Phyre Home Retrieve Phyre Job Id
Emailhurlbertj@winthrop.edu
DescriptionASR85483.1_membrane_protein_[Mycobacterium_phage_Cain]
DateMon Jun 7 16:50:03 BST 2021
Unique Job IDd378a2000e860cdb
SequenceMSTHKTPRES ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:27.320 Y:19.883 Z:32.355
Model (left) based on template d1k78a1
Top template information
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
Confidence and coverage
Confidence: 92.2% Coverage: 13%
36 residues ( 13% of your sequence) have been modelled with 92.2% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
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
1d1k78a1
92.2 36
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
2d6paxa1
92.0 39
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
3d1mkma1
75.5 15
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Transcriptional regulator IclR, N-terminal domain
4c6paxA_
68.0 28
PDB header:gene regulation/dna
Chain: A: PDB Molecule:homeobox protein pax-6;
PDBTitle: crystal structure of the human pax-6 paired domain-dna2 complex reveals a general model for pax protein-dna3 interactions
5d1pdnc_
67.3 28
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Paired domain
6c5whmB_
60.1 17
PDB header:transcription
Chain: B: PDB Molecule:iclr family transcriptional regulator;
PDBTitle: crystal structure of iclr family transcriptional regulator from2 brucella abortus
7c2k27A_
59.7 26
PDB header:transcription regulator
Chain: A: PDB Molecule:paired box protein pax-8;
PDBTitle: solution structure of human pax8 paired box domain
8c4i7hA_
53.2 16
PDB header:transcription
Chain: A: PDB Molecule:peroxide stress sensing regulator;
PDBTitle: structural basis for peroxide sensing and gene regulation by perr from2 streptococcus pyogenes
9d1hlva1
50.3 24
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Centromere-binding
10c2r0qF_
48.9 30
PDB header:recombination/dna
Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3;
PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex
11c2fe3B_
45.6 21
PDB header:dna binding protein
Chain: B: PDB Molecule:peroxide operon regulator;
PDBTitle: the crystal structure of bacillus subtilis perr-zn reveals a novel2 zn(cys)4 structural redox switch
12c4m6fA_
44.3 20
PDB header:hydrolase/dna
Chain: A: PDB Molecule:dna-invertase;
PDBTitle: dimer of the g-segment invertase bound to a dna substrate
13c3fm5D_
39.3 20
PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator;
PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1
14c3mwmA_
36.5 33
PDB header:transcription
Chain: A: PDB Molecule:putative metal uptake regulation protein;
PDBTitle: graded expression of zinc-responsive genes through two regulatory2 zinc-binding sites in zur
15c2o03A_
36.5 23
PDB header:gene regulation
Chain: A: PDB Molecule:probable zinc uptake regulation protein furb;
PDBTitle: crystal structure of furb from m. tuberculosis- a zinc uptake2 regulator
16c1u78A_
35.9 15
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:transposable element tc3 transposase;
PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna
17c5fd6A_
34.7 21
PDB header:transcription
Chain: A: PDB Molecule:ferric uptake regulation protein;
PDBTitle: zinc-bound manganese uptake regulator
18c2elhA_
33.4 17
PDB header:dna binding protein
Chain: A: PDB Molecule:cg11849-pa;
PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa
19c4fhtA_
33.0 14
PDB header:transcription
Chain: A: PDB Molecule:pcav transcriptional regulator;
PDBTitle: crystal structure of the pcav transcriptional regulator from2 streptomyces coelicolor in complex with its natural ligand
20d2fbha1
31.3 30
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
21c2xigA_
not modelled 31.3 28
PDB header:transcription
Chain: A: PDB Molecule:ferric uptake regulation protein;
PDBTitle: the structure of the helicobacter pylori ferric uptake2 regulator fur reveals three functional metal binding sites
22c5nl9B_
not modelled 30.1 11
PDB header:dna binding protein
