Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0669c_(-)_767687_769600
DateFri Jul 26 01:50:23 BST 2019
Unique Job IDdd8a7b0c86c70c96
SequenceMLSVGRGIAD ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:76.947 Y:75.322 Z:55.313
Model (left) based on template c4wgkB_
Top template information
PDB header:hydrolase
Chain: B: PDB Molecule:neutral ceramidase;
PDBTitle: crystal structure of human neutral ceramidase with zn-bound phosphate
Confidence and coverage
Confidence:100.0% Coverage: 99%
628 residues ( 99% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in JSmol
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Download FASTA version

Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c4wgkB_
100.0 35
PDB header:hydrolase
Chain: B: PDB Molecule:neutral ceramidase;
PDBTitle: crystal structure of human neutral ceramidase with zn-bound phosphate
2c2zxcA_
100.0 42
PDB header:hydrolase
Chain: A: PDB Molecule:neutral ceramidase;
PDBTitle: ceramidase complexed with c2
3c2p9rA_
96.9 25
PDB header:signaling protein
Chain: A: PDB Molecule:alpha-2-macroglobulin;
PDBTitle: human alpha2-macroglogulin is composed of multiple domains,2 as predicted by homology with complement component c3
4c4a5wA_
94.6 17
PDB header:immune system
Chain: A: PDB Molecule:complement c5;
PDBTitle: crystal structure of c5b6
5c2pn5A_
94.5 11
PDB header:immune system
Chain: A: PDB Molecule:thioester-containing protein i;
PDBTitle: crystal structure of tep1r
6c4fxgA_
94.4 18
PDB header:immune system
Chain: A: PDB Molecule:complement c4 beta chain;
PDBTitle: complement c4 in complex with masp-2
7c3cu7A_
93.0 16
PDB header:immune system
Chain: A: PDB Molecule:complement c5;
PDBTitle: human complement component 5
8c2b39B_
91.9 17
PDB header:immune system
Chain: B: PDB Molecule:c3;
PDBTitle: structure of mammalian c3 with an intact thioester at 3a resolution
9c3pvmB_
88.9 16
PDB header:immune system
Chain: B: PDB Molecule:cobra venom factor;
PDBTitle: structure of complement c5 in complex with cvf
10c4acqA_
88.8 22
PDB header:hydrolase inhibitor
Chain: A: PDB Molecule:alpha-2-macroglobulin;
PDBTitle: alpha-2 macroglobulin
11c6i2xB_
88.2 16
PDB header:immune system
Chain: B: PDB Molecule:cobra venom factor;
PDBTitle: structure of complement c5 in complex with small molecule inhibitor2 and cvf
12c2qkiA_
88.0 15
PDB header:immune system/hydrolase inhibitor
Chain: A: PDB Molecule:complement c3;
PDBTitle: human c3c in complex with the inhibitor compstatin
13c4eisA_
87.2 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:polysaccharide monooxygenase-3;
PDBTitle: structural basis for substrate targeting and catalysis by fungal2 polysaccharide monooxygenases (pmo-3)
14d1vjja1
85.9 14
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:Transglutaminase N-terminal domain
15c4acqC_
85.4 22
PDB header:hydrolase inhibitor
Chain: C: PDB Molecule:alpha-2-macroglobulin;
PDBTitle: alpha-2 macroglobulin
16c3hrzA_
85.3 16
PDB header:immune system
Chain: A: PDB Molecule:cobra venom factor;
PDBTitle: cobra venom factor (cvf) in complex with human factor b
17c3lkwA_
83.0 26
PDB header:viral protein,hydrolase
Chain: A: PDB Molecule:fusion protein of nonstructural protein 2b and
