Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0049_(-)_52831_53244
DateTue Jul 23 14:50:08 BST 2019
Unique Job ID9bc92ec2c528031c
SequenceVDYTLRRRSL ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:23.009 Y:13.198 Z:17.629
Model (left) based on template d2a2pa1
Top template information
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Selenoprotein W-related
Confidence and coverage
Confidence: 68.1% Coverage: 9%
13 residues ( 9% of your sequence) have been modelled with 68.1% 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
1d2a2pa1



68.1 46
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Selenoprotein W-related
2c3gn5B_



53.0 16
PDB header:dna binding protein
Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021);
PDBTitle: structure of the e. coli protein mqsa (ygit/b3021)
3d2fiya1



47.1 23
Fold:FdhE-like
Superfamily:FdhE-like
Family:FdhE-like
4d1lv3a_



46.1 31
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:Hypothetical zinc finger protein YacG
5c2vjfB_



38.8 47
PDB header:ligase
Chain: B: PDB Molecule:mdm4 protein;
PDBTitle: crystal structure of the mdm2-mdmx ring domain heterodimer
6c2f9iD_



38.7 30
PDB header:transferase
Chain: D: PDB Molecule:acetyl-coenzyme a carboxylase carboxyl transferase subunit
PDBTitle: crystal structure of the carboxyltransferase subunit of acc from2 staphylococcus aureus
7d2a4ha1



34.7 42
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Selenoprotein W-related
8c4rvgA_



31.3 20
PDB header:transferase
Chain: A: PDB Molecule:d-mycarose 3-c-methyltransferase;
PDBTitle: crystal structure of mtmc in complex with sam and tdp
9c5aj3p_



30.4 46
PDB header:ribosome
Chain: P: PDB Molecule:mitoribosomal protein bs16m, mrps16;
PDBTitle: structure of the small subunit of the mammalian mitoribosome
10c6k2kA_



29.2 37
PDB header:structural protein
Chain: A: PDB Molecule:mitochondrial ubiquitin ligase activator of nfkb 1;
PDBTitle: solution structure of mul1-ring domain
11c4rulA_



27.6 14
PDB header:isomerase/dna
Chain: A: PDB Molecule:dna topoisomerase 1;
PDBTitle: crystal structure of full-length e.coli topoisomerase i in complex2 with ssdna
12c1yuzB_



26.9 20
PDB header:oxidoreductase
Chain: B: PDB Molecule:nigerythrin;
PDBTitle: partially reduced state of nigerythrin
13d6rxna_



26.9 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
14d2f9yb1



26.3 42
Fold:ClpP/crotonase
Superfamily:ClpP/crotonase
Family:Biotin dependent carboxylase carboxyltransferase domain
15c2f9yB_



26.3 42
PDB header:ligase
Chain: B: PDB Molecule:acetyl-coenzyme a carboxylase carboxyl transferase subunit
PDBTitle: the crystal structure of the carboxyltransferase subunit of acc from2 escherichia coli
16c2kn9A_



26.1 25
PDB header:electron transport
Chain: A: PDB Molecule:rubredoxin;
PDBTitle: solution structure of zinc-substituted rubredoxin b (rv3250c) from2 mycobacterium tuberculosis. seattle structural genomics center for3 infectious disease target mytud.01635.a
17d1qcva_



25.9 25
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
18d1dx8a_



25.8 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
19d1s24a_



25.3 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
20c1s24A_



25.3 31
PDB header:electron transport
Chain: A: PDB Molecule:rubredoxin 2;
PDBTitle: rubredoxin domain ii from pseudomonas oleovorans
21c4u3eA_



not modelled 25.2 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside triphosphate reductase;
PDBTitle: anaerobic ribonucleotide reductase
22c5ntbB_



not modelled 24.9 24
PDB header:protease inhibitor
Chain: B: PDB Molecule:papain inhibitor;
PDBTitle: streptomyces papain inhibitor (spi)
23d1h7va_



not modelled 24.9 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
24c2obkE_



not modelled 24.7 25
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.
25d1iu5a_



not modelled 24.7 38
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
26d1pfta_



not modelled 24.3 29
Fold:Rubredoxin-like
Superfamily:Zinc beta-ribbon
Family:Transcriptional factor domain
27d1jj2y_



not modelled 24.2 25
Fold:Rubredoxin-like
Superfamily:Zn-binding ribosomal proteins
Family:Ribosomal protein L37ae
28d1iroa_



