Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2050_(-)_2307829_2308164
DateMon Aug 5 13:25:16 BST 2019
Unique Job ID464e354003c02fe7
SequenceMADRVLRGSR ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:44.550 Y:67.600 Z:85.726
Model (left) based on template c6c04J_
Top template information
PDB header:transcription/dna
Chain: J: PDB Molecule:rna polymerase-binding protein rbpa;
PDBTitle: mtb rnap holo/rbpa/double fork dna -closed clamp
Confidence and coverage
Confidence:100.0% Coverage: 97%
108 residues ( 97% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
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Sequence analysis 

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#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c6c04J_
100.0 100
PDB header:transcription/dna
Chain: J: PDB Molecule:rna polymerase-binding protein rbpa;
PDBTitle: mtb rnap holo/rbpa/double fork dna -closed clamp
2c5tw1J_
100.0 89
PDB header:transcription activator/transferase/dna
Chain: J: PDB Molecule:rna polymerase-binding protein rbpa;
PDBTitle: crystal structure of a mycobacterium smegmatis transcription2 initiation complex with rbpa
3c2m4vA_
100.0 100
PDB header:transcription
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: mycobacterium tuberculosis rna polymerase binding protein a (rbpa) and2 its interactions with sigma factors
4c2m6oA_
99.8 45
PDB header:transcription
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: the actinobacterial transcription factor rbpa binds to the principal2 sigma subunit of rna polymerase
5c4x8kB_
99.4 100
PDB header:transcription activator
Chain: B: PDB Molecule:rna polymerase-binding protein rbpa;
PDBTitle: mycobacterium tuberculosis rbpa-sid in complex with sigmaa domain 2
6c5xknE_
66.0 44
PDB header:transferase/signaling protein
Chain: E: PDB Molecule:epidermal patterning factor-like protein 4;
PDBTitle: crystal structure of plant receptor erl2 in complexe with epfl4
7c5xknF_
66.0 44
PDB header:transferase/signaling protein
Chain: F: PDB Molecule:epidermal patterning factor-like protein 4;
PDBTitle: crystal structure of plant receptor erl2 in complexe with epfl4
8c3f6zB_
63.1 25
PDB header:hydrolase
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of pseudomonas aeruginosa mlic in complex2 with hen egg white lysozyme
9c5my7A_
58.2 13
PDB header:cell adhesion
Chain: A: PDB Molecule:adhesin;
PDBTitle: adhesin complex protein from neisseria meningitidis
10c2m4lA_
47.7 20
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:protein bt_0846;
PDBTitle: nmr structure of the protein bt_0846 from bacteroides thetaiotaomicron2 vpi-5482 (np_809759.1)
11c5y81E_
47.0 63
PDB header:transcription
Chain: E: PDB Molecule:chromatin modification-related protein eaf1;
PDBTitle: nua4 teeaa sub-complex
12c2ms3A_
38.3 27
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
13c3oe3B_
31.6 16
PDB header:hydrolase inhibitor
Chain: B: PDB Molecule:putative periplasmic protein;
PDBTitle: crystal structure of plic-st, periplasmic lysozyme inhibitor of c-type2 lysozyme from salmonella typhimurium
14d2jnea1
28.4 17
Fold:Rubredoxin-like
Superfamily:YfgJ-like
Family:YfgJ-like
15c2jneA_
28.4 17
PDB header:metal binding protein
Chain: A: PDB Molecule:hypothetical protein yfgj;
PDBTitle: nmr structure of e.coli yfgj modelled with two zn+2 bound. northeast2 structural genomics consortium target er317.
16d1h7va_
27.5 6
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
17c2kn9A_
27.3 29
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
18c1dvbA_
27.0 21
PDB header:electron transport
Chain: A: PDB Molecule:rubrerythrin;
PDBTitle: rubrerythrin
19d6rxna_
26.9 25
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
20d2dsxa1
26.6 25
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
21d1rb9a_
not modelled 26.6 24
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
22d2rdva_
not modelled 26.4 25
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
23d1qcva_
not modelled 25.8 25
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
24d1dx8a_
not modelled 25.7 7
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
25d1iroa_
not modelled 25.7 29
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
26d4rxna_
not modelled 25.6 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
27c1s24A_
not modelled 25.5 31
PDB header:electron transport
Chain: A: PDB Molecule:rubredoxin 2;
PDBTitle: rubredoxin domain ii from pseudomonas oleovorans
28d1s24a_
not modelled 25.5 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
29c2v3bB_
not modelled 25.4 31
PDB header:oxidoreductase
Chain: B: PDB Molecule:rubredoxin 2;
PDBTitle: crystal structure of the electron transfer complex rubredoxin -2 rubredoxin reductase from pseudomonas aeruginosa.
