Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39310
DateThu Jan 5 11:59:16 GMT 2012
Unique Job ID8375c059c3f4bde7

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2gu1A_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae
Confidence and coverage
Confidence: 99.2% Coverage: 38%
80 residues ( 38% of your sequence) have been modelled with 99.2% 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.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MPGRFELKPTLEKVWHAPDNFRFMDPLPPMHRRGIIIAAIVLVVGFLLPSDDTPNAPVVT
Secondary structure 
SS confidence 
Disorder  ??????
?
??????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  REAQLDIQSQSQPPTEEQLRAQLVTPQNDPDQVAPVAPEPIQEGQPEEQPQTTQTQPFQP
Secondary structure 
SS confidence 
Disorder  ????????????????????????????????????????????????????????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  DSGIDNQWRSYRVEPGKTMAQLFRDHGLPATDVYAMAQVEGAGKPLSNLQNGQMVKIRQN
Secondary structure 
SS confidence 
Disorder  ????????
???
?
??????
?
Disorder confidence 
 
   .........190.........200.........210..
Sequence  ASGVVTGLTIDTGNNQQVLFTRQPDGSFIRAR
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 2gu1 chain A

3D model

Region: 130 - 209
Aligned: 80
Modelled: 80
Confidence: 99.2%
Identity: 24%
PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae

Phyre2

PDB 2l9y chain A

3D model

Region: 120 - 177
Aligned: 54
Modelled: 58
Confidence: 98.4%
Identity: 13%
PDB header:sugar binding protein
Chain: A: PDB Molecule:cvnh-lysm lectin;
PDBTitle: solution structure of the mocvnh-lysm module from the rice blast2 fungus magnaporthe oryzae protein (mgg_03307)

Phyre2

PDB 2djp chain A

3D model

Region: 119 - 177
Aligned: 55
Modelled: 59
Confidence: 98.3%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein sb145;
PDBTitle: the solution structure of the lysm domain of human2 hypothetical protein sb145

Phyre2

PDB 1e0g chain A

3D model

Region: 130 - 177
Aligned: 42
Modelled: 48
Confidence: 98.3%
Identity: 31%
Fold: LysM domain
Superfamily: LysM domain
Family: LysM domain

Phyre2

PDB 1y7m chain A domain 2

3D model

Region: 130 - 177
Aligned: 43
Modelled: 48
Confidence: 98.1%
Identity: 23%
Fold: LysM domain
Superfamily: LysM domain
Family: LysM domain

Phyre2

PDB 1y7m chain B

3D model

Region: 130 - 211
Aligned: 76
Modelled: 79
Confidence: 97.2%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein bsu14040;
PDBTitle: crystal structure of the b. subtilis ykud protein at 2 a2 resolution

Phyre2

PDB 2l55 chain A

3D model

Region: 161 - 191
Aligned: 31
Modelled: 31
Confidence: 58.2%
Identity: 19%
PDB header:metal binding protein
Chain: A: PDB Molecule:silb,silver efflux protein, mfp component of the three
PDBTitle: solution structure of the c-terminal domain of silb from cupriavidus2 metallidurans

Phyre2

PDB 1rr7 chain A

3D model

Region: 135 - 158
Aligned: 24
Modelled: 24
Confidence: 55.8%
Identity: 21%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Middle operon regulator, Mor

Phyre2

PDB 1rr7 chain A

3D model

Region: 135 - 158
Aligned: 24
Modelled: 24
Confidence: 55.8%
Identity: 21%
PDB header:transcription
Chain: A: PDB Molecule:middle operon regulator;
PDBTitle: crystal structure of the middle operon regulator protein of2 bacteriophage mu

Phyre2

PDB 1ei5 chain A

3D model

Region: 174 - 202
Aligned: 29
Modelled: 29
Confidence: 53.6%
Identity: 24%
PDB header:hydrolase
Chain: A: PDB Molecule:d-aminopeptidase;
PDBTitle: crystal structure of a d-aminopeptidase from ochrobactrum2 anthropi

Phyre2

PDB 1vzy chain A

3D model

Region: 125 - 199
Aligned: 75
Modelled: 75
Confidence: 43.6%
Identity: 19%
PDB header:chaperone
Chain: A: PDB Molecule:33 kda chaperonin;
PDBTitle: crystal structure of the bacillus subtilis hsp33