PDBTitle: crystal structure of dengue virus 1 ns2b/ns3 protease active site2 mutant
18c5o2xA_
78.8 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:glycoside hydrolase family 61;
PDBTitle: extended catalytic domain of h. jecorina lpmo9a a.k.a eg4
19c4eirB_
76.9 23
PDB header:oxidoreductase
Chain: B: PDB Molecule:polysaccharide monooxygenase-2;
PDBTitle: structural basis for substrate targeting and catalysis by fungal2 polysaccharide monooxygenases (pmo-2)
20c3ejaB_
70.0 25
PDB header:unknown function
Chain: B: PDB Molecule:protein gh61e;
PDBTitle: magnesium-bound glycoside hydrolase 61 isoform e from thielavia2 terrestris
21c2vy9A_
not modelled 66.9 4
PDB header:gene regulation
Chain: A: PDB Molecule:anti-sigma-factor antagonist;
PDBTitle: molecular architecture of the stressosome, a signal2 integration and transduction hub
22c4maiA_
not modelled 66.8 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:aa11 lytic polysaccharide monooxygenase;
PDBTitle: structure of aspergillus oryzae aa11 lytic polysaccharide2 monooxygenase with cu(i)
23c5fohA_
not modelled 65.3 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:polysaccharide monooxygenase;
PDBTitle: crystal structure of the catalytic domain of nclpmo9a
24c5nltD_
not modelled 65.0 16
PDB header:oxidoreductase
Chain: D: PDB Molecule:cvaa9a;
PDBTitle: cvaa9a
25d1ndsa2
not modelled 62.0 15
Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
26c4rtdA_
not modelled 60.7 14
PDB header:lipid binding protein
Chain: A: PDB Molecule:uncharacterized lipoprotein yfhm;
PDBTitle: escherichia coli alpha-2-macroglobulin activated by porcine elastase
27c1l9mB_
not modelled 60.7 14
PDB header:transferase
Chain: B: PDB Molecule:protein-glutamine glutamyltransferase e3;
PDBTitle: three-dimensional structure of the human transglutaminase 32 enzyme: binding of calcium ions change structure for3 activation
28c4d7uB_
not modelled 60.5 28
PDB header:oxidoreductase
Chain: B: PDB Molecule:endoglucanase ii;
PDBTitle: the structure of the catalytic domain of nclpmo9c from the filamentous2 fungus neurospora crassa
29d1ex0a1
not modelled 58.7 11
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:Transglutaminase N-terminal domain
30c2yetB_
not modelled 57.8 22
PDB header:hydrolase
Chain: B: PDB Molecule:gh61 isozyme a;
PDBTitle: thermoascus gh61 isozyme a
31c5ufvE_
not modelled 57.5 29
PDB header:hydrolase/oxidoreductase
Chain: E: PDB Molecule:glycoside hydrolase family 61 protein;
PDBTitle: crystal structure of a cellulose-active polysaccharide monooxygenase2 from m. thermophila (mtpmo3*)
32d1owwa_
not modelled 55.5 11
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
33c5i0pB_
not modelled 52.9 14
PDB header:hydrolase
Chain: B: PDB Molecule:beta-lactamase domain protein;
PDBTitle: crystal structure of a beta-lactamase domain protein from burkholderia2 ambifaria
34d2q3za1
not modelled 52.7 14
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:Transglutaminase N-terminal domain
35c2vtcB_
not modelled 51.2 25
PDB header:hydrolase
Chain: B: PDB Molecule:cel61b;
PDBTitle: the structure of a glycoside hydrolase family 61 member,2 cel61b from the hypocrea jecorina.
