Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0233_(nrdB)_278585_279529
DateTue Jul 23 14:50:29 BST 2019
Unique Job ID79eb9b9f57e5ee71
SequenceMTRTRSGSLA ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:44.487 Y:47.245 Z:65.838
Model (left) based on template c3ee4A_
Top template information
PDB header:oxidoreductase
Chain: A: PDB Molecule:probable ribonucleoside-diphosphate reductase;
PDBTitle: r2-like ligand binding mn/fe oxidase from m. tuberculosis
Confidence and coverage
Confidence:100.0% Coverage: 92%
289 residues ( 92% 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
1c3ee4A_



100.0 100
PDB header:oxidoreductase
Chain: A: PDB Molecule:probable ribonucleoside-diphosphate reductase;
PDBTitle: r2-like ligand binding mn/fe oxidase from m. tuberculosis
2c2rccC_



100.0 16
PDB header:oxidoreductase
Chain: C: PDB Molecule:ribonucleoside-diphosphate reductase subunit beta;
PDBTitle: crystal structure of putative class i ribonucleotide reductase2 (np_241368.1) from bacillus halodurans at 1.90 a resolution
3c1yfdA_



100.0 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase 1 beta chain;
PDBTitle: crystal structure of the y122h mutant of ribonucleotide reductase r22 protein from e. coli
4c4bmtB_



100.0 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:ribonucleoside-diphosphate reductase subunit beta;
PDBTitle: crystal structure of ribonucleotide reductase di-iron nrdf2 from bacillus cereus
5c6cwqA_



100.0 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleotide reductase;
PDBTitle: x-ray crystal structure of flavobacterium johnsoniae dimanganese(ii)2 ribonucleotide reductase beta subunit (as-isolated)
6d1mxra_



100.0 18
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
7c4hr0A_



100.0 34
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonuleotide reductase small subunit;
PDBTitle: r2-like ligand-binding oxidase with aerobically reconstituted metal2 cofactor
8d1r2fa_



100.0 17
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
9c5olkD_



100.0 16
PDB header:oxidoreductase
Chain: D: PDB Molecule:ribonucleoside-diphosphate reductase, beta subunit 1;
PDBTitle: crystal structure of the atp-cone-containing nrdb from2 leeuwenhoekiella blandensis
10d1jk0a_



100.0 15
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
11d1uzra_



100.0 17
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
12d1smsa_



100.0 15
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
13c1r2fB_



100.0 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:protein (ribonucleotide reductase r2);
PDBTitle: ribonucleotide reductase r2f protein from salmonella2 typhimurium
14c1syyA_



100.0 22
PDB header:replication,oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase beta chain;
PDBTitle: crystal structure of the r2 subunit of ribonucleotide reductase from2 chlamydia trachomatis
15d1syya_



100.0 22
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
16d1oquc_



100.0 16
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
17c4n83F_



100.0 13
PDB header:oxidoreductase
Chain: F: PDB Molecule:ribonucleoside-diphosphate reductase subunit beta;
PDBTitle: x-ray crystal structure of streptococcus sanguinis dimanganese(ii)-2 nrdf
18c4dr0A_



100.0 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase subunit beta;
PDBTitle: crystal structure of bacillus subtilis dimanganese(ii) nrdf
19d3dhza1



100.0 16
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
20c1h0oA_



100.0 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase;
PDBTitle: cobalt substitution of mouse r2 ribonucleotide reductase to2 model the reactive diferrous state
21c1smqD_



not modelled 100.0 15
PDB header:oxidoreductase
Chain: D: PDB Molecule:ribonucleoside-diphosphate reductase small chain
PDBTitle: structure of the ribonucleotide reductase rnr2 homodimer2 from saccharomyces cerevisiae
22c6qrzA_



not modelled 100.0 37
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase;
PDBTitle: crystal structure of r2-like ligand-binding oxidase from sulfolobus2 acidocaldarius solved by 3d micro-crystal electron diffraction
23c6gp2A_



not modelled 100.0 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleoside-diphosphate reductase beta chain;
PDBTitle: ribonucleotide reductase class ie r2 from mesoplasma florum, dopa-2 active form
24d1w68a_



not modelled 100.0 17
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
25c3hf1B_



not modelled 100.0 16
PDB header:oxidoreductase
Chain: B: PDB Molecule:ribonucleoside-diphosphate reductase subunit m2 b;
PDBTitle: crystal structure of human p53r2
26c2o1zA_



