Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0237_(lpqI)_287186_288352
DateTue Jul 23 14:50:29 BST 2019
Unique Job IDf3644ff8447354f9
SequenceMAFPRTLAIL ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:52.802 Y:54.217 Z:49.074
Model (left) based on template c3bmxB_
Top template information
PDB header:hydrolase
Chain: B: PDB Molecule:uncharacterized lipoprotein ybbd;
PDBTitle: beta-n-hexosaminidase (ybbd) from bacillus subtilis
Confidence and coverage
Confidence:100.0% Coverage: 84%
324 residues ( 84% 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
1c3bmxB_
100.0 33
PDB header:hydrolase
Chain: B: PDB Molecule:uncharacterized lipoprotein ybbd;
PDBTitle: beta-n-hexosaminidase (ybbd) from bacillus subtilis
2c3sqlB_
100.0 28
PDB header:hydrolase
Chain: B: PDB Molecule:glycosyl hydrolase family 3;
PDBTitle: crystal structure of glycoside hydrolase from synechococcus
3c4yyfC_
100.0 73
PDB header:hydrolase
Chain: C: PDB Molecule:beta-n-acetylhexosaminidase;
PDBTitle: the crystal structure of a glycosyl hydrolase of gh3 family member2 from [mycobacterium smegmatis str. mc2 155
4c4zm6A_
100.0 32
PDB header:hydrolase, transferase
Chain: A: PDB Molecule:n-acetyl-beta-d glucosaminidase;
PDBTitle: a unique gcn5-related glucosamine n-acetyltransferase region exist in2 the fungal multi-domain gh3 beta-n-acetylglucosaminidase
5c3lk6A_
100.0 32
PDB header:hydrolase
Chain: A: PDB Molecule:lipoprotein ybbd;
PDBTitle: beta-n-hexosaminidase n318d mutant (ybbd_n318d) from bacillus subtilis
6c5jp0A_
100.0 21
PDB header:hydrolase
Chain: A: PDB Molecule:beta-glucosidase bogh3b;
PDBTitle: bacteroides ovatus xyloglucan pul gh3b with bound glucose
7c5vqdA_
100.0 22
PDB header:hydrolase
Chain: A: PDB Molecule:beta-glucoside phosphorylase bglx;
PDBTitle: beta-glucoside phosphorylase bglx
8c5m6gA_
100.0 23
PDB header:hydrolase
Chain: A: PDB Molecule:beta-glucosidase;
PDBTitle: crystal structure glucan 1,4-beta-glucosidase from saccharopolyspora2 erythraea
9c5bu9B_
100.0 28
PDB header:hydrolase
Chain: B: PDB Molecule:beta-n-acetylhexosaminidase;
PDBTitle: crystal structure of beta-n-acetylhexosaminidase from beutenbergia2 cavernae dsm 12333
10c3f93D_
100.0 21
PDB header:hydrolase
Chain: D: PDB Molecule:beta-glucosidase;
PDBTitle: crystal structure of exo-1,3/1,4-beta-glucanase (exop) from2 pseudoalteromonas sp. bb1
11c5z87B_
100.0 26
PDB header:hydrolase
Chain: B: PDB Molecule:emgh1;
PDBTitle: structural of a novel b-glucosidase emgh1 at 2.3 angstrom from2 erythrobacter marinus
12c5yotB_
100.0 17
PDB header:hydrolase
Chain: B: PDB Molecule:isoprimeverose-producing enzyme;
PDBTitle: isoprimeverose-producing enzyme from aspergillus oryzae in complex2 with isoprimeverose
13d1x38a1
100.0 20
Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:NagZ-like
14c1ex1A_
100.0 20
PDB header:hydrolase
Chain: A: PDB Molecule:protein (beta-d-glucan exohydrolase isoenzyme exo1);
PDBTitle: beta-d-glucan exohydrolase from barley
15c3u48A_
100.0 22
PDB header:hydrolase
Chain: A: PDB Molecule:jmb19063;
PDBTitle: from soil to structure: a novel dimeric family 3-beta-glucosidase2 isolated from compost using metagenomic analysis
16c4zo9B_
100.0 20
PDB header:hydrolase
Chain: B: PDB Molecule:lin1840 protein;
PDBTitle: crystal structure of mutant (d270a) beta-glucosidase from listeria2 innocua in complex with laminaribiose
17c5z9sB_
100.0 21
PDB header:hydrolase
