Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0192_(-)_223562_224662
DateTue Jul 23 14:50:24 BST 2019
Unique Job IDee20a6df742d30d2
SequenceMPHWAEERHR ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:52.840 Y:45.849 Z:49.447
Model (left) based on template c3u1qB_
Top template information
PDB header:peptidoglycan binding protein
Chain: B: PDB Molecule:mycobacteria tuberculosis ld-transpeptidase type 2;
PDBTitle: crystal structure of m. tuberculosis ld-transpeptidase type 2 with 2-2 mercaptoethanol
Confidence and coverage
Confidence:100.0% Coverage: 63%
231 residues ( 63% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
330 residues ( 90%) 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.
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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
1c3u1qB_
100.0 49
PDB header:peptidoglycan binding protein
Chain: B: PDB Molecule:mycobacteria tuberculosis ld-transpeptidase type 2;
PDBTitle: crystal structure of m. tuberculosis ld-transpeptidase type 2 with 2-2 mercaptoethanol
2c3vynB_
100.0 49
PDB header:transferase
Chain: B: PDB Molecule:probable conserved lipoprotein lpps;
PDBTitle: crystal structure of mycobacterium tuberculosis l,d-transpeptidase2 ldtmt2 n55 truncation mutant (resideus 55-408)
3c4z7aA_
100.0 30
PDB header:transferase
Chain: A: PDB Molecule:mycobacterium tuberculosis (3,3)l,d-transpeptidase type 5;
PDBTitle: structural and biochemical characterization of a non-functionally2 redundant m. tuberculosis (3,3) l,d-transpeptidase, ldtmt5.
4c4xvoB_
100.0 44
PDB header:transferase
Chain: B: PDB Molecule:l,d-transpeptidase;
PDBTitle: l,d-transpeptidase from mycobacterium smegmatis
5c4jmxA_
100.0 45
PDB header:transferase/transferase inhibitor
Chain: A: PDB Molecule:probable l,d-transpeptidase ldta;
PDBTitle: structure of ld transpeptidase ldtmt1 in complex with imipenem
6c4k73A_
100.0 44
PDB header:transferase
Chain: A: PDB Molecule:l,d-transpeptidase;
PDBTitle: x-ray crystal structure of an l,d-transpeptidase from mycobacterium2 tuberculosis h37rv
7c2hklB_
100.0 23
PDB header:transferase
Chain: B: PDB Molecule:l,d-transpeptidase;
PDBTitle: crystal structure of enterococcus faecium l,d-2 transpeptidase c442s mutant
8c5bmqA_
100.0 20
PDB header:hydrolase
Chain: A: PDB Molecule:erfk/ybis/ycfs/ynhg family protein;
PDBTitle: crystal structure of l,d-transpeptidase (yku) from stackebrandtia2 nassauensis
9d1zata1
99.9 27
Fold:L,D-transpeptidase catalytic domain-like
Superfamily:L,D-transpeptidase catalytic domain-like
Family:L,D-transpeptidase catalytic domain-like
10c1y7mB_
99.9 17
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein bsu14040;
PDBTitle: crystal structure of the b. subtilis ykud protein at 2 a2 resolution
11c4lzhA_
99.9 17
PDB header:transferase
Chain: A: PDB Molecule:l,d-transpeptidase;
PDBTitle: l,d-transpeptidase from klebsiella pneumoniae
12d1y7ma1
99.9 18
Fold:L,D-transpeptidase catalytic domain-like
Superfamily:L,D-transpeptidase catalytic domain-like
Family:L,D-transpeptidase catalytic domain-like
13c4lpqA_
99.8 18
PDB header:transferase
Chain: A: PDB Molecule:erfk/ybis/ycfs/ynhg family protein;
PDBTitle: crystal structure of the l,d-transpeptidase (residues 123-326) from2 xylanimonas cellulosilytica dsm 15894
14c4y4vB_
99.8 16
PDB header:hydrolase
Chain: B: PDB Molecule:conserved hypothetical secreted protein;
PDBTitle: structure of helicobacter pylori csd6 in the d-ala-bound state
15c4xxtA_
99.8 22
PDB header:hydrolase
Chain: A: PDB Molecule:fusion of predicted zn-dependent amidase/peptidase (cell
