Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP42632
DateThu Jan 5 12:02:00 GMT 2012
Unique Job IDd2abf9bc589751ac

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: 99%
757 residues ( 99% 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  MKVDIDTSDKLYADAWLGFKGTDWKNEINVRDFIQHNYTPYEGDESFLAEATPATTELWE
Secondary structure 
SS confidence 
Disorder  ??
????
??????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  KVMEGIRIENATHAPVDFDTNIATTITAHDAGYINQPLEKIVGLQTDAPLKRALHPFGGI
Secondary structure 
SS confidence 
Disorder 
???
?
?
???
?
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  NMIKSSFHAYGREMDSEFEYLFTDLRKTHNQGVFDVYSPDMLRCRKSGVLTGLPDGYGRG
Secondary structure 
SS confidence 
Disorder 
??
??
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  RIIGDYRRVALYGISYLVRERELQFADLQSRLEKGEDLEATIRLREELAEHRHALLQIQE
Secondary structure 
SS confidence 
Disorder 
?????
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  MAAKYGFDISRPAQNAQEAVQWLYFAYLAAVKSQNGGAMSLGRTASFLDIYIERDFKAGV
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  LNEQQAQELIDHFIMKIRMVRFLRTPEFDSLFSGDPIWATEVIGGMGLDGRTLVTKNSFR
Secondary structure 
SS confidence 
Disorder  ?
??
?
?
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  YLHTLHTMGPAPEPNLTILWSEELPIAFKKYAAQVSIVTSSLQYENDDLMRTDFNSDDYA
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  IACCVSPMVIGKQMQFFGARANLAKTLLYAINGGVDEKLKIQVGPKTAPLMDDVLDYDKV
Secondary structure 
SS confidence 
Disorder 
???
?
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  MDSLDHFMDWLAVQYISALNIIHYMHDKYSYEASLMALHDRDVYRTMACGIAGLSVATDS
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  LSAIKYARVKPIRDENGLAVDFEIDGEYPQYGNNDERVDSIACDLVERFMKKIKALPTYR
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  NAVPTQSILTITSNVVYGQKTGNTPDGRRAGTPFAPGANPMHGRDRKGAVASLTSVAKLP
Secondary structure 
SS confidence 
Disorder 
??
???
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  FTYAKDGISYTFSIVPAALGKEDPVRKTNLVGLLDGYFHHEADVEGGQHLNVNVMNREML
Secondary structure 
SS confidence 
Disorder 
????
??
Disorder confidence 
 
   .........730.........740.........750.........760....
Sequence  LDAIEHPEKYPNLTIRVSGYAVRFNALTREQQQDVISRTFTQAL
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: 7 - 764
Aligned: 757
Modelled: 758
Confidence: 100.0%
Identity: 79%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2

PDB 1qhm chain A

3D model

Region: 9 - 619
Aligned: 611
Modelled: 611
Confidence: 100.0%
Identity: 77%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2

PDB 1r9d chain A

3D model

Region: 51 - 762
Aligned: 697
Modelled: 710
Confidence: 100.0%
Identity: 26%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: PFL-like

Phyre2

PDB 2y8n chain C

3D model

Region: 86 - 762
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: 93 - 763
Aligned: 655
Modelled: 667
Confidence: 100.0%
Identity: 24%
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: 156 - 713
Aligned: 417
Modelled: 449
Confidence: 99.5%
Identity: 13%
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 1hk8 chain A

3D model

Region: 156 - 713
Aligned: 417
Modelled: 444
Confidence: 99.5%
Identity: 13%
Fold: PFL-like glycyl radical enzymes
Superfamily: PFL-like glycyl radical enzymes
Family: Class III anaerobic ribonucleotide reductase NRDD subunit

Phyre2

PDB 1xje chain A

3D model

Region: 386 - 592
Aligned: 143
Modelled: 156
Confidence: 78.8%
Identity: 15%
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 3hnf chain A

3D model

Region: 386 - 611
Aligned: 164
Modelled: 176
Confidence: 70.3%
Identity: 19%
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 2cvu chain A

3D model

Region: 386 - 614
Aligned: 172
Modelled: 172
Confidence: 68.2%
Identity: 13%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large chain
PDBTitle: structures of yeast ribonucleotide reductase i

Phyre2

PDB 3gr1 chain A

3D model

Region: 664 - 714
Aligned: 41
Modelled: 51
Confidence: 66.1%
Identity: 22%
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 3at7 chain B

