Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0320_(-)_387888_388550
DateTue Jul 23 14:50:38 BST 2019
Unique Job ID77498b2a7abc5136
SequenceVGRHELARDR ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:39.277 Y:37.096 Z:37.011
Model (left) based on template d1lbua2
Top template information
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:Muramoyl-pentapeptide carboxypeptidase
Confidence and coverage
Confidence: 96.9% Coverage: 36%
80 residues ( 36% of your sequence) have been modelled with 96.9% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
127 residues ( 58%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
Warning: 52% of your sequence is predicted disordered. Disordered regions cannot be meaningfully predicted.
3D viewing
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Sequence analysis 

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Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1lbua2
96.9 29
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:Muramoyl-pentapeptide carboxypeptidase
2c4ox3A_
96.2 15
PDB header:hydrolase
Chain: A: PDB Molecule:putative carboxypeptidase yodj;
PDBTitle: structure of the ldcb ld-carboxypeptidase reveals the molecular basis2 of peptidoglycan recognition
3c5hnmC_
96.0 23
PDB header:hydrolase
Chain: C: PDB Molecule:d-alanyl-d-alanine carboxypeptidase;
PDBTitle: crystal structure of vancomycin resistance d,d-pentapeptidase vany2 e175a mutant from vanb-type resistance cassette in complex with3 zn(ii)
4d2ibge1
95.9 20
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:Hedgehog (development protein), N-terminal signaling domain
5d3d1ma1
95.6 25
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:Hedgehog (development protein), N-terminal signaling domain
6c1lbuA_
95.6 22
PDB header:hydrolase
Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase;
PDBTitle: hydrolase metallo (zn) dd-peptidase
7c3m1nB_
95.4 25
PDB header:signaling protein
Chain: B: PDB Molecule:sonic hedgehog protein;
PDBTitle: crystal structure of human sonic hedgehog n-terminal domain
8c4jidA_
95.3 20
PDB header:hydrolase
Chain: A: PDB Molecule:d-alanyl-d-alanine carboxypeptidase family protein;
PDBTitle: crystal structure of baldcb / vany-like l,d-carboxypeptidase zinc(ii)-2 free
9c4murA_
95.0 24
PDB header:hydrolase
Chain: A: PDB Molecule:d,d-dipeptidase/d,d-carboxypeptidase;
PDBTitle: crystal structure of vancomycin resistance d,d-dipeptidase/d,d-2 pentapeptidase vanxyc d59s mutant
10d2vo9a1
94.7 26
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:VanY-like
11c4f78A_
94.5 19
PDB header:hydrolase
Chain: A: PDB Molecule:d,d-dipeptidase/d,d-carboxypeptidase;
PDBTitle: crystal structure of vancomycin resistance d,d-dipeptidase vanxyg
12c2vo9C_
93.6 20
PDB header:hydrolase
Chain: C: PDB Molecule:l-alanyl-d-glutamate peptidase;
PDBTitle: crystal structure of the enzymatically active domain of the listeria2 monocytogenes bacteriophage 500 endolysin ply500
13c4ox5A_
93.1 23
PDB header:hydrolase
Chain: A: PDB Molecule:ldcb ld-carboxypeptidase;
PDBTitle: structure of the ldcb ld-carboxypeptidase reveals the molecular basis2 of peptidoglycan recognition
14c2mxzA_
92.9 18
PDB header:hydrolase
Chain: A: PDB Molecule:l-alanyl-d-glutamate peptidase;
PDBTitle: bacteriophage t5 l-alanoyl-d-glutamate peptidase comlpex with zn2+2 (endo t5-zn2+)
15d1tzpa_
91.2 20
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:MepA-like
16c5opzB_
86.5 23
PDB header:hydrolase
Chain: B: PDB Molecule:chix;
PDBTitle: crystal structure of serratia marcescens l-ala d-glu endopeptidase2 chix
17c9rubB_
37.8 35
PDB header:lyase(carbon-carbon)
Chain: B: PDB Molecule:ribulose-1,5-bisphosphate carboxylase;
PDBTitle: crystal structure of activated ribulose-1,5-bisphosphate carboxylase2 complexed with its substrate, ribulose-1,5-bisphosphate
18d1r44a_
23.7 20
Fold:Hedgehog/DD-peptidase
Superfamily:Hedgehog/DD-peptidase
Family:VanX-like
19d1yloa2
19.9 17
Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:Bacterial dinuclear zinc exopeptidases
20c4i8oA_
19.2 20
PDB header:toxin
Chain: A: PDB Molecule:toxin rnla;
PDBTitle: crystal structure of the toxin rnla from escherichia coli
21d2afwa1
not modelled 19.1 19
Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:Glutaminyl-peptide cyclotransferase-like
22d1pbaa_
not modelled 18.7 15
Fold:Ferredoxin-like
Superfamily:Protease propeptides/inhibitors
Family:Pancreatic carboxypeptidase, activation domain
23d1hl9a1
not modelled 18.0 17
Fold:Glycosyl hydrolase domain
Superfamily:Glycosyl hydrolase domain
Family:Putative alpha-L-fucosidase C-terminal domain
24c2ojlB_
not modelled 17.0 12
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of q7waf1_borpa from bordetella parapertussis.2 northeast structural genomics target bpr68.