30c2jrpA_
not modelled 24.5 33
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative cytoplasmic protein;
PDBTitle: solution nmr structure of yfgj from salmonella typhimurium2 modeled with two zn+2 bound, northeast structural genomics3 consortium target str86
31d1iu5a_
not modelled 24.2 40
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
32d1brfa_
not modelled 23.8 31
Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
33d1x6ha1
not modelled 21.7 24
Fold:beta-beta-alpha zinc fingers
Superfamily:beta-beta-alpha zinc fingers
Family:Classic zinc finger, C2H2
34c5xpdA_
not modelled 20.6 36
PDB header:transport protein
Chain: A: PDB Molecule:sugar transporter;
PDBTitle: sugar transporter of atsweet13 in inward-facing state with a substrate2 analog
35c4uciA_
not modelled 18.1 24
PDB header:transferase
Chain: A: PDB Molecule:rna-directed rna polymerase l;
PDBTitle: x-ray structure and activities of an essential mononegavirales l-2 protein domain
36c5h7pB_
not modelled 15.3 38
PDB header:protein transport
Chain: B: PDB Molecule:vacuolar protein-sorting-associated protein 46;
PDBTitle: nmr structure of the vta1ntd-did2(176-204) complex
37c3ggzH_
not modelled 15.2 38
PDB header:protein transport, endocytosis
Chain: H: PDB Molecule:vacuolar protein-sorting-associated protein 46;
PDBTitle: crystal structure of s.cerevisiae ist1 n-terminal domain in complex2 with did2 mim motif
38c2pg1J_
not modelled 14.3 45
PDB header:structural protein
Chain: J: PDB Molecule:cytoplasmic dynein 1 intermediate chain 2;
PDBTitle: structural analysis of a cytoplasmic dynein light chain-2 intermediate chain complex
39c2pg1L_
not modelled 14.3 45
PDB header:structural protein
Chain: L: PDB Molecule:cytoplasmic dynein 1 intermediate chain 2;
PDBTitle: structural analysis of a cytoplasmic dynein light chain-2 intermediate chain complex
40c3fqiA_
not modelled 14.1 18
PDB header:protein binding
Chain: A: PDB Molecule:protein dom3z;
PDBTitle: crystal structure of the mouse dom3z
41c3ggzF_
not modelled 13.9 38
PDB header:protein transport, endocytosis
Chain: F: PDB Molecule:vacuolar protein-sorting-associated protein 46;
PDBTitle: crystal structure of s.cerevisiae ist1 n-terminal domain in complex2 with did2 mim motif
42c3ggzE_
not modelled 13.9 38
PDB header:protein transport, endocytosis
Chain: E: PDB Molecule:vacuolar protein-sorting-associated protein 46;
PDBTitle: crystal structure of s.cerevisiae ist1 n-terminal domain in complex2 with did2 mim motif
43c2ofqA_
not modelled 13.5 23
PDB header:protein transport/protein transport
Chain: A: PDB Molecule:trao;
PDBTitle: nmr solution structure of a complex between the virb9/virb72 interaction domains of the pkm101 type iv secretion system
44c3ir9A_
not modelled 13.2 13
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:peptide chain release factor subunit 1;
PDBTitle: c-terminal domain of peptide chain release factor from methanosarcina2 mazei.
