09:32:45 BST 2012
Unique Job IDcf4e8fe59ea7199b

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1k3ra2
Top template information
Fold:alpha/beta knot
Superfamily:alpha/beta knot
Family:Hypothetical protein MTH1 (MT0001), dimerisation domain
Confidence and coverage
Confidence: 82.0% Coverage: 5%
19 residues ( 5% of your sequence) have been modelled with 82.0% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
Please note: You must be registered and logged in to use Phyrealarm.
Warning: 53% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MAPPPPSPQLLLLAALARLLGPSEVMAGPAEEAGAHCPESLWPLPPQVSPRVTYTRVSPG
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Disorder  ??????


















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???





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   .........70.........80.........90.........100.........110.........120
Sequence  QAEDVTFLYHPCAHPWLKLQLALLAYACMANPSLTPDFSLTQDRPLVLTAWGLALEMAWV
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?



















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   .........130.........140.........150.........160.........170.........180
Sequence  EPAWAAHWLMRRRRRKQRKKKAWIYCESLSGPAPSEPTPGRGRLCRRGCVQALALAFALR
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??????????







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???????
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   .........190.........200.........210.........220.........230.........240
Sequence  SWRPPGTEVTSQGPRQPSSSGAKRRRLRAALGPQPTRSALRFPSASPGSLKAKQSMAGIP
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Disorder  ????????????????????????????????????????????????????????????
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   .........250.........260.........270.........280.........290.........300
Sequence  GRESNAPSVPTVSLLPGAPGGNASSRTEAQVPNGQGSPGGCVCSSQASPAPRAAAPPRAA
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Disorder  ????????????????????????????????????????????????????????????
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   .........310.........320.........330.........340.........350.........360
Sequence  RGPTPRTEEAAWAAMALTFLLVLLTLATLCTRLHRNFRRGESIYWGPTADSQDTVAAVLK
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??

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   .........370.........380.........390...
Sequence  RRLLQPSRRVKRSRRRPLLPPTPDSGPEGESSE
Secondary structure 

















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????


?
????????????
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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 1k3r chain A domain 2

3D model

Region: 304 - 322
Aligned: 19
Modelled: 19
Confidence: 82.0%
Identity: 42%
Fold: alpha/beta knot
Superfamily: alpha/beta knot
Family: Hypothetical protein MTH1 (MT0001), dimerisation domain

Phyre2

PDB 1k3r chain A

3D model

Region: 304 - 321
Aligned: 18
Modelled: 18
Confidence: 69.6%
Identity: 44%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved protein mt0001;
PDBTitle: crystal structure of the methyltransferase with a knot from2 methanobacterium thermoautotrophicum

Phyre2

PDB 1x93 chain B

3D model

Region: 339 - 370
Aligned: 32
Modelled: 32
Confidence: 56.3%
Identity: 25%
PDB header:transcription
Chain: B: PDB Molecule:hypothetical protein hp0222;
PDBTitle: nmr structure of helicobacter pylori hp0222

Phyre2

PDB 2ok5 chain A domain 4

3D model

Region: 36 - 47
Aligned: 12
Modelled: 32
Confidence: 51.7%
Identity: 42%
Fold: Complement control module/SCR domain
Superfamily: Complement control module/SCR domain
Family: Complement control module/SCR domain

Phyre2

PDB 1x93 chain A domain 1

3D model

Region: 339 - 370
Aligned: 32
Modelled: 32
Confidence: 40.8%
Identity: 25%
Fold: Ribbon-helix-helix
Superfamily: Ribbon-helix-helix
Family: CopG-like

Phyre2

PDB 2nrz chain B

3D model

Region: 334 - 384
Aligned: 32
Modelled: 32
Confidence: 28.1%
Identity: 28%
PDB header:hydrolase
Chain: B: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal half of uvrc bound to2 its catalytic divalent cation

Phyre2

PDB 2fwt chain A

3D model

Region: 37 - 64
Aligned: 28
Modelled: 28
Confidence: 27.6%
Identity: 14%
PDB header:electron transport
Chain: A: PDB Molecule:dhc, diheme cytochrome c;
PDBTitle: crystal structure of dhc purified from rhodobacter2 sphaeroides

Phyre2

PDB 2nrr chain A

3D model

Region: 334 - 384
Aligned: 27
Modelled: 28
Confidence: 23.7%
Identity: 37%
PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal rnaseh endonuclase2 domain of uvrc

