Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP25907
DateThu Jan 5 11:42:46 GMT 2012
Unique Job IDf8b7c037cfce4f3a

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1hf2a1
Top template information
Fold:Single-stranded right-handed beta-helix
Superfamily:Cell-division inhibitor MinC, C-terminal domain
Family:Cell-division inhibitor MinC, C-terminal domain
Confidence and coverage
Confidence: 42.4% Coverage: 4%
31 residues ( 4% of your sequence) have been modelled with 42.4% 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.
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3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MLKARNCGWIRLLPLFMLSLPVQAELRCVANAVDIESFFSAATAEDKQQVEQAINSSVNL
Secondary structure 
SS confidence 
Disorder  ???????
?????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VPFGLSASNWKVHRGDLVVEGNIESNQKLIVLGNLTVKGNISTFSLSNPWVILGNVTATN
Secondary structure 
SS confidence 
Disorder  ???
?
?
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  IVADSPLLITGSINASGLVFIDSYYDNPSTIKGSINARGIFINDIIAPVVASSTNSEFMV
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  RASDKHDTENVKKALMIINPDAYYWGLINDEDALKEIFKRSNIRMAGNVCNQMKKEALFR
Secondary structure 
SS confidence 
Disorder 
??????
???
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  PKPSPELVQELQMLDEGKVAAFEGRDIATFDLAVMRTLPRLKGISANLRKQLINSNDEQT
Secondary structure 
SS confidence 
Disorder 
?
?
?
?
?
??
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  IESMARYMPDNEILELTDQQLGYQPVVLGLLDREPLSVEIMTRMSRLPDGVGPLNLALRE
Secondary structure 
SS confidence 
Disorder 
????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  NLPLDIVMTLAKRDWDMIIQELYKDAWLLPESIIDGYIRSDDSSIRQVGAGGQLTYNQAM
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  QLANDSSNNVVTSLAFKLAEMKHHGQLLRMTPQESDKVAGYLYQKFENDDDLIRVLFLAL
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  PDNLQFNFVKRMEKKSPAYFCCRDMQVIHSDAALQRLLTRFNDPEGWSNLAKNQYLSTSM
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  KQKIWQRALSHRKNNPKADSDAYETSADMILSELISHGEVDDQMLLNATALIRSDDWDFL
Secondary structure 
SS confidence 
Disorder 
??????????????
?
????
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  ESALISWDNLPAVVLKELQQNTPRNDIWAKFFLRQENSSRAQVDEALRVYYALDPDALAQ
Secondary structure 
SS confidence 
Disorder 
?
??
???
?
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  LDVLAKQPDRIWWSTLAKSNLTFFKFGALNNRHTPPAVLAAEIDPEWWIVAMNNPRFPVD
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........730.........740.........750.........760........
Sequence  VLKARLKRDPLLALELVNPELDLVRQLALNGKTRAIREQAMRKLDELY
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 1hf2 chain A domain 1

3D model

Region: 72 - 102
Aligned: 31
Modelled: 31
Confidence: 42.4%
Identity: 32%
Fold: Single-stranded right-handed beta-helix
Superfamily: Cell-division inhibitor MinC, C-terminal domain
Family: Cell-division inhibitor MinC, C-terminal domain

Phyre2

PDB 1jqg chain A domain 1

3D model

Region: 637 - 709
Aligned: 70
Modelled: 73
Confidence: 23.7%
Identity: 20%
Fold: Phosphorylase/hydrolase-like
Superfamily: Zn-dependent exopeptidases
Family: Pancreatic carboxypeptidases

Phyre2

PDB 3st1 chain A

3D model

Region: 604 - 622
Aligned: 19
Modelled: 19
Confidence: 23.4%
Identity: 21%
PDB header:toxin
Chain: A: PDB Molecule:necrosis-and ethylene-inducing protein;
PDBTitle: crystal structure of necrosis and ethylene inducing protein 2 from the2 causal agent of cocoa's witches broom disease