not modelled 100.0 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleotide reductase subunit r2;
PDBTitle: plasmodium vivax ribonucleotide reductase subunit r2 (pv086155)
27c2p1iA_



not modelled 100.0 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribonucleotide reductase, small chain;
PDBTitle: plasmodium yoelii ribonucleotide reductase subunit r2 (py03671)
28c2vuxB_



not modelled 100.0 19
PDB header:oxidoreductase
Chain: B: PDB Molecule:ribonucleoside-diphosphate reductase subunit m2 b;
PDBTitle: human ribonucleotide reductase, subunit m2 b
29d1jk0b_



not modelled 100.0 17
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
30c4a58B_



not modelled 100.0 16
PDB header:oxidoreductase
Chain: B: PDB Molecule:ribonucleoside-diphosphate reductase small chain;
PDBTitle: crystal structure of a monometal state of the2 ribonucleotide-reductase small subunit from epstein-barr virus in3 orthorhombic space group
31c5uxgB_



not modelled 100.0 21
PDB header:lyase
Chain: B: PDB Molecule:aldehyde deformylating oxygenase;
PDBTitle: protein 84 with aldehyde deformylating oxygenase activity from2 sulfolobus tokodaii (monoclinic)
32c6d9fA_



not modelled 100.0 17
PDB header:lyase
Chain: A: PDB Molecule:putative vlmb homolog;
PDBTitle: protein 60 with aldehyde deformylating oxidase activity from2 kitasatospora setae
33d1mhyd_



not modelled 98.9 13
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
34c5hyhA_



not modelled 98.8 15
PDB header:metal binding protein
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: cmli (chemically reduced state), arylamine oxygenase of2 chloramphenicol biosynthetic pathway
35d1mtyd_



not modelled 98.8 11
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
36d2inca1



not modelled 98.8 12
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
37c3dhiA_



not modelled 98.7 12
PDB header:oxidoreductase
Chain: A: PDB Molecule:toluene 4-monooxygenase hydroxylase alpha subunit;
PDBTitle: crystal structure of reduced toluene 4-monoxygenase hydroxylase2 complexed with effector protein
38c3chtA_



not modelled 98.6 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:p-aminobenzoate n-oxygenase;
PDBTitle: crystal structure of di-iron aurf with partially bound ligand
39d1afra_



not modelled 98.3 16
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
40c3pw1A_



not modelled 98.2 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:phenylacetic acid degradation protein paaa;
PDBTitle: the phenylacetyl-coa monooxygenase paaac subcomplex with phenylacetyl-2 coa
41d1za0a1



not modelled 98.2 20
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
42d2incb1



not modelled 98.2 16
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
43c4mudA_



not modelled 98.2 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:ring oxydation complex/ phenylacetic acid degradation
PDBTitle: crystal structure of a ring oxydation complex/ phenylacetic acid2 degradation-like protein (sso1313) from sulfolobus solfataricus p2 at3 2.43 a resolution
44c2inpD_



not modelled 98.0 9
PDB header:oxidoreductase
Chain: D: PDB Molecule:phenol hydroxylase component phl;
PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex
45c3dhgB_



not modelled 98.0 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:toluene 4-monooxygenase hydroxylase beta subunit;
PDBTitle: crystal structure of toluene 4-monoxygenase hydroxylase
46c2innA_



not modelled 98.0 10
PDB header:oxidoreductase
Chain: A: PDB Molecule:phenol hydroxylase component phn;
PDBTitle: structure of the phenol hydroxyalse-regulatory protein complex
47c4quwA_



not modelled 97.9 17
PDB header:lyase
Chain: A: PDB Molecule:aldehyde decarbonylase;
PDBTitle: crystal structure of the apo form of cyanobacterial aldehyde-2 deformylating oxygenase
48c5uwzA_



not modelled 97.6 14
PDB header:lyase
Chain: A: PDB Molecule:aldehyde decarbonylase;
PDBTitle: protein 12 with aldehyde deformylating oxygenase activity from2 gloeobacter violaceus
49c5ux2B_



not modelled 97.2 18
PDB header:lyase
Chain: B: PDB Molecule:aldehyde decarbonylase;
PDBTitle: protein 19 with aldehyde deformylating oxidase activity from2 synechococcus
50d2oc5a1



not modelled 97.1 19
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:PMT1231-like
51d2fzfa1



not modelled 96.4 15
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
52d1mhyb_



not modelled 96.0 7
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
53c3pm5B_