Phyre2

PDB 3ml6 chain D

3D model

Region: 112 - 149
Aligned: 37
Modelled: 38
Confidence: 22.0%
Identity: 16%
PDB header:protein transport
Chain: D: PDB Molecule:chimeric complex between protein dishevlled2 homolog dvl-2
PDBTitle: a complex between dishevlled2 and clathrin adaptor ap-2

Phyre2

PDB 3eop chain B

3D model

Region: 61 - 70
Aligned: 10
Modelled: 38
Confidence: 20.7%
Identity: 30%
PDB header:unknown function
Chain: B: PDB Molecule:thymocyte nuclear protein 1;
PDBTitle: crystal structure of the duf55 domain of human thymocyte nuclear2 protein 1

Phyre2

PDB 2gbs chain A domain 1

3D model

Region: 61 - 70
Aligned: 10
Modelled: 10
Confidence: 20.5%
Identity: 40%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: Atu2648/PH1033-like

Phyre2

PDB 1zce chain A domain 1

3D model

Region: 61 - 70
Aligned: 10
Modelled: 10
Confidence: 20.4%
Identity: 40%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: Atu2648/PH1033-like

Phyre2

PDB 2g2x chain A domain 1

3D model

Region: 61 - 70
Aligned: 10
Modelled: 10
Confidence: 19.7%
Identity: 40%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: Atu2648/PH1033-like

Phyre2

PDB 2ar1 chain A domain 1

3D model

Region: 61 - 70
Aligned: 10
Modelled: 10
Confidence: 18.2%
Identity: 30%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: Atu2648/PH1033-like

Phyre2

PDB 2eve chain A domain 1

3D model

Region: 61 - 70
Aligned: 10
Modelled: 10
Confidence: 18.0%
Identity: 40%
Fold: PUA domain-like
Superfamily: PUA domain-like
Family: Atu2648/PH1033-like

Phyre2

PDB 1q90 chain N

3D model

Region: 311 - 323
Aligned: 13
Modelled: 13
Confidence: 16.8%
Identity: 38%
Fold: Single transmembrane helix
Superfamily: PetN subunit of the cytochrome b6f complex
Family: PetN subunit of the cytochrome b6f complex

Phyre2

PDB 3c65 chain A

3D model

Region: 334 - 363
Aligned: 26
Modelled: 30
Confidence: 15.5%
Identity: 19%
PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of bacillus stearothermophilus uvrc 5'2 endonuclease domain

Phyre2

PDB 1y5i chain A domain 1

3D model

Region: 56 - 70
Aligned: 15
Modelled: 15
Confidence: 15.4%
Identity: 33%
Fold: Double psi beta-barrel
Superfamily: ADC-like
Family: Formate dehydrogenase/DMSO reductase, C-terminal domain

Phyre2

PDB 2jy0 chain A

3D model

Region: 308 - 327
Aligned: 20
Modelled: 20
Confidence: 14.6%
Identity: 55%
PDB header:membrane protein, viral protein
Chain: A: PDB Molecule:protease ns2-3;
PDBTitle: solution nmr structure of hcv ns2 protein, membrane segment2 (1-27)

Phyre2

PDB 4a8x chain B

3D model

Region: 329 - 352
Aligned: 24
Modelled: 24
Confidence: 11.9%
Identity: 29%
PDB header:transcription
Chain: B: PDB Molecule:hook-like, isoform a;
PDBTitle: structure of the core asap complex

Phyre2
1

d1k3ra2
2

c1k3rA_
3

c1x93B_
4

d2ok5a4
5

d1x93a1
6

c2nrzB_
7

c2fwtA_
8

c2nrrA_
9

c3ml6D_
10

c3eopB_
11

d2gbsa1
12

d1zcea1
13

d2g2xa1
14

d2ar1a1
15

d2evea1
16

d1q90n_
17

c3c65A_
18

d1y5ia1
19

c2jy0A_
20

c4a8xB_
21



22



23



24



25



26



27



28



29



30



31



32



33



34






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1k3ra2



82.0 42 Fold:alpha/beta knot
Superfamily:alpha/beta knot
Family:Hypothetical protein MTH1 (MT0001), dimerisation domain
2c1k3rA_



69.6 44 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved protein mt0001;
PDBTitle: crystal structure of the methyltransferase with a knot from2 methanobacterium thermoautotrophicum
3c1x93B_



