Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0ADA3
DateThu Jan 5 11:20:26 GMT 2012
Unique Job IDc733886b84482a8b

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:100.0% Coverage: 67%
255 residues ( 67% of your sequence) have been modelled with 100.0% 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.
Warning: 55% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MSAGSPKFTVRRIAALSLVSLWLAGCSDTSNPPAPVSSVNGNAPANTNSGMLITPPPKMG
Secondary structure 
SS confidence 
Disorder  ???????
?
?
???
???????????????????????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  TTSTAQQPQIQPVQQPQIQATQQPQIQPVQPVAQQPVQMENGRIVYNRQYGNIPKGSYSG
Secondary structure 
SS confidence 
Disorder  ????????????????????????????????????????????????????????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  STYTVKKGDTLFYIAWITGNDFRDLAQRNNIQAPYALNVGQTLQVGNASGTPITGGNAIT
Secondary structure 
SS confidence 
Disorder  ??
???????????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  QADAAEQGVVIKPAQNSTVAVASQPTITYSESSGEQSANKMLPNNKPTATTVTAPVTVPT
Secondary structure 
SS confidence 
Disorder  ????????????????????????????????????????????????????????????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  ASTTEPTVSSTSTSTPISTWRWPTEGKVIETFGASEGGNKGIDIAGSKGQAIIATADGRV
Secondary structure 
SS confidence 
Disorder  ????????????????????
?
????
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  VYAGNALRGYGNLIIIKHNDDYLSAYAHNDTMLVREQQEVKAGQKIATMGSTGTSSTRLH
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........370.........
Sequence  FEIRYKGKSVNPLRYLPQR
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: 122 - 377
Aligned: 255
Modelled: 256
Confidence: 100.0%
Identity: 24%
PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae

Phyre2

PDB 2hsi chain B

3D model

Region: 155 - 377
Aligned: 218
Modelled: 223
Confidence: 100.0%
Identity: 17%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative peptidase m23;
PDBTitle: crystal structure of putative peptidase m23 from2 pseudomonas aeruginosa, new york structural genomics3 consortium

Phyre2

PDB 1qwy chain A

3D model

Region: 181 - 377
Aligned: 196
Modelled: 197
Confidence: 100.0%
Identity: 25%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Peptidoglycan hydrolase LytM

Phyre2

PDB 3nyy chain A

3D model

Region: 254 - 377
Aligned: 122
Modelled: 124
Confidence: 100.0%
Identity: 26%
PDB header:hydrolase
Chain: A: PDB Molecule:putative glycyl-glycine endopeptidase lytm;
PDBTitle: crystal structure of a putative glycyl-glycine endopeptidase lytm2 (rumgna_02482) from ruminococcus gnavus atcc 29149 at 1.60 a3 resolution

Phyre2

PDB 2b44 chain A

3D model

Region: 260 - 377
Aligned: 118
Modelled: 118
Confidence: 100.0%
Identity: 37%
PDB header:hydrolase
Chain: A: PDB Molecule:glycyl-glycine endopeptidase lytm;
PDBTitle: truncated s. aureus lytm, p 32 2 1 crystal form

Phyre2

PDB 3it5 chain B

3D model

Region: 245 - 371
Aligned: 124
Modelled: 127
Confidence: 99.9%
Identity: 21%
PDB header:hydrolase
Chain: B: PDB Molecule:protease lasa;
PDBTitle: crystal structure of the lasa virulence factor from pseudomonas2 aeruginosa

Phyre2

PDB 3csq chain C

3D model

Region: 268 - 374
Aligned: 103
Modelled: 107
Confidence: 99.9%
Identity: 18%
PDB header:hydrolase
Chain: C: PDB Molecule:morphogenesis protein 1;
PDBTitle: crystal and cryoem structural studies of a cell wall2 degrading enzyme in the bacteriophage phi29 tail

Phyre2

PDB 2l9y chain A

3D model

Region: 119 - 180
Aligned: 62
Modelled: 62
Confidence: 97.4%
Identity: 39%
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: 122 - 180
Aligned: 59
Modelled: 59
Confidence: 97.1%
Identity: 15%
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 2f3g chain A

