Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0888_(-)_987236_988708
DateFri Jul 26 01:50:48 BST 2019
Unique Job ID049fe7a8a3398a1a
SequenceMDYAKRIGQV ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:47.245 Y:51.757 Z:49.486
Model (left) based on template c5uvgA_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:sphingomyelin phosphodiesterase 3,sphingomyelin
PDBTitle: crystal structure of the human neutral sphingomyelinase 2 (nsmase2)2 catalytic domain with insertion deleted and calcium bound
Confidence and coverage
Confidence:100.0% Coverage: 51%
252 residues ( 51% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
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Sequence analysis 

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Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

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Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c5uvgA_



100.0 17
PDB header:hydrolase
Chain: A: PDB Molecule:sphingomyelin phosphodiesterase 3,sphingomyelin
PDBTitle: crystal structure of the human neutral sphingomyelinase 2 (nsmase2)2 catalytic domain with insertion deleted and calcium bound
2c4ruwA_



99.9 19
PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease/exonuclease/phosphatase;
PDBTitle: the crystal structure of endonuclease/exonuclease/phosphatase from2 beutenbergia cavernae dsm 12333
3c4f1iA_



99.9 19
PDB header:hydrolase
Chain: A: PDB Molecule:5'-tyrosyl-dna phosphodiesterase;
PDBTitle: crystal structure of semet tdp2 from caenorhabditis elegans
4d1zwxa1



99.9 16
Fold:DNase I-like
Superfamily:DNase I-like
Family:Sphingomyelin phosphodiesterase-like
5c3wcxA_



99.9 20
PDB header:hydrolase
Chain: A: PDB Molecule:sphingomyelinase c;
PDBTitle: crystal structure of sphingomyelinase c from streptomyces2 griseocarneus
6c4f1hA_



99.9 19
PDB header:hydrolase/dna
Chain: A: PDB Molecule:tyrosyl-dna phosphodiesterase 2;
PDBTitle: crystal structure of tdp2 from danio rerio complexed with a single2 strand dna
7d2imqx1



99.9 17
Fold:DNase I-like
Superfamily:DNase I-like
Family:Inositol polyphosphate 5-phosphatase (IPP5)
8c3tebA_



99.9 18
PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease/exonuclease/phosphatase;
PDBTitle: endonuclease/exonuclease/phosphatase family protein from leptotrichia2 buccalis c-1013-b
9d2ddra1



99.9 16
Fold:DNase I-like
Superfamily:DNase I-like
Family:Sphingomyelin phosphodiesterase-like
10c3i46B_



99.9 17
PDB header:toxin
Chain: B: PDB Molecule:beta-hemolysin;
PDBTitle: crystal structure of beta toxin from staphylococcus aureus f277a,2 p278a mutant with bound calcium ions
11c3mprB_



99.9 14
PDB header:hydrolase
Chain: B: PDB Molecule:putative endonuclease/exonuclease/phosphatase family
PDBTitle: crystal structure of endonuclease/exonuclease/phosphatase family2 protein from bacteroides thetaiotaomicron, northeast structural3 genomics consortium target btr318a
12c3mtcA_



99.9 19
PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:type ii inositol-1,4,5-trisphosphate 5-phosphatase;
PDBTitle: crystal structure of inpp5b in complex with phosphatidylinositol 4-2 phosphate
13c4fvaD_



99.9 18
PDB header:hydrolase
Chain: D: PDB Molecule:5'-tyrosyl-dna phosphodiesterase;
PDBTitle: crystal structure of truncated caenorhabditis elegans tdp2
14c4gz1B_



99.9 18
PDB header:hydrolase/dna
Chain: B: PDB Molecule:tyrosyl-dna phosphodiesterase 2;
PDBTitle: mus musculus tdp2 reaction product (5'-phosphorylated dna)-mg2+2 complex at 1.5 angstroms resolution
15c6bt2B_



99.9 17
PDB header:hydrolase, rna binding protein
Chain: B: PDB Molecule:nocturnin;
PDBTitle: structure of the human nocturnin catalytic domain with bound sulfate2 anion
16c3g6sA_



