Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0079_(-)_88201_89022
DateTue Jul 23 14:50:11 BST 2019
Unique Job ID4f4dd0b5ff5b4c99
SequenceVEPKRSRLVV ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:32.177 Y:24.268 Z:39.925
Model (left) based on template c3ka5A_
Top template information
PDB header:chaperone
Chain: A: PDB Molecule:ribosome-associated protein y (psrp-1);
PDBTitle: crystal structure of ribosome-associated protein y (psrp-1)2 from clostridium acetobutylicum. northeast structural3 genomics consortium target id car123a
Confidence and coverage
Confidence: 99.7% Coverage: 19%
53 residues ( 19% of your sequence) have been modelled with 99.7% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
165 residues ( 60%) 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
1c3ka5A_



99.7 15
PDB header:chaperone
Chain: A: PDB Molecule:ribosome-associated protein y (psrp-1);
PDBTitle: crystal structure of ribosome-associated protein y (psrp-1)2 from clostridium acetobutylicum. northeast structural3 genomics consortium target id car123a
2c3k2tA_



99.6 24
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lmo2511 protein;
PDBTitle: crystal structure of lmo2511 protein from listeria2 monocytogenes, northeast structural genomics consortium3 target lkr84a
3c3lyvF_



99.6 28
PDB header:chaperone
Chain: F: PDB Molecule:ribosome-associated factor y;
PDBTitle: crystal structure of a domain of ribosome-associated factor y from2 streptococcus pyogenes serotype m6. northeast structural genomics3 consortium target id dr64a
4c6dzkY_



99.0 16
PDB header:ribosome
Chain: Y: PDB Molecule:ribosome hibernation promoting factor;
PDBTitle: cryo-em structure of mycobacterium smegmatis c(minus) 30s ribosomal2 subunit with mpy
5d1l4sa_



99.0 9
Fold:Ribosome binding protein Y (YfiA homologue)
Superfamily:Ribosome binding protein Y (YfiA homologue)
Family:Ribosome binding protein Y (YfiA homologue)
6c3tqmD_



99.0 13
PDB header:protein binding
Chain: D: PDB Molecule:ribosome-associated factor y;
PDBTitle: structure of an ribosomal subunit interface protein from coxiella2 burnetii
7d2ywqa1



98.9 16
Fold:Ribosome binding protein Y (YfiA homologue)
Superfamily:Ribosome binding protein Y (YfiA homologue)
Family:Ribosome binding protein Y (YfiA homologue)
8c2rqlA_



98.9 13
PDB header:translation
Chain: A: PDB Molecule:probable sigma-54 modulation protein;
PDBTitle: solution structure of the e. coli ribosome hibernation2 promoting factor hpf
9c4fylB_



98.9 14
PDB header:translation
Chain: B: PDB Molecule:ribosome hibernation protein yhbh;
PDBTitle: high-resolution x-ray structure of hpf from vibrio cholerae
10c6qbzA_



98.8 10
PDB header:ribosomal protein
Chain: A: PDB Molecule:ribosome hibernation promoting factor;
PDBTitle: solution structure of the n-terminal domain of the staphylococcus2 aureus hibernation promoting factor
11c5mmjy_



98.8 12
PDB header:ribosome
Chain: Y: PDB Molecule:
PDBTitle: structure of the small subunit of the chloroplast ribosome
12d1imua_



98.7 14
Fold:Ribosome binding protein Y (YfiA homologue)
Superfamily:Ribosome binding protein Y (YfiA homologue)
Family:Ribosome binding protein Y (YfiA homologue)
13d2k0bx1



38.1 14
Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
14c4gi3C_



31.9 30
PDB header:hydrolase/hydrolase inhibitor
Chain: C: PDB Molecule:greglin;
PDBTitle: crystal structure of greglin in complex with subtilisin
15c2jy8A_



30.2 14
PDB header:protein binding
Chain: A: PDB Molecule:ubiquitin-binding protein p62;
PDBTitle: nmr structure of the ubiquitin associated (uba) domain of2 p62 (sqstm1) in complex with ubiquitin. rdc refined
16c1oheA_



28.8 27
PDB header:hydrolase
Chain: A: PDB Molecule:cdc14b2 phosphatase;
PDBTitle: structure of cdc14b phosphatase with a peptide ligand
17d1ohea1