3D model

Region: 287 - 349
Aligned: 58
Modelled: 63
Confidence: 97.0%
Identity: 21%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 1gla chain F

3D model

Region: 287 - 349
Aligned: 58
Modelled: 63
Confidence: 96.9%
Identity: 21%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 2gpr chain A

3D model

Region: 287 - 349
Aligned: 58
Modelled: 63
Confidence: 96.7%
Identity: 29%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 1e0g chain A

3D model

Region: 122 - 166
Aligned: 43
Modelled: 45
Confidence: 96.7%
Identity: 35%
Fold: LysM domain
Superfamily: LysM domain
Family: LysM domain

Phyre2

PDB 1gpr chain A

3D model

Region: 287 - 349
Aligned: 58
Modelled: 63
Confidence: 96.6%
Identity: 16%
Fold: Barrel-sandwich hybrid
Superfamily: Duplicated hybrid motif
Family: Glucose permease-like

Phyre2

PDB 1y7m chain A domain 2

3D model

Region: 122 - 167
Aligned: 45
Modelled: 46
Confidence: 96.0%
Identity: 36%
Fold: LysM domain
Superfamily: LysM domain
Family: LysM domain

Phyre2

PDB 1ci3 chain M domain 2

3D model

Region: 294 - 346
Aligned: 52
Modelled: 53
Confidence: 95.2%
Identity: 25%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2

PDB 1e2w chain A domain 2

3D model

Region: 294 - 346
Aligned: 52
Modelled: 53
Confidence: 95.0%
Identity: 25%
Fold: Barrel-sandwich hybrid
Superfamily: Rudiment single hybrid motif
Family: Cytochrome f, small domain

Phyre2

PDB 2auk chain A

3D model

Region: 284 - 347
Aligned: 61
Modelled: 64
Confidence: 94.8%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:dna-directed rna polymerase beta' chain;
PDBTitle: structure of e. coli rna polymerase beta' g/g' insert

Phyre2

PDB 1brw chain A domain 3

3D model

Region: 290 - 349
Aligned: 50
Modelled: 60
Confidence: 93.6%
Identity: 24%
Fold: alpha/beta-Hammerhead
Superfamily: Pyrimidine nucleoside phosphorylase C-terminal domain
Family: Pyrimidine nucleoside phosphorylase C-terminal domain

Phyre2

PDB 1e2v chain B

3D model

Region: 294 - 346
Aligned: 52
Modelled: 53
Confidence: 93.6%
Identity: 25%
PDB header:electron transport proteins
Chain: B: PDB Molecule:cytochrome f;
PDBTitle: n153q mutant of cytochrome f from chlamydomonas reinhardtii