Chain: B: PDB Molecule:glycosyl hydrolase family 3 protein;
PDBTitle: functional and structural characterization of a beta-glucosidase2 involved in saponin metabolism from intestinal bacteria
18c5tf0B_
100.0 21
PDB header:hydrolase
Chain: B: PDB Molecule:glycosyl hydrolase family 3 n-terminal domain protein;
PDBTitle: crystal structure of glycosil hydrolase family 3 n-terminal domain2 protein from bacteroides intestinalis
19c3wo8B_
100.0 31
PDB header:hydrolase
Chain: B: PDB Molecule:beta-n-acetylglucosaminidase;
PDBTitle: crystal structure of the beta-n-acetylglucosaminidase from thermotoga2 maritima
20c5bzaA_
100.0 30
PDB header:hydrolase
Chain: A: PDB Molecule:beta-n-acetylhexosaminidase;
PDBTitle: crystal structure of cbsa from thermotoga neapolitana
21c5iobC_
not modelled 100.0 41
PDB header:hydrolase
Chain: C: PDB Molecule:beta-glucosidase-related glycosidases;
PDBTitle: crystal structure of beta-n-acetylglucosaminidase-like protein from2 corynebacterium glutamicum
22c6q7jB_
not modelled 100.0 20
PDB header:hydrolase
Chain: B: PDB Molecule:exo-1,4-beta-xylosidase xlnd;
PDBTitle: gh3 exo-beta-xylosidase (xlnd) in complex with xylobiose aziridine2 activity based probe
23c4iidB_
not modelled 100.0 20
PDB header:hydrolase
Chain: B: PDB Molecule:beta-glucosidase 1;
PDBTitle: crystal structure of beta-glucosidase 1 from aspergillus aculeatus in2 complex with 1-deoxynojirimycin
24c5nbsA_
not modelled 100.0 19
PDB header:hydrolase
Chain: A: PDB Molecule:beta-glucosidase;
PDBTitle: structural studies of a glycoside hydrolase family 3 beta-glucosidase2 from the model fungus neurospora crassa
25c5a7mA_
not modelled 100.0 21
PDB header:hydrolase
Chain: A: PDB Molecule:beta-xylosidase;
PDBTitle: the structure of hypocrea jecorina beta-xylosidase xyl3a (bxl1)
26c3zz1A_
not modelled 100.0 21
PDB header:hydrolase
Chain: A: PDB Molecule:beta-d-glucoside glucohydrolase;
PDBTitle: crystal structure of a glycoside hydrolase family 3 beta-glucosidase,2 bgl1 from hypocrea jecorina at 2.1a resolution.
27c4d0jD_
not modelled 100.0 22
PDB header:hydrolase
Chain: D: PDB Molecule:beta-glucosidase;
PDBTitle: crystal structure of glycoside hydrolase family 3 beta-2 glucosidase cel3a from the moderately thermophilic fungus3 rasamsonia emersonii
28c4g6cA_
not modelled 100.0 28
PDB header:hydrolase
Chain: A: PDB Molecule:beta-hexosaminidase 1;
PDBTitle: crystal structure of beta-hexosaminidase 1 from burkholderia2 cenocepacia j2315
29c2x41A_
not modelled 100.0 21
PDB header:hydrolase
Chain: A: PDB Molecule:beta-glucosidase;
PDBTitle: structure of beta-glucosidase 3b from thermotoga neapolitana in2 complex with glucose
30c3tevA_
not modelled 100.0 29
PDB header:hydrolase
Chain: A: PDB Molecule:glycosyl hyrolase, family 3;
PDBTitle: the crystal structure of glycosyl hydrolase from deinococcus2 radiodurans r1
31c5wabD_
not modelled 100.0 19
PDB header:hydrolase
Chain: D: PDB Molecule:putative beta-glucosidase;
PDBTitle: crystal structure of bifidobacterium adolescentis gh3 beta-glucosidase
32c5wabC_
not modelled 100.0 19
PDB header:hydrolase
Chain: C: PDB Molecule:putative beta-glucosidase;
PDBTitle: crystal structure of bifidobacterium adolescentis gh3 beta-glucosidase
33c4i3gB_
not modelled 100.0 21
PDB header:hydrolase
Chain: B: PDB Molecule:beta-glucosidase;
PDBTitle: crystal structure of desr, a beta-glucosidase from streptomyces2 venezuelae in complex with d-glucose.
