Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP77504
DateThu Jan 5 12:30:05 GMT 2012
Unique Job ID07352cab8308d1f3

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3ftjA_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:macrolide export atp-binding/permease protein
PDBTitle: crystal structure of the periplasmic region of macb from2 actinobacillus actinomycetemcomitans
Confidence and coverage
Confidence: 99.0% Coverage: 21%
165 residues ( 21% of your sequence) have been modelled with 99.0% 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.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MIARWFWREWRSPSLLIVWLALSLAVACVLALGNISDRMEKGLSQQSREFMAGDRALRSS
Secondary structure 
SS confidence 
Disorder  ??
?
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  REVPQAWLEEAQKRGLKVGKQLTFATMTFAGDTPQLANVKAVDDIYPMYGDLQTNPPGLK
Secondary structure 
SS confidence 
Disorder 
??
??????
????
???????
???????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  PQAGSVLLAPRLMALLNLKTGDTIDVGDATLRIAGEVIQEPDSGFNPFQMAPRLMMNLAD
Secondary structure 
SS confidence 
Disorder  ????
???????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  VDKTGAVQPGSRVTWRYKFGGNENQLDGYEKWLLPQLKPEQRWYGLEQDEGALGRSMERS
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  QQFLLLSALLTLLLAVAAVAVAMNHYCRSRYDLVAILKTLGAGRAQLRKLIVGQWLMVLT
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  LSAVTGGAIGLLFENVLMVLLKPVLPAALPPASLWPWLWALGTMTVISLLVGLRPYRLLL
Secondary structure 
SS confidence 
Disorder 
?
?
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  ATQPLRVLRNDVVANVWPLKFYLPIVSVVVVLLLAGLMGGSMLLWAVLAGAVVLALLCGV
Secondary structure 
SS confidence 
Disorder 
??????????????
?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  LGWMLLNVLRRMTLKSLPLRLAVSRLLRQPWSTLSQLSAFSLSFMLLALLLVLRGDLLDR
Secondary structure 
SS confidence 
Disorder 
??????????
??????
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  WQQQLPPESPNYFLINIATEQVAPLKAFLAEHQIVPESFYPVVRARLTAINDKPTEGNED
Secondary structure 
SS confidence 
Disorder 
???
?
????
???????
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  EALNRELNLTWQNTRPDHNPIVAGNWPPKADEVSMEEGLAKRLNVALGDTVTFMGDTQEF
Secondary structure 
SS confidence 
Disorder  ????
??
??
?
?????
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  RAKVTSLRKVDWESLRPNFYFIFPEGALDGQPQSWLTSFRWENGNGMLTQLNRQFPTISL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  LDIGAILKQVGQVLEQVSRALEVMVVLVTACGMLLLLAQVQVGMRQRHQELVVWRTLGAG
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........730.........740.........750.........760.........770.........780
Sequence  KKLLRTTLWCEFAMLGFVSGLVAAIGAETALAVLQAKVFDFPWEPDWRLWIVLPCSGALL
Secondary structure 
SS confidence 
Disorder 
??
?
Disorder confidence 
 
   .........790.........800....
Sequence  LSLFGGWLGARLVKGKALFRQFAG
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 3ftj chain A

3D model

Region: 61 - 235
Aligned: 165
Modelled: 175
Confidence: 99.0%
Identity: 14%
PDB header:hydrolase
Chain: A: PDB Molecule:macrolide export atp-binding/permease protein
PDBTitle: crystal structure of the periplasmic region of macb from2 actinobacillus actinomycetemcomitans

Phyre2

PDB 3is6 chain A

3D model

Region: 58 - 216
Aligned: 159
Modelled: 155
Confidence: 98.7%
Identity: 12%
PDB header:transport protein
Chain: A: PDB Molecule:putative permease protein, abc transporter;
PDBTitle: the crystal structure of a domain of a putative permease protein from2 porphyromonas gingivalis to 2a

Phyre2

PDB 2a8v chain A

3D model

Region: 109 - 145
Aligned: 37
Modelled: 37
Confidence: 81.8%
Identity: 27%
PDB header:protein/rna
Chain: A: PDB Molecule:rna binding domain of rho transcription
PDBTitle: rho transcription termination factor/rna complex

Phyre2

PDB 1cii chain A

3D model

Region: 233 - 326
Aligned: 89
Modelled: 94
Confidence: 81.1%
Identity: 15%
PDB header:transmembrane protein
Chain: A: PDB Molecule:colicin ia;
PDBTitle: colicin ia