Phyre2
1
c2gu1A_
2
c2hsiB_
3
d1qwya_
4
c3nyyA_
5
c2b44A_
6
c3it5B_
7
c3csqC_
8
c2l9yA_
9
c2djpA_
10
d2f3ga_
11
d1glaf_
12
d2gpra_
13
d1e0ga_
14
d1gpra_
15
d1y7ma2
16
d1ci3m2
17
d1e2wa2
18
c2aukA_
19
d1brwa3
20
c1e2vB_
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
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2gu1A_
100.0 24 PDB header:hydrolase
Chain: A: PDB Molecule:zinc peptidase;
PDBTitle: crystal structure of a zinc containing peptidase from2 vibrio cholerae
2c2hsiB_
100.0 17 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative peptidase m23;
PDBTitle: crystal structure of putative peptidase m23 from2 pseudomonas aeruginosa, new york structural genomics3 consortium
3d1qwya_
100.0 25 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Peptidoglycan hydrolase LytM
4c3nyyA_
100.0 26 PDB header:hydrolase
Chain: A: PDB Molecule:putative glycyl-glycine endopeptidase lytm;
PDBTitle: crystal structure of a putative glycyl-glycine endopeptidase lytm2 (rumgna_02482) from ruminococcus gnavus atcc 29149 at 1.60 a3 resolution
5c2b44A_
100.0 37 PDB header:hydrolase
Chain: A: PDB Molecule:glycyl-glycine endopeptidase lytm;
PDBTitle: truncated s. aureus lytm, p 32 2 1 crystal form
6c3it5B_
99.9 21 PDB header:hydrolase
Chain: B: PDB Molecule:protease lasa;
PDBTitle: crystal structure of the lasa virulence factor from pseudomonas2 aeruginosa
7c3csqC_
99.9 18 PDB header:hydrolase
Chain: C: PDB Molecule:morphogenesis protein 1;
PDBTitle: crystal and cryoem structural studies of a cell wall2 degrading enzyme in the bacteriophage phi29 tail
8c2l9yA_
97.4 39 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)
9c2djpA_
97.1 15 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
10d2f3ga_
97.0 21 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
11d1glaf_
96.9 21 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
12d2gpra_
96.7 29 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
13d1e0ga_
96.7 35 Fold:LysM domain
Superfamily:LysM domain
Family:LysM domain
14d1gpra_
96.6 16 Fold:Barrel-sandwich hybrid
Superfamily:Duplicated hybrid motif
Family:Glucose permease-like
15d1y7ma2
96.0 36 Fold:LysM domain
Superfamily:LysM domain
Family:LysM domain
16d1ci3m2
95.2 25 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
17d1e2wa2
95.0 25 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
18c2aukA_
94.8 18 PDB header:transferase
Chain: A: PDB Molecule:dna-directed rna polymerase beta' chain;
PDBTitle: structure of e. coli rna polymerase beta' g/g' insert
19d1brwa3
93.6 24 Fold:alpha/beta-Hammerhead
Superfamily:Pyrimidine nucleoside phosphorylase C-terminal domain
Family:Pyrimidine nucleoside phosphorylase C-terminal domain
20c1e2vB_
93.6 25 PDB header:electron transport proteins
Chain: B: PDB Molecule:cytochrome f;
PDBTitle: n153q mutant of cytochrome f from chlamydomonas reinhardtii
21c1q90A_
not modelled 93.4 25 PDB header:photosynthesis
Chain: A: PDB Molecule:apocytochrome f;
PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii
22d2tpta3
not modelled 92.4 20 Fold:alpha/beta-Hammerhead
Superfamily:Pyrimidine nucleoside phosphorylase C-terminal domain
Family:Pyrimidine nucleoside phosphorylase C-terminal domain
23c2jxmB_
not modelled 91.8 22 PDB header:electron transport
Chain: B: PDB Molecule:cytochrome f;
PDBTitle: ensemble of twenty structures of the prochlorothrix2 hollandica plastocyanin- cytochrome f complex
24c1otpA_
not modelled 91.3 22 PDB header:phosphorylase
Chain: A: PDB Molecule:thymidine phosphorylase;
PDBTitle: structural and theoretical studies suggest domain movement produces an2 active conformation of thymidine phosphorylase
25c2j0fC_
not modelled 91.1 26 PDB header:transferase
Chain: C: PDB Molecule:thymidine phosphorylase;
PDBTitle: structural basis for non-competitive product inhibition in2 human thymidine phosphorylase: implication for drug design
26c2dsjA_
not modelled 90.6 22 PDB header:transferase
Chain: A: PDB Molecule:pyrimidine-nucleoside (thymidine) phosphorylase;
