Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD1507c_(-)_1696733_1697428
DateFri Aug 2 13:30:09 BST 2019
Unique Job ID938b67117cc4473d
SequenceLKKVAIVQSN ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:28.792 Y:27.369 Z:29.952
Model (left) based on template c5fceB_
Top template information
PDB header:cell adhesion
Chain: B: PDB Molecule:lpxtg family cell surface protein fms2;
PDBTitle: the crystal structure of the ligand binding region of serine-glutamate2 repeat protein a (sgra) of enterococcus faecium
Confidence and coverage
Confidence: 33.7% Coverage: 16%
36 residues ( 16% of your sequence) have been modelled with 33.7% 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.
Please note: You must be registered and logged in to use Phyrealarm.
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
1c5fceB_



33.7 31
PDB header:cell adhesion
Chain: B: PDB Molecule:lpxtg family cell surface protein fms2;
PDBTitle: the crystal structure of the ligand binding region of serine-glutamate2 repeat protein a (sgra) of enterococcus faecium
2c4ffbC_



29.7 8
PDB header:hydrolase
Chain: C: PDB Molecule:protein stu2;
PDBTitle: a tog:alpha/beta-tubulin complex structure reveals conformation-based2 mechanisms for a microtubule polymerase
3c4j7hA_



28.7 28
PDB header:biosynthetic protein
Chain: A: PDB Molecule:evaa 2,3-dehydratase;
PDBTitle: crystal structure of evaa, a 2,3-dehydratase in complex with dtdp-2 benzene and dtdp-rhamnose
4c3f6wE_



24.4 7
PDB header:dna binding protein
Chain: E: PDB Molecule:xre-family like protein;
PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000
5c3eusB_



23.7 5
PDB header:dna binding protein
Chain: B: PDB Molecule:dna-binding protein;
PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
6c1m6vE_



23.4 14
PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase
7d1a9xa4



21.5 10
Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
8d2bs2b2



20.2 19
Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin domains from multidomain proteins
9d1y7ya1



19.2 5
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
10d1kkha2



18.5 14
Fold:Ferredoxin-like
Superfamily:GHMP Kinase, C-terminal domain
Family:Mevalonate kinase
11c3p9aI_



18.1 13
PDB header:dna binding protein
Chain: I: PDB Molecule:dna-packaging protein gp3;
PDBTitle: an atomic view of the nonameric small terminase subunit of2 bacteriophage p22
12d1llib_



16.2 10
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
13d1td6a_



14.5 15
Fold:Hypothetical protein MPN330
Superfamily:Hypothetical protein MPN330
Family:Hypothetical protein MPN330
14c3jb9c_



14.4 9
PDB header:rna binding protein/rna
Chain: C: PDB Molecule:u5 snrna;
PDBTitle: cryo-em structure of the yeast spliceosome at 3.6 angstrom resolution
15c2jvlA_



14.4 10
PDB header:transcription
Chain: A: PDB Molecule:trmbf1;
PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei
16d2cpwa1



14.2 33
Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
17c3trbA_



13.7 14
PDB header:dna binding protein
Chain: A: PDB Molecule:virulence-associated protein i;
PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii
18c5fdkD_



13.6 13
PDB header:hydrolase
Chain: D: PDB Molecule:holliday junction resolvase recu;
PDBTitle: crystal structure of recu(d88n) in complex with palindromic dna duplex
19d1rioa_



12.7 7
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
20c3omtA_



12.5 10
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: putative antitoxin component, chu_2935 protein, from xre family from2 prevotella buccae.
21c5lxlA_



not modelled 12.5 21
PDB header:viral protein
Chain: A: PDB Molecule:decoration protein;
PDBTitle: nmr structure of the n-terminal domain of the bacteriophage t52 decoration protein pb10
22c3f52A_



not modelled 12.4 17
PDB header:transcription activator
Chain: A: PDB Molecule:clp gene regulator (clgr);
PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum
23d1kf6b2



not modelled 12.1 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:2Fe-2S ferredoxin-like
Family:2Fe-2S ferredoxin domains from multidomain proteins
24c2yiaE_



not modelled 11.7 16
PDB header:transferase
Chain: E: PDB Molecule:rna-directed rna polymerase;
PDBTitle: structure of the rna polymerase vp1 from infectious pancreatic2 necrosis virus
25c2yibC_



not modelled 11.5 16
PDB header:transferase
Chain: C: PDB Molecule:rna-directed rna polymerase;
PDBTitle: structure of the rna polymerase vp1 from infectious pancreatic2 necrosis virus
26c2kpjA_



not modelled 11.3 17
PDB header:transcription regulator
Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa;
PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a
27c2y27B_



not modelled 11.3 15
PDB header:ligase
Chain: B: PDB Molecule:phenylacetate-coenzyme a ligase;
PDBTitle: crystal structure of paak1 in complex with atp from burkholderia2 cenocepacia
28c3mlfC_



not modelled 10.6 10
PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator;
PDBTitle: putative transcriptional regulator from staphylococcus aureus.
29d1utxa_