Phyre2

PDB 1a62 chain A domain 2

3D model

Region: 109 - 145
Aligned: 37
Modelled: 37
Confidence: 80.0%
Identity: 27%
Fold: OB-fold
Superfamily: Nucleic acid-binding proteins
Family: Cold shock DNA-binding domain-like

Phyre2

PDB 1e32 chain A domain 1

3D model

Region: 110 - 160
Aligned: 51
Modelled: 51
Confidence: 73.6%
Identity: 16%
Fold: Double psi beta-barrel
Superfamily: ADC-like
Family: Cdc48 N-terminal domain-like

Phyre2

PDB 1cz5 chain A domain 1

3D model

Region: 121 - 165
Aligned: 45
Modelled: 45
Confidence: 64.6%
Identity: 18%
Fold: Double psi beta-barrel
Superfamily: ADC-like
Family: Cdc48 N-terminal domain-like

Phyre2

PDB 2d6f chain A domain 1

3D model

Region: 130 - 168
Aligned: 39
Modelled: 39
Confidence: 64.1%
Identity: 15%
Fold: Sm-like fold
Superfamily: GatD N-terminal domain-like
Family: GatD N-terminal domain-like

Phyre2

PDB 2f9h chain A domain 1

3D model

Region: 134 - 156
Aligned: 23
Modelled: 23
Confidence: 63.7%
Identity: 26%
Fold: PTSIIA/GutA-like
Superfamily: PTSIIA/GutA-like
Family: PTSIIA/GutA-like

Phyre2

PDB 1cz5 chain A

3D model

Region: 122 - 163
Aligned: 42
Modelled: 42
Confidence: 59.9%
Identity: 17%
PDB header:hydrolase
Chain: A: PDB Molecule:vcp-like atpase;
PDBTitle: nmr structure of vat-n: the n-terminal domain of vat (vcp-2 like atpase of thermoplasma)

Phyre2

PDB 1udx chain A domain 3

3D model

Region: 130 - 152
Aligned: 23
Modelled: 23
Confidence: 55.1%
Identity: 13%
Fold: Obg GTP-binding protein C-terminal domain
Superfamily: Obg GTP-binding protein C-terminal domain
Family: Obg GTP-binding protein C-terminal domain

Phyre2

PDB 1zq1 chain A domain 1

3D model

Region: 130 - 167
Aligned: 38
Modelled: 38
Confidence: 54.3%
Identity: 11%
Fold: Sm-like fold
Superfamily: GatD N-terminal domain-like
Family: GatD N-terminal domain-like

Phyre2

PDB 1yle chain A domain 1

3D model

Region: 121 - 146
Aligned: 26
Modelled: 26
Confidence: 51.2%
Identity: 15%
Fold: Acyl-CoA N-acyltransferases (Nat)
Superfamily: Acyl-CoA N-acyltransferases (Nat)
Family: AstA-like

Phyre2

PDB 2pjh chain B

3D model

Region: 110 - 190
Aligned: 74
Modelled: 81
Confidence: 48.2%
Identity: 15%
PDB header:transport protein
Chain: B: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: strctural model of the p97 n domain- npl4 ubd complex

Phyre2

PDB 3k07 chain A

3D model

Region: 204 - 472
Aligned: 230
Modelled: 238
Confidence: 43.4%
Identity: 14%
PDB header:transport protein
Chain: A: PDB Molecule:cation efflux system protein cusa;
PDBTitle: crystal structure of cusa

Phyre2

PDB 1wlf chain A

3D model

Region: 117 - 146
Aligned: 30
Modelled: 30
Confidence: 39.9%
Identity: 17%
PDB header:protein transport
Chain: A: PDB Molecule:peroxisome biogenesis factor 1;
PDBTitle: structure of the n-terminal domain of pex1 aaa-atpase:2 characterization of a putative adaptor-binding domain

Phyre2

PDB 2jio chain A domain 1

3D model

Region: 565 - 605
Aligned: 41
Modelled: 41
Confidence: 39.0%
Identity: 17%
Fold: Double psi beta-barrel
Superfamily: ADC-like
Family: Formate dehydrogenase/DMSO reductase, C-terminal domain

