Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP09373
DateThu Jan 5 11:02:15 GMT 2012
Unique Job ID973cbb7f09cb6b84

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1h16a_
Top template information
Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:PFL-like
Confidence and coverage
Confidence:100.0% Coverage:100%
759 residues (100% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSELNEKLATAWEGFTKGDWQNEVNVRDFIQKNYTPYEGDESFLAGATEATTTLWDKVME
Secondary structure 
SS confidence 
Disorder  ???????
??
??????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  GVKLENRTHAPVDFDTAVASTITSHDAGYINKQLEKIVGLQTEAPLKRALIPFGGIKMIE
Secondary structure 
SS confidence 
Disorder 
??
???
?
????
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  GSCKAYNRELDPMIKKIFTEYRKTHNQGVFDVYTPDILRCRKSGVLTGLPDAYGRGRIIG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  DYRRVALYGIDYLMKDKLAQFTSLQADLENGVNLEQTIRLREEIAEQHRALGQMKEMAAK
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  YGYDISGPATNAQEAIQWTYFGYLAAVKSQNGAAMSFGRTSTFLDVYIERDLKAGKITEQ
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  EAQEMVDHLVMKLRMVRFLRTPEYDELFSGDPIWATESIGGMGLDGRTLVTKNSFRFLNT
Secondary structure 
SS confidence 
Disorder 
??
?
?
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  LYTMGPSPEPNMTILWSEKLPLNFKKFAAKVSIDTSSLQYENDDLMRPDFNNDDYAIACC
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  VSPMIVGKQMQFFGARANLAKTMLYAINGGVDEKLKMQVGPKSEPIKGDVLNYDEVMERM
Secondary structure 
SS confidence 
Disorder 
?
?
?
???
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  DHFMDWLAKQYITALNIIHYMHDKYSYEASLMALHDRDVIRTMACGIAGLSVAADSLSAI
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  KYAKVKPIRDEDGLAIDFEIEGEYPQFGNNDPRVDDLAVDLVERFMKKIQKLHTYRDAIP
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  TQSVLTITSNVVYGKKTGNTPDGRRAGAPFGPGANPMHGRDQKGAVASLTSVAKLPFAYA
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  KDGISYTFSIVPNALGKDDEVRKTNLAGLMDGYFHHEASIEGGQHLNVNVMNREMLLDAM
Secondary structure 
SS confidence 
Disorder 
??????
?
Disorder confidence 
 
   .........730.........740.........750.........760
Sequence  ENPEKYPQLTIRVSGYAVRFNSLTKEQQQDVITRTFTQSM
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 1h16 chain A

3D model

Region: 2 - 760
Aligned: 759
Modelled: 759
Confidence: 100.0%
Identity: 100%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2

PDB 1qhm chain A

3D model

Region: 5 - 615
Aligned: 611
Modelled: 611
Confidence: 100.0%
Identity: 100%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2

PDB 1r9d chain A

3D model

Region: 47 - 758
Aligned: 697
Modelled: 710
Confidence: 100.0%
Identity: 28%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2

PDB 2y8n chain C

3D model

Region: 82 - 758
Aligned: 664
Modelled: 677
Confidence: 100.0%
Identity: 21%
PDB header:lyase
Chain: C: PDB Molecule:4-hydroxyphenylacetate decarboxylase large subunit;
PDBTitle: crystal structure of glycyl radical enzyme

Phyre2

PDB 2f3o chain B

3D model

Region: 82 - 758
Aligned: 661
Modelled: 677
Confidence: 100.0%
Identity: 21%
PDB header:unknown function
Chain: B: PDB Molecule:pyruvate formate-lyase 2;
PDBTitle: crystal structure of a glycyl radical enzyme from archaeoglobus2 fulgidus

Phyre2

PDB 1hk8 chain A

3D model

Region: 152 - 709
Aligned: 412
Modelled: 442
Confidence: 99.5%
Identity: 16%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: Class III anaerobic ribonucleotide reductase NRDD subunit