not modelled 24.0 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
29c3j21i_



not modelled 24.0 19
PDB header:ribosome
Chain: I: PDB Molecule:50s ribosomal protein l13p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (50s3 ribosomal proteins)
30c2v3bB_



not modelled 24.0 25
PDB header:oxidoreductase
Chain: B: PDB Molecule:rubredoxin 2;
PDBTitle: crystal structure of the electron transfer complex2 rubredoxin - rubredoxin reductase from pseudomonas3 aeruginosa.
31c2hr5B_



not modelled 23.9 21
PDB header:metal binding protein
Chain: B: PDB Molecule:rubrerythrin;
PDBTitle: pf1283- rubrerythrin from pyrococcus furiosus iron bound form
32c2zkrz_



not modelled 23.8 19
PDB header:ribosomal protein/rna
Chain: Z: PDB Molecule:e site t-rna;
PDBTitle: structure of a mammalian ribosomal 60s subunit within an 80s complex2 obtained by docking homology models of the rna and proteins into an3 8.7 a cryo-em map
33c1yshD_



not modelled 23.7 25
PDB header:structural protein/rna
Chain: D: PDB Molecule:ribosomal protein l37a;
PDBTitle: localization and dynamic behavior of ribosomal protein l30e
34d2dsxa1



not modelled 23.6 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
35d1vqoz1



not modelled 23.4 19
Fold:Rubredoxin-like
Superfamily:Zn-binding ribosomal proteins
Family:Ribosomal protein L37ae
36c6g5iy_



not modelled 23.3 32
PDB header:ribosome
Chain: Y: PDB Molecule:40s ribosomal protein s24;
PDBTitle: cryo-em structure of a late human pre-40s ribosomal subunit - state r
37c3j39g_



not modelled 23.1 38
PDB header:ribosome
Chain: G: PDB Molecule:60s ribosomal protein l7a;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
38d1brfa_



not modelled 23.1 38
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
39d2rdva_



not modelled 23.1 38
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
40c1nuiA_



not modelled 23.0 22
PDB header:replication
Chain: A: PDB Molecule:dna primase/helicase;
PDBTitle: crystal structure of the primase fragment of bacteriophage t7 primase-2 helicase protein
41c3izrm_



not modelled 23.0 25
PDB header:ribosome
Chain: M: PDB Molecule:60s ribosomal protein l23 (l14p);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
42c1s1i9_



not modelled 22.8 25
PDB header:ribosome
Chain: 9: PDB Molecule:60s ribosomal protein l43;
PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from yeast2 obtained by docking atomic models for rna and protein components into3 a 11.7 a cryo-em map. this file, 1s1i, contains 60s subunit. the 40s4 ribosomal subunit is in file 1s1h.
43c4g6vB_



not modelled 22.6 38
PDB header:toxin
Chain: B: PDB Molecule:cdii;
PDBTitle: cdia-ct/cdii toxin and immunity complex from burkholderia pseudomallei
44c3dexA_



not modelled 22.6 33
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.
45c3j39p_



not modelled 22.3 25
PDB header:ribosome
Chain: P: PDB Molecule:60s ribosomal protein l17;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
46c5zi6E_



not modelled 22.3 21
PDB header:ligase
Chain: E: PDB Molecule:rna-binding e3 ubiquitin-protein ligase mex3c;
PDBTitle: the ring domain structure of mex-3c
47d4rxna_



not modelled 22.2 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
48c2hdpB_



not modelled 22.1 21
PDB header:ligase
Chain: B: PDB Molecule:ubiquitin-protein ligase e3 mdm2;
PDBTitle: solution structure of hdm2 ring finger domain
49d1l1ta3



not modelled 22.1 18
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
50c2ojlB_



not modelled 21.9 30
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.
51c2ms3A_



not modelled 21.8 25
PDB header:electron transport
Chain: A: PDB Molecule:anaerobic nitric oxide reductase flavorubredoxin;
PDBTitle: the nmr structure of the rubredoxin domain of the no reductase2 flavorubredoxin from escherichia coli
52d1nw2a_



not modelled 21.8 24
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Thioltransferase
53c3j3bg_



not modelled 21.7 33
PDB header:ribosome
Chain: G: PDB Molecule:60s ribosomal protein l7a;
PDBTitle: structure of the human 60s ribosomal proteins
54c2qa4Z_