PDBTitle: crystal structure of fused zn-dependent2 amidase/peptidase/peptodoglycan-binding domain-containing protein3 from clostridium acetobutylicum atcc 824
16c4hu2A_
99.8 42
PDB header:unknown function
Chain: A: PDB Molecule:probable conserved lipoprotein lpps;
PDBTitle: crystal structure of ldtmt2, a l,d-transpeptidase from mycobacterium2 tuberculosis: domain a and b
17c6ntwA_
99.2 13
PDB header:transferase/transferase inhibitor
Chain: A: PDB Molecule:probable l,d-transpeptidase ycbb;
PDBTitle: crystal structure of e. coli ycbb
18c3pe9D_
64.7 12
PDB header:unknown function
Chain: D: PDB Molecule:fibronectin(iii)-like module;
PDBTitle: structures of clostridium thermocellum cbha fibronectin(iii)-like2 modules
19d3btaa1
58.3 22
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Clostridium neurotoxins, the second last domain
20c4p9lA_
54.7 24
PDB header:transport protein
Chain: A: PDB Molecule:ryanodine receptor 2;
PDBTitle: crystal structure of mouse ryanodine receptor 2 spry2 domain (1080-2 1253) disease mutant a1107m
21c3c12A_
not modelled 54.5 27
PDB header:biosynthetic protein
Chain: A: PDB Molecule:flagellar protein;
PDBTitle: crystal structure of flgd from xanthomonas campestris:2 insights into the hook capping essential for flagellar3 assembly
22d1b09a_
not modelled 45.9 8
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Pentraxin (pentaxin)
23d1uw6a_
not modelled 42.9 9
Fold:Nicotinic receptor ligand binding domain-like
Superfamily:Nicotinic receptor ligand binding domain-like
Family:Nicotinic receptor ligand binding domain-like
24c4obiA_
not modelled 42.8 26
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a duf1312 family protein (ef3258) from2 enterococcus faecalis v583 at 1.73 a resolution
25d1a8da1
not modelled 39.2 15
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Clostridium neurotoxins, the second last domain
26d1cz5a1
not modelled 39.1 14
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
27c6er3B_
not modelled 39.0 14
PDB header:sugar binding protein
Chain: B: PDB Molecule:bnr/asp-box repeat protein;
PDBTitle: ruminococcus gnavus it-sialidase cbm40 bound to alpha2,3 sialyllactose
28c1y5iA_
not modelled 38.5 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:respiratory nitrate reductase 1 alpha chain;
PDBTitle: the crystal structure of the narghi mutant nari-k86a
29d2slia1
not modelled 38.3 16
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Leech intramolecular trans-sialidase, N-terminal domain
30d1wjja_
not modelled 37.6 32
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
31c3flpJ_
not modelled 36.6 17
PDB header:sugar binding protein
Chain: J: PDB Molecule:sap-like pentraxin;
PDBTitle: crystal structure of native heptameric sap-like pentraxin2 from limulus polyphemus
32c2vu9A_
not modelled 36.5 22
PDB header:hydrolase
Chain: A: PDB Molecule:botulinum neurotoxin a heavy chain;
PDBTitle: crystal structure of botulinum neurotoxin serotype a2 binding domain in complex with gt1b
33c3pe9B_
not modelled 35.9 12
PDB header:unknown function
Chain: B: PDB Molecule:fibronectin(iii)-like module;
PDBTitle: structures of clostridium thermocellum cbha fibronectin(iii)-like2 modules
34c1h5nC_
not modelled 35.3 19
PDB header:oxidoreductase
Chain: C: PDB Molecule:dmso reductase;
PDBTitle: dmso reductase modified by the presence of dms and air
35c4nl6C_
not modelled 34.7 19
PDB header:splicing
Chain: C: PDB Molecule:survival motor neuron protein;
PDBTitle: structure of the full-length form of the protein smn found in healthy2 patients