PDBTitle: crystal structure of project id tt0128 from thermus thermophilus hb8
27c3h5qA_
not modelled 90.0 20 PDB header:transferase
Chain: A: PDB Molecule:pyrimidine-nucleoside phosphorylase;
PDBTitle: crystal structure of a putative pyrimidine-nucleoside phosphorylase2 from staphylococcus aureus
28c2ejgD_
not modelled 89.5 26 PDB header:ligase
Chain: D: PDB Molecule:149aa long hypothetical methylmalonyl-coa decarboxylase
PDBTitle: crystal structure of the biotin protein ligase (mutation r48a) and2 biotin carboxyl carrier protein complex from pyrococcus horikoshii3 ot3
29c1ctmA_
not modelled 89.2 25 PDB header:electron transport(cytochrome)
Chain: A: PDB Molecule:cytochrome f;
PDBTitle: crystal structure of chloroplast cytochrome f reveals a2 novel cytochrome fold and unexpected heme ligation
30d1dcza_
not modelled 89.2 21 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
31c3lnnB_
not modelled 89.0 26 PDB header:metal transport
Chain: B: PDB Molecule:membrane fusion protein (mfp) heavy metal cation efflux
PDBTitle: crystal structure of zneb from cupriavidus metallidurans
32c2f1mA_
not modelled 88.4 13 PDB header:transport protein
Chain: A: PDB Molecule:acriflavine resistance protein a;
PDBTitle: conformational flexibility in the multidrug efflux system protein acra
33d1o78a_
not modelled 88.4 35 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
34c1t5eB_
not modelled 88.2 30 PDB header:transport protein
Chain: B: PDB Molecule:multidrug resistance protein mexa;
PDBTitle: the structure of mexa
35c1y7mB_
not modelled 88.1 27 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
36c2kccA_
not modelled 87.9 10 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of biotinoyl domain from human acetyl-2 coa carboxylase 2
37c2k33A_
not modelled 87.6 22 PDB header:membrane protein, transport protein
Chain: A: PDB Molecule:acra;
PDBTitle: solution structure of an n-glycosylated protein using in2 vitro glycosylation
38d1bdoa_
not modelled 87.5 16 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
39c1tu2B_
not modelled 87.0 25 PDB header:electron transport
Chain: B: PDB Molecule:apocytochrome f;
PDBTitle: the complex of nostoc cytochrome f and plastocyanin determin with2 paramagnetic nmr. based on the structures of cytochrome f and3 plastocyanin, 10 structures
40c1brwB_
not modelled 85.9 26 PDB header:transferase
Chain: B: PDB Molecule:protein (pyrimidine nucleoside phosphorylase);
PDBTitle: the crystal structure of pyrimidine nucleoside2 phosphorylase in a closed conformation
41c3fppB_
not modelled 85.7 22 PDB header:membrane protein
Chain: B: PDB Molecule:macrolide-specific efflux protein maca;
PDBTitle: crystal structure of e.coli maca
42c2dn8A_
not modelled 85.5 26 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: solution structure of rsgi ruh-053, an apo-biotin carboxy2 carrier protein from human transcarboxylase
43d1vf7a_
not modelled 85.4 28 Fold:HlyD-like secretion proteins
Superfamily:HlyD-like secretion proteins
Family:HlyD-like secretion proteins
44c3n6rK_
not modelled 85.4 25 PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
45c2ejmA_
not modelled 85.2 26 PDB header:ligase
Chain: A: PDB Molecule:methylcrotonoyl-coa carboxylase subunit alpha;
PDBTitle: solution structure of ruh-072, an apo-biotnyl domain form2 human acetyl coenzyme a carboxylase
46d1laba_
not modelled 85.1 13 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
47c2b8gA_
not modelled 84.8 13 PDB header:biosynthetic protein
Chain: A: PDB Molecule:biotin/lipoyl attachment protein;
PDBTitle: solution structure of bacillus subtilis blap biotinylated-2 form (energy minimized mean structure)
48c3fmcC_
not modelled 84.5 17 PDB header:hydrolase
Chain: C: PDB Molecule:putative succinylglutamate desuccinylase / aspartoacylase;
PDBTitle: crystal structure of a putative succinylglutamate desuccinylase /2 aspartoacylase family protein (sama_0604) from shewanella amazonensis3 sb2b at 1.80 a resolution
49c2q8iB_
not modelled 84.5 9 PDB header:transferase
Chain: B: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase component of