Phyre2

PDB 1ner chain A

3D model

Region: 134 - 158
Aligned: 25
Modelled: 25
Confidence: 42.8%
Identity: 16%
Fold: lambda repressor-like DNA-binding domains
Superfamily: lambda repressor-like DNA-binding domains
Family: Phage repressors

Phyre2

PDB 2obp chain A domain 1

3D model

Region: 138 - 187
Aligned: 41
Modelled: 50
Confidence: 42.7%
Identity: 20%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: ReutB4095-like

Phyre2

PDB 1zeq chain X

3D model

Region: 161 - 189
Aligned: 29
Modelled: 29
Confidence: 42.4%
Identity: 17%
PDB header:metal binding protein
Chain: X: PDB Molecule:cation efflux system protein cusf;
PDBTitle: 1.5 a structure of apo-cusf residues 6-88 from escherichia2 coli

Phyre2

PDB 2jn6 chain A domain 1

3D model

Region: 136 - 158
Aligned: 23
Modelled: 23
Confidence: 42.0%
Identity: 17%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: Homeodomain-like
Family: Cgl2762-like

Phyre2

PDB 2elh chain A

3D model

Region: 133 - 158
Aligned: 26
Modelled: 26
Confidence: 40.2%
Identity: 23%
PDB header:dna binding protein
Chain: A: PDB Molecule:cg11849-pa;
PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa

Phyre2

PDB 2pmz chain V

3D model

Region: 131 - 191
Aligned: 60
Modelled: 61
Confidence: 38.9%
Identity: 8%
PDB header:translation, transferase
Chain: V: PDB Molecule:dna-directed rna polymerase subunit h;
PDBTitle: archaeal rna polymerase from sulfolobus solfataricus

Phyre2

PDB 1vq0 chain A

3D model

Region: 125 - 199
Aligned: 75
Modelled: 75
Confidence: 38.8%
Identity: 11%
PDB header:chaperone
Chain: A: PDB Molecule:33 kda chaperonin;
PDBTitle: crystal structure of 33 kda chaperonin (heat shock protein 33 homolog)2 (hsp33) (tm1394) from thermotoga maritima at 2.20 a resolution

Phyre2

PDB 2r0q chain F

3D model

Region: 135 - 161
Aligned: 27
Modelled: 27
Confidence: 37.0%
Identity: 15%
PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex

Phyre2

PDB 1hmj chain A

3D model

Region: 131 - 194
Aligned: 63
Modelled: 64
Confidence: 35.5%
Identity: 8%
Fold: RPB5-like RNA polymerase subunit
Superfamily: RPB5-like RNA polymerase subunit
Family: RPB5