99.9 16
PDB header:hydrolase
Chain: A: PDB Molecule:putative endonuclease/exonuclease/phosphatase family
PDBTitle: crystal structure of the endonuclease/exonuclease/phosphatase2 (bvu_0621) from bacteroides vulgatus. northeast structural genomics3 consortium target bvr56d
17c3nr8A_



99.9 17
PDB header:hydrolase
Chain: A: PDB Molecule:phosphatidylinositol-3,4,5-trisphosphate 5-phosphatase 2;
PDBTitle: crystal structure of human ship2
18c3ngoA_



99.9 13
PDB header:hydrolase/dna
Chain: A: PDB Molecule:ccr4-not transcription complex subunit 6-like;
PDBTitle: crystal structure of the human cnot6l nuclease domain in complex with2 poly(a) dna
19c3l1wE_



99.9 15
PDB header:structural genomics, unknown function
Chain: E: PDB Molecule:uncharacterized protein;
PDBTitle: the crystal structure of a functionally unknown conserved2 protein from enterococcus faecalis v583
20d1sr4b_



99.9 15
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
21c2j63B_



not modelled 99.9 17
PDB header:lyase
Chain: B: PDB Molecule:ap-endonuclease;
PDBTitle: crystal structure of ap endonuclease lmap from leishmania major
22c4zkfA_



not modelled 99.9 19
PDB header:hydrolase
Chain: A: PDB Molecule:2',5'-phosphodiesterase 12;
PDBTitle: crystal structure of human phosphodiesterase 12
23d2f1na1



not modelled 99.9 17
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
24d2a40b1



not modelled 99.9 16
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
25c5j8nA_



not modelled 99.9 16
PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease iii;
PDBTitle: exonuclease iii homologue mm3148 from methanosarcina mazei
26c4k6lF_



not modelled 99.8 18
PDB header:toxin
Chain: F: PDB Molecule:cytolethal distending toxin subunit b homolog;
PDBTitle: structure of typhoid toxin
27c2jc5A_



not modelled 99.8 19
PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease;
PDBTitle: apurinic apyrimidinic (ap) endonuclease (nape) from neisseria2 meningitidis
28d1akoa_



not modelled 99.8 18
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
29c5ewtA_



not modelled 99.8 17
PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease iii xth;
PDBTitle: crystal structure of exoiii endonuclease from sulfolobus islandicus
30c1e9nB_



not modelled 99.8 15
PDB header:dna repair
Chain: B: PDB Molecule:dna-(apurinic or apyrimidinic site) lyase;
PDBTitle: a second divalent metal ion in the active site of a new crystal form2 of human apurinic/apyrimidinic endonuclease, ape1, and its3 implications for the catalytic mechanism
31c2jc4A_



not modelled 99.8 18
PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease iii;
PDBTitle: 3'-5' exonuclease (nexo) from neisseria meningitidis
32c4f1rA_



not modelled 99.8 15
PDB header:transcription regulator
Chain: A: PDB Molecule:catabolite repression control protein;
PDBTitle: structure analysis of the global metabolic regulator crc from2 pseudomonas aeruginos
33c2xswB_



not modelled 99.8 18
PDB header:hydrolase
Chain: B: PDB Molecule:72 kda inositol polyphosphate 5-phosphatase;
PDBTitle: crystal structure of human inpp5e
34c2voaB_



not modelled 99.8 15
PDB header:lyase
Chain: B: PDB Molecule:exodeoxyribonuclease iii;
PDBTitle: structure of an ap endonuclease from archaeoglobus fulgidus
35d1vyba_



not modelled 99.7 18
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
36c3g0rA_



not modelled 99.7 16
PDB header:hydrolase/dna
Chain: A: PDB Molecule:exodeoxyribonuclease;
PDBTitle: complex of mth0212 and an 8bp dsdna with distorted ends
37c5cfeA_



not modelled 99.7 15
PDB header:hydrolase
Chain: A: PDB Molecule:exodeoxyribonuclease;
PDBTitle: bacillus subtilis ap endonuclease exoa
38d1hd7a_