27.0 27
Fold:(Phosphotyrosine protein) phosphatases II
Superfamily:(Phosphotyrosine protein) phosphatases II
Family:Dual specificity phosphatase-like
18c3a9lB_



25.6 13
PDB header:hydrolase
Chain: B: PDB Molecule:poly-gamma-glutamate hydrolase;
PDBTitle: structure of bacteriophage poly-gamma-glutamate hydrolase
19c5boiA_



22.8 29
PDB header:unknown function
Chain: A: PDB Molecule:germination protein ypeb;
PDBTitle: bacillus megaterium ypeb c-terminal domain
20c1gshA_



19.9 17
PDB header:glutathione biosynthesis ligase
Chain: A: PDB Molecule:glutathione biosynthetic ligase;
PDBTitle: structure of escherichia coli glutathione synthetase at ph 7.5
21d2ae8a2



not modelled 19.5 21
Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Imidazole glycerol phosphate dehydratase
22c6c0fv_



not modelled 19.1 17
PDB header:ribosome
Chain: V: PDB Molecule:60s ribosomal protein l23-a;
PDBTitle: yeast nucleolar pre-60s ribosomal subunit (state 2)
23d1yrea1



not modelled 18.3 7
Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:N-acetyl transferase, NAT
24c3cp3A_



not modelled 16.6 11
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of conserved protein of unknown function dip18742 from corynebacterium diphtheriae
25c2j44A_



not modelled 15.1 45
PDB header:carbohydrate-binding module
Chain: A: PDB Molecule:alkaline amylopullulanase;
PDBTitle: alpha-glucan binding by a streptococcal virulence factor
26d2f1da2



not modelled 15.0 19
Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Imidazole glycerol phosphate dehydratase
27c4k90B_



not modelled 14.7 31
PDB header:hydrolase
Chain: B: PDB Molecule:extracellular metalloproteinase mep;
PDBTitle: extracellular metalloproteinase from aspergillus
28c2zkqi_



not modelled 13.1 19
PDB header:ribosomal protein/rna
Chain: I: PDB Molecule:
PDBTitle: structure of a mammalian ribosomal 40s subunit within an 80s complex2 obtained by docking homology models of the rna and proteins into an3 8.7 a cryo-em map
29d2bm0a4



not modelled 13.0 29
Fold:Ferredoxin-like
Superfamily:EF-G C-terminal domain-like
Family:EF-G/eEF-2 domains III and V
30d1m0wa1



not modelled 12.8 28
Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:Eukaryotic glutathione synthetase, substrate-binding domain
31c4v19W_



not modelled 12.0 28
PDB header:ribosome
Chain: W: PDB Molecule:mitoribosomal protein ul22m, mrpl22;
PDBTitle: structure of the large subunit of the mammalian mitoribosome, part 12 of 2
32c3r9jD_



not modelled 11.9 10
PDB header:cell cycle,hydrolase/cell cycle
Chain: D: PDB Molecule:cell division topological specificity factor;
PDBTitle: 4.3a resolution structure of a mind-mine(i24n) protein complex
33c2f46A_



not modelled 11.8 12
PDB header:hydrolase
Chain: A: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of a putative phosphatase (nma1982) from neisseria2 meningitidis z2491 at 1.41 a resolution
34d1kyqa2



not modelled 11.7 4
Fold:Siroheme synthase middle domains-like
Superfamily:Siroheme synthase middle domains-like
Family:Siroheme synthase middle domains-like
35c2m2kA_



not modelled 11.5 15
PDB header:transport protein
Chain: A: PDB Molecule:hasb protein;
PDBTitle: the structure of hasb ctd
36c3be3A_



not modelled 11.4 43
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a protein belonging to pfam duf16532 from bordetella bronchiseptica
37c2j43A_



not modelled 11.3 18
PDB header:carbohydrate-binding module
Chain: A: PDB Molecule:spydx;
PDBTitle: alpha-glucan recognition by family 41 carbohydrate-binding2 modules from streptococcal virulence factors
38d1ev0a_



not modelled 11.2 9
Fold:Cell division protein MinE topological specificity domain
Superfamily:Cell division protein MinE topological specificity domain
Family:Cell division protein MinE topological specificity domain
39d1rhya2



not modelled 11.0 22
Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Imidazole glycerol phosphate dehydratase
40c4iwyA_