3D model

Region: 28 - 249
Aligned: 210
Modelled: 222
Confidence: 63.6%
Identity: 14%
PDB header:structural protein
Chain: B: PDB Molecule:alginate-binding flagellin;
PDBTitle: crystal structure of bacterial cell-surface alginate-binding protein2 algp7

Phyre2

PDB 2wgh chain A

3D model

Region: 386 - 611
Aligned: 164
Modelled: 164
Confidence: 61.8%
Identity: 15%
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 1fs9 chain A

3D model

Region: 194 - 314
Aligned: 113
Modelled: 121
Confidence: 52.0%
Identity: 14%
PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome c nitrite reductase;
PDBTitle: cytochrome c nitrite reductase from wolinella succinogenes-azide2 complex

Phyre2

PDB 1fs7 chain A

3D model

Region: 194 - 314
Aligned: 113
Modelled: 121
Confidence: 52.0%
Identity: 14%
Fold: Multiheme cytochromes
Superfamily: Multiheme cytochromes
Family: Di-heme elbow motif

Phyre2

PDB 1dq3 chain A domain 4

3D model

Region: 676 - 725
Aligned: 47
Modelled: 50
Confidence: 48.8%
Identity: 17%
Fold: Homing endonuclease-like
Superfamily: Homing endonucleases
Family: Intein endonuclease

Phyre2

PDB 3gr0 chain D

3D model

Region: 655 - 714
Aligned: 52
Modelled: 60
Confidence: 42.5%
Identity: 25%
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 1jva chain A domain 3

3D model

Region: 673 - 725
Aligned: 50
Modelled: 53
Confidence: 39.8%
Identity: 16%
Fold: Homing endonuclease-like
Superfamily: Homing endonucleases
Family: Intein endonuclease

Phyre2

PDB 2job chain A

3D model

Region: 291 - 311
Aligned: 21
Modelled: 21
Confidence: 37.7%
Identity: 19%
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

PDB 1u5t chain B domain 1

3D model

Region: 569 - 606
Aligned: 38
Modelled: 38
Confidence: 37.1%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Vacuolar sorting protein domain