36d2afja1
not modelled 34.0 10
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:SPRY domain
37c2vw9B_
not modelled 33.8 15
PDB header:dna-binding protein
Chain: B: PDB Molecule:single-stranded dna binding protein;
PDBTitle: single stranded dna binding protein complex from2 helicobacter pylori
38c2lojA_
not modelled 33.0 10
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative cytoplasmic protein;
PDBTitle: solution nmr structure of tstm1273 from salmonella typhimurium lt2,2 nesg target stt322, csgid target idp01027 and ocsp target tstm1273
39c4zzkA_
not modelled 32.7 23
PDB header:motor protein
Chain: A: PDB Molecule:basal-body rod modification protein flgd;
PDBTitle: crystal structure of truncated flgd (monoclinic form) from the human2 pathogen helicobacter pylori
40c2jraB_
not modelled 32.7 17
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein rpa2121;
PDBTitle: a novel domain-swapped solution nmr structure of protein rpa2121 from2 rhodopseudomonas palustris. northeast structural genomics target rpt6
41d1ogya1
not modelled 32.3 21
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
42c2sliA_
not modelled 31.9 26
PDB header:hydrolase
Chain: A: PDB Molecule:intramolecular trans-sialidase;
PDBTitle: leech intramolecular trans-sialidase complexed with 2,7-2 anhydro-neu5ac, the reaction product
43d2r31a1
not modelled 31.8 23
Fold:ATP12-like
Superfamily:ATP12-like
Family:ATP12-like
44c3n7mA_
not modelled 30.8 22
PDB header:toxin
Chain: A: PDB Molecule:neurotoxin;
PDBTitle: crystal structure of w1252a mutant of hcr d/c vpi 5995
45c1eqqD_
not modelled 30.5 15
PDB header:replication/rna
Chain: D: PDB Molecule:single stranded dna binding protein;
PDBTitle: single stranded dna binding protein and ssdna complex
46c4qt6A_
not modelled 29.8 27
PDB header:transport protein
Chain: A: PDB Molecule:probable e3 ubiquitin-protein ligase herc1;
PDBTitle: crystal structure of the spry domain of human herc1
47c4dqaA_
not modelled 29.7 21
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a putative carbohydrate binding protein2 (bacova_03559) from bacteroides ovatus atcc 8483 at 1.50 a resolution
48c5kxiA_
not modelled 29.1 25
PDB header:transport protein
Chain: A: PDB Molecule:neuronal acetylcholine receptor subunit alpha-4;
PDBTitle: x-ray structure of the human alpha4beta2 nicotinic receptor
49d1saca_
not modelled 28.7 8
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Pentraxin (pentaxin)
50c6fvqE_
not modelled 28.5 10
PDB header:membrane protein
Chain: E: PDB Molecule:cys-loop ligand-gated ion channel;
PDBTitle: the active form of a pentameric ion channel (stelic) gated by alkaline2 ph - r86a
51c6hoxA_
not modelled 28.4 11
PDB header:toxin
Chain: A: PDB Molecule:binding domain (hc) of paraclostridial mosquitocidal
PDBTitle: crystal structure of the binding domain of paraclostridial2 mosquitocidal protein 1
52c5xgtA_
not modelled 26.9 16
PDB header:dna binding protein
Chain: A: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: crystal structure of the n-terminal domain of staphylococcus aureus2 single-stranded dna-binding protein ssba at 1.82 angstrom resolution
53c3sq9D_
not modelled 26.0 10
PDB header:transport protein/receptor
Chain: D: PDB Molecule:neuronal acetylcholine receptor subunit alpha-7,
PDBTitle: crystal structures of the ligand binding domain of a pentameric alpha72 nicotinic receptor chimera
54c2vxrA_
not modelled 25.8 19
PDB header:toxin
Chain: A: PDB Molecule:botulinum neurotoxin type g;
