Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP46883
DateThu Jan 5 12:04:33 GMT 2012
Unique Job ID983566c31d2ddef1

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1d6uB_
Top template information
PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine
Confidence and coverage
Confidence:100.0% Coverage: 95%
719 residues ( 95% 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  MGSPSLYSARKTTLALAVALSFAWQAPVFAHGGEAHMVPMDKTLKEFGADVQWDDYAQLF
Secondary structure 
SS confidence 
Disorder  ????????????
????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  TLIKDGAYVKVKPGAQTAIVNGQPLALQVPVVMKDNKAWVSDTFINDVFQSGLDQTFQVE
Secondary structure 
SS confidence 
Disorder 
?
??
???
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  KRPHPLNALTADEIKQAVEIVKASADFKPNTRFTEISLLPPDKEAVWAFALENKPVDQPR
Secondary structure 
SS confidence 
Disorder  ?
??
?
???
??
??????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  KADVIMLDGKHIIEAVVDLQNNKLLSWQPIKDAHGMVLLDDFASVQNIINNSEEFAAAVK
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  KRGITDAKKVITTPLTVGYFDGKDGLKQDARLLKVISYLDVGDGNYWAHPIENLVAVVDL
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  EQKKIVKIEEGPVVPVPMTARPFDGRDRVAPAVKPMQIIEPEGKNYTITGDMIHWRNWDF
Secondary structure 
SS confidence 
Disorder 
???????????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  HLSMNSRVGPMISTVTYNDNGTKRKVMYEGSLGGMIVPYGDPDIGWYFKAYLDSGDYGMG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  TLTSPIARGKDAPSNAVLLNETIADYTGVPMEIPRAIAVFERYAGPEYKHQEMGQPNVST
Secondary structure 
SS confidence 
Disorder 
?
??????
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  ERRELVVRWISTVGNYDYIFDWIFHENGTIGIDAGATGIEAVKGVKAKTMHDETAKDDTR
Secondary structure 
SS confidence 
Disorder  ?
?
?????????
????
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  YGTLIDHNIVGTTHQHIYNFRLDLDVDGENNSLVAMDPVVKPNTAGGPRTSTMQVNQYNI
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  GNEQDAAQKFDPGTIRLLSNPNKENRMGNPVSYQIIPYAGGTHPVAKGAQFAPDEWIYHR
Secondary structure 
SS confidence 
Disorder 
?
??????????????????
?
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  LSFMDKQLWVTRYHPGERFPEGKYPNRSTHDTGLGQYSKDNESLDNTDAVVWMTTGTTHV
Secondary structure 
SS confidence 
Disorder 
???
?
?
?
Disorder confidence 
 
   .........730.........740.........750.......
Sequence  ARAEEWPIMPTEWVHTLLKPWNFFDETPTLGALKKDK
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 1d6u chain B

3D model

Region: 36 - 755
Aligned: 719
Modelled: 720
Confidence: 100.0%
Identity: 100%
PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine

Phyre2

PDB 1ksi chain A

3D model

Region: 123 - 757
Aligned: 620
Modelled: 635
Confidence: 100.0%
Identity: 29%
PDB header:oxidoreductase
Chain: A: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a eukaryotic (pea seedling) copper-containing2 amine oxidase at 2.2a resolution

Phyre2

PDB 1ekm chain C

3D model

Region: 121 - 755
Aligned: 616
Modelled: 634
Confidence: 100.0%
Identity: 28%
PDB header:oxidoreductase
Chain: C: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure at 2.5 a resolution of zinc-substituted2 copper amine oxidase of hansenula polymorpha expressed in3 escherichia coli

Phyre2

PDB 1ui7 chain A

3D model

Region: 123 - 755
Aligned: 607
Modelled: 633
Confidence: 100.0%
Identity: 29%
PDB header:oxidoreductase
Chain: A: PDB Molecule:phenylethylamine oxidase;
PDBTitle: site-directed mutagenesis of his433 involved in binding of2 copper ion in arthrobacter globiformis amine oxidase