not modelled 99.7 16
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
39c4cmnA_



not modelled 99.6 17
PDB header:hydrolase
Chain: A: PDB Molecule:inositol polyphosphate 5-phosphatase ocrl-1;
PDBTitle: crystal structure of ocrl in complex with a phosphate ion
40d1wdua_



not modelled 99.5 12
Fold:DNase I-like
Superfamily:DNase I-like
Family:DNase I-like
41c2ei9A_



not modelled 99.5 17
PDB header:gene regulation
Chain: A: PDB Molecule:non-ltr retrotransposon r1bmks orf2 protein;
PDBTitle: crystal structure of r1bm endonuclease domain
42c6ibdA_



not modelled 99.5 21
PDB header:hydrolase
Chain: A: PDB Molecule:phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 1;
PDBTitle: the phosphatase and c2 domains of human ship1
43d1i9za_



not modelled 99.5 18
Fold:DNase I-like
Superfamily:DNase I-like
Family:Inositol polyphosphate 5-phosphatase (IPP5)
44c5okmA_



not modelled 99.5 18
PDB header:hydrolase
Chain: A: PDB Molecule:phosphatidylinositol 3,4,5-trisphosphate 5-phosphatase 2;
PDBTitle: crystal structure of human ship2 phosphatase-c2
45c6a42A_



not modelled 98.5 19
PDB header:dna binding protein
Chain: A: PDB Molecule:rna-directed dna polymerase homolog (r1),polyubiquitin-c;
PDBTitle: r1en(5-223)-ubiquitin fusion
46c2yhgA_



not modelled 82.5 19
PDB header:hydrolase
Chain: A: PDB Molecule:cellulose-binding protein;
PDBTitle: ab initio phasing of a nucleoside hydrolase-related hypothetical2 protein from saccharophagus degradans that is associated with3 carbohydrate metabolism
47c6ihbR_



not modelled 73.9 21
PDB header:virus
Chain: R: PDB Molecule:dyslexia-associated protein kiaa0319-like protein;
PDBTitle: adeno-associated virus 2 in complex with aavr
48c2q8uA_



not modelled 70.4 15
PDB header:hydrolase
Chain: A: PDB Molecule:exonuclease, putative;
PDBTitle: crystal structure of mre11 from thermotoga maritima msb8 (tm1635) at2 2.20 a resolution
49c3av0A_



not modelled 64.7 14
PDB header:recombination
Chain: A: PDB Molecule:dna double-strand break repair protein mre11;
PDBTitle: crystal structure of mre11-rad50 bound to atp s
50c5iryB_



not modelled 62.6 14
PDB header:cell adhesion
Chain: B: PDB Molecule:desmocollin-1;
PDBTitle: crystal structure of human desmocollin-1 ectodomain
51c3ib7A_



not modelled 62.2 18
PDB header:hydrolase
Chain: A: PDB Molecule:icc protein;
PDBTitle: crystal structure of full length rv0805
52c3mbfA_



not modelled 57.2 42
PDB header:lyase
Chain: A: PDB Molecule:fructose-bisphosphate aldolase;
PDBTitle: crystal structure of fructose bisphosphate aldolase from2 encephalitozoon cuniculi, bound to fructose 1,6-bisphosphate
53d2hy1a1



not modelled 55.2 18
Fold:Metallo-dependent phosphatases
Superfamily:Metallo-dependent phosphatases
Family:GpdQ-like
54c2hy1A_



not modelled 55.2 18
PDB header:hydrolase
Chain: A: PDB Molecule:rv0805;
PDBTitle: crystal structure of rv0805
55c5wlyA_



not modelled 54.0 23
PDB header:hydrolase
Chain: A: PDB Molecule:udp-2,3-diacylglucosamine hydrolase;
PDBTitle: e. coli lpxh- 8 mutations
56c5erdB_



not modelled 52.4 16
PDB header:cell adhesion
Chain: B: PDB Molecule:desmoglein-2;
PDBTitle: crystal structure of human desmoglein-2 ectodomain
57d1ozha1