not modelled 95.4 21
PDB header:oxidoreductase
Chain: B: PDB Molecule:benzoyl-coa oxygenase component b;
PDBTitle: crystal structure of boxb in mixed valent state with bound benzoyl-coa
54c4di0B_



not modelled 95.0 18
PDB header:oxidoreductase
Chain: B: PDB Molecule:rubrerythrin;
PDBTitle: the structure of rubrerythrin from burkholderia pseudomallei
55d1nnqa1



not modelled 94.5 15
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
56d1otka_



not modelled 93.9 12
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
57d2fkza1



not modelled 93.8 12
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
58d2oh3a1



not modelled 93.7 11
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:AMB4284-like
59c2hr5B_



not modelled 93.5 16
PDB header:metal binding protein
Chain: B: PDB Molecule:rubrerythrin;
PDBTitle: pf1283- rubrerythrin from pyrococcus furiosus iron bound form
60c3bknB_



not modelled 93.1 11
PDB header:metal binding protein
Chain: B: PDB Molecule:bacterioferritin;
PDBTitle: the structure of mycobacterial bacterioferritin
61d1nf4a_



not modelled 93.1 10
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
62d1yv1a1



not modelled 92.9 15
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
63c5xx9A_



not modelled 92.8 12
PDB header:metal transport
Chain: A: PDB Molecule:bacterioferritin;
PDBTitle: crystal structure of bacterioferritin
64d1j30a_



not modelled 92.1 16
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
65d1lkoa1



not modelled 92.0 13
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
66d2htna1



not modelled 91.2 10
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
67c3gvyC_



not modelled 91.1 12
PDB header:metal binding protein
Chain: C: PDB Molecule:bacterioferritin;
PDBTitle: crystal structure of bacterioferritin from r.sphaeroides
68d1jgca_



not modelled 91.1 10
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
69c2qqyA_



not modelled 89.1 11
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:sigma b operon;
PDBTitle: crystal structure of ferritin like, diiron-carboxylate proteins from2 bacillus anthracis str. ames
70c3qhbA_



not modelled 87.4 15
PDB header:metal transport
Chain: A: PDB Molecule:symerythrin;
PDBTitle: crystal structure of oxidized symerythrin from cyanophora paradoxa
71c3ddeB_



not modelled 87.0 13
PDB header:unknown function
Chain: B: PDB Molecule:tena/thi-4 protein, domain of unknown function with a heme
PDBTitle: crystal structure of a domain of unknown function with a heme2 oxygenase-like fold (sden_3740) from shewanella denitrificans os2173 at 2.30 a resolution
72c2vzbA_



not modelled 87.0 11
PDB header:metal transport
Chain: A: PDB Molecule:putative bacterioferritin-related protein;
PDBTitle: a dodecameric thioferritin in the bacterial domain, characterization2 of the bacterioferritin-related protein from bacteroides fragilis
73c1yuzB_



not modelled 86.1 16
PDB header:oxidoreductase
Chain: B: PDB Molecule:nigerythrin;
PDBTitle: partially reduced state of nigerythrin
74c1dvbA_



not modelled 85.5 14
PDB header:electron transport
Chain: A: PDB Molecule:rubrerythrin;
PDBTitle: rubrerythrin
75c4am4B_



not modelled 85.2 10
PDB header:metal binding protein
Chain: B: PDB Molecule:bacterioferritin;
PDBTitle: bacterioferritin from blastochloris viridis
76c5n5eM_



not modelled 84.8 7
PDB header:oxidoreductase
Chain: M: PDB Molecule:pfc_05175;
PDBTitle: crystal structure of encapsulated ferritin domain from pyrococcus2 furiosus pfc_05175
77d1vjxa_



not modelled 77.0 13
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
78d1rcwa_



not modelled 75.4 11
Fold:Heme oxygenase-like
Superfamily:Heme oxygenase-like
Family:PqqC-like
79c3oqlB_



not modelled 75.1 10
PDB header:transcription
Chain: B: PDB Molecule:tena homolog;
PDBTitle: crystal structure of a tena homolog (pspto1738) from pseudomonas2 syringae pv. tomato str. dc3000 at 2.54 a resolution
80d1jkva_



not modelled 74.7 12
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Manganese catalase (T-catalase)
81c4r42B_



not modelled 72.6 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:alr3090 protein;
PDBTitle: crystal structure of katb, a manganese catalase from anabaena pcc7120
82d1yuza1



not modelled 69.9 17
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
83d1z72a1