56.3 25 PDB header:transcription
Chain: B: PDB Molecule:hypothetical protein hp0222;
PDBTitle: nmr structure of helicobacter pylori hp0222
4d2ok5a4



51.7 42 Fold:Complement control module/SCR domain
Superfamily:Complement control module/SCR domain
Family:Complement control module/SCR domain
5d1x93a1



40.8 25 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
6c2nrzB_



28.1 28 PDB header:hydrolase
Chain: B: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal half of uvrc bound to2 its catalytic divalent cation
7c2fwtA_



27.6 14 PDB header:electron transport
Chain: A: PDB Molecule:dhc, diheme cytochrome c;
PDBTitle: crystal structure of dhc purified from rhodobacter2 sphaeroides
8c2nrrA_



23.7 37 PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of the c-terminal rnaseh endonuclase2 domain of uvrc
9c3ml6D_



22.0 16 PDB header:protein transport
Chain: D: PDB Molecule:chimeric complex between protein dishevlled2 homolog dvl-2
PDBTitle: a complex between dishevlled2 and clathrin adaptor ap-2
10c3eopB_



20.7 30 PDB header:unknown function
Chain: B: PDB Molecule:thymocyte nuclear protein 1;
PDBTitle: crystal structure of the duf55 domain of human thymocyte nuclear2 protein 1
11d2gbsa1



20.5 40 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
12d1zcea1



20.4 40 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
13d2g2xa1



19.7 40 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
14d2ar1a1



18.2 30 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
15d2evea1



18.0 40 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:Atu2648/PH1033-like
16d1q90n_



16.8 38 Fold:Single transmembrane helix
Superfamily:PetN subunit of the cytochrome b6f complex
Family:PetN subunit of the cytochrome b6f complex
17c3c65A_



15.5 19 PDB header:hydrolase
Chain: A: PDB Molecule:uvrabc system protein c;
PDBTitle: crystal structure of bacillus stearothermophilus uvrc 5'2 endonuclease domain
18d1y5ia1



15.4 33 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
19c2jy0A_



14.6 55 PDB header:membrane protein, viral protein
Chain: A: PDB Molecule:protease ns2-3;
PDBTitle: solution nmr structure of hcv ns2 protein, membrane segment2 (1-27)
20c4a8xB_



11.9 29 PDB header:transcription
Chain: B: PDB Molecule:hook-like, isoform a;
PDBTitle: structure of the core asap complex
21c1kcnA_



not modelled 8.4 36 PDB header:protein binding
Chain: A: PDB Molecule:e109 zeta peptide;
PDBTitle: structure of e109 zeta peptide, an antagonist of the high-2 affinity ige receptor
22d2dkya1



not modelled 8.2 14 Fold:SAM domain-like
Superfamily:SAM/Pointed domain
Family:Variant SAM domain
23c2dmqA_



not modelled 7.9 20 PDB header:dna binding protein
Chain: A: PDB Molecule:lim/homeobox protein lhx9;
PDBTitle: solution structure of the homeobox domain of lim/homeobox2 protein lhx9
24d1nfja_



not modelled 7.5 25 Fold:IF3-like
Superfamily:AlbA-like
Family:DNA-binding protein AlbA
25c3toeB_



not modelled 7.0 25 PDB header:unknown function
Chain: B: PDB Molecule:dna/rna-binding protein alba;
PDBTitle: structure of mth10b
26d1xmeb2



not modelled 6.9 39 Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
27d1t0ia_



not modelled 6.8 21 Fold:Flavodoxin-like
Superfamily:Flavoproteins
Family:NADPH-dependent FMN reductase
28c3a0bL_



not modelled 6.7 50 PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of br-substituted photosystem ii complex
29d1j9ba_



not modelled 6.5 15 Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:ArsC-like
30d1rkla_



not modelled 6.4 40 Fold:Single transmembrane helix
Superfamily:Oligosaccharyltransferase subunit ost4p
Family:Oligosaccharyltransferase subunit ost4p
31c3zx1A_



not modelled 6.2 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase, putative;
PDBTitle: multicopper oxidase from campylobacter jejuni: a metallo-oxidase
32c3a0bl_



not modelled 6.1 50 PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of br-substituted photosystem ii complex
33c3a0hl_



not modelled 6.1 50 PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of i-substituted photosystem ii complex
34c3a0hL_



not modelled 6.1 50 PDB header:electron transport
Chain: L: PDB Molecule:photosystem ii reaction center protein l;
PDBTitle: crystal structure of i-substituted photosystem ii complex

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