Phyre2

PDB 3f6o chain B

3D model

Region: 648 - 672
Aligned: 25
Modelled: 25
Confidence: 22.1%
Identity: 8%
PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566

Phyre2

PDB 1vjt chain A domain 1

3D model

Region: 350 - 409
Aligned: 54
Modelled: 59
Confidence: 19.3%
Identity: 19%
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Family: LDH N-terminal domain-like

Phyre2

PDB 1bdg chain A

3D model

Region: 126 - 211
Aligned: 69
Modelled: 72
Confidence: 18.3%
Identity: 20%
PDB header:hexokinase
Chain: A: PDB Molecule:hexokinase;
PDBTitle: hexokinase from schistosoma mansoni complexed with glucose

Phyre2

PDB 1vi1 chain A

3D model

Region: 207 - 285
Aligned: 79
Modelled: 79
Confidence: 17.2%
Identity: 19%
Fold: Isocitrate/Isopropylmalate dehydrogenase-like
Superfamily: Isocitrate/Isopropylmalate dehydrogenase-like
Family: PlsX-like

Phyre2

PDB 1w36 chain C domain 1

3D model

Region: 195 - 220
Aligned: 26
Modelled: 26
Confidence: 16.3%
Identity: 42%
Fold: P-loop containing nucleoside triphosphate hydrolases
Superfamily: P-loop containing nucleoside triphosphate hydrolases
Family: Tandem AAA-ATPase domain

Phyre2

PDB 2e72 chain A

3D model

Region: 483 - 505
Aligned: 21
Modelled: 23
Confidence: 14.2%
Identity: 29%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:pogo transposable element with znf domain;
PDBTitle: solution structure of the zinc finger domain of human2 kiaa0461

Phyre2

PDB 3u80 chain A

3D model

Region: 196 - 217
Aligned: 22
Modelled: 22
Confidence: 13.3%
Identity: 23%
PDB header:unknown function
Chain: A: PDB Molecule:3-dehydroquinate dehydratase, type ii;
PDBTitle: 1.60 angstrom resolution crystal structure of a 3-dehydroquinate2 dehydratase-like protein from bifidobacterium longum

Phyre2

PDB 2wyc chain B

3D model

Region: 107 - 206
Aligned: 92
Modelled: 100
Confidence: 12.9%
Identity: 15%
PDB header:hydrolase
Chain: B: PDB Molecule:acyl-homoserine lactone acylase pvdq subunit
PDBTitle: the quorum quenching n-acyl homoserine lactone acylase pvdq2 in complex with 3-oxo-lauric acid

Phyre2

PDB 1ls9 chain A

3D model

Region: 449 - 469
Aligned: 21
Modelled: 21
Confidence: 12.5%
Identity: 24%
Fold: Cytochrome c
Superfamily: Cytochrome c
Family: monodomain cytochrome c

Phyre2

PDB 3bvs chain A

3D model

Region: 287 - 311
Aligned: 25
Modelled: 25
Confidence: 12.2%
Identity: 28%
PDB header:hydrolase
Chain: A: PDB Molecule:alkylpurine dna glycosylase alkd;
PDBTitle: crystal structure of bacillus cereus alkylpurine dna glycosylase alkd

Phyre2

PDB 1ef4 chain A

3D model

Region: 500 - 511
Aligned: 12
Modelled: 12
Confidence: 11.5%
Identity: 42%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: RNA polymerase subunit RPB10
Family: RNA polymerase subunit RPB10

Phyre2

PDB 2q1m chain A domain 1

3D model

Region: 133 - 208
Aligned: 74
Modelled: 76
Confidence: 10.9%
Identity: 15%
Fold: TNF-like
Superfamily: TNF-like
Family: TNF-like

Phyre2

PDB 2ei5 chain B

3D model

Region: 315 - 352
Aligned: 38
Modelled: 38
Confidence: 10.7%
Identity: 29%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein ttha0061;
PDBTitle: crystal structure of hypothetical protein(ttha0061) from thermus2 thermophilus