not modelled 21.7 19
PDB header:ribosome
Chain: Z: PDB Molecule:50s ribosomal protein l37ae;
PDBTitle: a more complete structure of the the l7/l12 stalk of the2 haloarcula marismortui 50s large ribosomal subunit
55d1ffkw_



not modelled 21.6 25
Fold:Rubredoxin-like
Superfamily:Zn-binding ribosomal proteins
Family:Ribosomal protein L37ae
56c3eb6A_



not modelled 21.6 40
PDB header:apoptosis, ligase
Chain: A: PDB Molecule:baculoviral iap repeat-containing protein 3;
PDBTitle: structure of the ciap2 ring domain bound to ubch5b
57c4mo1B_



not modelled 21.4 15
PDB header:transcription regulator
Chain: B: PDB Molecule:antitermination protein q;
PDBTitle: crystal structure of antitermination protein q from bacteriophage2 lambda. northeast structural genomics consortium target or18a.
58c2p0gB_



not modelled 20.9 36
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
59d2fa8a1



not modelled 20.9 27
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Selenoprotein W-related
60d1tdza3



not modelled 20.9 18
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
61c3izci_



not modelled 20.8 25
PDB header:ribosome
Chain: I: PDB Molecule:60s ribosomal protein rpl10 (l10e);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
62c2z1dA_



not modelled 20.7 22
PDB header:metal binding protein
Chain: A: PDB Molecule:hydrogenase expression/formation protein hypd;
PDBTitle: crystal structure of [nife] hydrogenase maturation protein, hypd from2 thermococcus kodakaraensis
63c3a44D_



not modelled 20.6 22
PDB header:metal binding protein
Chain: D: PDB Molecule:hydrogenase nickel incorporation protein hypa;
PDBTitle: crystal structure of hypa in the dimeric form
64c3jyw9_



not modelled 20.2 25
PDB header:ribosome
Chain: 9: PDB Molecule:60s ribosomal protein l43;
PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution
65c4b6ap_



not modelled 20.1 25
PDB header:ribosome
Chain: P: PDB Molecule:60s ribosomal protein l17-a;
PDBTitle: cryo-em structure of the 60s ribosomal subunit in complex2 with arx1 and rei1
66c3hi2C_



not modelled 19.8 20
PDB header:dna binding protein/toxin
Chain: C: PDB Molecule:hth-type transcriptional regulator mqsa(ygit);
PDBTitle: structure of the n-terminal domain of the e. coli antitoxin mqsa2 (ygit/b3021) in complex with the e. coli toxin mqsr (ygiu/b3022)
67c3d30A_



not modelled 19.7 15
PDB header:peptidoglycan-binding protein
Chain: A: PDB Molecule:expansin like protein;
PDBTitle: structure of an expansin like protein from bacillus subtilis at 1.9a2 resolution
68c2ma6A_



not modelled 19.7 19
PDB header:ligase
Chain: A: PDB Molecule:e3 ubiquitin-protein ligase rnf123;
PDBTitle: solution nmr structure of the ring finger domain from the kip12 ubiquitination-promoting e3 complex protein 1 (kpc1/rnf123) from homo3 sapiens, northeast structural genomics consortium (nesg) target4 hr8700a
69c2kw0A_



not modelled 19.6 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:ccmh protein;
PDBTitle: solution structure of n-terminal domain of ccmh from escherichia.coli
70d2drpa2



not modelled 19.5 63
Fold:beta-beta-alpha zinc fingers
Superfamily:beta-beta-alpha zinc fingers
Family:Classic zinc finger, C2H2
71d1rb9a_



not modelled 19.5 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
72c2ecgA_



not modelled 19.4 33
PDB header:apoptosis
Chain: A: PDB Molecule:baculoviral iap repeat-containing protein 4;
PDBTitle: solution structure of the ring domain of the baculoviral2 iap repeat-containing protein 4 from homo sapiens
73c5o5jR_



not modelled 19.3 13
PDB header:ribosome
Chain: R: PDB Molecule:30s ribosomal protein s18 2;
PDBTitle: structure of the 30s small ribosomal subunit from mycobacterium2 smegmatis
74d1wwra1



not modelled 18.9 11
Fold:Cytidine deaminase-like
Superfamily:Cytidine deaminase-like
Family:Deoxycytidylate deaminase-like
75d1hk8a_