Phyre2
1
c2gu1A_
2
c2l9yA_
3
c2djpA_
4
d1e0ga_
5
d1y7ma2
6
c1y7mB_
7
c2l55A_
8
d1rr7a_
9
c1rr7A_
10
c1ei5A_
11
c1vzyA_
12
d1nera_
13
d2obpa1
14
c1zeqX_
15
d2jn6a1
16
c2elhA_
17
c2pmzV_
18
c1vq0A_
19
c2r0qF_
20
d1hmja_
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
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61
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63
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65
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67
68
69
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73
74
75
76
77
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2gu1A_
99.2 24 PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae
2c2l9yA_
98.4 13 PDB header:sugar binding protein
Chain: A: PDB Molecule:cvnh-lysm lectin;
PDBTitle: solution structure of the mocvnh-lysm module from the rice blast2 fungus magnaporthe oryzae protein (mgg_03307)
3c2djpA_
98.3 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein sb145;
PDBTitle: the solution structure of the lysm domain of human2 hypothetical protein sb145
4d1e0ga_
98.3 31 Fold:LysM domain
Superfamily:LysM domain
Family:LysM domain
5d1y7ma2
98.1 23 Fold:LysM domain
Superfamily:LysM domain
Family:LysM domain
6c1y7mB_
97.2 16 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein bsu14040;
PDBTitle: crystal structure of the b. subtilis ykud protein at 2 a2 resolution
7c2l55A_
58.2 19 PDB header:metal binding protein
Chain: A: PDB Molecule:silb,silver efflux protein, mfp component of the three
PDBTitle: solution structure of the c-terminal domain of silb from cupriavidus2 metallidurans
8d1rr7a_
55.8 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Middle operon regulator, Mor
9c1rr7A_
55.8 21 PDB header:transcription
Chain: A: PDB Molecule:middle operon regulator;
PDBTitle: crystal structure of the middle operon regulator protein of2 bacteriophage mu
10c1ei5A_
53.6 24 PDB header:hydrolase
Chain: A: PDB Molecule:d-aminopeptidase;
PDBTitle: crystal structure of a d-aminopeptidase from ochrobactrum2 anthropi
11c1vzyA_
43.6 19 PDB header:chaperone
Chain: A: PDB Molecule:33 kda chaperonin;
PDBTitle: crystal structure of the bacillus subtilis hsp33
12d1nera_
42.8 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
13d2obpa1
42.7 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ReutB4095-like
14c1zeqX_
42.4 17 PDB header:metal binding protein
Chain: X: PDB Molecule:cation efflux system protein cusf;
PDBTitle: 1.5 a structure of apo-cusf residues 6-88 from escherichia2 coli
15d2jn6a1
42.0 17 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Cgl2762-like
16c2elhA_
40.2 23 PDB header:dna binding protein
Chain: A: PDB Molecule:cg11849-pa;
PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa
17c2pmzV_
38.9 8 PDB header:translation, transferase
Chain: V: PDB Molecule:dna-directed rna polymerase subunit h;
PDBTitle: archaeal rna polymerase from sulfolobus solfataricus
18c1vq0A_
38.8 11 PDB header:chaperone
Chain: A: PDB Molecule:33 kda chaperonin;
PDBTitle: crystal structure of 33 kda chaperonin (heat shock protein 33 homolog)2 (hsp33) (tm1394) from thermotoga maritima at 2.20 a resolution
19c2r0qF_
37.0 15 PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
20d1hmja_
35.5 8 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
21d1je3a_
not modelled 35.2 13 Fold:IF3-like
Superfamily:SirA-like
Family:SirA-like
22d1vq0a1
not modelled 32.4 11 Fold:Hsp33 domain
Superfamily:Hsp33 domain
Family:Hsp33 domain
23c1hw7A_
not modelled 31.8 21 PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein hsp33;
PDBTitle: hsp33, heat shock protein with redox-regulated chaperone activity
24d1hw7a_
not modelled 31.8 21 Fold:Hsp33 domain
Superfamily:Hsp33 domain
Family:Hsp33 domain
25c3iswA_
not modelled 31.5 14 PDB header:structural protein
Chain: A: PDB Molecule:filamin-a;
PDBTitle: crystal structure of filamin-a immunoglobulin-like repeat 21 bound to2 an n-terminal peptide of cftr
26d1eika_
not modelled 31.4 10 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
27d1vzya1
not modelled 30.8 17 Fold:Hsp33 domain
Superfamily:Hsp33 domain
Family:Hsp33 domain
28d1uxca_
not modelled 29.0 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
29c1i7fA_
not modelled 28.9 20 PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein 33;
PDBTitle: crystal structure of the hsp33 domain with constitutive chaperone2 activity
30d2i6va1
not modelled 28.6 22 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:EpsC C-terminal domain-like
31c3mmlE_
not modelled 27.8 29 PDB header:hydrolase
Chain: E: PDB Molecule:allophanate hydrolase subunit 2;
PDBTitle: allophanate hydrolase complex from mycobacterium smegmatis, msmeg0435-2 msmeg0436