Phyre2

PDB 1hf2 chain A

3D model

Region: 43 - 194
Aligned: 136
Modelled: 138
Confidence: 10.3%
Identity: 19%
PDB header:cell division protein
Chain: A: PDB Molecule:septum site-determining protein minc;
PDBTitle: crystal structure of the bacterial cell-division inhibitor2 minc from t. maritima

Phyre2

PDB 2k7i chain A domain 1

3D model

Region: 298 - 319
Aligned: 22
Modelled: 22
Confidence: 10.1%
Identity: 27%
Fold: YegP-like
Superfamily: YegP-like
Family: YegP-like

Phyre2

PDB 2k7i chain B

3D model

Region: 298 - 319
Aligned: 22
Modelled: 22
Confidence: 10.1%
Identity: 27%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:upf0339 protein atu0232;
PDBTitle: solution nmr structure of protein atu0232 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att3. ontario center for structural proteomics target atc0223.

Phyre2

PDB 1g3w chain A domain 2

3D model

Region: 624 - 670
Aligned: 47
Modelled: 47
Confidence: 9.7%
Identity: 17%
Fold: Iron-dependent repressor protein, dimerization domain
Superfamily: Iron-dependent repressor protein, dimerization domain
Family: Iron-dependent repressor protein, dimerization domain