not modelled 10.3 7
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
30c2yibD_



not modelled 10.3 16
PDB header:transferase
Chain: D: PDB Molecule:rna-directed rna polymerase;
PDBTitle: structure of the rna polymerase vp1 from infectious pancreatic2 necrosis virus
31c2ls01_



not modelled 10.0 33
PDB header:hydrolase
Chain: 1: PDB Molecule:zoocin a endopeptidase;
PDB Fragment:unp residues 170-285; PDBTitle: solution structure of the target recognition domain of zoocin a
32d1e3ha4



not modelled 9.9 15
Fold:Alpha-lytic protease prodomain-like
Superfamily:Prokaryotic type KH domain (KH-domain type II)
Family:Prokaryotic type KH domain (KH-domain type II)
33c1y6uA_



not modelled 9.7 14
PDB header:dna binding protein
Chain: A: PDB Molecule:excisionase from transposon tn916;
PDBTitle: the structure of the excisionase (xis) protein from2 conjugative transposon tn916 provides insights into the3 regulation of heterobivalent tyrosine recombinases
34d3bexa1



not modelled 9.7 11
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:CoaX-like
35c3ivpD_



not modelled 9.2 10
PDB header:dna binding protein
Chain: D: PDB Molecule:putative transposon-related dna-binding protein;
PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630.
36c2ewtA_



not modelled 9.0 18
PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of the dna-binding domain of bldd
37d1jqoa_



not modelled 9.0 20
Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate carboxylase
38c1jqoA_



not modelled 9.0 20
PDB header:lyase
Chain: A: PDB Molecule:phosphoenolpyruvate carboxylase;
PDBTitle: crystal structure of c4-form phosphoenolpyruvate carboxylase from2 maize
39c1y9qA_



not modelled 8.6 15
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, hth_3 family;
PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae
40c3noeA_



not modelled 8.5 30
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa
41c3bs3A_



not modelled 8.4 10
PDB header:dna binding protein
Chain: A: PDB Molecule:putative dna-binding protein;
PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis
42c2cpwA_



not modelled 8.3 33
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:cbl-interacting protein sts-1 variant;
PDBTitle: solution structure of rsgi ruh-031, a uba domain from human2 cdna
43c4wbdA_



not modelled 8.3 13
PDB header:ligase
Chain: A: PDB Molecule:bshc;
PDBTitle: the crystal structure of bshc from bacillus subtilis complexed with2 citrate and adp
44c1rznB_



not modelled 8.3 14
PDB header:dna binding protein
Chain: B: PDB Molecule:recombination protein u;
PDBTitle: crystal structure of penicillin-binding protein-related2 factor a from bacillus subtilis.
45c1k47F_



not modelled 8.1 13
PDB header:transferase
Chain: F: PDB Molecule:phosphomevalonate kinase;
PDBTitle: crystal structure of the streptococcus pneumoniae2 phosphomevalonate kinase (pmk)
46c3iz5t_



not modelled 8.1 25
PDB header:ribosome
Chain: T: PDB Molecule:60s ribosomal protein l19 (l19e);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
47d1b0na2



not modelled 8.0 10
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
48c3clcC_



not modelled 7.9 2
PDB header:transcription regulator/dna
Chain: C: PDB Molecule:regulatory protein;
PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator
49c3dnvB_



not modelled 7.8 7
PDB header:transcription/dna
Chain: B: PDB Molecule:hth-type transcriptional regulator hipb;
PDBTitle: mdt protein
50c6f8sA_



not modelled 7.7 20
PDB header:toxin
Chain: A: PDB Molecule:xre family transcriptional regulator;
PDBTitle: toxin-antitoxin complex grata
51d1adra_



not modelled 7.6 17
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
52c1y1oC_



not modelled 7.6 11
PDB header:recombination
Chain: C: PDB Molecule:penicillin-binding protein-related factor a;
PDBTitle: x-ray crystal structure of penicillin-binding protein-2 related factor a from bacillus stearothermophilus
53d1y1oa_



not modelled 7.6 11
Fold:Restriction endonuclease-like
Superfamily:Restriction endonuclease-like
Family:RecU-like
54d1x57a1



not modelled 7.5 5
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:EDF1-like
55d2b5aa1



not modelled 7.5 5
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:SinR domain-like
56c3vk0B_



not modelled 7.4 2
PDB header:dna binding protein
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of hypothetical transcription factor nhtf from2 neisseria
57d1rzna_



not modelled 7.4 14
Fold:Restriction endonuclease-like
Superfamily:Restriction endonuclease-like
Family:RecU-like
58c3skqA_



not modelled 7.3 20
PDB header:metal transport
Chain: A: PDB Molecule:mitochondrial distribution and morphology protein 38;
PDBTitle: mdm38 is a 14-3-3-like receptor and associates with the protein2 synthesis machinery at the inner mitochondrial membrane
59d2gx8a1