25c5j4aA_
not modelled 16.7 34
PDB header:toxin
Chain: A: PDB Molecule:trna nuclease cdia;
PDBTitle: cdia-ct toxin from burkholderia pseudomallei e479 in complex with2 cognate cdii immunity protein
26c2k5kA_
not modelled 16.0 36
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein rhr2;
PDBTitle: solution structure of rhr2 from rhodobacter sphaeroides.2 northeast structural genomics consortium
27d1gk8a1
not modelled 15.9 33
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
28c2mw1A_
not modelled 14.3 12
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lipocalin-like protein;
PDBTitle: nmr structure of the protein np_809137.1 from bacteroides2 thetaiotaomicron
29c3dexA_
not modelled 13.9 16
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:sav_2001;
PDBTitle: crystal structure of sav_2001 protein from streptomyces2 avermitilis, northeast structural genomics consortium3 target svr107.
30d1ug0a_
not modelled 13.7 23
Fold:Surp module (SWAP domain)
Superfamily:Surp module (SWAP domain)
Family:Surp module (SWAP domain)
31c3rcnA_
not modelled 13.6 17
PDB header:hydrolase
Chain: A: PDB Molecule:beta-n-acetylhexosaminidase;
PDBTitle: crystal structure of beta-n-acetylhexosaminidase from arthrobacter2 aurescens
32c2zhhA_
not modelled 13.6 27
PDB header:transcription
Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr;
PDBTitle: crystal structure of soxr
33d1gxha_
not modelled 11.9 32
Fold:Acyl carrier protein-like
Superfamily:Colicin E immunity proteins
Family:Colicin E immunity proteins
34c2p0gB_
not modelled 11.7 16
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:selenoprotein w-related protein;
PDBTitle: crystal structure of selenoprotein w-related protein from vibrio2 cholerae. northeast structural genomics target vcr75
35c3nwrA_
not modelled 11.1 24
PDB header:lyase
Chain: A: PDB Molecule:a rubisco-like protein;
PDBTitle: crystal structure of a rubisco-like protein from burkholderia fungorum
36d2fvga2
not modelled 10.5 8
Fold:Phosphorylase/hydrolase-like
Superfamily:Zn-dependent exopeptidases
Family:Bacterial dinuclear zinc exopeptidases
37c1telA_
not modelled 10.3 24
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ribulose bisphosphate carboxylase, large subunit;
PDBTitle: crystal structure of a rubisco-like protein from chlorobium2 tepidum
38d8ruca1
not modelled 10.2 33
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
39d1kwma2
not modelled 9.8 17
Fold:Ferredoxin-like
Superfamily:Protease propeptides/inhibitors
Family:Pancreatic carboxypeptidase, activation domain
40d1rbla1
not modelled 9.6 29
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
41d1geha1
not modelled 9.5 26
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
42d1ykwa1
not modelled 9.1 24
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
43c2qygC_
not modelled 9.0 19
PDB header:unknown function
Chain: C: PDB Molecule:ribulose bisphosphate carboxylase-like protein 2;
PDBTitle: crystal structure of a rubisco-like protein rlp2 from rhodopseudomonas2 palustris
44d2ga5a1
not modelled 8.9 13
Fold:N domain of copper amine oxidase-like
Superfamily:Frataxin/Nqo15-like
Family:Frataxin-like
45d2fa8a1
not modelled 8.8 20