Phyre2
1
d1hf2a1
2
d1jqga1
3
c3st1A_
4
c3f6oB_
5
d1vjta1
6
c1bdgA_
7
d1vi1a_
8
d1w36c1
9
c2e72A_
10
c3u80A_
11
c2wycB_
12
d1ls9a_
13
c3bvsA_
14
d1ef4a_
15
d2q1ma1
16
c2ei5B_
17
c1hf2A_
18
d2k7ia1
19
c2k7iB_
20
d1g3wa2
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
1d1hf2a1
42.4 32 Fold:Single-stranded right-handed beta-helix
Superfamily:Cell-division inhibitor MinC, C-terminal domain
Family:Cell-division inhibitor MinC, C-terminal domain
2d1jqga1
23.7 20 Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:Pancreatic carboxypeptidases
3c3st1A_
23.4 21 PDB header:toxin
Chain: A: PDB Molecule:necrosis-and ethylene-inducing protein;
PDBTitle: crystal structure of necrosis and ethylene inducing protein 2 from the2 causal agent of cocoa's witches broom disease
4c3f6oB_
22.1 8 PDB header:transcription regulator
Chain: B: PDB Molecule:probable transcriptional regulator, arsr family
PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566
5d1vjta1
19.3 19 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:LDH N-terminal domain-like
6c1bdgA_
18.3 20 PDB header:hexokinase
Chain: A: PDB Molecule:hexokinase;
PDBTitle: hexokinase from schistosoma mansoni complexed with glucose
7d1vi1a_
17.2 19 Fold:Isocitrate/Isopropylmalate dehydrogenase-like
Superfamily:Isocitrate/Isopropylmalate dehydrogenase-like
Family:PlsX-like
8d1w36c1
16.3 42 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:Tandem AAA-ATPase domain
9c2e72A_
14.2 29 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:pogo transposable element with znf domain;
PDBTitle: solution structure of the zinc finger domain of human2 kiaa0461
10c3u80A_
13.3 23 PDB header:unknown function
Chain: A: PDB Molecule:3-dehydroquinate dehydratase, type ii;
PDBTitle: 1.60 angstrom resolution crystal structure of a 3-dehydroquinate2 dehydratase-like protein from bifidobacterium longum
11c2wycB_
12.9 15 PDB header:hydrolase
Chain: B: PDB Molecule:acyl-homoserine lactone acylase pvdq subunit
PDBTitle: the quorum quenching n-acyl homoserine lactone acylase pvdq2 in complex with 3-oxo-lauric acid
12d1ls9a_
12.5 24 Fold:Cytochrome c
Superfamily:Cytochrome c
Family:monodomain cytochrome c
13c3bvsA_
12.2 28 PDB header:hydrolase
Chain: A: PDB Molecule:alkylpurine dna glycosylase alkd;
PDBTitle: crystal structure of bacillus cereus alkylpurine dna glycosylase alkd
14d1ef4a_
11.5 42 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:RNA polymerase subunit RPB10
Family:RNA polymerase subunit RPB10
15d2q1ma1
10.9 15 Fold:TNF-like
Superfamily:TNF-like
Family:TNF-like
16c2ei5B_
10.7 29 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein ttha0061;
PDBTitle: crystal structure of hypothetical protein(ttha0061) from thermus2 thermophilus
17c1hf2A_
10.3 19 PDB header:cell division protein
Chain: A: PDB Molecule:septum site-determining protein minc;
PDBTitle: crystal structure of the bacterial cell-division inhibitor2 minc from t. maritima
18d2k7ia1
10.1 27 Fold:YegP-like
Superfamily:YegP-like
Family:YegP-like
19c2k7iB_
10.1 27 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:upf0339 protein atu0232;
PDBTitle: solution nmr structure of protein atu0232 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att3. ontario center for structural proteomics target atc0223.
20d1g3wa2
9.7 17 Fold:Iron-dependent repressor protein, dimerization domain
Superfamily:Iron-dependent repressor protein, dimerization domain
Family:Iron-dependent repressor protein, dimerization domain
21c1vjtA_
not modelled 9.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-glucosidase;
PDBTitle: crystal structure of alpha-glucosidase (tm0752) from thermotoga2 maritima at 2.50 a resolution
22c3lwzC_
not modelled 8.8 32 PDB header:lyase
Chain: C: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: 1.65 angstrom resolution crystal structure of type ii 3-2 dehydroquinate dehydratase (aroq) from yersinia pestis
23c2dxbR_
not modelled 8.7 32 PDB header:hydrolase