Phyre2

PDB 1oy8 chain A

3D model

Region: 211 - 477
Aligned: 230
Modelled: 236
Confidence: 37.7%
Identity: 12%
PDB header:membrane protein
Chain: A: PDB Molecule:acriflavine resistance protein b;
PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump

Phyre2

PDB 2fhd chain A

3D model

Region: 121 - 170
Aligned: 50
Modelled: 50
Confidence: 35.7%
Identity: 12%
PDB header:cell cycle
Chain: A: PDB Molecule:dna repair protein rhp9/crb2;
PDBTitle: crystal structure of crb2 tandem tudor domains

Phyre2

PDB 2yuj chain A

3D model

Region: 118 - 146
Aligned: 29
Modelled: 29
Confidence: 32.5%
Identity: 24%
PDB header:protein binding
Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like;
PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1

Phyre2
1
c3ftjA_
2
c3is6A_
3
c2a8vA_
4
c1ciiA_
5
d1a62a2
6
d1e32a1
7
d1cz5a1
8
d2d6fa1
9
d2f9ha1
10
c1cz5A_
11
d1udxa3
12
d1zq1a1
13
d1ylea1
14
c2pjhB_
15
c3k07A_
16
c1wlfA_
17
d2jioa1
18
c1oy8A_
19
c2fhdA_
20
c2yujA_
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
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90
91
92
93
94
95
96
97
98
99