Chain: B: PDB Molecule:transcriptional regulator (fur family);
PDBTitle: crystal structure of a peroxide stress regulator from leptospira2 interrogans
23c3j20Q_
not modelled 30.1 29
PDB header:ribosome
Chain: Q: PDB Molecule:30s ribosomal protein s15p/s13e;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (30s3 ribosomal subunit)
24c4razB_
not modelled 28.1 26
PDB header:metal binding protein
Chain: B: PDB Molecule:dna-binding transcriptional dual regulator of siderophore
PDBTitle: crystal structure of magnetospirillum gryphiswaldense msr-1 holo-fur
25c5z7iC_
not modelled 28.1 28
PDB header:dna binding protein/dna
Chain: C: PDB Molecule:cell cycle regulatory protein gcra;
PDBTitle: caulobacter crescentus gcra dna-binding domain(dbd)in complex with2 unmethylated dsdna
26c4mtdA_
not modelled 27.1 23
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:zinc uptake regulation protein;
PDBTitle: zinc uptake regulator complexed with zinc and dna
27d1uxca_
not modelled 25.4 21
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
28c4hblA_
not modelled 25.3 17
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of abfr of staphylococcus epidermidis
29c3deuB_
not modelled 25.2 18
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator slya;
PDBTitle: crystal structure of transcription regulatory protein slya from2 salmonella typhimurium in complex with salicylate ligands
30c6gh5M_
not modelled 24.4 21
PDB header:transcription
Chain: M: PDB Molecule:rna polymerase sigma-54 factor,rna polymerase sigma-54
PDBTitle: cryo-em structure of bacterial rna polymerase-sigma54 holoenzyme2 transcription open complex
31c2fu4B_
not modelled 24.0 26
PDB header:dna binding protein
Chain: B: PDB Molecule:ferric uptake regulation protein;
PDBTitle: crystal structure of the dna binding domain of e.coli fur (ferric2 uptake regulator)
32d1r71a_
not modelled 23.8 13
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:KorB DNA-binding domain-like
Family:KorB DNA-binding domain-like
33c2fa5B_
not modelled 22.7 21
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator marr/emrr family;
PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris
34c5w1eA_
not modelled 22.5 19
PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator;
PDBTitle: pobr in complex with phb
35c6u0iC_
not modelled 22.2 20
PDB header:antitoxin
Chain: C: PDB Molecule:antitoxin hicb;
PDBTitle: putative antitoxin hicb3 from escherichia coli str. k-12 substr. dh10b
36c1r71B_
not modelled 21.9 16
PDB header:transcription/dna
Chain: B: PDB Molecule:transcriptional repressor protein korb;
PDBTitle: crystal structure of the dna binding domain of korb in complex with2 the operator dna
37c5byhM_
not modelled 21.1 21
PDB header:transferase
Chain: M: PDB Molecule:rna polymerase sigma-54 factor;
PDBTitle: crystal structure of escherichia coli rna polymerase - sigma542 holoenzyme complex
38d2ve8a1
not modelled 20.7 32
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FtsK C-terminal domain-like
39c5ui5I_
not modelled 20.1 17
PDB header:transcription/dna
Chain: I: PDB Molecule:rna polymerase sigma factor rpon;
PDBTitle: crystal structure of aquifex aeolicus sigman bound to promoter dna
40d2bv6a1
not modelled 19.9 16
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
41c2qwwB_
not modelled 19.7 15
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of multiple antibiotic-resistance repressor (marr)2 (yp_013417.1) from listeria monocytogenes 4b f2365 at 2.07 a3 resolution
42c2gm4B_
not modelled 19.5 26
PDB header:recombination, dna
Chain: B: PDB Molecule:transposon gamma-delta resolvase;
PDBTitle: an activated, tetrameric gamma-delta resolvase: hin chimaera bound to2 cleaved dna
43c3tgnA_
not modelled 19.4 24
PDB header:transcription
Chain: A: PDB Molecule:adc operon repressor adcr;
PDBTitle: crystal structure of the zinc-dependent marr family transcriptional2 regulator adcr in the zn(ii)-bound state
44c4yifE_
not modelled 19.3 16
PDB header:dna binding protein
Chain: E: PDB Molecule:marr family protein rv0880;