Phyre2

PDB 3nbb chain C

3D model

Region: 121 - 757
Aligned: 617
Modelled: 636
Confidence: 100.0%
Identity: 27%
PDB header:oxidoreductase
Chain: C: PDB Molecule:peroxisomal primary amine oxidase;
PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha

Phyre2

PDB 3loy chain B

3D model

Region: 124 - 756
Aligned: 608
Modelled: 632
Confidence: 100.0%
Identity: 28%
PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a copper-containing benzylamine oxidase from2 hansenula polymorpha

Phyre2

PDB 3hig chain B

3D model

Region: 121 - 755
Aligned: 611
Modelled: 611
Confidence: 100.0%
Identity: 24%
PDB header:oxidoreductase
Chain: B: PDB Molecule:amiloride-sensitive amine oxidase;
PDBTitle: crystal structure of human diamine oxidase in complex with the2 inhibitor berenil

Phyre2

PDB 3pgb chain A

3D model

Region: 122 - 755
Aligned: 600
Modelled: 623
Confidence: 100.0%
Identity: 22%
PDB header:oxidoreductase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of aspergillus nidulans amine oxidase

Phyre2

PDB 1n9e chain A

3D model

Region: 122 - 755
Aligned: 604
Modelled: 633
Confidence: 100.0%
Identity: 22%
PDB header:oxidoreductase
Chain: A: PDB Molecule:lysyl oxidase;
PDBTitle: crystal structure of pichia pastoris lysyl oxidase pplo

Phyre2

PDB 1w7c chain A

3D model

Region: 122 - 755
Aligned: 603
Modelled: 634
Confidence: 100.0%
Identity: 23%
PDB header:oxidoreductase
Chain: A: PDB Molecule:lysyl oxidase;
PDBTitle: pplo at 1.23 angstroms

Phyre2

PDB 2pnc chain B

3D model

Region: 124 - 751
Aligned: 593
Modelled: 618
Confidence: 100.0%
Identity: 23%
PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase, liver isozyme;
PDBTitle: crystal structure of bovine plasma copper-containing amine oxidase in2 complex with clonidine

Phyre2

PDB 1d6z chain A domain 1

3D model

Region: 331 - 754
Aligned: 423
Modelled: 424
Confidence: 100.0%
Identity: 100%
Fold: Supersandwich
Superfamily: Amine oxidase catalytic domain
Family: Amine oxidase catalytic domain

Phyre2

PDB 1w6g chain A domain 1

3D model

Region: 328 - 755
Aligned: 412
Modelled: 428
Confidence: 100.0%
Identity: 31%
Fold: Supersandwich
Superfamily: Amine oxidase catalytic domain
Family: Amine oxidase catalytic domain

Phyre2

PDB 2oqe chain A domain 1

3D model

Region: 331 - 756
Aligned: 411
Modelled: 426
Confidence: 100.0%
Identity: 29%
Fold: Supersandwich
Superfamily: Amine oxidase catalytic domain
Family: Amine oxidase catalytic domain

Phyre2

PDB 1w2z chain A domain 1

3D model

Region: 324 - 757
Aligned: 424
Modelled: 434
Confidence: 100.0%
Identity: 32%
Fold: Supersandwich
Superfamily: Amine oxidase catalytic domain
Family: Amine oxidase catalytic domain

Phyre2

PDB 1w7c chain A domain 1

3D model

Region: 331 - 755
Aligned: 402
Modelled: 425
Confidence: 100.0%
Identity: 25%
Fold: Supersandwich
Superfamily: Amine oxidase catalytic domain
Family: Amine oxidase catalytic domain

Phyre2

PDB 1d6z chain A domain 3

3D model

Region: 216 - 329
Aligned: 114
Modelled: 114
Confidence: 100.0%
Identity: 100%
Fold: Cystatin-like
Superfamily: Amine oxidase N-terminal region
Family: Amine oxidase N-terminal region