Phyre2

PDB 1hk8 chain A

3D model

Region: 152 - 709
Aligned: 412
Modelled: 454
Confidence: 99.5%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:anaerobic ribonucleotide-triphosphate reductase;
PDBTitle: structural basis for allosteric substrate specificity2 regulation in class iii ribonucleotide reductases:3 nrdd in complex with dgtp

Phyre2

PDB 2cvu chain A

3D model

Region: 381 - 610
Aligned: 173
Modelled: 173
Confidence: 90.9%
Identity: 13%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large chain
PDBTitle: structures of yeast ribonucleotide reductase i

Phyre2

PDB 2wgh chain A

3D model

Region: 382 - 607
Aligned: 164
Modelled: 164
Confidence: 89.1%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large
PDBTitle: human ribonucleotide reductase r1 subunit (rrm1) in complex2 with datp and mg.

Phyre2

PDB 3hnf chain A

3D model

Region: 382 - 607
Aligned: 164
Modelled: 176
Confidence: 88.4%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large subunit;
PDBTitle: crystal structure of human ribonucleotide reductase 1 bound to the2 effectors ttp and datp

Phyre2

PDB 1xje chain A

3D model

Region: 382 - 588
Aligned: 143
Modelled: 156
Confidence: 87.0%
Identity: 17%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleotide reductase, b12-dependent;
PDBTitle: structural mechanism of allosteric substrate specificity in a2 ribonucleotide reductase: dttp-gdp complex

Phyre2

PDB 3r1r chain B

3D model

Region: 382 - 621
Aligned: 172
Modelled: 172
Confidence: 84.4%
Identity: 17%
PDB header:complex (oxidoreductase/peptide)
Chain: B: PDB Molecule:ribonucleotide reductase r1 protein;
PDBTitle: ribonucleotide reductase r1 protein with amppnp occupying2 the activity site from escherichia coli

Phyre2

PDB 3gr1 chain A

3D model

Region: 661 - 710
Aligned: 40
Modelled: 50
Confidence: 71.8%
Identity: 23%
PDB header:membrane protein
Chain: A: PDB Molecule:protein prgh;
PDBTitle: periplamic domain of the t3ss inner membrane protein prgh2 from s.typhimurium (fragment 170-392)

Phyre2

PDB 1pem chain A

3D model

Region: 382 - 588
Aligned: 140
Modelled: 151
Confidence: 69.8%
Identity: 14%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase 2 alpha
PDBTitle: ribonucleotide reductase protein r1e from salmonella2 typhimurium

Phyre2

PDB 1rlr chain A domain 2

3D model

Region: 382 - 621
Aligned: 182
Modelled: 182
Confidence: 66.9%
Identity: 18%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: R1 subunit of ribonucleotide reductase, C-terminal domain

Phyre2

PDB 2bgx chain A domain 1

3D model

Region: 116 - 160
Aligned: 45
Modelled: 45
Confidence: 56.3%
Identity: 20%
Fold: PGBD-like
Superfamily: PGBD-like
Family: Peptidoglycan binding domain, PGBD

Phyre2

PDB 1u5t chain B domain 1

3D model

Region: 566 - 602
Aligned: 37
Modelled: 37
Confidence: 50.3%
Identity: 16%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Vacuolar sorting protein domain

Phyre2

PDB 3gr0 chain D

3D model

Region: 661 - 710
Aligned: 40
Modelled: 50
Confidence: 48.9%
Identity: 23%
PDB header:membrane protein
Chain: D: PDB Molecule:protein prgh;
PDBTitle: periplasmic domain of the t3ss inner membrane protein prgh from2 s.typhimurium (fragment 170-362)

Phyre2

PDB 1dq3 chain A domain 4

3D model

Region: 670 - 721
Aligned: 48
Modelled: 52
Confidence: 46.9%
Identity: 19%
Fold: Homing endonuclease-like
Superfamily: Homing endonucleases
Family: Intein endonuclease

Phyre2

PDB 2job chain A

3D model

Region: 287 - 307
Aligned: 21
Modelled: 21
Confidence: 40.5%
Identity: 24%
PDB header:lipid binding protein
Chain: A: PDB Molecule:antilipopolysaccharide factor;
PDBTitle: solution structure of an antilipopolysaccharide factor from2 shrimp and its possible lipid a binding site