36c3isyA_
not modelled 49.9 18
PDB header:protein binding
Chain: A: PDB Molecule:intracellular proteinase inhibitor;
PDBTitle: crystal structure of an intracellular proteinase inhibitor (ipi,2 bsu11130) from bacillus subtilis at 2.61 a resolution
37c2zz8B_
not modelled 49.9 26
PDB header:unknown function
Chain: B: PDB Molecule:lipl32 protein;
PDBTitle: crystal structure of lipl32, the most abundant surface protein of2 pathogenic leptospira spp
38d1fnfa3
not modelled 49.3 19
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
39c5axhA_
not modelled 49.1 19
PDB header:hydrolase
Chain: A: PDB Molecule:dextranase;
PDBTitle: crystal structure of thermophilic dextranase from thermoanaerobacter2 pseudethanolicus, d312g mutant in complex with isomaltohexaose
40d1v5ja_
not modelled 48.3 20
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
41c3tesD_
not modelled 46.2 10
PDB header:de novo protein
Chain: D: PDB Molecule:tencon;
PDBTitle: crystal structure of tencon
42d1azca_
not modelled 45.1 25
Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Plastocyanin/azurin-like
43c5m0aA_
not modelled 43.4 22
PDB header:cell adhesion
Chain: A: PDB Molecule:fibronectin;
PDBTitle: solution structure of isolated 15th fibronectin iii domain from human2 fibronectin
44c2z1dA_
not modelled 41.3 12
PDB header:metal binding protein
Chain: A: PDB Molecule:hydrogenase expression/formation protein hypd;
PDBTitle: crystal structure of [nife] hydrogenase maturation protein, hypd from2 thermococcus kodakaraensis
45c2h45A_
not modelled 40.5 13
PDB header:cell adhesion, structural protein
Chain: A: PDB Molecule:fibronectin;
PDBTitle: solution structure of the second type iii domain of human2 fibronectin: ensemble of 25 structures
46c4ax3A_
not modelled 40.1 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:copper-containing nitrite reductase;
PDBTitle: structure of three-domain heme-cu nitrite reductase from ralstonia2 pickettii at 1.6 a resolution
47c5aozA_
not modelled 40.1 27
PDB header:sugar binding protein
Chain: A: PDB Molecule:putative cellulosomal scaffoldin protein;
PDBTitle: high resolution semet structure of the third cohesin from2 ruminococcus flavefaciens scaffoldin protein, scab
48c3qhtD_
not modelled 39.2 18
PDB header:de novo protein
Chain: D: PDB Molecule:monobody ysmb-1;
PDBTitle: crystal structure of the monobody ysmb-1 bound to yeast sumo
49c4m8rA_
not modelled 38.6 19
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a duf4784 family protein (baccac_01631) from2 bacteroides caccae atcc 43185 at 2.50 a resolution
50c4u48A_
not modelled 37.7 11
PDB header:hydrolase inhibitor
Chain: A: PDB Molecule:putative inner membrane lipoprotein;
PDBTitle: crystal structure of salmonella alpha-2-macroglobulin
51c4dibF_
not modelled 37.0 19
PDB header:oxidoreductase
Chain: F: PDB Molecule:glyceraldehyde 3-phosphate dehydrogenase;
PDBTitle: the crystal structure of glyceraldehyde-3-phosphate dehydrogenase from2 bacillus anthracis str. sterne
52d1rkra_
not modelled 36.6 20
Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Plastocyanin/azurin-like
53d2mfna2
not modelled 36.4 18
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
54c2ekjA_
not modelled 36.3 9
PDB header:signaling protein
Chain: A: PDB Molecule:collagen alpha-1(xx) chain;
PDBTitle: solution structures of the fn3 domain of human collagen2 alpha-1(xx) chain
55c4lsdF_
not modelled 35.8 16
PDB header:hormone
Chain: F: PDB Molecule:fibronectin type iii domain-containing protein 5;
PDBTitle: myokine structure
56d1ddwa_
not modelled 35.7 31
Fold:PH domain-like barrel
Superfamily:PH domain-like
Family:Enabled/VASP homology 1 domain (EVH1 domain)