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3ftjA_
99.0 14 PDB header:hydrolase
Chain: A: PDB Molecule:macrolide export atp-binding/permease protein
PDBTitle: crystal structure of the periplasmic region of macb from2 actinobacillus actinomycetemcomitans
2c3is6A_
98.7 12 PDB header:transport protein
Chain: A: PDB Molecule:putative permease protein, abc transporter;
PDBTitle: the crystal structure of a domain of a putative permease protein from2 porphyromonas gingivalis to 2a
3c2a8vA_
81.8 27 PDB header:protein/rna
Chain: A: PDB Molecule:rna binding domain of rho transcription
PDBTitle: rho transcription termination factor/rna complex
4c1ciiA_
81.1 15 PDB header:transmembrane protein
Chain: A: PDB Molecule:colicin ia;
PDBTitle: colicin ia
5d1a62a2
80.0 27 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
6d1e32a1
73.6 16 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
7d1cz5a1
64.6 18 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
8d2d6fa1
64.1 15 Fold:Sm-like fold
Superfamily:GatD N-terminal domain-like
Family:GatD N-terminal domain-like
9d2f9ha1
63.7 26 Fold:PTSIIA/GutA-like
Superfamily:PTSIIA/GutA-like
Family:PTSIIA/GutA-like
10c1cz5A_
59.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:vcp-like atpase;
PDBTitle: nmr structure of vat-n: the n-terminal domain of vat (vcp-2 like atpase of thermoplasma)
11d1udxa3
55.1 13 Fold:Obg GTP-binding protein C-terminal domain
Superfamily:Obg GTP-binding protein C-terminal domain
Family:Obg GTP-binding protein C-terminal domain
12d1zq1a1
54.3 11 Fold:Sm-like fold
Superfamily:GatD N-terminal domain-like
Family:GatD N-terminal domain-like
13d1ylea1
51.2 15 Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:AstA-like
14c2pjhB_
48.2 15 PDB header:transport protein
Chain: B: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: strctural model of the p97 n domain- npl4 ubd complex
15c3k07A_
43.4 14 PDB header:transport protein
Chain: A: PDB Molecule:cation efflux system protein cusa;
PDBTitle: crystal structure of cusa
16c1wlfA_
39.9 17 PDB header:protein transport
Chain: A: PDB Molecule:peroxisome biogenesis factor 1;
PDBTitle: structure of the n-terminal domain of pex1 aaa-atpase:2 characterization of a putative adaptor-binding domain
17d2jioa1
39.0 17 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
18c1oy8A_
37.7 12 PDB header:membrane protein
Chain: A: PDB Molecule:acriflavine resistance protein b;
PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump
19c2fhdA_
35.7 12 PDB header:cell cycle
Chain: A: PDB Molecule:dna repair protein rhp9/crb2;
PDBTitle: crystal structure of crb2 tandem tudor domains
20c2yujA_
32.5 24 PDB header:protein binding
Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like;
PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1
21c1zc1A_
not modelled 32.3 21 PDB header:protein turnover
Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1;
PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites
22d1ub4c_
not modelled 32.0 32 Fold:Double-split beta-barrel
Superfamily:AbrB/MazE/MraZ-like
Family:Kis/PemI addiction antidote
23d1ogya1
not modelled 30.5 17 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
24c3l0oB_
not modelled 29.1 30 PDB header:hydrolase
Chain: B: PDB Molecule:transcription termination factor rho;
PDBTitle: structure of rna-free rho transcription termination factor from2 thermotoga maritima
25c1xpuB_
not modelled 28.9 27 PDB header:transcription/rna
Chain: B: PDB Molecule:rho transcription termination factor;
PDBTitle: structural mechanism of inhibition of the rho transcription2 termination factor by the antibiotic 5a-(3-formylphenylsulfanyl)-3 dihydrobicyclomycin (fpdb)
26d1g8ka1
not modelled 28.7 27 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
27d1h0ha1
not modelled 28.2 24 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
28c2glwA_
not modelled 25.0 35 PDB header:transcription
Chain: A: PDB Molecule:92aa long hypothetical protein;
PDBTitle: the solution structure of phs018 from pyrococcus horikoshii
29d1vlfm1
not modelled 24.4 12 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
30d2iv2x1
not modelled 23.8 12 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
31d1rqpa1
not modelled 23.7 27 Fold:Bacterial fluorinating enzyme, C-terminal domain
Superfamily:Bacterial fluorinating enzyme, C-terminal domain
Family:Bacterial fluorinating enzyme, C-terminal domain
32d1kqfa1
not modelled 23.6 26 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
33d1mvfd_
not modelled 23.5 16 Fold:Double-split beta-barrel
Superfamily:AbrB/MazE/MraZ-like
Family:Kis/PemI addiction antidote
34d1tmoa1
not modelled 22.8 21 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
35d1y5ia1
not modelled 21.4 22 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
36c1zq1B_
not modelled 21.2 13 PDB header:lyase
Chain: B: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit d;
PDBTitle: structure of gatde trna-dependent amidotransferase from2 pyrococcus abyssi
37c2cw5B_
not modelled 20.6 23 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
38c3ltiA_
not modelled 20.4 13 PDB header:transferase
Chain: A: PDB Molecule:dna-directed rna polymerase subunit beta;