not modelled 52.2 21
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
58d1jifa_



not modelled 47.3 26
Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Family:Antibiotic resistance proteins
59c5d8mA_



not modelled 45.0 13
PDB header:hydrolase
Chain: A: PDB Molecule:metagenomic carboxyl esterase mgs0156;
PDBTitle: crystal structure of the metagenomic carboxyl esterase mgs0156
60c5k8kA_



not modelled 44.9 16
PDB header:hydrolase
Chain: A: PDB Molecule:udp-2,3-diacylglucosamine hydrolase;
PDBTitle: structure of the haemophilus influenzae lpxh-lipid x complex
61c6nvoA_



not modelled 44.7 22
PDB header:dna binding protein
Chain: A: PDB Molecule:nuclease mpe;
PDBTitle: crystal structure of pseudomonas putida nuclease mpe
62c6dnsA_



not modelled 44.3 27
PDB header:hydrolase
Chain: A: PDB Molecule:alpha-1,4-endofucoidanase;
PDBTitle: endo-fucoidan hydrolase mffcna9 from glycoside hydrolase family 107
63c4n04B_



not modelled 43.0 33
PDB header:oxidoreductase
Chain: B: PDB Molecule:glyoxalase/bleomycin resistance protein/dioxygenase;
PDBTitle: the crystal structure of glyoxalase / bleomycin resistance protein2 from catenulispora acidiphila dsm 44928
64c3auzA_



not modelled 40.4 14
PDB header:recombination
Chain: A: PDB Molecule:dna double-strand break repair protein mre11;
PDBTitle: crystal structure of mre11 with manganese
65c3qfnA_



not modelled 40.2 17
PDB header:hydrolase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of streptococcal asymmetric ap4a hydrolase and2 phosphodiesterase spr1479/saph in complex with inorganic phosphate
66c6a4xA_



not modelled 39.1 33
PDB header:biosynthetic protein
Chain: A: PDB Molecule:bleomycin resistance protein;
PDBTitle: oxidase chap-h2
67c4tvvA_



not modelled 38.8 17
PDB header:hydrolase
Chain: A: PDB Molecule:tyrosine phosphatase ii superfamily protein;
PDBTitle: crystal structure of lppa from legionella pneumophila
68c4fcxB_



not modelled 38.8 12
PDB header:hydrolase
Chain: B: PDB Molecule:dna repair protein rad32;
PDBTitle: s.pombe mre11 apoenzym
69c3cf4G_



not modelled 38.5 17
PDB header:oxidoreductase
Chain: G: PDB Molecule:acetyl-coa decarboxylase/synthase epsilon subunit;
PDBTitle: structure of the codh component of the m. barkeri acds complex
70c3kx6C_



not modelled 37.6 47
PDB header:lyase
Chain: C: PDB Molecule:fructose-bisphosphate aldolase;
PDBTitle: crystal structure of fructose-1,6-bisphosphate aldolase from babesia2 bovis at 2.1a resolution
71d1twua_



not modelled 37.0 47
Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Family:Hypothetical protein YycE
72d1zpda1



not modelled 36.6 16
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
73c1l3wA_



not modelled 35.6 15
PDB header:cell adhesion, metal binding protein
Chain: A: PDB Molecule:ep-cadherin;
PDBTitle: c-cadherin ectodomain
74d2ji7a1



not modelled 35.1 26
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
75c4m02A_



not modelled 35.0 20
PDB header:calcium binding protein
Chain: A: PDB Molecule:serine-rich adhesin for platelets;
PDBTitle: middle fragment(residues 494-663) of the binding region of srap
76d2yvta1



not modelled 32.7 9
Fold:Metallo-dependent phosphatases
Superfamily:Metallo-dependent phosphatases
Family:TT1561-like
77d1ii7a_



not modelled 32.7 10
Fold:Metallo-dependent phosphatases
Superfamily:Metallo-dependent phosphatases
Family:DNA double-strand break repair nuclease
78c6a4zA_



not modelled 30.9 31
PDB header:biosynthetic protein
Chain: A: PDB Molecule:chap protein;
PDBTitle: oxidase chap
79c5kinC_