PDBTitle: crystal structure of rv0880
45d3deua1
not modelled 18.1 18
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
46c3bj6B_
not modelled 17.8 24
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
47d1z91a1
not modelled 17.8 18
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
48d2j5pa1
not modelled 17.7 29
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FtsK C-terminal domain-like
49d1mzba_
not modelled 17.3 27
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FUR-like
50d2hr3a1
not modelled 17.0 15
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
51c6pcpA_
not modelled 16.0 13
PDB header:dna binding protein
Chain: A: PDB Molecule:marr family transcriptional regulator;
PDBTitle: mechanism for regulation of dna binding of bordetella bronchiseptica2 bpsr by 6-hydroxynicotinic acid
52d2hsga1
not modelled 15.8 25
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
53c3pvpA_
not modelled 15.7 16
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:chromosomal replication initiator protein dnaa;
PDBTitle: structure of mycobacterium tuberculosis dnaa-dbd in complex with box22 dna
54d1lcda_
not modelled 15.6 38
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
55c4hrvB_
not modelled 15.2 19
PDB header:lipid binding protein
Chain: B: PDB Molecule:putative lipoprotein gna1162;
PDBTitle: crystal structure of lipoprotein gna1162 from neisseria meningitidis
56d1gdta1
not modelled 15.1 23
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Recombinase DNA-binding domain
57c5nwtM_
not modelled 15.1 21
PDB header:transferase
Chain: M: PDB Molecule:rna polymerase sigma-54 factor,rna polymerase sigma-54
PDBTitle: crystal structure of escherichia coli rna polymerase - sigma542 holoenzyme complex
58c3izbO_
not modelled 14.8 22
PDB header:ribosome
Chain: O: PDB Molecule:40s ribosomal protein rps13 (s15p);
PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
59c3s2wB_
not modelled 14.8 15
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1
60c2x4hA_
not modelled 14.5 18
PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
61c2l8nA_
not modelled 14.2 28
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional repressor cytr;
PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna
62c2lcvA_
not modelled 13.8 28
PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional repressor cytr;
PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation
63d1uxda_
not modelled 13.7 21
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
64c4a5pC_
not modelled 13.4 18
PDB header:protein transport
Chain: C: PDB Molecule:protein mxia;
PDBTitle: structure of the shigella flexneri mxia protein
65d1l8qa1
not modelled 13.3 26
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:TrpR-like
Family:Chromosomal replication initiation factor DnaA C-terminal domain IV
66c2nnnB_
not modelled 13.3 15
PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
67c5zc2B_
not modelled 12.8 10
PDB header:flavoprotein
Chain: B: PDB Molecule:p-hydroxyphenylacetate 3-hydroxylase, reductase component;
PDBTitle: acinetobacter baumannii p-hydroxyphenylacetate 3-hydroxylase (hpah),2 reductase component (c1)
68c2pexA_
not modelled 12.1 23
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator ohrr;
PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris
69c3eyyA_
not modelled 12.0 26
PDB header:transport
Chain: A: PDB Molecule:putative iron uptake regulatory protein;
PDBTitle: structural basis for the specialization of nur, a nickel-2 specific fur homologue, in metal sensing and dna3 recognition
70c3nrvC_
not modelled 11.9 18
PDB header:transcription regulator
Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family);
PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1
71d1qpza1
not modelled 11.9 21
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
72c3e6mD_
not modelled 11.8 14
PDB header:transcription regulator
Chain: D: PDB Molecule:marr family transcriptional regulator;
PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss.