Phyre2
1
d1h16a_
2
d1qhma_
3
d1r9da_
4
c2y8nC_
5
c2f3oB_
6
d1hk8a_
7
c1hk8A_
8
c2cvuA_
9
c2wghA_
10
c3hnfA_
11
c1xjeA_
12
c3r1rB_
13
c3gr1A_
14
c1pemA_
15
d1rlra2
16
d2bgxa1
17
d1u5tb1
18
c3gr0D_
19
d1dq3a4
20
c2jobA_
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
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84
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99



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1h16a_
100.0 100 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:PFL-like
2d1qhma_
100.0 100 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:PFL-like
3d1r9da_
100.0 28 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:PFL-like
4c2y8nC_
100.0 21 PDB header:lyase
Chain: C: PDB Molecule:4-hydroxyphenylacetate decarboxylase large subunit;
PDBTitle: crystal structure of glycyl radical enzyme
5c2f3oB_
100.0 21 PDB header:unknown function
Chain: B: PDB Molecule:pyruvate formate-lyase 2;
PDBTitle: crystal structure of a glycyl radical enzyme from archaeoglobus2 fulgidus
6d1hk8a_
99.5 16 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:Class III anaerobic ribonucleotide reductase NRDD subunit
7c1hk8A_
99.5 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:anaerobic ribonucleotide-triphosphate reductase;
PDBTitle: structural basis for allosteric substrate specificity2 regulation in class iii ribonucleotide reductases:3 nrdd in complex with dgtp
8c2cvuA_
90.9 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large chain
PDBTitle: structures of yeast ribonucleotide reductase i
9c2wghA_
89.1 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large
PDBTitle: human ribonucleotide reductase r1 subunit (rrm1) in complex2 with datp and mg.
10c3hnfA_
88.4 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large subunit;
PDBTitle: crystal structure of human ribonucleotide reductase 1 bound to the2 effectors ttp and datp
11c1xjeA_
87.0 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleotide reductase, b12-dependent;
PDBTitle: structural mechanism of allosteric substrate specificity in a2 ribonucleotide reductase: dttp-gdp complex
12c3r1rB_
84.4 17 PDB header:complex (oxidoreductase/peptide)
Chain: B: PDB Molecule:ribonucleotide reductase r1 protein;
PDBTitle: ribonucleotide reductase r1 protein with amppnp occupying2 the activity site from escherichia coli
13c3gr1A_
71.8 23 PDB header:membrane protein
Chain: A: PDB Molecule:protein prgh;
PDBTitle: periplamic domain of the t3ss inner membrane protein prgh2 from s.typhimurium (fragment 170-392)
14c1pemA_
69.8 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase 2 alpha
PDBTitle: ribonucleotide reductase protein r1e from salmonella2 typhimurium
15d1rlra2
66.9 18 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:R1 subunit of ribonucleotide reductase, C-terminal domain
16d2bgxa1
56.3 20 Fold:PGBD-like
Superfamily:PGBD-like
Family:Peptidoglycan binding domain, PGBD
17d1u5tb1
50.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Vacuolar sorting protein domain
18c3gr0D_
48.9 23 PDB header:membrane protein
Chain: D: PDB Molecule:protein prgh;
PDBTitle: periplasmic domain of the t3ss inner membrane protein prgh from2 s.typhimurium (fragment 170-362)
19d1dq3a4
46.9 19 Fold:Homing endonuclease-like
Superfamily:Homing endonucleases
Family:Intein endonuclease
20c2jobA_
40.5 24 PDB header:lipid binding protein
Chain: A: PDB Molecule:antilipopolysaccharide factor;
PDBTitle: solution structure of an antilipopolysaccharide factor from2 shrimp and its possible lipid a binding site
21d1jvaa3
not modelled 36.3 10 Fold:Homing endonuclease-like
Superfamily:Homing endonucleases
Family:Intein endonuclease
22d2i15a1
not modelled 34.0 28 Fold:MG296-like
Superfamily:MG296-like
Family:MG296-like
23c2vkjA_
not modelled 28.9 24 PDB header:membrane protein
Chain: A: PDB Molecule:tm1634;
PDBTitle: structure of the soluble domain of the membrane protein2 tm1634 from thermotoga maritima