not modelled 18.6 13
Fold:PFL-like glycyl radical enzymes
Superfamily:PFL-like glycyl radical enzymes
Family:Class III anaerobic ribonucleotide reductase NRDD subunit
76c1hk8A_



not modelled 18.6 13
PDB header:oxidoreductase
Chain: A: PDB Molecule:anaerobic ribonucleotide-triphosphate reductase;
PDBTitle: structural basis for allosteric substrate specificity regulation in2 class iii ribonucleotide reductases: nrdd in complex with dgtp
77d1k82a3



not modelled 18.6 12
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
78c2eclA_



not modelled 18.1 27
PDB header:metal binding protein
Chain: A: PDB Molecule:ring-box protein 2;
PDBTitle: solution structure of the ring domain of the human ring-box2 protein 2
79d1r2za3



not modelled 18.0 18
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
80c2hl7A_



not modelled 17.9 30
PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccmh;
PDBTitle: crystal structure of the periplasmic domain of ccmh from pseudomonas2 aeruginosa
81c5aaqA_



not modelled 17.7 38
PDB header:calcium-binding protein
Chain: A: PDB Molecule:calcium-binding and coiled-coil domain-containing protein
PDBTitle: tbk1 recruitment to cytosol-invading salmonella induces2 anti-bacterial autophagy
82c4esjA_



not modelled 17.5 36
PDB header:hydrolase/dna
Chain: A: PDB Molecule:type-2 restriction enzyme dpni;
PDBTitle: restriction endonuclease dpni in complex with target dna
83d1k3xa3



not modelled 17.5 12
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins
84d1lkoa2



not modelled 17.2 24
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
85c3cc4Z_



not modelled 17.2 19
PDB header:ribosome
Chain: Z: PDB Molecule:50s ribosomal protein l37ae;
PDBTitle: co-crystal structure of anisomycin bound to the 50s ribosomal subunit
86c3lpeF_



not modelled 16.8 47
PDB header:transferase
Chain: F: PDB Molecule:dna-directed rna polymerase subunit e'';
PDBTitle: crystal structure of spt4/5ngn heterodimer complex from methanococcus2 jannaschii
87d1oxna_



not modelled 16.7 20
Fold:Inhibitor of apoptosis (IAP) repeat
Superfamily:Inhibitor of apoptosis (IAP) repeat
Family:Inhibitor of apoptosis (IAP) repeat
88c3zf7o_



not modelled 16.7 19
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
89c4a17Y_



not modelled 16.5 25
PDB header:ribosome
Chain: Y: PDB Molecule:rpl37a;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 2.
90c4xlgA_



not modelled 16.4 25
PDB header:hydrolase
Chain: A: PDB Molecule:structure-specific endonuclease subunit slx1;
PDBTitle: c. glabrata slx1 in complex with slx4ccd.
91d1jd5a_



not modelled 16.3 18
Fold:Inhibitor of apoptosis (IAP) repeat
Superfamily:Inhibitor of apoptosis (IAP) repeat
Family:Inhibitor of apoptosis (IAP) repeat
92d1yuza2



not modelled 16.2 27
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
93c6ff4t_



not modelled 16.2 20
PDB header:splicing
Chain: T: PDB Molecule:
PDBTitle: human bact spliceosome core structure
94d1iyma_



not modelled 16.2 38
Fold:RING/U-box
Superfamily:RING/U-box
Family:RING finger domain, C3HC4
95d1xb0b_



not modelled 16.1 24
Fold:Inhibitor of apoptosis (IAP) repeat
Superfamily:Inhibitor of apoptosis (IAP) repeat
Family:Inhibitor of apoptosis (IAP) repeat
96d2jz6a1



not modelled 16.0 23
Fold:L28p-like
Superfamily:L28p-like
Family:Ribosomal protein L28
97c2naxA_



not modelled 16.0 33
PDB header:metal binding protein
Chain: A: PDB Molecule:protein pcf11;
PDBTitle: structure of cchc zinc finger domain of pcf11
98d2cona1



not modelled 16.0 26
Fold:Rubredoxin-like
Superfamily:NOB1 zinc finger-like
Family:NOB1 zinc finger-like
99c1z6uA_



not modelled 15.7 40
PDB header:ligase
Chain: A: PDB Molecule:np95-like ring finger protein isoform b;
PDBTitle: np95-like ring finger protein isoform b [homo sapiens]

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