not modelled 30.2 5
PDB header:lyase
Chain: C: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: crystal structure of tryptophan synthase alpha beta complex from2 streptococcus pneumoniae
80c3ff7B_



not modelled 29.6 13
PDB header:cell adhesion/immune system
Chain: B: PDB Molecule:epithelial cadherin;
PDBTitle: structure of nk cell receptor klrg1 bound to e-cadherin
81d1pvda1



not modelled 28.9 8
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
82c4ltyD_



not modelled 28.4 18
PDB header:hydrolase
Chain: D: PDB Molecule:exonuclease subunit sbcd;
PDBTitle: crystal structure of e.coli sbcd at 1.8 a resolution
83c3t1iC_



not modelled 27.8 15
PDB header:hydrolase
Chain: C: PDB Molecule:double-strand break repair protein mre11a;
PDBTitle: crystal structure of human mre11: understanding tumorigenic mutations
84c4k6lC_



not modelled 27.5 14
PDB header:toxin
Chain: C: PDB Molecule:putative pertussis-like toxin subunit;
PDBTitle: structure of typhoid toxin
85c2yopB_



not modelled 25.8 12
PDB header:apoptosis
Chain: B: PDB Molecule:protein fam3b;
PDBTitle: long wavelength s-sad structure of fam3b pander
86d2ihta1



not modelled 25.4 23
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
87c5svan_



not modelled 25.3 32
PDB header:transcription, transferase/dna
Chain: N: PDB Molecule:mediator of rna polymerase ii transcription subunit 8;
PDBTitle: mediator-rna polymerase ii pre-initiation complex
88d1ovma1



not modelled 24.8 11
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
89c4ykeA_



not modelled 23.9 10
PDB header:hydrolase
Chain: A: PDB Molecule:mre11;
PDBTitle: crystal structure of eukaryotic mre11 catalytic domain from chaetomium2 thermophilum
90d1a5ca_



not modelled 23.4 75
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
91c4fbkB_



not modelled 23.0 12
PDB header:hydrolase, protein binding
Chain: B: PDB Molecule:dna repair and telomere maintenance protein nbs1,dna repair
PDBTitle: crystal structure of a covalently fused nbs1-mre11 complex with one2 manganese ion per active site
92c2zw7A_



not modelled 22.5 28
PDB header:transferase
Chain: A: PDB Molecule:bleomycin acetyltransferase;
PDBTitle: crystal structure of bleomycin n-acetyltransferase complexed2 with bleomycin a2 and coenzyme a
93d1zaia1



not modelled 22.5 75
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
94d1qo5b_



not modelled 22.4 88
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
95d1fdja_



not modelled 22.4 88
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
96d2qapa1



not modelled 21.8 75
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
97c2qapC_



not modelled 21.7 75
PDB header:lyase
Chain: C: PDB Molecule:fructose-1,6-bisphosphate aldolase;
PDBTitle: fructose-1,6-bisphosphate aldolase from leishmania mexicana
98d1fbaa_



not modelled 21.4 50
Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
99c3qg5D_



not modelled 21.2 16
PDB header:hydrolase
Chain: D: PDB Molecule:mre11;
PDBTitle: the mre11:rad50 complex forms an atp dependent molecular clamp in dna2 double-strand break repair
100c5b4bB_



not modelled 21.1 16
PDB header:hydrolase
Chain: B: PDB Molecule:udp-2,3-diacylglucosamine hydrolase;
PDBTitle: crystal structure of lpxh with lipid x in spacegroup c2
101d1t9ba1



not modelled 20.4 21
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
102d3d03a1



not modelled 20.2 19
Fold:Metallo-dependent phosphatases
Superfamily:Metallo-dependent phosphatases
Family:GpdQ-like
103c2iqtA_



not modelled 20.1 75
PDB header:lyase
Chain: A: PDB Molecule:fructose-bisphosphate aldolase class 1;
PDBTitle: crystal structure of fructose-bisphosphate aldolase, class i from2 porphyromonas gingivalis

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