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Selenoprotein W-related
46d1svda1
not modelled 8.8 29
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
47c3pb6X_
not modelled 8.7 18
PDB header:transferase
Chain: X: PDB Molecule:glutaminyl-peptide cyclotransferase-like protein;
PDBTitle: crystal structure of the catalytic domain of human golgi-resident2 glutaminyl cyclase at ph 6.5
48d1nsaa2
not modelled 8.6 22
Fold:Ferredoxin-like
Superfamily:Protease propeptides/inhibitors
Family:Pancreatic carboxypeptidase, activation domain
49c6mbcB_
not modelled 8.5 14
PDB header:apoptosis
Chain: B: PDB Molecule:df4;
PDBTitle: human bfl-1 in complex with the designed peptide df4
50c2obkE_
not modelled 8.2 8
PDB header:structural genomics, unknown function
Chain: E: PDB Molecule:selt/selw/selh selenoprotein domain;
PDBTitle: x-ray structure of the putative se binding protein from pseudomonas2 fluorescens. northeast structural genomics consortium target plr6.
51d1wdda1
not modelled 7.9 38
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
52c1gehE_
not modelled 7.9 26
PDB header:lyase
Chain: E: PDB Molecule:ribulose-1,5-bisphosphate carboxylase/oxygenase;
PDBTitle: crystal structure of archaeal rubisco (ribulose 1,5-bisphosphate2 carboxylase/oxygenase)
53d2d69a1
not modelled 7.8 33
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
54c1rcxH_
not modelled 7.3 33
PDB header:lyase (carbon-carbon)
Chain: H: PDB Molecule:ribulose bisphosphate carboxylase/oxygenase;
PDBTitle: non-activated spinach rubisco in complex with its substrate2 ribulose-1,5-bisphosphate
55c3rpcD_
not modelled 7.1 33
PDB header:hydrolase
Chain: D: PDB Molecule:possible metal-dependent hydrolase;
PDBTitle: the crystal structure of a possible metal-dependent hydrolase from2 veillonella parvula dsm 2008
56c2wylF_
not modelled 6.9 33
PDB header:hydrolase
Chain: F: PDB Molecule:l-ascorbate-6-phosphate lactonase ulag;
PDBTitle: apo structure of a metallo-b-lactamase
57d2p8ia1
not modelled 6.7 12
Fold:Ferredoxin-like
Superfamily:DOPA-like
Family:DOPA dioxygenase-like
58c6fcoB_
not modelled 6.6 19
PDB header:transport protein
Chain: B: PDB Molecule:mitochondrial frataxin-like protein;
PDBTitle: structural and functional characterisation of frataxin (fxn) like2 protein from chaetomium thermophilum
59d1zdya1
not modelled 6.5 15
Fold:Antiparallel beta/alpha barrel (PT-barrel)
Superfamily:Prenyltransferase-like
Family:Prenyltransferase-like
60d1o6xa_
not modelled 6.4 23
Fold:Ferredoxin-like
Superfamily:Protease propeptides/inhibitors
Family:Pancreatic carboxypeptidase, activation domain
61c2d69B_
not modelled 6.4 33
PDB header:lyase
Chain: B: PDB Molecule:ribulose bisphosphate carboxylase;
PDBTitle: crystal structure of the complex of sulfate ion and octameric2 ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) from3 pyrococcus horikoshii ot3 (form-2 crystal)
62c4chlA_
not modelled 6.2 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:persulfide dioxygenase ethe1, mitochondrial;
PDBTitle: human ethylmalonic encephalopathy protein 1 (hethe1)
63c1hyhA_
not modelled 6.1 23
PDB header:oxidoreductase (choh(d)-nad+(a))
Chain: A: PDB Molecule:l-2-hydroxyisocaproate dehydrogenase;