Phyre2

PDB 1w6g chain A domain 3

3D model

Region: 214 - 324
Aligned: 108
Modelled: 111
Confidence: 100.0%
Identity: 29%
Fold: Cystatin-like
Superfamily: Amine oxidase N-terminal region
Family: Amine oxidase N-terminal region

Phyre2

PDB 1w2z chain A domain 3

3D model

Region: 213 - 325
Aligned: 108
Modelled: 113
Confidence: 100.0%
Identity: 20%
Fold: Cystatin-like
Superfamily: Amine oxidase N-terminal region
Family: Amine oxidase N-terminal region

Phyre2

PDB 1d6z chain A domain 2

3D model

Region: 121 - 215
Aligned: 95
Modelled: 95
Confidence: 99.9%
Identity: 100%
Fold: Cystatin-like
Superfamily: Amine oxidase N-terminal region
Family: Amine oxidase N-terminal region

Phyre2
1
c1d6uB_
2
c1ksiA_
3
c1ekmC_
4
c1ui7A_
5
c3nbbC_
6
c3loyB_
7
c3higB_
8
c3pgbA_
9
c1n9eA_
10
c1w7cA_
11
c2pncB_
12
d1d6za1
13
d1w6ga1
14
d2oqea1
15
d1w2za1
16
d1w7ca1
17
d1d6za3
18
d1w6ga3
19
d1w2za3
20
d1d6za2
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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64
65
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67
68
69
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71
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73
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1d6uB_
100.0 100 PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of e. coli amine oxidase anaerobically reduced with2 beta-phenylethylamine
2c1ksiA_
100.0 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a eukaryotic (pea seedling) copper-containing2 amine oxidase at 2.2a resolution
3c1ekmC_
100.0 28 PDB header:oxidoreductase
Chain: C: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure at 2.5 a resolution of zinc-substituted2 copper amine oxidase of hansenula polymorpha expressed in3 escherichia coli
4c1ui7A_
100.0 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:phenylethylamine oxidase;
PDBTitle: site-directed mutagenesis of his433 involved in binding of2 copper ion in arthrobacter globiformis amine oxidase
5c3nbbC_
100.0 27 PDB header:oxidoreductase
Chain: C: PDB Molecule:peroxisomal primary amine oxidase;
PDBTitle: crystal structure of mutant y305f expressed in e. coli in the copper2 amine oxidase from hansenula polymorpha
6c3loyB_
100.0 28 PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase;
PDBTitle: crystal structure of a copper-containing benzylamine oxidase from2 hansenula polymorpha
7c3higB_
100.0 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:amiloride-sensitive amine oxidase;
PDBTitle: crystal structure of human diamine oxidase in complex with the2 inhibitor berenil
8c3pgbA_
100.0 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of aspergillus nidulans amine oxidase
9c1n9eA_
100.0 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:lysyl oxidase;
PDBTitle: crystal structure of pichia pastoris lysyl oxidase pplo
10c1w7cA_
100.0 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:lysyl oxidase;
PDBTitle: pplo at 1.23 angstroms
11c2pncB_
100.0 23 PDB header:oxidoreductase
Chain: B: PDB Molecule:copper amine oxidase, liver isozyme;
PDBTitle: crystal structure of bovine plasma copper-containing amine oxidase in2 complex with clonidine
12d1d6za1
100.0 100 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
13d1w6ga1
100.0 31 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
14d2oqea1
100.0 29 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
15d1w2za1
100.0 32 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
16d1w7ca1
100.0 25 Fold:Supersandwich
Superfamily:Amine oxidase catalytic domain
Family:Amine oxidase catalytic domain
17d1d6za3
100.0 100 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
18d1w6ga3
100.0 29 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
19d1w2za3