24d2di0a1
not modelled 24.5 22 Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:CUE domain
25c3gebC_
not modelled 23.3 24 PDB header:hydrolase
Chain: C: PDB Molecule:eyes absent homolog 2;
PDBTitle: crystal structure of edeya2
26d1ztda1
not modelled 21.7 25 Fold:RNase III domain-like
Superfamily:RNase III domain-like
Family:PF0609-like
27c3uo9B_
not modelled 21.4 20 PDB header:hydrolase/hydrolase inhibitor
Chain: B: PDB Molecule:glutaminase kidney isoform, mitochondrial;
PDBTitle: crystal structure of human gac in complex with glutamate and bptes
28d1nh2a2
not modelled 20.3 36 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
29d1aisa1
not modelled 19.9 36 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
30d1nh2a1
not modelled 19.7 25 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
31c1r8jB_
not modelled 19.7 24 PDB header:circadian clock protein
Chain: B: PDB Molecule:kaia;
PDBTitle: crystal structure of circadian clock protein kaia from2 synechococcus elongatus
32d1qnaa2
not modelled 19.1 36 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
33d1mp9a1
not modelled 19.0 29 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
34d1aisa2
not modelled 18.8 36 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
35c2khvA_
not modelled 18.3 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:phage integrase;
PDBTitle: solution nmr structure of protein nmul_a0922 from2 nitrosospira multiformis. northeast structural genomics3 consortium target nmr38b.
36d1v5ra1
not modelled 17.8 33 Fold:N domain of copper amine oxidase-like
Superfamily:GAS2 domain-like
Family:GAS2 domain
37d1rpya_
not modelled 17.7 17 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
38d1qnaa1
not modelled 17.6 25 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
39d1jwoa_
not modelled 17.4 39 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
40d1mp9a2
not modelled 17.3 42 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
41d1w7pd1
not modelled 16.4 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Vacuolar sorting protein domain
42c2q01A_
not modelled 16.4 19 PDB header:isomerase
Chain: A: PDB Molecule:uronate isomerase;
PDBTitle: crystal structure of glucuronate isomerase from caulobacter crescentus
43c2hjhB_
not modelled 16.1 44 PDB header:hydrolase
Chain: B: PDB Molecule:nad-dependent histone deacetylase sir2;
PDBTitle: crystal structure of the sir2 deacetylase
44d1uj8a1
not modelled 15.8 22 Fold:Another 3-helical bundle
Superfamily:IscX-like
Family:IscX-like
45d1vioa2
not modelled 15.5 17 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Pseudouridine synthase RsuA N-terminal domain
46d1cdwa1
not modelled 15.5 25 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
47c3knyA_
not modelled 14.9 14 PDB header:unknown function
Chain: A: PDB Molecule:hypothetical protein bt_3535;
PDBTitle: crystal structure of a two domain protein with unknown function2 (bt_3535) from bacteroides thetaiotaomicron vpi-5482 at 2.60 a3 resolution
48d1k9aa2
not modelled 14.6 29 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
49c2a7oA_
not modelled 14.2 29 PDB header:transcription
Chain: A: PDB Molecule:huntingtin interacting protein b;
PDBTitle: solution structure of the hset2/hypb sri domain
50d1bf5a3
not modelled 13.9 12 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
51c2k5eA_
not modelled 13.6 8 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: solution structure of putative uncharacterized protein2 gsu1278 from methanocaldococcus jannaschii, northeast3 structural genomics consortium (nesg) target gsr195
52c2zcyM_
not modelled 13.1 28 PDB header:hydrolase
Chain: M: PDB Molecule:proteasome component pre4;
PDBTitle: yeast 20s proteasome:syringolin a-complex
53d1i3za_
not modelled 13.0 25 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
54c3vjjA_
not modelled 12.9 23 PDB header:viral protein