32d2i4sa1
not modelled 25.0 22 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:EpsC C-terminal domain-like
33c3cecA_
not modelled 24.6 21 PDB header:transcription
Chain: A: PDB Molecule:putative antidote protein of plasmid maintenance system;
PDBTitle: crystal structure of a putative antidote protein of plasmid2 maintenance system (npun_f2943) from nostoc punctiforme pcc 73102 at3 1.60 a resolution
34d1dzfa2
not modelled 24.6 18 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
35d1dcja_
not modelled 24.5 13 Fold:IF3-like
Superfamily:SirA-like
Family:SirA-like
36c2ia2D_
not modelled 24.3 8 PDB header:transcription
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: the crystal structure of a putative transcriptional regulator rha061952 from rhodococcus sp. rha1
37d1i7ha_
not modelled 23.8 14 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
38c3hefB_
not modelled 23.5 10 PDB header:viral protein
Chain: B: PDB Molecule:gene 1 protein;
PDBTitle: crystal structure of the bacteriophage sf6 terminase small2 subunit
39d2fug33
not modelled 22.8 24 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin domains from multidomain proteins
40d1hfua2
not modelled 22.7 12 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
41d1twfc2
not modelled 22.6 29 Fold:Insert subdomain of RNA polymerase alpha subunit
Superfamily:Insert subdomain of RNA polymerase alpha subunit
Family:Insert subdomain of RNA polymerase alpha subunit
42d1uxda_
not modelled 22.5 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
43c2zpmA_
not modelled 22.4 6 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of sigma e protease;
PDBTitle: crystal structure analysis of pdz domain b
44d3c8ya2
not modelled 22.4 14 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin domains from multidomain proteins
45c2gm4B_
not modelled 22.2 12 PDB header:recombination, dna
Chain: B: PDB Molecule:transposon gamma-delta resolvase;
PDBTitle: an activated, tetrameric gamma-delta resolvase: hin chimaera bound to2 cleaved dna
46d2proc1
not modelled 22.2 50 Fold:Alpha-lytic protease prodomain-like
Superfamily:Alpha-lytic protease prodomain
Family:Alpha-lytic protease prodomain
47d1y0pa3
not modelled 21.9 8 Fold:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain
Superfamily:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain
48d1d1la_
not modelled 21.9 22 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
49c2pijB_
not modelled 21.2 22 PDB header:transcription
Chain: B: PDB Molecule:prophage pfl 6 cro;
PDBTitle: structure of the cro protein from prophage pfl 6 in pseudomonas2 fluorescens pf-5
50d2q9oa2
not modelled 21.2 12 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
51c2rn7A_
not modelled 21.1 9 PDB header:unknown function
Chain: A: PDB Molecule:is629 orfa;
PDBTitle: nmr solution structure of tnpe protein from shigella2 flexneri. northeast structural genomics target sfr125
52d1wlha1
not modelled 20.9 22 Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:Filamin repeat (rod domain)
53c2brqB_
not modelled 20.9 14 PDB header:structural protein
Chain: B: PDB Molecule:filamin a;
PDBTitle: crystal structure of the filamin a repeat 21 complexed with2 the integrin beta7 cytoplasmic tail peptide
54d1ei5a2
not modelled 20.9 24 Fold:Streptavidin-like
Superfamily:D-aminopeptidase, middle and C-terminal domains
Family:D-aminopeptidase, middle and C-terminal domains
55c2lcvA_
not modelled 20.7 13 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional repressor cytr;
PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation
56d1v10a2
not modelled 20.3 12 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
57d1fdra1
not modelled 20.1 29 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:Ferredoxin reductase FAD-binding domain-like
58c3fiaA_
not modelled 20.1 16 PDB header:protein binding
Chain: A: PDB Molecule:intersectin-1;
PDBTitle: crystal structure of the eh 1 domain from human intersectin-2 1 protein. northeast structural genomics consortium target3 hr3646e.
59d1kyaa2
not modelled 19.9 10 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
60c2gu3A_
not modelled 19.0 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ypmb protein;
PDBTitle: ypmb protein from bacillus subtilis
61c3f6vA_
not modelled 18.6 13 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
62d4fxca_
not modelled 18.3 7 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
63c1p0oA_
not modelled 18.3 25 PDB header:ribosome
Chain: A: PDB Molecule:19-mer peptide from 50s ribosomal protein l1;
PDBTitle: hp (2-20) substitution of trp for gln and asp at position2 17 and 19 modification in sds-d25 micelles
64d1aoza2
not modelled 18.1 20 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