Chain: R: PDB Molecule:thiocyanate hydrolase subunit gamma;
PDBTitle: recombinant thiocyanate hydrolase comprising partially-modified cobalt2 centers
24c2pmzN_
not modelled 8.5 50 PDB header:translation, transferase
Chain: N: PDB Molecule:dna-directed rna polymerase subunit n;
PDBTitle: archaeal rna polymerase from sulfolobus solfataricus
25d1uqra_
not modelled 8.4 36 Fold:Flavodoxin-like
Superfamily:Type II 3-dehydroquinate dehydratase
Family:Type II 3-dehydroquinate dehydratase
26c3s29C_
not modelled 8.4 22 PDB header:transferase
Chain: C: PDB Molecule:sucrose synthase 1;
PDBTitle: the crystal structure of sucrose synthase-1 from arabidopsis thaliana2 and its functional implications.
27d1bu8a1
not modelled 8.2 25 Fold:Lipase/lipooxygenase domain (PLAT/LH2 domain)
Superfamily:Lipase/lipooxygenase domain (PLAT/LH2 domain)
Family:Colipase-binding domain
28d2fm9a1
not modelled 8.1 47 Fold:SipA N-terminal domain-like
Superfamily:SipA N-terminal domain-like
Family:SipA N-terminal domain-like
29d2defa_
not modelled 8.1 19 Fold:Peptide deformylase
Superfamily:Peptide deformylase
Family:Peptide deformylase
30d1twfj_
not modelled 8.1 50 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:RNA polymerase subunit RPB10
Family:RNA polymerase subunit RPB10
31d2isya2
not modelled 7.9 11 Fold:Iron-dependent repressor protein, dimerization domain
Superfamily:Iron-dependent repressor protein, dimerization domain
Family:Iron-dependent repressor protein, dimerization domain
32c3kipU_
not modelled 7.9 32 PDB header:lyase
Chain: U: PDB Molecule:3-dehydroquinase, type ii;
PDBTitle: crystal structure of type-ii 3-dehydroquinase from c. albicans
33c2odlA_
not modelled 7.8 25 PDB header:cell adhesion
Chain: A: PDB Molecule:adhesin;
PDBTitle: crystal structure of the hmw1 secretion domain from2 haemophilus influenzae
34c3on9B_
not modelled 7.8 33 PDB header:viral protein
Chain: B: PDB Molecule:tumour necrosis factor receptor;
PDBTitle: the secret domain from ectromelia virus
35c2w91A_
not modelled 7.6 18 PDB header:hydrolase
Chain: A: PDB Molecule:endo-beta-n-acetylglucosaminidase d;
PDBTitle: structure of a streptococcus pneumoniae family 85 glycoside2 hydrolase, endo-d.
36c2uygF_
not modelled 7.6 23 PDB header:lyase
Chain: F: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: crystallogaphic structure of the typeii 3-dehydroquinase2 from thermus thermophilus
37d1h05a_
not modelled 7.5 23 Fold:Flavodoxin-like
Superfamily:Type II 3-dehydroquinate dehydratase
Family:Type II 3-dehydroquinate dehydratase
38d1vi0a1
not modelled 7.5 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
39c2rngA_
not modelled 7.5 100 PDB header:antimicrobial protein
Chain: A: PDB Molecule:big defensin;
PDBTitle: solution structure of big defensin
40d1gmua2
not modelled 7.4 47 Fold:Ferredoxin-like
Superfamily:Urease metallochaperone UreE, C-terminal domain
Family:Urease metallochaperone UreE, C-terminal domain
41d2p7ja1
not modelled 7.3 13 Fold:Profilin-like
Superfamily:Sensory domain-like
Family:YkuI C-terminal domain-like
42d1s57a_
not modelled 7.3 17 Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
43d2k49a1
not modelled 7.3 25 Fold:YegP-like
Superfamily:YegP-like
Family:YegP-like
44c3n8kG_
not modelled 6.9 23 PDB header:lyase
Chain: G: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: type ii dehydroquinase from mycobacterium tuberculosis complexed with2 citrazinic acid
45d1h3ga1
not modelled 6.8 15 Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:E-set domains of sugar-utilizing enzymes
46d2fm8c1
not modelled 6.8 47 Fold:SipA N-terminal domain-like
Superfamily:SipA N-terminal domain-like
Family:SipA N-terminal domain-like
47d1mzha_
not modelled 6.8 18 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
48c3gioA_
not modelled 6.6 45 PDB header:dna binding protein
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of the tnf-alpha inducing protein (tip2 alpha) from helicobacter pylori
49d2jmua1