100.0 20 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
20d1d6za2
99.9 100 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
21d2oqea2
not modelled 99.9 26 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
22d2oqea3
not modelled 99.9 23 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
23d1w2za2
not modelled 99.9 24 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
24d1w6ga2
not modelled 99.8 23 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
25d1w7ca2
not modelled 99.4 19 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
26d1d6za4
not modelled 98.7 100 Fold:N domain of copper amine oxidase-like
Superfamily:Copper amine oxidase, domain N
Family:Copper amine oxidase, domain N
27c3mlhA_
not modelled 40.0 21 PDB header:viral protein
Chain: A: PDB Molecule:hemagglutinin;
PDBTitle: crystal structure of the 2009 h1n1 influenza virus hemagglutinin2 receptor-binding domain
28d2viua_
not modelled 38.5 24 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
29d1kx5d_
not modelled 36.4 24 Fold:Histone-fold
Superfamily:Histone-fold
Family:Nucleosome core histones
30d1eqzb_
not modelled 34.7 22 Fold:Histone-fold
Superfamily:Histone-fold
Family:Nucleosome core histones
31c3qqiB_
not modelled 32.0 30 PDB header:viral protein
Chain: B: PDB Molecule:hemagglutinin;
PDBTitle: crystal structure of the ha1 receptor binding domain of h22 hemagglutinin
32d1rvxa_
not modelled 30.7 28 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
33d1s32d_
not modelled 30.0 24 Fold:Histone-fold
Superfamily:Histone-fold
Family:Nucleosome core histones
34c3imoC_
not modelled 29.7 26 PDB header:unknown function
Chain: C: PDB Molecule:integron cassette protein;
PDBTitle: structure from the mobile metagenome of vibrio cholerae.2 integron cassette protein vch_cass14
35d1rv0h_
not modelled 28.5 21 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
36d1w7ca3
not modelled 28.1 16 Fold:Cystatin-like
Superfamily:Amine oxidase N-terminal region
Family:Amine oxidase N-terminal region
37c1ha0A_
not modelled 27.9 24 PDB header:viral protein
Chain: A: PDB Molecule:protein (hemagglutinin precursor);
PDBTitle: hemagglutinin precursor ha0
38d2dira1
not modelled 26.7 22 Fold:THUMP domain
Superfamily:THUMP domain-like
Family:Minimal THUMP
39c1x9yD_
not modelled 23.3 12 PDB header:hydrolase
Chain: D: PDB Molecule:cysteine proteinase;
PDBTitle: the prostaphopain b structure
40d1uwwa_
not modelled 21.9 17 Fold:Galactose-binding domain-like
Superfamily:Galactose-binding domain-like
Family:Family 28 carbohydrate binding module, CBM28
41d1mqma_
not modelled 21.2 24 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
42d1jsda_
not modelled 21.0 23 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
43d2cx1a2
not modelled 20.3 20 Fold:Cystatin-like
Superfamily:Pre-PUA domain
Family:Hypothetical protein APE0525, N-terminal domain
44c2jssA_
not modelled 20.1 23 PDB header:chaperone/nuclear protein
Chain: A: PDB Molecule:chimera of histone h2b.1 and histone h2a.z;
PDBTitle: nmr structure of chaperone chz1 complexed with histone2 h2a.z-h2b
45d1rd8a_
not modelled 20.0 23 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
46c2cfoA_
not modelled 19.5 35 PDB header:ligase
Chain: A: PDB Molecule:glutamyl-trna synthetase;
PDBTitle: non-discriminating glutamyl-trna synthetase from2 thermosynechococcus elongatus in complex with glu
47d2plga1
not modelled 17.6 39 Fold:Secretion chaperone-like
Superfamily:Type III secretory system chaperone-like
Family:Tll0839-like
48c3al0C_
not modelled 16.8 27 PDB header:ligase/rna
Chain: C: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit c, glutamyl-
PDBTitle: crystal structure of the glutamine transamidosome from thermotoga2 maritima in the glutamylation state.
49d2visc_