34c4gvgB_
not modelled 100.0 29
PDB header:hydrolase
Chain: B: PDB Molecule:beta-hexosaminidase;
PDBTitle: crystal structure of salmonella typhimurium family 3 glycoside2 hydrolase (nagz)
35c3ac0B_
not modelled 100.0 21
PDB header:hydrolase
Chain: B: PDB Molecule:beta-glucosidase i;
PDBTitle: crystal structure of beta-glucosidase from kluyveromyces marxianus in2 complex with glucose
36c5g1mA_
not modelled 100.0 28
PDB header:hydrolase
Chain: A: PDB Molecule:beta-hexosaminidase;
PDBTitle: crystal structure of nagz from pseudomonas aeruginosa
37d1tr9a_
not modelled 100.0 26
Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:NagZ-like
38c5wvpA_
not modelled 100.0 19
PDB header:hydrolase
Chain: A: PDB Molecule:beta-glucosidase;
PDBTitle: expression, characterization and crystal structure of a novel beta-2 glucosidase from paenibacillus barengoltzii
39c5k6lA_
not modelled 100.0 18
PDB header:hydrolase
Chain: A: PDB Molecule:b-glucosidase;
PDBTitle: structure of a gh3 b-glucosidase from cow rumen metagenome
40d1o4ua1
not modelled 76.7 26
Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
41c4ce4S_
not modelled 65.4 22
PDB header:ribosome
Chain: S: PDB Molecule:mrpl18;
PDBTitle: 39s large subunit of the porcine mitochondrial ribosome
42d2p12a1
not modelled 62.3 16
Fold:FomD barrel-like
Superfamily:FomD-like
Family:FomD-like
43d2gycm1
not modelled 62.0 20
Fold:Ribonuclease H-like motif
Superfamily:Translational machinery components
Family:Ribosomal protein L18 and S11
44d1pv8a_
not modelled 58.5 27
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:5-aminolaevulinate dehydratase, ALAD (porphobilinogen synthase)
45c2htmB_
not modelled 54.2 21
PDB header:biosynthetic protein
Chain: B: PDB Molecule:thiazole biosynthesis protein thig;
PDBTitle: crystal structure of ttha0676 from thermus thermophilus hb8
46c1o4uA_
not modelled 50.9 26
PDB header:transferase
Chain: A: PDB Molecule:type ii quinolic acid phosphoribosyltransferase;
PDBTitle: crystal structure of a nicotinate nucleotide pyrophosphorylase2 (tm1645) from thermotoga maritima at 2.50 a resolution
47c4n6eA_
not modelled 44.3 23
PDB header:lyase/biosynthetic protein
Chain: A: PDB Molecule:putative thiosugar synthase;
PDBTitle: crystal structure of amycolatopsis orientalis bexx/cyso complex
48d2vcha1
not modelled 41.5 16
Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDPGT-like
49c3bboQ_
not modelled 41.4 17
PDB header:ribosome
Chain: Q: PDB Molecule:ribosomal protein l18;
PDBTitle: homology model for the spinach chloroplast 50s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome
50c5nlmB_
not modelled 41.4 15
PDB header:transferase
Chain: B: PDB Molecule:indoxyl udp-glucosyltransferase;
PDBTitle: complex between a udp-glucosyltransferase from polygonum tinctorium2 capable of glucosylating indoxyl and indoxyl sulfate
51d1d2da_
not modelled 39.1 20
Fold:S15/NS1 RNA-binding domain
Superfamily:S15/NS1 RNA-binding domain
Family:a tRNA synthase domain
52d1xm3a_
not modelled 37.9 26
Fold:TIM beta/alpha-barrel
Superfamily:ThiG-like
Family:ThiG-like
53c2djvA_
not modelled 37.2 17
PDB header:protein binding
Chain: A: PDB Molecule:methionyl-trna synthetase;
PDBTitle: solution structures of the whep-trs domain of human2 methionyl-trna synthetase
54d1fyja_
not modelled 36.7 27
Fold:S15/NS1 RNA-binding domain
Superfamily:S15/NS1 RNA-binding domain
Family:a tRNA synthase domain
55c4v19S_
not modelled 34.5 18
PDB header:ribosome
Chain: S: PDB Molecule:mitoribosomal protein ul18m, mrpl18;
PDBTitle: structure of the large subunit of the mammalian mitoribosome, part 12 of 2
56c3wdjA_
not modelled 33.4 21
PDB header:hydrolase
Chain: A: PDB Molecule:type i pullulanase;