not modelled 6.6 45 Fold:CYTH-like phosphatases
Superfamily:CYTH-like phosphatases
Family:CYTH domain
50c3e0zB_
not modelled 6.6 23 PDB header:unknown function
Chain: B: PDB Molecule:protein of unknown function;
PDBTitle: crystal structure of a putative imidazole glycerol phosphate synthase2 homolog (eubrec_1070) from eubacterium rectale at 1.75 a resolution
51c3gdbA_
not modelled 6.6 17 PDB header:hydrolase
Chain: A: PDB Molecule:putative uncharacterized protein spr0440;
PDBTitle: crystal structure of spr0440 glycoside hydrolase domain,2 endo-d from streptococcus pneumoniae r6
52d1sg5a1
not modelled 6.5 20 Fold:Rof/RNase P subunit-like
Superfamily:Rof/RNase P subunit-like
Family:Rof-like
53d1bdga2
not modelled 6.5 23 Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Hexokinase
54c1qhaA_
not modelled 6.4 24 PDB header:transferase
Chain: A: PDB Molecule:protein (hexokinase);
PDBTitle: human hexokinase type i complexed with atp analogue amp-pnp
55c2po4A_
not modelled 6.4 29 PDB header:transferase
Chain: A: PDB Molecule:virion rna polymerase;
PDBTitle: x-ray crystal structure of polymerase domain of the2 bacteriophage n4 virion rna polymerase
56c2l5rA_
not modelled 6.3 100 PDB header:antimicrobial protein
Chain: A: PDB Molecule:antimicrobial peptide alyteserin-1c;
PDBTitle: conformational and membrane interactins studies of antimicrobial2 peptide alyteserin-1c
57c1s1iA_
not modelled 6.3 15 PDB header:ribosome
Chain: A: PDB Molecule:60s ribosomal protein l1;
PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h.
58c2zkr5_
not modelled 6.3 33 PDB header:ribosomal protein/rna
Chain: 5: PDB Molecule:60s ribosomal protein l10a;
PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map
59d1eara2
not modelled 6.3 27 Fold:Ferredoxin-like
Superfamily:Urease metallochaperone UreE, C-terminal domain
Family:Urease metallochaperone UreE, C-terminal domain
60d1lmea_
not modelled 6.2 26 Fold:Peptide deformylase
Superfamily:Peptide deformylase
Family:Peptide deformylase
61d1g47a2
not modelled 6.2 32 Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:LIM domain
62d3bbba1
not modelled 6.2 15 Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
63c3sojA_
not modelled 6.1 58 PDB header:cell adhesion
Chain: A: PDB Molecule:pile;
PDBTitle: francisella tularensis pilin pile
64c2w3tA_
not modelled 6.0 19 PDB header:hydrolase
Chain: A: PDB Molecule:peptide deformylase;
PDBTitle: chloro complex of the ni-form of e.coli deformylase
65d2az3a1
not modelled 6.0 17 Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
66c3dgpA_
not modelled 6.0 30 PDB header:transcription
Chain: A: PDB Molecule:rna polymerase ii transcription factor b subunit 2;
PDBTitle: crystal structure of the complex between tfb5 and the c-terminal2 domain of tfb2
67d1gtza_
not modelled 5.8 40 Fold:Flavodoxin-like
Superfamily:Type II 3-dehydroquinate dehydratase
Family:Type II 3-dehydroquinate dehydratase
68d1c6ra_
not modelled 5.8 29 Fold:Cytochrome c
Superfamily:Cytochrome c
Family:monodomain cytochrome c
69d1txla_
not modelled 5.8 21 Fold:Lipocalins
Superfamily:Lipocalins
Family:Hypothetical protein YodA
70c1txlA_
not modelled 5.8 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:metal-binding protein yoda;
PDBTitle: crystal structure of metal-binding protein yoda from e.2 coli, pfam duf149
71d3bl2a1
not modelled 5.7 31 Fold:Toxins' membrane translocation domains
Superfamily:Bcl-2 inhibitors of programmed cell death
Family:Bcl-2 inhibitors of programmed cell death
72d1u7na_
not modelled 5.7 18 Fold:Isocitrate/Isopropylmalate dehydrogenase-like
Superfamily:Isocitrate/Isopropylmalate dehydrogenase-like
Family:PlsX-like
73d1pd0a1
not modelled 5.7 27 Fold:ERP29 C domain-like
Superfamily:Helical domain of Sec23/24
Family:Helical domain of Sec23/24
74d1rlra1
not modelled 5.7 16 Fold:R1 subunit of ribonucleotide reductase, N-terminal domain
Superfamily:R1 subunit of ribonucleotide reductase, N-terminal domain