not modelled 10.5 27
PDB header:ligase
Chain: A: PDB Molecule:ribosomal protein s6 modification protein;
PDBTitle: semet-substituted rimk structure
41c4l6wA_



not modelled 10.3 21
PDB header:ligase
Chain: A: PDB Molecule:probable propionyl-coa carboxylase beta chain 6;
PDBTitle: carboxyltransferase subunit (accd6) of mycobacterium tuberculosis2 acetyl-coa carboxylase
42c4c1aC_



not modelled 10.2 15
PDB header:hydrolase
Chain: C: PDB Molecule:orf1-encoded protein;
PDBTitle: coiled coil domain of the zfl2-1 orf1 protein from the2 zebrafish zfl2-1 retrotransposon
43c4c1aB_



not modelled 10.2 15
PDB header:hydrolase
Chain: B: PDB Molecule:orf1-encoded protein;
PDBTitle: coiled coil domain of the zfl2-1 orf1 protein from the2 zebrafish zfl2-1 retrotransposon
44c4c1aA_



not modelled 10.2 15
PDB header:hydrolase
Chain: A: PDB Molecule:orf1-encoded protein;
PDBTitle: coiled coil domain of the zfl2-1 orf1 protein from the2 zebrafish zfl2-1 retrotransposon
45d1fx7a3



not modelled 10.0 28
Fold:SH3-like barrel
Superfamily:C-terminal domain of transcriptional repressors
Family:FeoA-like
46c3rkxA_



not modelled 9.9 15
PDB header:ligase
Chain: A: PDB Molecule:biotin-[acetyl-coa-carboxylase] ligase;
PDBTitle: structural characterisation of staphylococcus aureus biotin protein2 ligase
47c3n6rF_



not modelled 9.8 22
PDB header:ligase
Chain: F: PDB Molecule:propionyl-coa carboxylase, beta subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
48c5xw4A_



not modelled 9.8 27
PDB header:cell cycle
Chain: A: PDB Molecule:tyrosine-protein phosphatase cdc14;
PDBTitle: crystal structure of budding yeast cdc14p (wild type) in the apo state
49c2ftcM_



not modelled 9.7 28
PDB header:ribosome
Chain: M: PDB Molecule:mitochondrial ribosomal protein l22 isoform a;
PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome
50d2dy1a4



not modelled 9.5 25
Fold:Ferredoxin-like
Superfamily:EF-G C-terminal domain-like
Family:EF-G/eEF-2 domains III and V
51c3jywN_



not modelled 9.4 6
PDB header:ribosome
Chain: N: PDB Molecule:60s ribosomal protein l17(a);
PDBTitle: structure of the 60s proteins for eukaryotic ribosome based on cryo-em2 map of thermomyces lanuginosus ribosome at 8.9a resolution
52c1s1hI_



not modelled 9.2 27
PDB header:ribosome
Chain: I: PDB Molecule:40s ribosomal protein s16;
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, 1s1h, contains 40s subunit. the 60s4 ribosomal subunit is in file 1s1i.
53c3fkhB_



not modelled 9.1 17
PDB header:oxidoreductase
Chain: B: PDB Molecule:putative pyridoxamine 5'-phosphate oxidase;
PDBTitle: crystal structure of putative pyridoxamine 5'-phosphate oxidase2 (np_601736.1) from corynebacterium glutamicum atcc 13032 kitasato at3 2.51 a resolution
54c4a17Q_



not modelled 8.9 15
PDB header:ribosome
Chain: Q: PDB Molecule:rpl17;
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.
55c1vw4O_



not modelled 8.9 17
PDB header:ribosome
Chain: O: PDB Molecule:54s ribosomal protein l22, mitochondrial;
PDBTitle: structure of the yeast mitochondrial large ribosomal subunit
56d2zjrp1



not modelled 8.9 11
Fold:Ribosomal protein L22
Superfamily:Ribosomal protein L22
Family:Ribosomal protein L22
57d2vqei1



not modelled 8.7 19
Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Translational machinery components
58c2ph7B_



not modelled 8.5 42
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein af_2093;
PDBTitle: crystal structure of af2093 from archaeoglobus fulgidus
59c5xyiQ_



not modelled 8.4 23
PDB header:ribosome
Chain: Q: PDB Molecule:40s ribosomal protein s16, putative;
PDBTitle: small subunit of trichomonas vaginalis ribosome
60c2odkD_