Chain: A: PDB Molecule:p9-1;
PDBTitle: crystal structure analysis of the p9-1
55d1xlya_
not modelled 12.9 22 Fold:RNA-binding protein She2p
Superfamily:RNA-binding protein She2p
Family:RNA-binding protein She2p
56d1fs7a_
not modelled 12.8 13 Fold:Multiheme cytochromes
Superfamily:Multiheme cytochromes
Family:Di-heme elbow motif
57c1fs9A_
not modelled 12.8 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome c nitrite reductase;
PDBTitle: cytochrome c nitrite reductase from wolinella succinogenes-azide2 complex
58d2nlua1
not modelled 12.4 44 Fold:SH3-like barrel
Superfamily:Tudor/PWWP/MBT
Family:PWWP domain
59d1dwka2
not modelled 12.3 21 Fold:Cyanase C-terminal domain
Superfamily:Cyanase C-terminal domain
Family:Cyanase C-terminal domain
60d1cdwa2
not modelled 12.3 25 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
61c3pkiF_
not modelled 12.3 32 PDB header:hydrolase
Chain: F: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: human sirt6 crystal structure in complex with adp ribose
62c3gd5D_
not modelled 12.2 19 PDB header:transferase
Chain: D: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: crystal structure of ornithine carbamoyltransferase from gloeobacter2 violaceus
63c2ci8A_
not modelled 12.2 24 PDB header:translation
Chain: A: PDB Molecule:cytoplasmic protein nck1;
PDBTitle: sh2 domain of human nck1 adaptor protein - uncomplexed
64c3k35D_
not modelled 12.1 32 PDB header:hydrolase
Chain: D: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: crystal structure of human sirt6
65c2q82A_
not modelled 11.9 35 PDB header:structural protein
Chain: A: PDB Molecule:core protein p7;
PDBTitle: crystal structure of core protein p7 from pseudomonas phage2 phi12. northeast structural genomics target oc1
66d1u8sa1
not modelled 11.9 13 Fold:Ferredoxin-like
Superfamily:ACT-like
Family:Glycine cleavage system transcriptional repressor
67c2hx6A_
not modelled 11.9 14 PDB header:hydrolase
Chain: A: PDB Molecule:ribonuclease;
PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb
68d1p9ka_
not modelled 11.9 14 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:YbcJ-like
69c2ksgA_
not modelled 11.8 28 PDB header:antibiotic
Chain: A: PDB Molecule:dermcidin;
PDBTitle: solution structure of dermcidin-1l, a human antibiotic2 peptide
70c3d36B_
not modelled 11.7 13 PDB header:transferase/transferase inhibitor
Chain: B: PDB Molecule:sporulation kinase b;
PDBTitle: how to switch off a histidine kinase: crystal structure of2 geobacillus stearothermophilus kinb with the inhibitor sda
71c2pmzV_
not modelled 11.7 12 PDB header:translation, transferase
Chain: V: PDB Molecule:dna-directed rna polymerase subunit h;
PDBTitle: archaeal rna polymerase from sulfolobus solfataricus
72c3df1R_
not modelled 11.6 19 PDB header:ribosome
Chain: R: PDB Molecule:30s ribosomal protein s18;
PDBTitle: crystal structure of the bacterial ribosome from escherichia2 coli in complex with hygromycin b. this file contains the3 30s subunit of the first 70s ribosome, with hygromycin b4 bound. the entire crystal structure contains two 70s5 ribosomes.
73c3d2rB_
not modelled 11.4 9 PDB header:transferase
Chain: B: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 4;
PDBTitle: crystal structure of pyruvate dehydrogenase kinase isoform 4 in2 complex with adp
74c2vpmB_
not modelled 11.4 11 PDB header:ligase
Chain: B: PDB Molecule:trypanothione synthetase;
PDBTitle: trypanothione synthetase
75d1hmja_
not modelled 11.3 9 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
76c3pcsB_
not modelled 11.2 18 PDB header:protein transport/transferase
Chain: B: PDB Molecule:espg;
PDBTitle: structure of espg-pak2 autoinhibitory ialpha3 helix complex
77d1yuaa2
not modelled 11.1 11 Fold:Rubredoxin-like
Superfamily:Zinc beta-ribbon
Family:Prokaryotic DNA topoisomerase I, a C-terminal fragment
78d1dzfa2
not modelled 11.0 14 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
79d1etea_