Family:R1 subunit of ribonucleotide reductase, N-terminal domain
75c1v4sA_
not modelled 5.6 22 PDB header:transferase
Chain: A: PDB Molecule:glucokinase isoform 2;
PDBTitle: crystal structure of human glucokinase
76d3c07a1
not modelled 5.6 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
77d2c4va1
not modelled 5.6 25 Fold:Flavodoxin-like
Superfamily:Type II 3-dehydroquinate dehydratase
Family:Type II 3-dehydroquinate dehydratase
78c2i5nH_
not modelled 5.6 40 PDB header:photosynthesis
Chain: H: PDB Molecule:reaction center protein h chain;
PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique
79d1rzhh1
not modelled 5.5 53 Fold:PRC-barrel domain
Superfamily:PRC-barrel domain
Family:Photosynthetic reaction centre, H-chain, cytoplasmic domain
80c1eysH_
not modelled 5.5 24 PDB header:electron transport
Chain: H: PDB Molecule:photosynthetic reaction center;
PDBTitle: crystal structure of photosynthetic reaction center from a2 thermophilic bacterium, thermochromatium tepidum
81c3i3lA_
not modelled 5.5 37 PDB header:hydrolase
Chain: A: PDB Molecule:alkylhalidase cmls;
PDBTitle: crystal structure of cmls, a flavin-dependent halogenase
82c2ew7A_
not modelled 5.5 23 PDB header:hydrolase
Chain: A: PDB Molecule:peptide deformylase;
PDBTitle: crystal structure of helicobacter pylori peptide deformylase
83d1ufya_
not modelled 5.5 16 Fold:Bacillus chorismate mutase-like
Superfamily:YjgF-like
Family:Chorismate mutase
84d1wlfa1
not modelled 5.5 63 Fold:Cdc48 domain 2-like
Superfamily:Cdc48 domain 2-like
Family:Cdc48 domain 2-like
85c3h43F_
not modelled 5.5 33 PDB header:hydrolase
Chain: F: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: n-terminal domain of the proteasome-activating nucleotidase2 of methanocaldococcus jannaschii
86c3c8iA_
not modelled 5.5 27 PDB header:membrane protein
Chain: A: PDB Molecule:putative membrane protein;
PDBTitle: crystal structure of a putative membrane protein from corynebacterium2 diphtheriae
87c3fk2B_
not modelled 5.4 13 PDB header:signaling protein, hydrolase activator
Chain: B: PDB Molecule:glucocorticoid receptor dna-binding factor 1;
PDBTitle: crystal structure of the rhogap domain of human2 glucocorticoid receptor dna-binding factor 1
88d2ctda1
not modelled 5.4 29 Fold:beta-beta-alpha zinc fingers
Superfamily:beta-beta-alpha zinc fingers
Family:Classic zinc finger, C2H2
89c3kboB_
not modelled 5.4 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxylate/hydroxypyruvate reductase a;
PDBTitle: 2.14 angstrom crystal structure of putative oxidoreductase (ycdw) from2 salmonella typhimurium in complex with nadp
90d1t33a1
not modelled 5.4 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
91d1v0ea2
not modelled 5.3 40 Fold:Triple-stranded beta-helix
Superfamily:Phage fibre proteins
Family:Endo-alpha-sialidase
92d1l5ja3
not modelled 5.3 17 Fold:Aconitase iron-sulfur domain
Superfamily:Aconitase iron-sulfur domain
Family:Aconitase iron-sulfur domain
93c3fn2A_
not modelled 5.3 22 PDB header:transferase
Chain: A: PDB Molecule:putative sensor histidine kinase domain;
PDBTitle: crystal structure of a putative sensor histidine kinase domain from2 clostridium symbiosum atcc 14940
94d1gqoa_
not modelled 5.3 27 Fold:Flavodoxin-like
Superfamily:Type II 3-dehydroquinate dehydratase
Family:Type II 3-dehydroquinate dehydratase
95d1dwua_
not modelled 5.3 23 Fold:Ribosomal protein L1
Superfamily:Ribosomal protein L1
Family:Ribosomal protein L1
96d2fbqa1
not modelled 5.3 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Tetracyclin repressor-like, N-terminal domain
97d1ix1a_
not modelled 5.3 23 Fold:Peptide deformylase
Superfamily:Peptide deformylase
Family:Peptide deformylase
98d1fqva1
not modelled 5.2 55 Fold:F-box domain
Superfamily:F-box domain
Family:F-box domain
99c3gnzP_
not modelled 5.2 22 PDB header:toxin
Chain: P: PDB Molecule:25 kda protein elicitor;
PDBTitle: toxin fold for microbial attack and plant defense

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