57c5nnsB_
not modelled 35.5 25
PDB header:oxidoreductase
Chain: B: PDB Molecule:glycosyl hydrolase family 61, 2 protein;
PDBTitle: crystal structure of hilpmo9b
58d1fnha3
not modelled 34.8 14
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
59c4hylB_
not modelled 34.3 13
PDB header:transcription regulator
Chain: B: PDB Molecule:stage ii sporulation protein;
PDBTitle: the crystal structure of an anti-sigma-factor antagonist from2 haliangium ochraceum dsm 14365
60d1j8ka_
not modelled 34.2 14
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
61c2dkmA_
not modelled 33.9 9
PDB header:signaling protein
Chain: A: PDB Molecule:collagen alpha-1(xx) chain;
PDBTitle: solution structures of the fn3 domain of human collagen2 alpha-1(xx) chain
62d1h4xa_
not modelled 33.8 14
Fold:SpoIIaa-like
Superfamily:SpoIIaa-like
Family:Anti-sigma factor antagonist SpoIIaa
63c4zchA_
not modelled 33.0 18
PDB header:cytokine
Chain: A: PDB Molecule:tumor necrosis factor ligand superfamily member 13,tumor
PDBTitle: single-chain human april-baff-baff heterotrimer
64d1tdqa1
not modelled 32.9 7
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
65d1oe1a2
not modelled 32.8 16
Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
66d1fnfa2
not modelled 31.9 6
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
67c5n5pA_
not modelled 31.2 23
PDB header:protein binding
Chain: A: PDB Molecule:putative cellulosomal scaffoldin protein;
PDBTitle: crystal structure of ruminococcus flavefaciens' type iii complex2 containing the fifth cohesin from scaffoldin b and the dockerin from3 scaffoldin a
68d3d48r2
not modelled 31.0 11
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
69d1v10a2
not modelled 30.8 14
Fold:Cupredoxin-like
Superfamily:Cupredoxins
Family:Multidomain cupredoxins
70c3lb6D_
not modelled 30.6 11
PDB header:signaling protein/signaling protein
Chain: D: PDB Molecule:interleukin-13 receptor subunit alpha-2;
PDBTitle: the structure of il-13 in complex with il-13ralpha2
71c2qeaB_
not modelled 30.5 25
PDB header:oxidoreductase
Chain: B: PDB Molecule:putative general stress protein 26;
PDBTitle: crystal structure of a putative general stress protein 26 (jann_0955)2 from jannaschia sp. ccs1 at 2.46 a resolution
72c2ck2B_
not modelled 30.3 18
PDB header:signaling protein
Chain: B: PDB Molecule:human fibronectin;
PDBTitle: structure of core-swapped mutant of fibronectin
73d1vj1a1
not modelled 30.3 23
Fold:GroES-like
Superfamily:GroES-like
Family:Alcohol dehydrogenase-like, N-terminal domain
74d1f86a_
not modelled 29.5 18
Fold:Prealbumin-like
Superfamily:Transthyretin (synonym: prealbumin)
Family:Transthyretin (synonym: prealbumin)
75c2yolA_
not modelled 28.8 24
PDB header:hydrolase
Chain: A: PDB Molecule:serine protease subunit ns2b, serine protease ns3;
PDBTitle: west nile virus ns2b-ns3 protease in complex with 3,4-2 dichlorophenylacetyl-lys-lys-gcma
76d1vc1a_
not modelled 28.6 6
Fold:SpoIIaa-like
Superfamily:SpoIIaa-like
Family:Anti-sigma factor antagonist SpoIIaa
77c2h1xB_
not modelled 27.8 18
PDB header:hydrolase
Chain: B: PDB Molecule:5-hydroxyisourate hydrolase (formerly known as
PDBTitle: crystal structure of 5-hydroxyisourate hydrolase (formerly2 known as trp, transthyretin related protein)
78d1ttaa_
not modelled 27.6 20
Fold:Prealbumin-like
Superfamily:Transthyretin (synonym: prealbumin)
Family:Transthyretin (synonym: prealbumin)
79c2zouB_
not modelled 27.3 15
PDB header:cell adhesion
Chain: B: PDB Molecule:spondin-1;
PDBTitle: crystal structure of human f-spondin reeler domain (fragment 2)
80d1bpva_
not modelled 27.1 22
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
81d1w8oa1
not modelled 26.2 19