73c5jlsA_
not modelled 11.8 8
PDB header:transcription
Chain: A: PDB Molecule:adhesin competence repressor;
PDBTitle: crystal structure of adhesin competence repressor (adcr) from2 streptococcus pyogenes (c-terminally his tagged)
74c4etsB_
not modelled 11.6 26
PDB header:metal binding protein
Chain: B: PDB Molecule:ferric uptake regulation protein;
PDBTitle: crystal structure of campylobacter jejuni ferric uptake regulator
75d2bjca1
not modelled 11.6 21
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
76c2krfB_
not modelled 11.6 21
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulatory protein coma;
PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a
77c4q77B_
not modelled 11.6 11
PDB header:dna binding protein
Chain: B: PDB Molecule:hth-type transcriptional regulator rot;
PDBTitle: crystal structure of rot, a global regulator of virulence genes in2 staphylococcus aureus
78d1j1va_
not modelled 11.3 19
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:TrpR-like
Family:Chromosomal replication initiation factor DnaA C-terminal domain IV
79c6nbhP_
not modelled 10.9 29
PDB header:signaling protein
Chain: P: PDB Molecule:long-acting parathyroid hormone analog;
PDBTitle: cryo-em structure of parathyroid hormone receptor type 1 in complex2 with a long-acting parathyroid hormone analog and g protein
80d1hsja1
not modelled 10.6 8
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
81c2l0eA_
not modelled 10.4 30
PDB header:membrane protein
Chain: A: PDB Molecule:sodium/hydrogen exchanger 1;
PDBTitle: structural and functional analysis of tm vi of the nhe1 isoform of the2 na+/h+ exchanger
82c2rnjA_
not modelled 10.3 16
PDB header:transcription
Chain: A: PDB Molecule:response regulator protein vrar;
PDBTitle: nmr structure of the s. aureus vrar dna binding domain
83d1p4xa2
not modelled 10.2 10
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
84c3zeyG_
not modelled 10.2 27
PDB header:ribosome
Chain: G: PDB Molecule:40s ribosomal protein s13, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
85c4nb5D_
not modelled 10.2 14
PDB header:dna binding protein
Chain: D: PDB Molecule:dna binding protein;
PDBTitle: crystal structure of a transcriptional regulator
86c2w57A_
not modelled 9.9 30
PDB header:metal transport
Chain: A: PDB Molecule:ferric uptake regulation protein;
PDBTitle: crystal structure of the vibrio cholerae ferric uptake2 regulator (fur) reveals structural rearrangement of the3 dna-binding domains
87c5eriA_
not modelled 9.8 13
PDB header:transcription
Chain: A: PDB Molecule:marr family transcriptional regulator;
PDBTitle: marr protein from peptoclostridium difficile da00132
88d1efaa1
not modelled 9.4 25
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:GalR/LacI-like bacterial regulator
89d2a61a1
not modelled 9.3 18
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
90c4lu2A_
not modelled 9.1 39
PDB header:odorant-binding protein
Chain: A: PDB Molecule:10.7 kda salivary protein;
PDBTitle: structure of ljm19
91d1sfxa_
not modelled 9.1 26
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:TrmB-like
92c5muuI_
not modelled 9.0 23
PDB header:virus
Chain: I: PDB Molecule:major outer capsid protein;
PDBTitle: dsrna bacteriophage phi6 nucleocapsid
93c2zi0B_
not modelled 8.9 31
PDB header:gene regulation/rna
Chain: B: PDB Molecule:protein 2b;
PDBTitle: crystal structure of tav2b/sirna complex
94c2rdpA_
not modelled 8.7 18
PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
95c6jqsA_
not modelled 8.7 13
PDB header:dna binding protein
Chain: A: PDB Molecule:dna-binding response regulator;
PDBTitle: structure of transcription factor, gere
96c3boqB_
not modelled 8.5 17
PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi
97c3cz3B_
not modelled 8.5 31
PDB header:viral protein/rna
Chain: B: PDB Molecule:protein 2b;
PDBTitle: crystal structure of tomato aspermy virus 2b in complex with sirna
98d2bmfa1
not modelled 8.4 24
Fold:P-loop containing nucleoside triphosphate hydrolases
Superfamily:P-loop containing nucleoside triphosphate hydrolases
Family:RNA helicase
99c5nbcD_
not modelled 8.3 23
PDB header:dna binding protein
Chain: D: PDB Molecule:ferric uptake regulation protein;
PDBTitle: structure of prokaryotic transcription factors

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