45c3mk4B_
not modelled 12.7 47
PDB header:protein transport
Chain: B: PDB Molecule:peroxisomal biogenesis factor 19;
PDBTitle: x-ray structure of human pex3 in complex with a pex19 derived peptide
46c2m4yA_
not modelled 11.9 33
PDB header:electron transport
Chain: A: PDB Molecule:rubredoxin;
PDBTitle: rubredoxin type protein from mycobacterium ulcerans
47c2ktvA_
not modelled 11.5 13
PDB header:translation
Chain: A: PDB Molecule:eukaryotic peptide chain release factor subunit 1;
PDBTitle: human erf1 c-domain, "open" conformer
48c3tweA_
not modelled 10.3 43
PDB header:unknown function
Chain: A: PDB Molecule:alpha4h;
PDBTitle: crystal structure of the de novo designed peptide alpha4h
49c3tweB_
not modelled 10.1 43
PDB header:unknown function
Chain: B: PDB Molecule:alpha4h;
PDBTitle: crystal structure of the de novo designed peptide alpha4h
50c3ggzG_
not modelled 9.9 40
PDB header:protein transport, endocytosis
Chain: G: PDB Molecule:vacuolar protein-sorting-associated protein 46;
PDBTitle: crystal structure of s.cerevisiae ist1 n-terminal domain in complex2 with did2 mim motif
51d2ok5a4
not modelled 9.8 22
Fold:Complement control module/SCR domain
Superfamily:Complement control module/SCR domain
Family:Complement control module/SCR domain
52c5jnpB_
not modelled 9.6 22
PDB header:transferase
Chain: B: PDB Molecule:probable cellulose synthase a catalytic subunit 8 [udp-
PDBTitle: crystal structure of a rice (oryza sativa) cellulose synthase plant2 conserved region (p-cr)
53c6oegY_
not modelled 9.0 13
PDB header:translocase
Chain: Y: PDB Molecule:type iv secretion system apparatus protein cagx;
PDBTitle: structure of cagx from a cryo-em reconstruction of a t4ss
54c3ajbB_
not modelled 8.9 37
PDB header:protein transport
Chain: B: PDB Molecule:peroxisomal biogenesis factor 19;
PDBTitle: crystal structure of human pex3p in complex with n-terminal pex19p2 peptide
55c4xalA_
not modelled 8.9 46
PDB header:viral protein
Chain: A: PDB Molecule:tegument protein vp22;
PDBTitle: crystal structure of the conserved core domain of vp22 from hsv-1
56d2f09a1
not modelled 8.5 10
Fold:Streptavidin-like
Superfamily:YdhA-like
Family:YdhA-like
57d1xx6a2
not modelled 8.3 33
Fold:Glucocorticoid receptor-like (DNA-binding domain)
Superfamily:Glucocorticoid receptor-like (DNA-binding domain)
Family:Type II thymidine kinase zinc finger
58c5m2uA_
not modelled 8.0 35
PDB header:photosynthesis
Chain: A: PDB Molecule:ycf54;
PDBTitle: the structure of the ycf54 protein from synechocystis sp. pcc6803
59d3ci0j1
not modelled 7.9 17
Fold:Pili subunits
Superfamily:Pili subunits
Family:EpsJ-like
60c6a68A_
not modelled 7.9 33
PDB header:exocytosis
Chain: A: PDB Molecule:calcium-dependent secretion activator 1;
PDBTitle: the crystal structure of rat calcium-dependent activator protein for2 secretion (caps) damh domain
61c1odpA_
not modelled 7.8 38
PDB header:lipid transport
Chain: A: PDB Molecule:apoa-i peptide;
PDBTitle: peptide of human apoa-i residues 166-185. nmr, 5 structures2 at ph 6.6, 37 degrees celsius and peptide:sds mole ratio3 of 1:40
62c1odrA_
not modelled 7.8 38
PDB header:lipid transport
Chain: A: PDB Molecule:apoa-i peptide;
PDBTitle: peptide of human apoa-i residues 166-185. nmr, 5 structures2 at ph 6.0, 37 degrees celsius and peptide:dpc mole ratio3 of 1:40
63c1odqA_
not modelled 7.8 38
PDB header:lipid transport
Chain: A: PDB Molecule:apoa-i peptide;
PDBTitle: peptide of human apoa-i residues 166-185. nmr, 5 structures2 at ph 3.7, 37 degrees celsius and peptide:sds mole ratio3 of 1:40
64c2iwjA_
not modelled 7.7 33
PDB header:transferase
Chain: A: PDB Molecule:gag-pol polyprotein;
PDBTitle: solution structure of the zn complex of hiv-2 ncp(23-49)2 peptide, encompassing protein cchc-linker, distal cchc zn-3 binding motif and c-terminal tail.