PDBTitle: crystal structure of the escherichia coli rna polymerase beta subunit2 beta2-betai4 domains
39c2iv2X_
not modelled 19.2 13 PDB header:oxidoreductase
Chain: X: PDB Molecule:formate dehydrogenase h;
PDBTitle: reinterpretation of reduced form of formate dehydrogenase h2 from e. coli
40c2p4vA_
not modelled 18.0 19 PDB header:transcription
Chain: A: PDB Molecule:transcription elongation factor greb;
PDBTitle: crystal structure of the transcript cleavage factor, greb2 at 2.6a resolution
41d1eu1a1
not modelled 17.8 10 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
42c2zbvC_
not modelled 17.0 23 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:uncharacterized conserved protein;
PDBTitle: crystal structure of uncharacterized conserved protein from thermotoga2 maritima
43c2q6oB_
not modelled 16.4 23 PDB header:biosynthetic protein
Chain: B: PDB Molecule:hypothetical protein;
PDBTitle: sall-y70t with sam and cl
44c2w1tB_
not modelled 16.1 17 PDB header:transcription
Chain: B: PDB Molecule:stage v sporulation protein t;
PDBTitle: crystal structure of b. subtilis spovt
45d1dmra1
not modelled 15.7 18 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
46c2f4nA_
not modelled 15.5 22 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein mj1651;
PDBTitle: crystal structure of protein mj1651 from methanococcus2 jannaschii dsm 2661, pfam duf62
47c3cfuA_
not modelled 14.9 14 PDB header:lipoprotein
Chain: A: PDB Molecule:uncharacterized lipoprotein yjha;
PDBTitle: crystal structure of the yjha protein from bacillus2 subtilis. northeast structural genomics consortium target3 sr562
48c2d6fA_
not modelled 14.8 15 PDB header:ligase/rna
Chain: A: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit d;
PDBTitle: crystal structure of glu-trna(gln) amidotransferase in the2 complex with trna(gln)
49c1eu1A_
not modelled 14.3 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:dimethyl sulfoxide reductase;
PDBTitle: the crystal structure of rhodobacter sphaeroides dimethylsulfoxide2 reductase reveals two distinct molybdenum coordination environments.
50c1wu8B_
not modelled 14.1 27 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein ph0463;
PDBTitle: crystal structure of project ph0463 from pyrococcus horikoshii ot3
51c2ki8A_
not modelled 14.0 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:tungsten formylmethanofuran dehydrogenase,
PDBTitle: solution nmr structure of tungsten formylmethanofuran2 dehydrogenase subunit d from archaeoglobus fulgidus,3 northeast structural genomics consortium target att7
52d1dzfa2
not modelled 14.0 28 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
53c2v45A_
not modelled 14.0 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: a new catalytic mechanism of periplasmic nitrate reductase2 from desulfovibrio desulfuricans atcc 27774 from3 crystallographic and epr data and based on detailed4 analysis of the sixth ligand
54d1guta_
not modelled 13.7 14 Fold:OB-fold
Superfamily:MOP-like
Family:Molybdate/tungstate binding protein MOP
55d2vbua1
not modelled 13.7 32 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin kinase-like
Family:CTP-dependent riboflavin kinase-like
56d1hmja_
not modelled 13.2 17 Fold:RPB5-like RNA polymerase subunit
Superfamily:RPB5-like RNA polymerase subunit
Family:RPB5
57c2nyaF_
not modelled 13.2 19 PDB header:oxidoreductase
Chain: F: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the periplasmic nitrate reductase2 (nap) from escherichia coli
58d1h9ma1
not modelled 12.5 14 Fold:OB-fold
Superfamily:MOP-like
Family:BiMOP, duplicated molybdate-binding domain
59d1fr3a_
not modelled 12.4 23 Fold:OB-fold
Superfamily:MOP-like
Family:Molybdate/tungstate binding protein MOP
60c1rqrA_
not modelled 12.2 27 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
61c3pjyB_
not modelled 12.0 21 PDB header:transcription regulator
Chain: B: PDB Molecule:hypothetical signal peptide protein;
PDBTitle: crystal structure of a putative transcription regulator (r01717) from2 sinorhizobium meliloti 1021 at 1.55 a resolution
62c1g8jC_
not modelled 11.9 27 PDB header:oxidoreductase
Chain: C: PDB Molecule:arsenite oxidase;
PDBTitle: crystal structure analysis of arsenite oxidase from2 alcaligenes faecalis
63c2cwbA_
not modelled 11.9 16 PDB header:protein binding
Chain: A: PDB Molecule:chimera of immunoglobulin g binding protein g
PDBTitle: solution structure of the ubiquitin-associated domain of2 human bmsc-ubp and its complex with ubiquitin
64d1h9ma2
not modelled 11.8 23 Fold:OB-fold
Superfamily:MOP-like
Family:BiMOP, duplicated molybdate-binding domain
65d2f23a2
not modelled 11.8 18 Fold:FKBP-like
Superfamily:FKBP-like
Family:GreA transcript cleavage factor, C-terminal domain
66c1h0hA_
not modelled 11.7 24 PDB header:dehydrogenase
Chain: A: PDB Molecule:formate dehydrogenase (large subunit);
PDBTitle: tungsten containing formate dehydrogenase from2 desulfovibrio gigas
67c2etnA_
not modelled 11.6 16 PDB header:transcription
Chain: A: PDB Molecule:anti-cleavage anti-grea transcription factor
PDBTitle: crystal structure of thermus aquaticus gfh1
68c2kncA_
not modelled 11.5 20 PDB header:cell adhesion