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:E-set domains of sugar-utilizing enzymes
82c2myvA_
not modelled 26.2 26
PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: solution structure of m. oryzae protein avr1-co39
83c3uyoD_
not modelled 25.6 20
PDB header:signaling protein/protein binding
Chain: D: PDB Molecule:monobody sh13;
PDBTitle: crystal structure of monobody sh13/abl1 sh2 domain complex
84d1h54a2
not modelled 25.4 27
Fold:Supersandwich
Superfamily:Galactose mutarotase-like
Family:Glycosyltransferase family 36 N-terminal domain
85c4b5qA_
not modelled 24.9 15
PDB header:hydrolase
Chain: A: PDB Molecule:glycoside hydrolase family 61 protein d;
PDBTitle: the lytic polysaccharide monooxygenase gh61d structure from the2 basidiomycota fungus phanerochaete chrysosporium
86c3tcmB_
not modelled 24.8 10
PDB header:transferase
Chain: B: PDB Molecule:alanine aminotransferase 2;
PDBTitle: crystal structure of alanine aminotransferase from hordeum vulgare
87c2ocfD_
not modelled 24.7 22
PDB header:hormone/growth factor
Chain: D: PDB Molecule:fibronectin;
PDBTitle: human estrogen receptor alpha ligand-binding domain in complex with2 estradiol and the e2#23 fn3 monobody
88d2vkwa2
not modelled 24.5 8
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
89c3m9qA_
not modelled 24.4 15
PDB header:dna binding protein
Chain: A: PDB Molecule:protein male-specific lethal-3;
PDBTitle: drosophila msl3 chromodomain
90c3t5sA_
not modelled 24.2 4
PDB header:immune system
Chain: A: PDB Molecule:macrophage migration inhibitory factor;
PDBTitle: structure of macrophage migration inhibitory factor from giardia2 lamblia
91c1ttfA_
not modelled 23.8 23
PDB header:glycoprotein
Chain: A: PDB Molecule:fibronectin;
PDBTitle: the three-dimensional structure of the tenth type iii module of2 fibronectin: an insight into rgd-mediated interactions
92c1ttgA_
not modelled 23.8 23
PDB header:glycoprotein
Chain: A: PDB Molecule:fibronectin;
PDBTitle: the three-dimensional structure of the tenth type iii module of2 fibronectin: an insight into rgd-mediated interactions
93c2fp3A_
not modelled 23.4 16
PDB header:hydrolysis/apoptosis
Chain: A: PDB Molecule:caspase nc;
PDBTitle: crystal structure of the drosophila initiator caspase dronc
94c2e7hA_
not modelled 23.1 16
PDB header:transferase, signaling protein
Chain: A: PDB Molecule:ephrin type-b receptor 4;
PDBTitle: solution structure of the second fn3 domain from human2 ephrin type-b receptor 4
95d2fnba_
not modelled 22.1 18
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Fibronectin type III
Family:Fibronectin type III
96c3rzwA_
not modelled 21.8 18
PDB header:protein binding
Chain: A: PDB Molecule:monobody ysmb-9;
PDBTitle: crystal structure of the monobody ysmb-9 bound to human sumo1
97c2gysB_
not modelled 21.1 11
PDB header:signaling protein, cytokine
Chain: B: PDB Molecule:cytokine receptor common beta chain;
PDBTitle: 2.7 a structure of the extracellular domains of the human beta common2 receptor involved in il-3, il-5, and gm-csf signalling
98c2gfqC_
not modelled 20.9 13
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:upf0204 protein ph0006;
PDBTitle: structure of protein of unknown function ph0006 from pyrococcus2 horikoshii
99c1f13A_
not modelled 20.9 11
PDB header:coagulation factor
Chain: A: PDB Molecule:cellular coagulation factor xiii zymogen;
PDBTitle: recombinant human cellular coagulation factor xiii
100c3k2mD_
not modelled 20.0 19
PDB header:signaling protein/protein binding
Chain: D: PDB Molecule:monobody ha4;
PDBTitle: crystal structure of monobody ha4/abl1 sh2 domain complex

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