PDBTitle: pyruvate dehydrogenase kinase isoform 3 in complex with antitumor drug2 radicicol
50d1tu2b2
not modelled 83.8 25 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
51d1ghja_
not modelled 83.1 17 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
52d1y8ob1
not modelled 82.3 9 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
53c2l5tA_
not modelled 82.3 17 PDB header:transferase
Chain: A: PDB Molecule:lipoamide acyltransferase;
PDBTitle: solution nmr structure of e2 lipoyl domain from thermoplasma2 acidophilum
54c2e75C_
not modelled 81.9 23 PDB header:photosynthesis
Chain: C: PDB Molecule:apocytochrome f;
PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus
55c3camB_
not modelled 81.4 29 PDB header:gene regulation
Chain: B: PDB Molecule:cold-shock domain family protein;
PDBTitle: crystal structure of the cold shock domain protein from neisseria2 meningitidis
56c2qj8B_
not modelled 81.2 13 PDB header:hydrolase
Chain: B: PDB Molecule:mlr6093 protein;
PDBTitle: crystal structure of an aspartoacylase family protein (mlr6093) from2 mesorhizobium loti maff303099 at 2.00 a resolution
57d1uoua3
not modelled 80.8 21 Fold:alpha/beta-Hammerhead
Superfamily:Pyrimidine nucleoside phosphorylase C-terminal domain
Family:Pyrimidine nucleoside phosphorylase C-terminal domain
58c2dneA_
not modelled 80.8 17 PDB header:transferase
Chain: A: PDB Molecule:dihydrolipoyllysine-residue acetyltransferase
PDBTitle: solution structure of rsgi ruh-058, a lipoyl domain of2 human 2-oxoacid dehydrogenase
59d1qjoa_
not modelled 80.1 21 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
60d1k8ma_
not modelled 79.9 17 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
61c2xhaB_
not modelled 79.6 22 PDB header:transcription
Chain: B: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: crystal structure of domain 2 of thermotoga maritima n-utilization2 substance g (nusg)
62c2dncA_
not modelled 78.9 22 PDB header:transferase
Chain: A: PDB Molecule:pyruvate dehydrogenase protein x component;
PDBTitle: solution structure of rsgi ruh-054, a lipoyl domain from2 human 2-oxoacid dehydrogenase
63d2pnrc1
not modelled 78.5 9 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
64d2es2a1
not modelled 78.2 31 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
65c3a0jB_
not modelled 77.1 33 PDB header:transcription
Chain: B: PDB Molecule:cold shock protein;
PDBTitle: crystal structure of cold shock protein 1 from thermus2 thermophilus hb8
66d1h95a_
not modelled 76.8 30 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
67c2k5nA_
not modelled 76.6 26 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative cold-shock protein;
PDBTitle: solution nmr structure of the n-terminal domain of protein2 eca1580 from erwinia carotovora, northeast structural3 genomics consortium target ewr156a
68c3h9iB_
not modelled 76.4 13 PDB header:transport protein
Chain: B: PDB Molecule:cation efflux system protein cusb;
PDBTitle: crystal structure of the membrane fusion protein cusb from escherichia2 coli
69d1gjxa_
not modelled 75.6 19 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
70d1c9oa_
not modelled 75.5 31 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
71c3aqqD_
not modelled 74.9 20 PDB header:dna binding protein
Chain: D: PDB Molecule:calcium-regulated heat stable protein 1;
PDBTitle: crystal structure of human crhsp-24
72c3na6A_
not modelled 74.5 17 PDB header:hydrolase
Chain: A: PDB Molecule:succinylglutamate desuccinylase/aspartoacylase;
PDBTitle: crystal structure of a succinylglutamate desuccinylase (tm1040_2694)2 from silicibacter sp. tm1040 at 2.00 a resolution
73c1rqrA_
not modelled 74.0 16 PDB header:transferase
Chain: A: PDB Molecule:5'-fluoro-5'-deoxyadenosine synthase;
PDBTitle: crystal structure and mechanism of a bacterial fluorinating enzyme,2 product complex
74c2jkuA_
not modelled 73.7 22 PDB header:ligase
Chain: A: PDB Molecule:propionyl-coa carboxylase alpha chain,