not modelled 8.3 14
PDB header:structural genomics, unknown function
Chain: D: PDB Molecule:hypothetical protein;
PDBTitle: putative prevent-host-death protein from nitrosomonas europaea
61c1kyqC_



not modelled 8.1 4
PDB header:oxidoreductase, lyase
Chain: C: PDB Molecule:siroheme biosynthesis protein met8;
PDBTitle: met8p: a bifunctional nad-dependent dehydrogenase and2 ferrochelatase involved in siroheme synthesis.
62d2gy9i1



not modelled 8.1 23
Fold:Ribosomal protein S5 domain 2-like
Superfamily:Ribosomal protein S5 domain 2-like
Family:Translational machinery components
63c5oevD_



not modelled 8.1 19
PDB header:transferase
Chain: D: PDB Molecule:glutathione synthetase-like effector 22 (gpa-gss22-apo);
PDBTitle: the structure of a glutathione synthetase like-effector (gss22) from2 globodera pallida in apoform.
64c3zf7R_



not modelled 8.0 8
PDB header:ribosome
Chain: R: PDB Molecule:60s ribosomal protein l17, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
65c5o5jI_



not modelled 7.8 31
PDB header:ribosome
Chain: I: PDB Molecule:30s ribosomal protein s9;
PDBTitle: structure of the 30s small ribosomal subunit from mycobacterium2 smegmatis
66c1u8xX_



not modelled 7.7 15
PDB header:hydrolase
Chain: X: PDB Molecule:maltose-6'-phosphate glucosidase;
PDBTitle: crystal structure of glva from bacillus subtilis, a metal-requiring,2 nad-dependent 6-phospho-alpha-glucosidase
67c4ce4W_



not modelled 7.7 28
PDB header:ribosome
Chain: W: PDB Molecule:mrpl22;
PDBTitle: 39s large subunit of the porcine mitochondrial ribosome
68c5onkA_



not modelled 7.7 24
PDB header:hydrolase
Chain: A: PDB Molecule:yndl;
PDBTitle: native yndl
69c2xzmI_



not modelled 7.6 19
PDB header:ribosome
Chain: I: PDB Molecule:rps16e;
PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1
70d1j0ha2



not modelled 7.6 21
Fold:Glycosyl hydrolase domain
Superfamily:Glycosyl hydrolase domain
Family:alpha-Amylases, C-terminal beta-sheet domain
71c3nqyA_



not modelled 7.6 50
PDB header:hydrolase
Chain: A: PDB Molecule:secreted metalloprotease mcp02;
PDBTitle: crystal structure of the autoprocessed complex of vibriolysin mcp-022 with a single point mutation e346a
72d2a7sa2



not modelled 7.5 21
Fold:ClpP/crotonase
Superfamily:ClpP/crotonase
Family:Biotin dependent carboxylase carboxyltransferase domain
73c3bbnI_



not modelled 7.5 35
PDB header:ribosome
Chain: I: PDB Molecule:ribosomal protein s9;
PDBTitle: homology model for the spinach chloroplast 30s subunit fitted to 9.4a2 cryo-em map of the 70s chlororibosome.
74c3zeyK_



not modelled 7.4 23
PDB header:ribosome
Chain: K: PDB Molecule:40s ribosomal protein s16, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
75c5o60T_



not modelled 7.4 11
PDB header:ribosome
Chain: T: PDB Molecule:50s ribosomal protein l22;
PDBTitle: structure of the 50s large ribosomal subunit from mycobacterium2 smegmatis
76d1lr0a_



not modelled 7.3 16
Fold:TolA/TonB C-terminal domain
Superfamily:TolA/TonB C-terminal domain
Family:TolA
77d2gycq1



not modelled 7.3 17
Fold:Ribosomal protein L22
Superfamily:Ribosomal protein L22
Family:Ribosomal protein L22
78c3j21S_



not modelled 7.2 15
PDB header:ribosome
Chain: S: PDB Molecule:50s ribosomal protein l22p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (50s3 ribosomal proteins)
79c2zkrr_



not modelled 7.1 8
PDB header:ribosomal protein/rna
Chain: R: PDB Molecule:rna expansion segment es39 part i;
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
80c2pfiA_