PDBTitle: crystal structure of l-2-hydroxyisocaproate dehydrogenase from2 lactobacillus confusus at 2.2 angstroms resolution-an example of3 strong asymmetry between subunits
64c4hf7A_
not modelled 6.1 14
PDB header:hydrolase
Chain: A: PDB Molecule:putative acylhydrolase;
PDBTitle: crystal structure of a gdsl-like lipase (bt0569) from bacteroides2 thetaiotaomicron vpi-5482 at 1.77 a resolution
65c3qfwB_
not modelled 6.1 14
PDB header:lyase
Chain: B: PDB Molecule:ribulose-1,5-bisphosphate carboxylase/oxygenase large
PDBTitle: crystal structure of rubisco-like protein from rhodopseudomonas2 palustris
66c4qn9A_
not modelled 6.0 44
PDB header:hydrolase
Chain: A: PDB Molecule:n-acyl-phosphatidylethanolamine-hydrolyzing phospholipase
PDBTitle: structure of human nape-pld
67c2ljkA_
not modelled 5.9 20
PDB header:signaling protein
Chain: A: PDB Molecule:protein c17orf37;
PDBTitle: solution structure of the oncogenic-potential mien1 protein
68c4z1bA_
not modelled 5.8 14
PDB header:transferase
Chain: A: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase;
PDBTitle: structure of h204a mutant kdo8ps from h.pylori
69c1rldB_
not modelled 5.8 33
PDB header:lyase(carbon-carbon)
Chain: B: PDB Molecule:ribulose 1,5 bisphosphate carboxylase/oxygenase (large
PDBTitle: solid-state phase transition in the crystal structure of ribulose 1,5-2 biphosphate carboxylase(slash)oxygenase
70c4jo0A_
not modelled 5.8 33
PDB header:oxidoreductase
Chain: A: PDB Molecule:cmla;
PDBTitle: crystal structure of cmla, a diiron beta-hydroxylase from streptomyces2 venezuelae
71d2vlqa1
not modelled 5.7 29
Fold:Acyl carrier protein-like
Superfamily:Colicin E immunity proteins
Family:Colicin E immunity proteins
72c2qw5B_
not modelled 5.6 12
PDB header:isomerase
Chain: B: PDB Molecule:xylose isomerase-like tim barrel;
PDBTitle: crystal structure of a putative sugar phosphate isomerase/epimerase2 (ava4194) from anabaena variabilis atcc 29413 at 1.78 a resolution
73d1ayea2
not modelled 5.6 23
Fold:Ferredoxin-like
Superfamily:Protease propeptides/inhibitors
Family:Pancreatic carboxypeptidase, activation domain
74d1ej7l1
not modelled 5.6 33
Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
75d2czra1
not modelled 5.4 30
Fold:Restriction endonuclease-like
Superfamily:TBP-interacting protein-like
Family:TBP-interacting protein-like
76d2fqla1
not modelled 5.4 13
Fold:N domain of copper amine oxidase-like
Superfamily:Frataxin/Nqo15-like
Family:Frataxin-like
77c3bv6D_
not modelled 5.4 33
PDB header:hydrolase
Chain: D: PDB Molecule:metal-dependent hydrolase;
PDBTitle: crystal structure of uncharacterized metallo protein from vibrio2 cholerae with beta-lactamase like fold
78c1qbaA_
not modelled 5.2 33
PDB header:glycosyl hydrolase
Chain: A: PDB Molecule:chitobiase;
PDBTitle: bacterial chitobiase, glycosyl hydrolase family 20
79c6q63B_
not modelled 5.2 19
PDB header:hydrolase
Chain: B: PDB Molecule:beta-hexosaminidase;
PDBTitle: bt0459
80d2boaa2
not modelled 5.1 20
Fold:Ferredoxin-like
Superfamily:Protease propeptides/inhibitors
Family:Pancreatic carboxypeptidase, activation domain

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