not modelled 7.1 15
Fold:NIF3 (NGG1p interacting factor 3)-like
Superfamily:NIF3 (NGG1p interacting factor 3)-like
Family:NIF3 (NGG1p interacting factor 3)-like
60c3t76A_



not modelled 7.1 10
PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator vanug;
PDBTitle: crystal structure of transcriptional regulator vanug, form ii
61c6h56A_



not modelled 7.0 11
PDB header:metal binding protein
Chain: A: PDB Molecule:effector domain of pseudomonas aeruginosa vgrg2b;
PDBTitle: effector domain of pseudomonas aeruginosa vgrg2b
62c3op9A_



not modelled 6.9 17
PDB header:transcription regulator
Chain: A: PDB Molecule:pli0006 protein;
PDBTitle: crystal structure of transcriptional regulator from listeria innocua
63c4mcxE_



not modelled 6.9 5
PDB header:toxin
Chain: E: PDB Molecule:antidote protein;
PDBTitle: p. vulgaris higba structure, crystal form 2
64c1oheA_



not modelled 6.8 14
PDB header:hydrolase
Chain: A: PDB Molecule:cdc14b2 phosphatase;
PDBTitle: structure of cdc14b phosphatase with a peptide ligand
65c6bi7B_



not modelled 6.8 21
PDB header:replication
Chain: B: PDB Molecule:dna polymerase zeta catalytic subunit;
PDBTitle: crystal structure of rev7-wt/rev3 as a monomer under high-salt2 conditions
66d1edza2



not modelled 6.8 21
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Tetrahydrofolate dehydrogenase/cyclohydrolase
67c6mghB_



not modelled 6.7 9
PDB header:fluorescent protein
Chain: B: PDB Molecule:mirfp670nano;
PDBTitle: x-ray structure of monomeric near-infrared fluorescent protein2 mirfp670nano
68c5uk3J_



not modelled 6.3 7
PDB header:lyase
Chain: J: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of cyanase from t. urticae
69c3rnlA_



not modelled 6.1 17
PDB header:transferase
Chain: A: PDB Molecule:sulfotransferase;
PDBTitle: crystal structure of sulfotransferase from alicyclobacillus2 acidocaldarius
70c2mezA_



not modelled 6.0 7
PDB header:rna binding protein
Chain: A: PDB Molecule:multiprotein bridging factor (mbp-like);
PDBTitle: flexible anchoring of archaeal mbf1 on ribosomes suggests role as2 recruitment factor
71d1sq8a_



not modelled 5.9 10
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
72c3n2xB_



not modelled 5.8 22
PDB header:lyase
Chain: B: PDB Molecule:uncharacterized protein yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate
73d2r1jl1



not modelled 5.8 17
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
74c2yxgD_



not modelled 5.8 21
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)
75c2o38A_



not modelled 5.8 22
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: putative xre family transcriptional regulator
76d2o38a1



not modelled 5.8 22
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
77d2a6ca1



not modelled 5.7 9
Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:NE1354
78c2xxzA_



not modelled 5.7 10
PDB header:oxidoreductase
Chain: A: PDB Molecule:lysine-specific demethylase 6b;
PDBTitle: crystal structure of the human jmjd3 jumonji domain
79c2gx8B_



not modelled 5.6 15
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:nif3-related protein;
PDBTitle: the crystal structure of bacillus cereus protein related to nif3
80c4xd7G_



not modelled 5.5 13
PDB header:hydrolase
Chain: G: PDB Molecule:atp synthase gamma chain;
PDBTitle: structure of thermophilic f1-atpase inhibited by epsilon subunit
81c3izbQ_



not modelled 5.5 32
PDB header:ribosome
Chain: Q: PDB Molecule:40s ribosomal protein rps17 (s17e);
PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
82c4b0sA_



not modelled 5.3 22
PDB header:hydrolase
Chain: A: PDB Molecule:deamidase-depupylase dop;
PDBTitle: structure of the deamidase-depupylase dop of the prokaryotic2 ubiquitin-like modification pathway in complex with atp
83c2ef8A_



not modelled 5.2 15
PDB header:transcription regulator
Chain: A: PDB Molecule:putative transcription factor;
PDBTitle: crystal structure of c.ecot38is
84c3bdnB_



not modelled 5.2 8
PDB header:transcription/dna
Chain: B: PDB Molecule:lambda repressor;
PDBTitle: crystal structure of the lambda repressor
85c3eb2A_



not modelled 5.2 29
PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution
86c5ocdD_



not modelled 5.1 10
PDB header:rna binding protein
Chain: D: PDB Molecule:cyclodipeptide synthase;
PDBTitle: structure of a cdps from fluoribacter dumoffii
87c6bi7D_



not modelled 5.1 22
PDB header:replication
Chain: D: PDB Molecule:dna polymerase zeta catalytic subunit;
PDBTitle: crystal structure of rev7-wt/rev3 as a monomer under high-salt2 conditions
88c3j3aR_



not modelled 5.1 21
PDB header:ribosome
Chain: R: PDB Molecule:40s ribosomal protein s17;
PDBTitle: structure of the human 40s ribosomal proteins

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