PDBTitle: crystal structure of the botulinum neurotoxin serotype g2 binding domain
55d2piaa1
not modelled 25.6 35
Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin synthase domain-like
Family:Ferredoxin reductase FAD-binding domain-like
56c3osvC_
not modelled 25.4 29
PDB header:structural protein
Chain: C: PDB Molecule:flagellar basal-body rod modification protein flgd;
PDBTitle: the crytsal structure of flgd from p. aeruginosa
57c5gqoB_
not modelled 25.4 32
PDB header:dna binding protein
Chain: B: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: structure of the second single stranded dna binding protein (ssbb)2 from mycobacterium smegmatis
58d1f00i2
not modelled 25.0 23
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Invasin/intimin cell-adhesion fragments
Family:Invasin/intimin cell-adhesion fragments
59c3lgjA_
not modelled 25.0 21
PDB header:dna binding protein
Chain: A: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: crystal structure of single-stranded binding protein (ssb) from2 bartonella henselae
60c5jiaH_
not modelled 24.9 23
PDB header:ran-binding protein
Chain: H: PDB Molecule:ran-binding protein 10;
PDBTitle: the crystal structure of ius-spry domain from ranbp10
61c5ch7E_
not modelled 24.6 18
PDB header:oxidoreductase
Chain: E: PDB Molecule:dmso reductase family type ii enzyme, molybdopterin
PDBTitle: crystal structure of the perchlorate reductase pcrab - phe164 gate2 switch intermediate - from azospira suillum ps
62c6rteB_
not modelled 24.3 24
PDB header:oxidoreductase
Chain: B: PDB Molecule:cytochrome c;
PDBTitle: dihydro-heme d1 dehydrogenase nirn in complex with dhe
63c1z9fA_
not modelled 23.6 20
PDB header:dna binding protein
Chain: A: PDB Molecule:single-strand binding protein;
PDBTitle: crystal structure of single stranded dna-binding protein (tm0604) from2 thermotoga maritima at 2.60 a resolution
64d1lkta_
not modelled 23.5 32
Fold:Head-binding domain of phage P22 tailspike protein
Superfamily:Head-binding domain of phage P22 tailspike protein
Family:Head-binding domain of phage P22 tailspike protein
65d1y5ia1
not modelled 22.5 22
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
66c4p9jC_
not modelled 22.2 22
PDB header:transport protein
Chain: C: PDB Molecule:ryanodine receptor 1;
PDBTitle: crystal structure of rabbit ryanodine receptor 1 spry2 domain (1070-2 1246)
67c5odnG_
not modelled 22.1 8
PDB header:dna binding protein
Chain: G: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: salinibacter ruber single-strand binding protein
68c1cz5A_
not modelled 21.9 14
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)
69c3oggA_
not modelled 21.9 15
PDB header:toxin
Chain: A: PDB Molecule:botulinum neurotoxin type d;
PDBTitle: crystal structure of the receptor binding domain of botulinum2 neurotoxin d
70c3fuqA_
not modelled 21.5 19
PDB header:toxin
Chain: A: PDB Molecule:bont/f (neurotoxin type f);
PDBTitle: glycosylated sv2 and gangliosides as dual receptors for2 botulinum neurotoxin serotype f
71c3pgzB_
not modelled 20.7 10
PDB header:dna binding protein
Chain: B: PDB Molecule:single-stranded dna-binding protein;
PDBTitle: crystal structure of a single strand binding protein (ssb) from2 bartonella henselae
72d3ulla_
not modelled 20.1 16
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
73d2iv2x1
not modelled 19.7 17
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
74c2bg9A_
not modelled 19.5 22
PDB header:ion channel/receptor
Chain: A: PDB Molecule:acetylcholine receptor protein, alpha chain;
PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution.