Chain: A: PDB Molecule:integrin alpha-iib;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
69d1p9ka_
not modelled 11.5 11 Fold:Alpha-L RNA-binding motif
Superfamily:Alpha-L RNA-binding motif
Family:YbcJ-like
70d1dgsa2
not modelled 11.4 15 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:DNA ligase/mRNA capping enzyme postcatalytic domain
71c2l66B_
not modelled 11.4 20 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, abrb family;
PDBTitle: the dna-recognition fold of sso7c4 suggests a new member of spovt-abrb2 superfamily from archaea.
72c3m7aA_
not modelled 11.3 33 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of saro_0823 (yp_496102.1) a protein of2 unknown function from novosphingobium aromaticivorans dsm3 12444 at 1.22 a resolution
73c2ivfA_
not modelled 11.3 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:ethylbenzene dehydrogenase alpha-subunit;
PDBTitle: ethylbenzene dehydrogenase from aromatoleum aromaticum
74c2e7zA_
not modelled 11.2 8 PDB header:lyase
Chain: A: PDB Molecule:acetylene hydratase ahy;
PDBTitle: acetylene hydratase from pelobacter acetylenicus
75d2d9ra1
not modelled 11.2 21 Fold:Double-split beta-barrel
Superfamily:AF2212/PG0164-like
Family:PG0164-like
76c3h43F_
not modelled 11.1 10 PDB header:hydrolase
Chain: F: PDB Molecule:proteasome-activating nucleotidase;
PDBTitle: n-terminal domain of the proteasome-activating nucleotidase2 of methanocaldococcus jannaschii
77c2dahA_
not modelled 11.1 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ubiquilin-3;
PDBTitle: solution structure of the c-terminal uba domain in the2 human ubiquilin 3
78c1tmoA_
not modelled 10.9 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:trimethylamine n-oxide reductase;
PDBTitle: trimethylamine n-oxide reductase from shewanella massilia
79d2dnaa1
not modelled 10.8 8 Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
80d1k0ha_
not modelled 10.7 20 Fold:Phage tail proteins
Superfamily:Phage tail proteins
Family:gpFII-like
81d2bwba1
not modelled 10.7 8 Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
82c2fugC_
not modelled 10.5 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh-quinone oxidoreductase chain 3;
PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus
83c3l53F_
not modelled 10.4 28 PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:putative fumarylacetoacetate isomerase/hydrolase;
PDBTitle: crystal structure of a putative fumarylacetoacetate2 isomerase/hydrolase from oleispira antarctica
84c2zpmA_
not modelled 10.4 33 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of sigma e protease;
PDBTitle: crystal structure analysis of pdz domain b
85c2wg6L_
not modelled 10.4 17 PDB header:transcription,hydrolase
Chain: L: PDB Molecule:general control protein gcn4,
PDBTitle: proteasome-activating nucleotidase (pan) n-domain (57-134)2 from archaeoglobus fulgidus fused to gcn4, p61a mutant
86c1wr1B_
not modelled 10.4 8 PDB header:signaling protein
Chain: B: PDB Molecule:ubiquitin-like protein dsk2;
PDBTitle: the complex sturcture of dsk2p uba with ubiquitin
87c1h5nC_
not modelled 10.3 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:dmso reductase;
PDBTitle: dmso reductase modified by the presence of dms and air
88d4ubpc1
not modelled 10.2 21 Fold:Composite domain of metallo-dependent hydrolases
Superfamily:Composite domain of metallo-dependent hydrolases
Family:alpha-Subunit of urease
89c2ro5B_
not modelled 9.9 22 PDB header:transcription
Chain: B: PDB Molecule:stage v sporulation protein t;
PDBTitle: rdc-refined solution structure of the n-terminal dna2 recognition domain of the bacillus subtilis transition-3 state regulator spovt
90c2k29A_
not modelled 9.8 7 PDB header:transcription
Chain: A: PDB Molecule:antitoxin relb;
PDBTitle: structure of the dbd domain of e. coli antitoxin relb
91c1kqgA_
not modelled 9.8 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase, nitrate-inducible, major subunit;
PDBTitle: formate dehydrogenase n from e. coli
92c2kncB_
not modelled 9.7 15 PDB header:cell adhesion
Chain: B: PDB Molecule:integrin beta-3;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
93d2cqaa1
not modelled 9.7 28 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:TIP49 domain
94d2etna2
not modelled 9.7 16 Fold:FKBP-like
Superfamily:FKBP-like
Family:GreA transcript cleavage factor, C-terminal domain
95d2daha1
not modelled 9.6 12 Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
96c1ogyA_
not modelled 9.6 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the heterodimeric nitrate reductase2 from rhodobacter sphaeroides
97d1h9ra1
not modelled 9.5 24 Fold:OB-fold
Superfamily:MOP-like
Family:BiMOP, duplicated molybdate-binding domain
98c1vlfQ_
not modelled 9.5 12 PDB header:oxidoreductase
Chain: Q: PDB Molecule:pyrogallol hydroxytransferase large subunit;
PDBTitle: crystal structure of pyrogallol-phloroglucinol2 transhydroxylase from pelobacter acidigallici complexed3 with inhibitor 1,2,4,5-tetrahydroxy-benzene
99d2cu3a1
not modelled 9.4 17 Fold:beta-Grasp (ubiquitin-like)
Superfamily:MoaD/ThiS
Family:ThiS

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