65d1a8pa1
not modelled 18.1 20 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:Ferredoxin reductase FAD-binding domain-like
66d1gyca2
not modelled 17.8 17 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
67c2l8nA_
not modelled 17.7 12 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional repressor cytr;
PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna
68c3lxfC_
not modelled 17.2 28 PDB header:metal binding protein
Chain: C: PDB Molecule:ferredoxin;
PDBTitle: crystal structure of [2fe-2s] ferredoxin arx from novosphingobium2 aromaticivorans
69d2gu3a1
not modelled 16.8 10 Fold:Cystatin-like
Superfamily:Cystatin/monellin
Family:PepSY-like
70d4croa_
not modelled 16.7 22 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
71d1awda_
not modelled 16.5 10 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
72d1bw6a_
not modelled 16.5 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
73d1hlva1
not modelled 16.4 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
74d2cuaa_
not modelled 16.0 20 Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Periplasmic domain of cytochrome c oxidase subunit II
75d2hsga1
not modelled 15.8 13 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
76c3cuoB_
not modelled 15.6 17 PDB header:transcription regulator
Chain: B: PDB Molecule:uncharacterized hth-type transcriptional regulator ygav;
PDBTitle: crystal structure of the predicted dna-binding transcriptional2 regulator from e. coli
77c2kjpA_
not modelled 15.6 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ylbl;
PDBTitle: solution structure of protein ylbl (bsu15050) from bacillus2 subtilis, northeast structural genomics consortium target3 sr713a
78c2xroE_
not modelled 15.3 16 PDB header:dna-binding protein/dna
Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv;
PDBTitle: crystal structure of ttgv in complex with its dna operator
79d1mkma1
not modelled 15.1 4 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
80c3h0gE_
not modelled 15.0 15 PDB header:transcription
Chain: E: PDB Molecule:dna-directed rna polymerases i, ii, and iii
PDBTitle: rna polymerase ii from schizosaccharomyces pombe
81d2jxca1
not modelled 15.0 10 Fold:EF Hand-like
Superfamily:EF-hand
Family:Eps15 homology domain (EH domain)
82d2icta1
not modelled 15.0 7 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
83d1nxza1
not modelled 14.9 20 Fold:PUA domain-like
Superfamily:PUA domain-like
Family:YggJ N-terminal domain-like
84d1zud21
not modelled 14.7 13 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:ThiS
85d1lcda_
not modelled 14.7 12 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
86c3c19A_
not modelled 14.5 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein mk0293;
PDBTitle: crystal structure of protein mk0293 from methanopyrus kandleri av19
87d1jiwi_
not modelled 14.4 19 Fold:Streptavidin-like
Superfamily:beta-Barrel protease inhibitors
Family:Metalloprotease inhibitor
88c1mkmA_
not modelled 14.3 4 PDB header:transcription
Chain: A: PDB Molecule:iclr transcriptional regulator;
PDBTitle: crystal structure of the thermotoga maritima iclr
89d1wxma1
not modelled 13.9 13 Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
90c2otgA_
not modelled 13.9 19 PDB header:contractile protein
Chain: A: PDB Molecule:myosin heavy chain;
PDBTitle: rigor-like structures of muscle myosins reveal key2 mechanical elements in the transduction pathways of this3 allosteric motor
91c3p42D_
not modelled 13.7 25 PDB header:unknown function
Chain: D: PDB Molecule:predicted protein;
PDBTitle: structure of gfcc (ymcb), protein encoded by the e. coli group 42 capsule operon
92d1e9ma_
not modelled 13.6 28 Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin-related
93d3orca_
not modelled 13.4 26 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
94d1hh2p4
not modelled 13.3 18 Fold:Transcription factor NusA, N-terminal domain
Superfamily:Transcription factor NusA, N-terminal domain
Family:Transcription factor NusA, N-terminal domain
95c2kfhA_
not modelled 13.3 16 PDB header:protein binding
Chain: A: PDB Molecule:eh domain-containing protein 1;
PDBTitle: structure of the c-terminal domain of ehd1 with fnyestgpftak
96d1kk8a2
not modelled 13.2 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Motor proteins
97d1d0xa2
not modelled 13.1 18 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Motor proteins
98c2o0yB_
not modelled 13.1 19 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp.
99d1d4ca3
not modelled 13.1 27 Fold:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain
Superfamily:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite


Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0