PDBTitle: crystal structure of pullulanase complexed with maltotetraose from2 anoxybacillus sp. lm18-11
57c2jtxA_
not modelled 31.9 27
PDB header:transcription
Chain: A: PDB Molecule:transcription initiation factor iie subunit
PDBTitle: nmr structure of the tfiie-alpha carboxyl terminus
58c2rnqA_
not modelled 29.7 27
PDB header:transcription
Chain: A: PDB Molecule:transcription initiation factor iie subunit
PDBTitle: solution structure of the c-terminal acidic domain of tfiie2 alpha
59c1x59A_
not modelled 29.3 11
PDB header:protein binding
Chain: A: PDB Molecule:histidyl-trna synthetase;
PDBTitle: solution structures of the whep-trs domain of human2 histidyl-trna synthetase
60c6jtdB_
not modelled 28.3 19
PDB header:transferase
Chain: B: PDB Molecule:c-glycosyltransferase;
PDBTitle: crystal structure of tccgt1 in complex with udp
61d2c1xa1
not modelled 27.0 7
Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDPGT-like
62c4a3uB_
not modelled 26.5 13
PDB header:oxidoreductase
Chain: B: PDB Molecule:nadh\:flavin oxidoreductase/nadh oxidase;
PDBTitle: x-structure of the old yellow enzyme homologue from zymomonas mobilis2 (ncr)
63c2cosA_
not modelled 25.4 26
PDB header:transferase
Chain: A: PDB Molecule:serine/threonine protein kinase lats2;
PDBTitle: solution structure of rsgi ruh-038, a uba domain from mouse2 lats2 (large tumor suppressor homolog 2)
64d1r6ta1
not modelled 24.8 23
Fold:S15/NS1 RNA-binding domain
Superfamily:S15/NS1 RNA-binding domain
Family:a tRNA synthase domain
65d1yxya1
not modelled 24.3 12
Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
66d1vhna_
not modelled 24.0 19
Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
67c2e8yA_
not modelled 23.1 29
PDB header:hydrolase
Chain: A: PDB Molecule:amyx protein;
PDBTitle: crystal structure of pullulanase type i from bacillus subtilis str.2 168
68c5v2kA_
not modelled 22.9 11
PDB header:transferase
Chain: A: PDB Molecule:udp-glycosyltransferase 74f2;
PDBTitle: crystal structure of udp-glucosyltransferase, ugt74f2 (t15a), with udp2 and 2-bromobenzoic acid
69d1ovya_
not modelled 22.7 19
Fold:Ribonuclease H-like motif
Superfamily:Translational machinery components
Family:Ribosomal protein L18 and S11
70c1w1nA_
not modelled 22.2 7
PDB header:transferase
Chain: A: PDB Molecule:phosphatidylinositol 3-kinase tor1;
PDBTitle: the solution structure of the fatc domain of the protein kinase tor12 from yeast
71c2ya0A_
not modelled 21.3 23
PDB header:hydrolase
Chain: A: PDB Molecule:putative alkaline amylopullulanase;
PDBTitle: catalytic module of the multi-modular glycogen-degrading pneumococcal2 virulence factor spua
72d1k3ka_
not modelled 21.0 33
Fold:Toxins' membrane translocation domains
Superfamily:Bcl-2 inhibitors of programmed cell death
Family:Bcl-2 inhibitors of programmed cell death
73c3wc4A_
not modelled 20.7 5
PDB header:transferase
Chain: A: PDB Molecule:udp-glucose:anthocyanidin 3-o-glucosyltransferase;
PDBTitle: crystal structure of udp-glucose: anthocyanidin 3-o-2 glucosyltransferase from clitoria ternatea
74c3j3vO_
not modelled 20.3 18
PDB header:ribosome
Chain: O: PDB Molecule:50s ribosomal protein l18;
PDBTitle: atomic model of the immature 50s subunit from bacillus subtilis (state2 i-a)
75d2odfa1
not modelled 19.8 16
Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:FGase-like
76c2y69X_
not modelled 19.7 22
PDB header:electron transport
Chain: X: PDB Molecule:cytochrome c oxidase polypeptide 7b;
PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular oxygen
77d1v54k_
not modelled 19.7 22
Fold:Single transmembrane helix
Superfamily:Mitochondrial cytochrome c oxidase subunit VIIb
Family:Mitochondrial cytochrome c oxidase subunit VIIb
78c2kitA_
not modelled 19.2 7