not modelled 7.1 13
PDB header:transport protein
Chain: A: PDB Molecule:chloride channel protein clc-ka;
PDBTitle: crystal structure of the cytoplasmic domain of the human2 chloride channel clc-ka
81c4f8bE_



not modelled 7.0 20
PDB header:oxidoreductase
Chain: E: PDB Molecule:nadph-dependent 7-cyano-7-deazaguanine reductase;
PDBTitle: crystal structure of the covalent thioimide intermediate of unimodular2 nitrile reductase quef
82c3j20K_



not modelled 7.0 35
PDB header:ribosome
Chain: K: PDB Molecule:30s ribosomal protein s9p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (30s3 ribosomal subunit)
83c3fwrB_



not modelled 6.9 12
PDB header:transcription
Chain: B: PDB Molecule:yqzb protein;
PDBTitle: crystal structure of the cbs domains from the bacillus subtilis ccpn2 repressor complexed with adp
84d2odka1



not modelled 6.9 16
Fold:YefM-like
Superfamily:YefM-like
Family:YefM-like
85d2fsra1



not modelled 6.9 21
Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:N-acetyl transferase, NAT
86c2a7yA_



not modelled 6.8 31
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein rv2302/mt2359;
PDBTitle: solution structure of the conserved hypothetical protein2 rv2302 from the bacterium mycobacterium tuberculosis
87d2a7ya1



not modelled 6.8 31
Fold:SH3-like barrel
Superfamily:Cell growth inhibitor/plasmid maintenance toxic component
Family:Rv2302-like
88c2nvgA_



not modelled 6.7 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit;
PDBTitle: soluble domain of rieske iron sulfur protein.
89c4pr3A_



not modelled 6.7 26
PDB header:hydrolase
Chain: A: PDB Molecule:5'-methylthioadenosine nucleosidase / s-
PDBTitle: crystal structure of brucella melitensis 5'-methylthioadenosine/s-2 adenosylhomocysteine nucleosidase
90c2m3vA_



not modelled 6.7 11
PDB header:hydrolase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: solution structure of tyrosine phosphatase related to biofilm2 formation a (tpba) from pseudomonas aeruginosa
91d1i4ja_



not modelled 6.6 11
Fold:Ribosomal protein L22
Superfamily:Ribosomal protein L22
Family:Ribosomal protein L22
92c5fifD_



not modelled 6.5 24
PDB header:ligase
Chain: D: PDB Molecule:carboxylase;
PDBTitle: carboxyltransferase domain of a single-chain bacterial carboxylase
93d1vqor1



not modelled 6.5 23
Fold:Ribosomal protein L22
Superfamily:Ribosomal protein L22
Family:Ribosomal protein L22
94c1on3E_



not modelled 6.5 24
PDB header:transferase
Chain: E: PDB Molecule:methylmalonyl-coa carboxyltransferase 12s
PDBTitle: transcarboxylase 12s crystal structure: hexamer assembly2 and substrate binding to a multienzyme core (with3 methylmalonyl-coenzyme a and methylmalonic acid bound)
95c4chfB_



not modelled 6.4 44
PDB header:viral protein
Chain: B: PDB Molecule:polymerase basic protein 2;
PDBTitle: crystal structure of the putative cap-binding domain of the2 pb2 subunit of thogoto virus polymerase (form 2)
96c2a7sD_



not modelled 6.4 22
PDB header:ligase
Chain: D: PDB Molecule:probable propionyl-coa carboxylase beta chain 5;
PDBTitle: crystal structure of the acyl-coa carboxylase, accd5, from2 mycobacterium tuberculosis
97c3j3wS_



not modelled 6.2 11
PDB header:ribosome
Chain: S: PDB Molecule:50s ribosomal protein l22;
PDBTitle: atomic model of the immature 50s subunit from bacillus subtilis (state2 ii-a)
98c5kc1H_



not modelled 6.2 31
PDB header:endocytosis
Chain: H: PDB Molecule:autophagy-related protein 38;
PDBTitle: structure of the c-terminal dimerization domain of atg38
99c3ts3D_



not modelled 6.0 23
PDB header:viral protein
Chain: D: PDB Molecule:capsid polyprotein;
PDBTitle: crystal structure of the projection domain of the turkey astrovirus2 capsid protein at 1.5 angstrom resolution

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