not modelled 10.9 10 Fold:4-helical cytokines
Superfamily:4-helical cytokines
Family:Short-chain cytokines
80d1qada_
not modelled 10.8 12 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
81c2i6lB_
not modelled 10.8 14 PDB header:transferase
Chain: B: PDB Molecule:mitogen-activated protein kinase 6;
PDBTitle: crystal structure of human mitogen activated protein kinase2 6 (mapk6)
82d1a81e1
not modelled 10.6 29 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
83c3sohB_
not modelled 10.6 29 PDB header:motor protein
Chain: B: PDB Molecule:flagellar motor switch protein flig;
PDBTitle: architecture of the flagellar rotor
84c2uvaI_
not modelled 10.6 12 PDB header:transferase
Chain: I: PDB Molecule:fatty acid synthase beta subunits;
PDBTitle: crystal structure of fatty acid synthase from thermomyces2 lanuginosus at 3.1 angstrom resolution. this file contains3 the beta subunits of the fatty acid synthase. the entire4 crystal structure consists of one heterododecameric fatty5 acid synthase and is described in remark 400
85c2kj8A_
not modelled 10.4 13 PDB header:dna binding protein
Chain: A: PDB Molecule:putative prophage cps-53 integrase;
PDBTitle: nmr structure of fragment 87-196 from the putative phage2 integrase ints of e. coli: northeast structural genomics3 consortium target er652a, psi-2
86d2uubr1
not modelled 10.4 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Ribosomal protein S18
Family:Ribosomal protein S18
87d1eika_
not modelled 10.3 16 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
88c3t4aG_
not modelled 10.1 33 PDB header:immune system
Chain: G: PDB Molecule:fibrinogen-binding protein;
PDBTitle: structure of a truncated form of staphylococcal complement inhibitor b2 bound to human c3c at 3.4 angstrom resolution
89d2b4ya1
not modelled 10.1 22 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
90d1jyra_
not modelled 10.1 38 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
91c3ol0C_
not modelled 10.1 50 PDB header:de novo protein
Chain: C: PDB Molecule:de novo designed monomer trefoil-fold sub-domain which
PDBTitle: crystal structure of monofoil-4p homo-trimer: de novo designed monomer2 trefoil-fold sub-domain which forms homo-trimer assembly
92c3hp7A_
not modelled 10.0 24 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hemolysin, putative;
PDBTitle: putative hemolysin from streptococcus thermophilus.
93c1mqrA_
not modelled 10.0 21 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-d-glucuronidase;
PDBTitle: the crystal structure of alpha-d-glucuronidase (e386q) from bacillus2 stearothermophilus t-6
94c3dxnA_
not modelled 9.9 19 PDB header:transferase
Chain: A: PDB Molecule:calmodulin-like domain protein kinase isoform 3;
PDBTitle: crystal structure of the calcium-dependent kinase from toxoplasma2 gondii, 541.m00134, kinase domain.
95d1yc5a1
not modelled 9.8 32 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
96c3cekA_
not modelled 9.7 10 PDB header:transferase
Chain: A: PDB Molecule:dual specificity protein kinase ttk;
PDBTitle: crystal structure of human dual specificity protein kinase (ttk)
97c3nzqB_
not modelled 9.6 13 PDB header:lyase
Chain: B: PDB Molecule:biosynthetic arginine decarboxylase;
PDBTitle: crystal structure of biosynthetic arginine decarboxylase adc (spea)2 from escherichia coli, northeast structural genomics consortium3 target er600
98c3gxxB_
not modelled 9.5 13 PDB header:transcription
Chain: B: PDB Molecule:transcription elongation factor spt6;
PDBTitle: structure of the sh2 domain of the candida glabrata2 transcription elongation factor spt6, crystal form b
99c2vkzH_
not modelled 9.4 13 PDB header:transferase
Chain: H: PDB Molecule:fatty acid synthase subunit beta;
PDBTitle: structure of the cerulenin-inhibited fungal fatty acid2 synthase type i multienzyme 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


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