not modelled 16.0 23 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
50d1nkqa_
not modelled 16.0 40 Fold:FAH
Superfamily:FAH
Family:FAH
51d1jsma_
not modelled 12.9 30 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
52c2rfuA_
not modelled 12.8 24 PDB header:viral protein
Chain: A: PDB Molecule:influenza b hemagglutinin (ha);
PDBTitle: crystal structure of influenza b virus hemagglutinin in complex with2 lstc receptor analog
53c3rurB_
not modelled 12.8 19 PDB header:metal transport
Chain: B: PDB Molecule:iron-regulated surface determinant protein b;
PDBTitle: staphylococcus aureus heme-bound selenomethionine-labeled isdb-n2
54d1jp4a_
not modelled 12.6 31 Fold:Carbohydrate phosphatase
Superfamily:Carbohydrate phosphatase
Family:Inositol monophosphatase/fructose-1,6-bisphosphatase-like
55c1zxuA_
not modelled 12.1 7 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:at5g01750 protein;
PDBTitle: x-ray structure of protein from arabidopsis thaliana2 at5g01750
56d2q4ma1
not modelled 12.1 7 Fold:Tubby C-terminal domain-like
Superfamily:Tubby C-terminal domain-like
Family:At5g01750-like
57d1pfsa_
not modelled 10.2 50 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Phage ssDNA-binding proteins
58c2ka6B_
not modelled 9.8 19 PDB header:transcription regulator
Chain: B: PDB Molecule:signal transducer and activator of transcription
PDBTitle: nmr structure of the cbp-taz2/stat1-tad complex
59d1r5ya_
not modelled 9.6 4 Fold:TIM beta/alpha-barrel
Superfamily:tRNA-guanine transglycosylase
Family:tRNA-guanine transglycosylase
60c3k1tA_
not modelled 9.5 55 PDB header:ligase
Chain: A: PDB Molecule:glutamate--cysteine ligase gsha;
PDBTitle: crystal structure of putative gamma-glutamylcysteine synthetase2 (yp_546622.1) from methylobacillus flagellatus kt at 1.90 a3 resolution
61c2ja2A_
not modelled 9.4 33 PDB header:ligase
Chain: A: PDB Molecule:glutamyl-trna synthetase;
PDBTitle: mycobacterium tuberculosis glutamyl-trna synthetase
62c3acgA_
not modelled 9.3 23 PDB header:hydrolase
Chain: A: PDB Molecule:beta-1,4-endoglucanase;
PDBTitle: crystal structure of carbohydrate-binding module family 282 from clostridium josui cel5a in complex with cellobiose
63d2d9ra1
not modelled 9.3 8 Fold:Double-split beta-barrel
Superfamily:AF2212/PG0164-like
Family:PG0164-like
64d1xxxa1
not modelled 9.2 25 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
65c3bbnI_
not modelled 9.2 26 PDB header:ribosome
Chain: I: PDB Molecule:ribosomal protein s9;
PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome.
66d2vqei1
not modelled 9.0 42 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Translational machinery components
67d2cs7a1
not modelled 8.9 35 Fold:IL8-like
Superfamily:PhtA domain-like
Family:PhtA domain-like
68d2ibxa1
not modelled 8.8 29 Fold:Viral protein domain
Superfamily:Viral protein domain
Family:Influenza hemagglutinin headpiece
69c2xfyA_
not modelled 8.8 52 PDB header:hydrolase
Chain: A: PDB Molecule:beta-amylase;
PDBTitle: crystal structure of barley beta-amylase complexed with2 alpha-cyclodextrin
70d1hcza1
not modelled 8.7 22 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily:Cytochrome f, large domain
Family:Cytochrome f, large domain
71c3cu4A_
not modelled 8.6 16 PDB header:electron transport
Chain: A: PDB Molecule:cytochrome c family protein;
PDBTitle: omcf, outer membrance cytochrome f from geobacter2 sulfurreducens
72d2o8ra4
not modelled 8.6 7 Fold:Phospholipase D/nuclease
Superfamily:Phospholipase D/nuclease
Family:Polyphosphate kinase C-terminal domain
73c1fllA_
not modelled 8.5 17 PDB header:apoptosis
Chain: A: PDB Molecule:tnf receptor associated factor 3;
PDBTitle: molecular basis for cd40 signaling mediated by traf3
74d1jjcb4
not modelled 8.4 4 Fold:Ferredoxin-like