PDB header:transferase
Chain: A: PDB Molecule:serine/threonine-protein kinase tor1;
PDBTitle: the solution structure of the reduced yeast tor1 fatc domain bound to2 dpc micelles at 298k
79d2acva1
not modelled 18.5 14
Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDPGT-like
80c1iq8B_
not modelled 18.1 12
PDB header:transferase
Chain: B: PDB Molecule:archaeosine trna-guanine transglycosylase;
PDBTitle: crystal structure of archaeosine trna-guanine transglycosylase from2 pyrococcus horikoshii
81c4j7rA_
not modelled 18.1 14
PDB header:hydrolase
Chain: A: PDB Molecule:isoamylase;
PDBTitle: crystal structure of chlamydomonas reinhardtii isoamylase 1 (isa1)
82c5emiA_
not modelled 17.6 15
PDB header:hydrolase
Chain: A: PDB Molecule:cell wall hydrolase/autolysin;
PDBTitle: n-acetylmuramoyl-l-alanine amidase amic2 of nostoc punctiforme
83d2pq6a1
not modelled 17.5 11
Fold:UDP-Glycosyltransferase/glycogen phosphorylase
Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase
Family:UDPGT-like
84c2wanA_
not modelled 17.2 18
PDB header:hydrolase
Chain: A: PDB Molecule:pullulanase;
PDBTitle: pullulanase from bacillus acidopullulyticus
85c4jicB_
not modelled 16.7 11
PDB header:oxidoreductase
Chain: B: PDB Molecule:gtn reductase;
PDBTitle: glycerol trinitrate reductase nera from agrobacterium radiobacter
86c3hbjA_
not modelled 16.5 11
PDB header:transferase
Chain: A: PDB Molecule:flavonoid 3-o-glucosyltransferase;
PDBTitle: structure of ugt78g1 complexed with udp
87c3atyA_
not modelled 16.1 13
PDB header:oxidoreductase
Chain: A: PDB Molecule:prostaglandin f2a synthase;
PDBTitle: crystal structure of tcoye
88c3w1hB_
not modelled 16.1 17
PDB header:transferase
Chain: B: PDB Molecule:l-seryl-trna(sec) selenium transferase;
PDBTitle: crystal structure of the selenocysteine synthase sela from aquifex2 aeolicus
89c4binA_
not modelled 15.9 21
PDB header:hydrolase
Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase amic;
PDBTitle: crystal structure of the e. coli n-acetylmuramoyl-l-alanine amidase2 amic
90c6ei9A_
not modelled 15.9 15
PDB header:flavoprotein
Chain: A: PDB Molecule:trna-dihydrouridine synthase b;
PDBTitle: crystal structure of e. coli trna-dihydrouridine synthase b (dusb)
91c2qlcC_
not modelled 15.5 13
PDB header:dna binding protein
Chain: C: PDB Molecule:dna repair protein radc homolog;
PDBTitle: the crystal structure of dna repair protein radc from chlorobium2 tepidum tls
92c5tmdA_
not modelled 14.5 16
PDB header:transferase
Chain: A: PDB Molecule:glycosyltransferase, os79;
PDBTitle: crystal structure of os79 from o. sativa in complex with u2f and2 trichothecene.
93c2h90A_
not modelled 14.5 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
94d1ulza2
not modelled 14.4 18
Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
95c3ht4B_
not modelled 14.1 23
PDB header:lyase
Chain: B: PDB Molecule:aluminum resistance protein;
PDBTitle: crystal structure of the q81a77_baccr protein from bacillus cereus.2 northeast structural genomics consortium target bcr213
96c5o60P_
not modelled 14.1 16
PDB header:ribosome
Chain: P: PDB Molecule:50s ribosomal protein l18;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
97d1gwja_
not modelled 13.9 15
Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
98d1n82a_
not modelled 13.9 9
Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
99c5hssA_
not modelled 13.9 11
PDB header:lyase
Chain: A: PDB Molecule:linalool dehydratase/isomerase;
PDBTitle: linalool dehydratase/isomerase: ldi with monoterpene substrate

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

Transmembrane helix prediction 

Transmembrane helices have been predicted in your sequence to adopt the topology shown below