75c4aq5A_
not modelled 19.5 22
PDB header:membrane protein
Chain: A: PDB Molecule:acetylcholine receptor subunit alpha;
PDBTitle: gating movement in acetylcholine receptor analysed by time-resolved2 electron cryo-microscopy (closed class)
76c1dfcB_
not modelled 19.4 9
PDB header:structural protein
Chain: B: PDB Molecule:fascin;
PDBTitle: crystal structure of human fascin, an actin-crosslinking protein
77d1qvca_
not modelled 19.2 16
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
78c1qvcA_
not modelled 19.2 16
PDB header:dna binding protein
Chain: A: PDB Molecule:single stranded dna binding protein monomer;
PDBTitle: crystal structure analysis of single stranded dna binding protein2 (ssb) from e.coli
79d1eyga_
not modelled 19.1 16
Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Single strand DNA-binding domain, SSB
80d2in5a1
not modelled 19.0 29
Fold:YmcC-like
Superfamily:YmcC-like
Family:YmcC-like
81d2fnja1
not modelled 19.0 10
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:SPRY domain
82d2fb5a1
not modelled 19.0 22
Fold:YojJ-like
Superfamily:YojJ-like
Family:YojJ-like
83c5fraD_
not modelled 18.6 23
PDB header:sugar binding protein
Chain: D: PDB Molecule:sialidase;
PDBTitle: cbm40_cpf0721-6'sl
84c5c33B_
not modelled 17.9 14
PDB header:contractile protein
Chain: B: PDB Molecule:ryanodine receptor 2;
PDBTitle: crystal structure of mouse ryanodine receptor 2 spry1 domain
85c2bg9B_
not modelled 17.9 11
PDB header:ion channel/receptor
Chain: B: PDB Molecule:acetylcholine receptor protein, beta chain;
PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution.
86d1ccza2
not modelled 17.7 8
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Immunoglobulin
Family:C2 set domains
87d1epwa1
not modelled 17.7 15
Fold:Concanavalin A-like lectins/glucanases
Superfamily:Concanavalin A-like lectins/glucanases
Family:Clostridium neurotoxins, the second last domain
88c1ue7A_
not modelled 17.2 20
PDB header:dna binding protein
Chain: A: PDB Molecule:single-strand binding protein;
PDBTitle: crystal structure of the single-stranded dna-binding2 protein from mycobacterium tuberculosis
89c2vkyB_
not modelled 17.0 32
PDB header:viral protein
Chain: B: PDB Molecule:tail protein, piigcn4;
PDBTitle: headbinding domain of phage p22 tailspike c-terminally fused to2 isoleucine zipper piigcn4 (chimera i)
90c2g8yB_
not modelled 16.9 12
PDB header:oxidoreductase
Chain: B: PDB Molecule:malate/l-lactate dehydrogenases;
PDBTitle: the structure of a putative malate/lactate dehydrogenase from e. coli.
91c2kppA_
not modelled 16.8 23
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin0431 protein;
PDBTitle: solution nmr structure of lin0431 protein from listeria innocua.2 northeast structural genomics consortium target lkr112
92c5t5iL_
not modelled 16.7 28
PDB header:oxidoreductase
Chain: L: PDB Molecule:tungsten formylmethanofuran dehydrogenase subunit fwdd;
PDBTitle: tungsten-containing formylmethanofuran dehydrogenase from2 methanothermobacter wolfeii, orthorhombic form at 1.9 a
93d2jioa1
not modelled 16.7 16
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
94d1h0ha1
not modelled 16.5 19
Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
95c4owtB_
not modelled 16.4 22
PDB header:dna binding protein
Chain: B: PDB Molecule:soss complex subunit b1;
PDBTitle: structural basis of soss1 complex assembly
96c6hinA_
not modelled 16.3 13
PDB header:membrane protein
Chain: A: PDB Molecule:5-hydroxytryptamine receptor 3a;
PDBTitle: mouse serotonin 5-ht3 receptor, serotonin-bound, f conformation
97c1mp9B_
not modelled 16.2 24
PDB header:dna binding protein
Chain: B: PDB Molecule:tata-binding protein;
PDBTitle: tbp from a mesothermophilic archaeon, sulfolobus acidocaldarius
98c2v73B_
not modelled 16.0 14
PDB header:sugar-binding protein
Chain: B: PDB Molecule:putative exo-alpha-sialidase;
PDBTitle: the structure of the family 40 cbm from c. perfringens nanj2 in complex with a sialic acid containing molecule
99c3eivB_
not modelled 15.8 15
PDB header:dna binding protein
Chain: B: PDB Molecule:single-stranded dna-binding protein 2;
PDBTitle: crystal structure of single-stranded dna-binding protein2 from streptomyces coelicolor

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