65c5btoA_
not modelled 7.7 24
PDB header:hydrolase
Chain: A: PDB Molecule:ssrai1;
PDBTitle: crystal structure of scheffersomyces stipitis rai1
66c3izrm_
not modelled 7.6 33
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
67c3cc4Z_
not modelled 7.6 22
PDB header:ribosome
Chain: Z: PDB Molecule:50s ribosomal protein l37ae;
PDBTitle: co-crystal structure of anisomycin bound to the 50s ribosomal subunit
68d1vqoz1
not modelled 7.6 22
Fold:Rubredoxin-like
Superfamily:Zn-binding ribosomal proteins
Family:Ribosomal protein L37ae
69c2qa4Z_
not modelled 7.6 22
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
70c2e1xA_
not modelled 7.6 33
PDB header:viral protein
Chain: A: PDB Molecule:gag-pol polyprotein (pr160gag-pol);
PDBTitle: nmr structure of the hiv-2 nucleocapsid protein
71c2zkrz_
not modelled 7.5 22
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
72c3zf7o_
not modelled 7.5 23
PDB header:ribosome
Chain: O: PDB Molecule:60s ribosomal protein l13a, putative;
PDBTitle: high-resolution cryo-electron microscopy structure of the trypanosoma2 brucei ribosome
73c1yshD_
not modelled 7.3 33
PDB header:structural protein/rna
Chain: D: PDB Molecule:ribosomal protein l37a;
PDBTitle: localization and dynamic behavior of ribosomal protein l30e
74c4pogC_
not modelled 7.3 21
PDB header:replication, dna binding protein/dna
Chain: C: PDB Molecule:cell division control protein 21;
PDBTitle: mcm-ssdna co-crystal structure
75d1zswa1
not modelled 7.2 11
Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Family:BC1024-like
76d1jj2y_
not modelled 7.2 33
Fold:Rubredoxin-like
Superfamily:Zn-binding ribosomal proteins
Family:Ribosomal protein L37ae
77c3j39p_
not modelled 7.1 33
PDB header:ribosome
Chain: P: PDB Molecule:60s ribosomal protein l17;
PDBTitle: structure of the d. melanogaster 60s ribosomal proteins
78c3jyw9_
not modelled 7.1 22
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
79d1ffkw_
not modelled 7.1 33
Fold:Rubredoxin-like
Superfamily:Zn-binding ribosomal proteins
Family:Ribosomal protein L37ae
80c3j21i_
not modelled 7.1 33
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)
81c3jsrA_
not modelled 7.1 33
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:all0216 protein;
PDBTitle: x-ray structure of all0216 protein from nostoc sp. pcc 7120 at the2 resolution 1.8a. northeast structural genomics consortium target3 nsr236
82d1p91a_
not modelled 7.1 17
Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:rRNA methyltransferase RlmA
83d1lgta2
not modelled 6.9 22
Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
Family:Extradiol dioxygenases
84c5h3vA_
not modelled 6.6 13
PDB header:protein binding
Chain: A: PDB Molecule:cag8;
PDBTitle: crystal structure of a type iv secretion system component cagx in2 helicobacter pylori
85c4ed9A_
not modelled 6.5 18
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:caib/baif family protein;
PDBTitle: crystal structure of a caib/baif family protein from brucella suis
86d1i42a_
not modelled 6.4 18
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:UBX domain
87c5da5R_
not modelled 6.4 38
PDB header:oxidoreductase
Chain: R: PDB Molecule:rru_a0973;
PDBTitle: crystal structure of rhodospirillum rubrum rru_a0973
88c2ysaA_
not modelled 6.4 33
PDB header:metal binding protein
Chain: A: PDB Molecule:retinoblastoma-binding protein 6;
PDBTitle: solution structure of the zinc finger cchc domain from the2 human retinoblastoma-binding protein 6 (retinoblastoma-3 binding q protein 1, rbq-1)
89c4a17Y_
not modelled 6.4 22
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.
90d1mbya_
not modelled 6.4 15
Fold:Polo-box domain
Superfamily:Polo-box domain
Family:Swapped Polo-box domain
91d1ed7a_
not modelled 6.2 13
Fold:WW domain-like
Superfamily:Carbohydrate binding domain
Family:Carbohydrate binding domain
92c5xyiG_
not modelled 6.2 27
PDB header:ribosome
Chain: G: PDB Molecule:40s ribosomal protein s6;
PDBTitle: small subunit of trichomonas vaginalis ribosome
93c5vb0E_
not modelled 6.1 8
PDB header:transferase
Chain: E: PDB Molecule:fosfomycin resistance protein fosa3;
PDBTitle: crystal structure of fosfomycin resistance protein fosa3
94c2n37A_
not modelled 6.1 48
PDB header:unknown function
Chain: A: PDB Molecule:avr-pia protein;
PDBTitle: solution structure of avr-pia
95c2lvhA_
not modelled 5.6 33
PDB header:metal binding protein
Chain: A: PDB Molecule:putative zinc finger protein orf59a;
PDBTitle: solution structure of the zinc finger afv1p06 protein from the2 hyperthermophilic archaeal virus afv1
96d1s3sg_
not modelled 5.6 20
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:UBX domain
97c5g5oC_
not modelled 5.4 14
PDB header:viral protein
Chain: C: PDB Molecule:lh3 hexon-interlacing capsid protein;
PDBTitle: structure of the snake adenovirus 1 hexon-interlacing lh3 protein,2 native
98d1wj4a_
not modelled 5.4 13
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:UBX domain
99d1qpga_
not modelled 5.3 18
Fold:Phosphoglycerate kinase
Superfamily:Phosphoglycerate kinase
Family:Phosphoglycerate kinase

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