PDBTitle: crystal structure of the n-terminal region of the biotin2 acceptor domain of human propionyl-coa carboxylase
75c3cdxB_
not modelled 73.4 16 PDB header:hydrolase
Chain: B: PDB Molecule:succinylglutamatedesuccinylase/aspartoacylase;
PDBTitle: crystal structure of2 succinylglutamatedesuccinylase/aspartoacylase from3 rhodobacter sphaeroides
76d1iyua_
not modelled 72.9 12 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
77d1pmra_
not modelled 72.6 13 Fold:Barrel-sandwich hybrid
Superfamily:Single hybrid motif
Family:Biotinyl/lipoyl-carrier proteins and domains
78c2zbvC_
not modelled 72.4 20 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:uncharacterized conserved protein;
PDBTitle: crystal structure of uncharacterized conserved protein from thermotoga2 maritima
79c2aujD_
not modelled 71.7 17 PDB header:transferase
Chain: D: PDB Molecule:dna-directed rna polymerase beta' chain;
PDBTitle: structure of thermus aquaticus rna polymerase beta'-subunit2 insert
80d1g6pa_
not modelled 70.6 28 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
81d1mjca_
not modelled 69.1 30 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
82c3ozxA_
not modelled 68.0 14 PDB header:hydrolase, translation
Chain: A: PDB Molecule:rnase l inhibitor;
PDBTitle: crystal structure of abce1 of sulfolubus solfataricus (-fes domain)
83c2xhcA_
not modelled 63.6 22 PDB header:transcription
Chain: A: PDB Molecule:transcription antitermination protein nusg;
PDBTitle: crystal structure of thermotoga maritima n-utilization substance g2 (nusg)
84c3trzE_
not modelled 62.4 19 PDB header:rna binding protein/rna
Chain: E: PDB Molecule:protein lin-28 homolog a;
PDBTitle: mouse lin28a in complex with let-7d microrna pre-element
85c2kcmA_
not modelled 61.9 26 PDB header:nucleic acid binding protein
Chain: A: PDB Molecule:cold shock domain family protein;
PDBTitle: solution nmr structure of the n-terminal ob-domain of so_1732 from2 shewanella oneidensis. northeast structural genomics consortium3 target sor210a.
86c2q6oB_
not modelled 58.3 23 PDB header:biosynthetic protein
Chain: B: PDB Molecule:hypothetical protein;
PDBTitle: sall-y70t with sam and cl
87d1o4ua2
not modelled 56.9 11 Fold:alpha/beta-Hammerhead
Superfamily:Nicotinate/Quinolinate PRTase N-terminal domain-like
Family:NadC N-terminal domain-like
88d1vf5c2
not modelled 56.6 27 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
89d1hcza2
not modelled 55.3 21 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:Cytochrome f, small domain
90c1wu8B_
not modelled 53.8 24 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein ph0463;
PDBTitle: crystal structure of project ph0463 from pyrococcus horikoshii ot3
91d1qapa2
not modelled 52.8 21 Fold:alpha/beta-Hammerhead
Superfamily:Nicotinate/Quinolinate PRTase N-terminal domain-like
Family:NadC N-terminal domain-like
92c2ytyA_
not modelled 51.9 18 PDB header:rna binding protein
Chain: A: PDB Molecule:cold shock domain-containing protein e1;
PDBTitle: solution structure of the fourth cold-shock domain of the human2 kiaa0885 protein (unr protein)
93d1k8ga2
not modelled 50.5 19 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
94d1jb7a2
not modelled 48.7 19 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
95d1qpoa2
not modelled 47.1 22 Fold:alpha/beta-Hammerhead
Superfamily:Nicotinate/Quinolinate PRTase N-terminal domain-like
Family:NadC N-terminal domain-like
96c1x65A_
not modelled 45.3 29 PDB header:rna binding protein
Chain: A: PDB Molecule:unr protein;
PDBTitle: solution structure of the third cold-shock domain of the human2 kiaa0885 protein (unr protein)
97c2im9A_
not modelled 44.9 19 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of protein lpg0564 from legionella pneumophila str.2 philadelphia 1, pfam duf1460
98d2im9a1
not modelled 44.9 19 Fold:Cysteine proteinases
Superfamily:Cysteine proteinases
Family:Lpg0564-like
99c2boyC_
not modelled 41.4 28 PDB header:oxidoreductase
Chain: C: PDB Molecule:3-chlorocatechol 1,2-dioxygenase;
PDBTitle: crystal structure of 3-chlorocatechol 1,2-dioxygenase from2 rhodococcus opacus 1cp