Phyre2
1
d1h16a_
2
d1qhma_
3
d1r9da_
4
c2y8nC_
5
c2f3oB_
6
c1hk8A_
7
d1hk8a_
8
c1xjeA_
9
c3hnfA_
10
c2cvuA_
11
c3gr1A_
12
c3at7B_
13
c2wghA_
14
c1fs9A_
15
d1fs7a_
16
d1dq3a4
17
c3gr0D_
18
d1jvaa3
19
c2jobA_
20
d1u5tb1
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1h16a_
100.0 79 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:PFL-like
2d1qhma_
100.0 77 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:PFL-like
3d1r9da_
100.0 26 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 24 PDB header:unknown function
Chain: B: PDB Molecule:pyruvate formate-lyase 2;
PDBTitle: crystal structure of a glycyl radical enzyme from archaeoglobus2 fulgidus
6c1hk8A_
99.5 13 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
7d1hk8a_
99.5 13 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:Class III anaerobic ribonucleotide reductase NRDD subunit
8c1xjeA_
78.8 15 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
9c3hnfA_
70.3 19 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
10c2cvuA_
68.2 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large chain
PDBTitle: structures of yeast ribonucleotide reductase i
11c3gr1A_
66.1 22 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)
12c3at7B_
63.6 14 PDB header:structural protein
Chain: B: PDB Molecule:alginate-binding flagellin;
PDBTitle: crystal structure of bacterial cell-surface alginate-binding protein2 algp7
13c2wghA_
61.8 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase large
PDBTitle: human ribonucleotide reductase r1 subunit (rrm1) in complex2 with datp and mg.
14c1fs9A_
52.0 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome c nitrite reductase;
PDBTitle: cytochrome c nitrite reductase from wolinella succinogenes-azide2 complex
15d1fs7a_
52.0 14 Fold:Multiheme cytochromes
Superfamily:Multiheme cytochromes
Family:Di-heme elbow motif
16d1dq3a4
48.8 17 Fold:Homing endonuclease-like
Superfamily:Homing endonucleases
Family:Intein endonuclease
17c3gr0D_
42.5 25 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)
18d1jvaa3
39.8 16 Fold:Homing endonuclease-like
Superfamily:Homing endonucleases
Family:Intein endonuclease
19c2jobA_
37.7 19 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
20d1u5tb1
37.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Vacuolar sorting protein domain
21d2i15a1
not modelled 31.1 34 Fold:MG296-like
Superfamily:MG296-like
Family:MG296-like
22c3r1rB_
not modelled 31.0 16 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
23d1ztda1
not modelled 28.4 27 Fold:RNase III domain-like
Superfamily:RNase III domain-like
Family:PF0609-like
24c2ejeA_
not modelled 22.6 15 PDB header:transcription
Chain: A: PDB Molecule:general transcription factor ii-i;
PDBTitle: solution structure of rsgi ruh-071, a gtf2i domain in human2 cdna
25c1pemA_
not modelled 20.9 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase 2 alpha
PDBTitle: ribonucleotide reductase protein r1e from salmonella2 typhimurium
26d1uj8a1
not modelled 18.3 17 Fold:Another 3-helical bundle
Superfamily:IscX-like
Family:IscX-like
27c3pcsB_
not modelled 16.9 19 PDB header:protein transport/transferase
Chain: B: PDB Molecule:espg;
PDBTitle: structure of espg-pak2 autoinhibitory ialpha3 helix complex
28d2bgxa1
not modelled 16.8 17 Fold:PGBD-like
Superfamily:PGBD-like
Family:Peptidoglycan binding domain, PGBD
29d1aisa1
not modelled 16.4 27 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
30d1jwoa_
not modelled 16.4 28 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
31d1rpya_
not modelled 16.3 28 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
32d1v5ra1
not modelled 16.1 33 Fold:N domain of copper amine oxidase-like
Superfamily:GAS2 domain-like
Family:GAS2 domain
33c3knyA_
not modelled 16.1 10 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
34c2a7oA_
not modelled 16.1 23 PDB header:transcription
Chain: A: PDB Molecule:huntingtin interacting protein b;
PDBTitle: solution structure of the hset2/hypb sri domain
35c3uo9B_
not modelled 16.0 17 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
36d1nh2a1
not modelled 15.8 17 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
37d1nh2a2
not modelled 15.8 36 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
38c2q01A_
not modelled 15.7 19 PDB header:isomerase
Chain: A: PDB Molecule:uronate isomerase;
PDBTitle: crystal structure of glucuronate isomerase from caulobacter crescentus
39c1r8jB_
not modelled 15.3 24 PDB header:circadian clock protein
Chain: B: PDB Molecule:kaia;
PDBTitle: crystal structure of circadian clock protein kaia from2 synechococcus elongatus
40d1qnaa1
not modelled 14.9 17 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
41d1vioa2
not modelled 14.7 28 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:Pseudouridine synthase RsuA N-terminal domain
42d1aisa2
not modelled 14.5 42 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
43d1mp9a1
not modelled 14.2 29 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
44d1qnaa2
not modelled 14.1 36 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
45d1k9aa2
not modelled 14.1 29 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
46c2khvA_
not modelled 13.8 8 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.
47d1cdwa1
not modelled 13.2 17 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
48d1fp3a_
not modelled 13.0 8 Fold:alpha/alpha toroid
Superfamily:Six-hairpin glycosidases
Family:N-acylglucosamine (NAG) epimerase
49d1rlra2
not modelled 12.9 18 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:R1 subunit of ribonucleotide reductase, C-terminal domain
50d1mp9a2
not modelled 12.6 42 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
51d1w7pd1
not modelled 12.5 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Vacuolar sorting protein domain
52c3d36B_
not modelled 12.1 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