Superfamily:Anticodon-binding domain of PheRS
Family:Anticodon-binding domain of PheRS
75d2dy1a4
not modelled 8.4 26 Fold:Ferredoxin-like
Superfamily:EF-G C-terminal domain-like
Family:EF-G/eEF-2 domains III and V
76c3gr0D_
not modelled 8.2 14 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)
77c1zljE_
not modelled 8.1 28 PDB header:transcription
Chain: E: PDB Molecule:dormancy survival regulator;
PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain
78d1ejxb_
not modelled 8.1 27 Fold:beta-clip
Superfamily:Urease, beta-subunit
Family:Urease, beta-subunit
79c2yxgD_
not modelled 8.1 20 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)
80c1g59A_
not modelled 8.1 45 PDB header:ligase/rna
Chain: A: PDB Molecule:glutamyl-trna synthetase;
PDBTitle: glutamyl-trna synthetase complexed with trna(glu).
81c3afhA_
not modelled 8.0 27 PDB header:ligase
Chain: A: PDB Molecule:glutamyl-trna synthetase 2;
PDBTitle: crystal structure of thermotoga maritima nondiscriminating glutamyl-2 trna synthetase in complex with a glutamyl-amp analog
82c3iz6I_
not modelled 7.8 42 PDB header:ribosome
Chain: I: PDB Molecule:40s ribosomal protein s16 (s9p);
PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
83c3sbrF_
not modelled 7.6 8 PDB header:oxidoreductase
Chain: F: PDB Molecule:nitrous-oxide reductase;
PDBTitle: pseudomonas stutzeri nitrous oxide reductase, p1 crystal form with2 substrate
84c2xzmI_
not modelled 7.6 42 PDB header:ribosome
Chain: I: PDB Molecule:rps16e;
PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1
85d2oo3a1
not modelled 7.6 7 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:LPG1296-like
86d2gy9i1
not modelled 7.5 37 Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Translational machinery components
87c3si9B_
not modelled 7.5 20 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae
88c3luzA_
not modelled 7.5 38 PDB header:hydrolase
Chain: A: PDB Molecule:extragenic suppressor protein suhb;
PDBTitle: crystal structure of extragenic suppressor protein suhb from2 bartonella henselae, via combined iodide sad molecular replacement
89d1owxa_
not modelled 7.5 17 Fold:Ferredoxin-like
Superfamily:RNA-binding domain, RBD
Family:Canonical RBD
90c1y4hA_
not modelled 7.4 12 PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:cysteine protease;
PDBTitle: wild type staphopain-staphostatin complex
91c2ehhE_
not modelled 7.4 20 PDB header:lyase
Chain: E: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus
92c3pueA_
not modelled 7.4 20 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution
93d1a6ca1
not modelled 7.3 29 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily:Positive stranded ssRNA viruses
Family:Comoviridae-like VP
94c1kzzA_
not modelled 7.3 16 PDB header:signaling protein
Chain: A: PDB Molecule:tnf receptor associated factor 3;
PDBTitle: downstream regulator tank binds to the cd40 recognition2 site on traf3
95c2vc6A_
not modelled 7.3 10 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of mosa from s. meliloti with pyruvate bound
96c3fluD_
not modelled 7.2 32 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis
97d1xi6a_
not modelled 6.9 38 Fold:Carbohydrate phosphatase
Superfamily:Carbohydrate phosphatase
Family:Inositol monophosphatase/fructose-1,6-bisphosphatase-like
98d1lbva_
not modelled 6.9 38 Fold:Carbohydrate phosphatase
Superfamily:Carbohydrate phosphatase
Family:Inositol monophosphatase/fructose-1,6-bisphosphatase-like
99d1w0pa2
not modelled 6.9 12 Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Vibrio cholerae sialidase, N-terminal and insertion domains

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
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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