not modelled 69.3 9
Fold:Heme oxygenase-like
Superfamily:Heme oxygenase-like
Family:TENA/THI-4
84c3fvbB_



not modelled 68.2 10
PDB header:metal binding protein
Chain: B: PDB Molecule:bacterioferritin;
PDBTitle: crystal structure of ferritin (bacterioferritin) from brucella2 melitensis
85c3r2rA_



not modelled 66.0 13
PDB header:metal binding protein
Chain: A: PDB Molecule:bacterioferritin;
PDBTitle: 1.65a resolution structure of iron soaked ftna from pseudomonas2 aeruginosa (ph 6.0)
86c2rd3A_



not modelled 65.4 6
PDB header:hydrolase
Chain: A: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of tena homologue (hp1287) from helicobacter pylori
87c3oqlA_



not modelled 61.9 11
PDB header:transcription
Chain: A: PDB Molecule:tena homolog;
PDBTitle: crystal structure of a tena homolog (pspto1738) from pseudomonas2 syringae pv. tomato str. dc3000 at 2.54 a resolution
88c2clbP_



not modelled 53.8 12
PDB header:metal binding protein
Chain: P: PDB Molecule:dps-like protein;
PDBTitle: the structure of the dps-like protein from sulfolobus2 solfataricus reveals a bacterioferritin-like di-metal3 binding site within a dps-like dodecameric assembly
89d1udda_



not modelled 48.9 3
Fold:Heme oxygenase-like
Superfamily:Heme oxygenase-like
Family:TENA/THI-4
90d1mtyb_



not modelled 48.8 9
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ribonucleotide reductase-like
91c2hz8A_



not modelled 47.9 30
PDB header:de novo protein
Chain: A: PDB Molecule:de novo designed diiron protein;
PDBTitle: qm/mm structure refined from nmr-structure of a single2 chain diiron protein
92c5wljC_



not modelled 46.1 60
PDB header:de novo protein
Chain: C: PDB Molecule:de novo metal binding helical bundle;
PDBTitle: de novo design of polynuclear transition metal clusters in helix2 bundles-4eh1
93c5wljD_



not modelled 46.1 60
PDB header:de novo protein
Chain: D: PDB Molecule:de novo metal binding helical bundle;
PDBTitle: de novo design of polynuclear transition metal clusters in helix2 bundles-4eh1
94c5wljB_



not modelled 46.1 60
PDB header:de novo protein
Chain: B: PDB Molecule:de novo metal binding helical bundle;
PDBTitle: de novo design of polynuclear transition metal clusters in helix2 bundles-4eh1
95c5wljA_



not modelled 46.1 60
PDB header:de novo protein
Chain: A: PDB Molecule:de novo metal binding helical bundle;
PDBTitle: de novo design of polynuclear transition metal clusters in helix2 bundles-4eh1
96c3bjdA_



not modelled 37.2 12
PDB header:transferase
Chain: A: PDB Molecule:putative 3-oxoacyl-(acyl-carrier-protein) synthase;
PDBTitle: crystal structure of putative 3-oxoacyl-(acyl-carrier-protein)2 synthase from pseudomonas aeruginosa
97c3e6sD_



not modelled 30.7 12
PDB header:oxidoreductase
Chain: D: PDB Molecule:ferritin;
PDBTitle: crystal structure of ferritin soaked with iron from pseudo-nitzschia2 multiseries
98c3q4nA_



not modelled 28.6 13
PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein mj0754;
PDBTitle: crystal structure of hypothetical protein mj0754 from methanococcus2 jannaschii dsm 2661
99c3fiaA_



not modelled 25.6 10
PDB header:protein binding
Chain: A: PDB Molecule:intersectin-1;
PDBTitle: crystal structure of the eh 1 domain from human intersectin-1 protein.2 northeast structural genomics consortium target hr3646e.
100d1tfra1



not modelled 23.0 18
Fold:SAM domain-like
Superfamily:5' to 3' exonuclease, C-terminal subdomain
Family:5' to 3' exonuclease, C-terminal subdomain
101d1xp8a2



not modelled 21.1 14
Fold:Anti-LPS factor/recA domain
Superfamily:RecA protein, C-terminal domain
Family:RecA protein, C-terminal domain
102c5vrdD_



not modelled 20.5 10
PDB header:oxidoreductase
Chain: D: PDB Molecule:bifunctional coenzyme pqq synthesis protein c/d;
PDBTitle: crystal structure for methylobacterium extorquens pqqcd (natural2 fusion)

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Transmembrane helix prediction 

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