100c3oj7A_
not modelled 40.2 25 PDB header:metal binding protein
Chain: A: PDB Molecule:putative histidine triad family protein;
PDBTitle: crystal structure of a histidine triad family protein from entamoeba2 histolytica, bound to sulfate
101c1tmxA_
not modelled 36.9 28 PDB header:oxidoreductase
Chain: A: PDB Molecule:hydroxyquinol 1,2-dioxygenase;
PDBTitle: crystal structure of hydroxyquinol 1,2-dioxygenase from2 nocardioides simplex 3e
102c2eqsA_
not modelled 36.5 20 PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent rna helicase dhx8;
PDBTitle: solution structure of the s1 rna binding domain of human2 atp-dependent rna helicase dhx8
103c2cw5B_
not modelled 36.0 24 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:bacterial fluorinating enzyme homolog;
PDBTitle: crystal structure of a conserved hypothetical protein from2 thermus thermophilus hb8
104c3hj8A_
not modelled 35.8 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:catechol 1,2-dioxygenase;
PDBTitle: crystal structure determination of catechol 1,2-dioxygenase from2 rhodococcus opacus 1cp in complex with 4-chlorocatechol
105c3a5dB_
not modelled 34.9 29 PDB header:hydrolase
Chain: B: PDB Molecule:v-type atp synthase alpha chain;
PDBTitle: inter-subunit interaction and quaternary rearrangement2 defined by the central stalk of prokaryotic v1-atpase
106c2ytxA_
not modelled 34.6 21 PDB header:rna binding protein
Chain: A: PDB Molecule:cold shock domain-containing protein e1;
PDBTitle: solution structure of the second cold-shock domain of the human2 kiaa0885 protein (unr protein)
107d1ee8a2
not modelled 34.0 23 Fold:N-terminal domain of MutM-like DNA repair proteins
Superfamily:N-terminal domain of MutM-like DNA repair proteins
Family:N-terminal domain of MutM-like DNA repair proteins
108d1dmha_
not modelled 33.4 20 Fold:Prealbumin-like
Superfamily:Aromatic compound dioxygenase
Family:Aromatic compound dioxygenase
109c2qf7A_
not modelled 33.3 14 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase protein;
PDBTitle: crystal structure of a complete multifunctional pyruvate carboxylase2 from rhizobium etli
110c3d4rE_
not modelled 33.2 25 PDB header:unknown function
Chain: E: PDB Molecule:domain of unknown function from the pfam-b_34464 family;
PDBTitle: crystal structure of a duf2118 family protein (mmp0046) from2 methanococcus maripaludis at 2.20 a resolution
111d3pcca_
not modelled 33.1 9 Fold:Prealbumin-like
Superfamily:Aromatic compound dioxygenase
Family:Aromatic compound dioxygenase
112c3n9tA_
not modelled 32.7 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:pnpc;
PDBTitle: cryatal structure of hydroxyquinol 1,2-dioxygenase from pseudomonas2 putida dll-e4
113c2bh8B_
not modelled 32.7 22 PDB header:transcription
Chain: B: PDB Molecule:1b11;
PDBTitle: combinatorial protein 1b11
114d2awna2
not modelled 31.8 19 Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:ABC transporter ATPase domain-like
115d2burb1
not modelled 31.7 27 Fold:Prealbumin-like
Superfamily:Aromatic compound dioxygenase
Family:Aromatic compound dioxygenase
116d1s9aa_
not modelled 31.3 21 Fold:Prealbumin-like
Superfamily:Aromatic compound dioxygenase
Family:Aromatic compound dioxygenase
117c2elmA_
not modelled 30.9 45 PDB header:transcription
Chain: A: PDB Molecule:zinc finger protein 406;
PDBTitle: solution structure of the 10th c2h2 zinc finger of human2 zinc finger protein 406
118d1rqpa1
not modelled 29.9 20 Fold:Bacterial fluorinating enzyme, C-terminal domain
Superfamily:Bacterial fluorinating enzyme, C-terminal domain
Family:Bacterial fluorinating enzyme, C-terminal domain
119c3bk7A_
not modelled 29.3 40 PDB header:hydrolyase/translation
Chain: A: PDB Molecule:abc transporter atp-binding protein;
PDBTitle: structure of the complete abce1/rnaase-l inhibitor protein2 from pyrococcus abysii
120d1uwfa1
not modelled 29.3 18 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f
Superfamily:Bacterial adhesins
Family:Pilus subunits

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