53d1i3za_
not modelled 11.4 25 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
54c2dlzA_
not modelled 11.4 33 PDB header:signaling protein
Chain: A: PDB Molecule:protein vav-2;
PDBTitle: solution structure of the sh2 domain of human protein vav-2
55c2ci8A_
not modelled 10.7 18 PDB header:translation
Chain: A: PDB Molecule:cytoplasmic protein nck1;
PDBTitle: sh2 domain of human nck1 adaptor protein - uncomplexed
56d1l8na1
not modelled 10.6 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain
57c2bh7A_
not modelled 10.6 14 PDB header:hydrolase
Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase;
PDBTitle: crystal structure of a semet derivative of amid at 2.22 angstroms
58d1bf5a3
not modelled 10.6 12 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
59c1x6cA_
not modelled 10.4 22 PDB header:signaling protein
Chain: A: PDB Molecule:tyrosine-protein phosphatase, non-receptor type
PDBTitle: solution structures of the sh2 domain of human protein-2 tyrosine phosphatase shp-1
60c3d2rB_
not modelled 10.4 17 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
61c3gd5D_
not modelled 10.4 19 PDB header:transferase
Chain: D: PDB Molecule:ornithine carbamoyltransferase;
PDBTitle: crystal structure of ornithine carbamoyltransferase from gloeobacter2 violaceus
62d1etea_
not modelled 10.3 16 Fold:4-helical cytokines
Superfamily:4-helical cytokines
Family:Short-chain cytokines
63d1qada_
not modelled 10.2 24 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
64d1yqea1
not modelled 10.1 8 Fold:Phosphorylase/hydrolase-like
Superfamily:AF0625-like
Family:AF0625-like
65d1ayaa_
not modelled 10.1 16 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
66d1p9ka_
not modelled 10.1 21 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:YbcJ-like
67c2q82A_
not modelled 9.9 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
68d1yuaa2
not modelled 9.9 11 Fold:Rubredoxin-like
Superfamily:Zinc beta-ribbon
Family:Prokaryotic DNA topoisomerase I, a C-terminal fragment
69c3cekA_
not modelled 9.7 13 PDB header:transferase
Chain: A: PDB Molecule:dual specificity protein kinase ttk;
PDBTitle: crystal structure of human dual specificity protein kinase (ttk)
70d1xlya_
not modelled 9.4 33 Fold:RNA-binding protein She2p
Superfamily:RNA-binding protein She2p
Family:RNA-binding protein She2p
71d2nlua1
not modelled 9.4 39 Fold:SH3-like barrel
Superfamily:Tudor/PWWP/MBT
Family:PWWP domain
72c3hp7A_
not modelled 9.3 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hemolysin, putative;
PDBTitle: putative hemolysin from streptococcus thermophilus.
73c3gebC_
not modelled 9.3 22 PDB header:hydrolase
Chain: C: PDB Molecule:eyes absent homolog 2;
PDBTitle: crystal structure of edeya2
74d1cdwa2
not modelled 9.3 25 Fold:TBP-like
Superfamily:TATA-box binding protein-like
Family:TATA-box binding protein (TBP), C-terminal domain
75c2hx6A_
not modelled 9.3 14 PDB header:hydrolase
Chain: A: PDB Molecule:ribonuclease;
PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb
76c3vjjA_
not modelled 9.3 23 PDB header:viral protein
Chain: A: PDB Molecule:p9-1;
PDBTitle: crystal structure analysis of the p9-1
77d1fhsa_
not modelled 9.0 24 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
78d1a81e1
not modelled 9.0 18 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
79d1a81e2
not modelled 9.0 9 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
80d2oq1a1
not modelled 8.8 24 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
81d1f2fa_
not modelled 8.8 12 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
82d1l1la_
not modelled 8.7 9 Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:B12-dependent (class II) ribonucleotide reductase
83c3gxxB_
not modelled 8.7 33 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
84c2pmzV_
not modelled 8.7 12 PDB header:translation, transferase
Chain: V: PDB Molecule:dna-directed rna polymerase subunit h;
PDBTitle: archaeal rna polymerase from sulfolobus solfataricus
85d1v0ea2
not modelled 8.6 18 Fold:Triple-stranded beta-helix
Superfamily:Phage fibre proteins
Family:Endo-alpha-sialidase
86d1jyra_
not modelled 8.5 25 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
87d1h41a1
not modelled 8.5 13 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain
88d1luia_
not modelled 8.5 11 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
89d2oq1a2
not modelled 8.4 11 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
90c3ajfA_
not modelled 8.4 39 PDB header:viral protein
Chain: A: PDB Molecule:non-structural protein 3;
PDBTitle: structural insigths into dsrna binding and rna silencing suppression2 by ns3 protein of rice hoja blanca tenuivirus
91d1iruc_
not modelled 8.4 20 Fold:Ntn hydrolase-like
Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases)
Family:Proteasome subunits
92d1dwka2
not modelled 8.4 21 Fold:Cyanase C-terminal domain
Superfamily:Cyanase C-terminal domain
Family:Cyanase C-terminal domain
93d1qcfa2
not modelled 8.4 12 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
94c2dm0A_
not modelled 8.4 18 PDB header:transferase
Chain: A: PDB Molecule:tyrosine-protein kinase txk;
PDBTitle: solution structure of the sh2 domain of human tyrosine-2 protein kinase txk
95d1rjaa_
not modelled 8.4 19 Fold:SH2-like
Superfamily:SH2 domain
Family:SH2 domain
96d1dzfa2
not modelled 8.3 16 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
97c2vpmB_
not modelled 8.2 6 PDB header:ligase
Chain: B: PDB Molecule:trypanothione synthetase;
PDBTitle: trypanothione synthetase
98c3jvdA_
not modelled 8.1 10 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulators;
PDBTitle: crystal structure of putative transcription regulation repressor (laci2 family) from corynebacterium glutamicum
99d1duvg1
not modelled 8.0 16 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase

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