Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD0253_(nirD)_305453_305809
DateTue Jul 23 14:50:31 BST 2019
Unique Job ID9fee5df921b782c4
SequenceVTLLNDIQVW ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:33.958 Y:39.972 Z:30.341
Model (left) based on template c4aivA_
Top template information
PDB header:oxidoreductase
Chain: A: PDB Molecule:probable nitrite reductase [nad(p)h] small subunit nird;
PDBTitle: crystal structure of putative nadh-dependent nitrite reductase small2 subunit from mycobacterium tuberculosis
Confidence and coverage
Confidence:100.0% Coverage: 96%
113 residues ( 96% 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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Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c4aivA_



100.0 100
PDB header:oxidoreductase
Chain: A: PDB Molecule:probable nitrite reductase [nad(p)h] small subunit nird;
PDBTitle: crystal structure of putative nadh-dependent nitrite reductase small2 subunit from mycobacterium tuberculosis
2d2jo6a1



100.0 41
Fold:ISP domain
Superfamily:ISP domain
Family:NirD-like
3d3c0da1



100.0 38
Fold:ISP domain
Superfamily:ISP domain
Family:NirD-like
4d2jzaa1



100.0 44
Fold:ISP domain
Superfamily:ISP domain
Family:NirD-like
5d1vm9a_



100.0 18
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
6c3gceA_



99.9 25
PDB header:oxidoreductase
Chain: A: PDB Molecule:ferredoxin component of carbazole 1,9a-
PDBTitle: ferredoxin of carbazole 1,9a-dioxygenase from nocardioides2 aromaticivorans ic177
7c2de7E_



99.9 24
PDB header:oxidoreductase
Chain: E: PDB Molecule:ferredoxin component of carbazole;
PDBTitle: the substrate-bound complex between oxygenase and2 ferredoxin in carbazole 1,9a-dioxygenase
8c4qdfA_



99.9 17
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: A: PDB Molecule:3-ketosteroid 9alpha-hydroxylase oxygenase;
PDBTitle: crystal structure of apo ksha5 and ksha1 in complex with 1,4-30q-coa2 from r. rhodochrous
9c4qdfB_



99.9 15
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: B: PDB Molecule:3-ketosteroid 9alpha-hydroxylase oxygenase;
PDBTitle: crystal structure of apo ksha5 and ksha1 in complex with 1,4-30q-coa2 from r. rhodochrous
10c2qpzA_



99.9 24
PDB header:metal binding protein
Chain: A: PDB Molecule:naphthalene 1,2-dioxygenase system ferredoxin
PDBTitle: naphthalene 1,2-dioxygenase rieske ferredoxin
11d1fqta_



99.9 19
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
12c2zylA_



99.9 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:possible oxidoreductase;
PDBTitle: crystal structure of 3-ketosteroid-9-alpha-hydroxylase2 (ksha) from m. tuberculosis
13c2de7B_



99.9 16
PDB header:oxidoreductase
Chain: B: PDB Molecule:terminal oxygenase component of carbazole;
PDBTitle: the substrate-bound complex between oxygenase and2 ferredoxin in carbazole 1,9a-dioxygenase
14c3gkqB_



99.9 24
PDB header:oxidoreductase
Chain: B: PDB Molecule:terminal oxygenase component of carbazole 1,9a-dioxygenase;
PDBTitle: terminal oxygenase of carbazole 1,9a-dioxygenase from novosphingobium2 sp. ka1
15c3d89A_



99.9 20
PDB header:electron transport
Chain: A: PDB Molecule:rieske domain-containing protein;
PDBTitle: crystal structure of a soluble rieske ferredoxin from mus musculus
16d2de6a1



99.9 15
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
17d1z01a1



99.9 20
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
18c3gcfC_



99.9 24
PDB header:oxidoreductase
Chain: C: PDB Molecule:terminal oxygenase component of carbazole 1,9a-
PDBTitle: terminal oxygenase of carbazole 1,9a-dioxygenase from2 nocardioides aromaticivorans ic177
19c3n0qA_



99.9 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:putative aromatic-ring hydroxylating dioxygenase;
PDBTitle: crystal structure of a putative aromatic-ring hydroxylating2 dioxygenase (tm1040_3219) from silicibacter sp. tm1040 at 1.80 a3 resolution
20c3vcaA_



99.9 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:ring-hydroxylating dioxygenase;
PDBTitle: quaternary ammonium oxidative demethylation: x-ray crystallographic,2 resonance raman and uv-visible spectroscopic analysis of a rieske-3 type demethylase
21c1z01D_



not modelled 99.9 20
PDB header:oxidoreductase
Chain: D: PDB Molecule:2-oxo-1,2-dihydroquinoline 8-monooxygenase, oxygenase
PDBTitle: 2-oxoquinoline 8-monooxygenase component: active site modulation by2 rieske-[2fe-2s] center oxidation/reduction
22c3gteB_



not modelled 99.9 27
PDB header:electron transport, oxidoreductase
Chain: B: PDB Molecule:ddmc;
PDBTitle: crystal structure of dicamba monooxygenase with non-heme iron
23c2i7fB_



not modelled 99.9 17
PDB header:oxidoreductase
Chain: B: PDB Molecule:ferredoxin component of dioxygenase;
PDBTitle: sphingomonas yanoikuyae b1 ferredoxin
24c3dqyA_



not modelled 99.9 22
PDB header:oxidoreductase
Chain: A: PDB Molecule:toluene 1,2-dioxygenase system ferredoxin
PDBTitle: crystal structure of toluene 2,3-dioxygenase ferredoxin
25d1ulia1



not modelled 99.9 14
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
26d1wqla1



not modelled 99.9 14
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
27c5cxmC_



not modelled 99.9 15
PDB header:metal binding protein
Chain: C: PDB Molecule:cytochrome b6/f complex iron-sulfur subunit;
PDBTitle: crystal structure of the cyanobacterial plasma membrane rieske protein2 petc3 from synechocystis pcc 6803
28d2bmoa1



not modelled 99.9 17
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
29c1uljA_



not modelled 99.9 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:biphenyl dioxygenase large subunit;
PDBTitle: biphenyl dioxygenase (bpha1a2) in complex with the substrate
30c1wqlA_



not modelled 99.9 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:iron-sulfur protein large subunit of cumene dioxygenase;
PDBTitle: cumene dioxygenase (cuma1a2) from pseudomonas fluorescens ip01
31d2b1xa1



not modelled 99.9 17
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
32d1o7na1



not modelled 99.9 17
Fold:ISP domain
Superfamily:ISP domain
Family:Ring hydroxylating alpha subunit ISP domain
33c2gbxE_



not modelled 99.9 20
PDB header:oxidoreductase
Chain: E: PDB Molecule:biphenyl 2,3-dioxygenase alpha subunit;
PDBTitle: crystal structure of biphenyl 2,3-dioxygenase from sphingomonas2 yanoikuyae b1 bound to biphenyl
34c2hmnA_



not modelled 99.9 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:naphthalene 1,2-dioxygenase alpha subunit;
PDBTitle: crystal structure of the naphthalene 1,2-dioxygenase f352v2 mutant bound to anthracene.
35c2b1xE_



not modelled 99.9 17
PDB header:oxidoreductase
Chain: E: PDB Molecule:naphthalene dioxygenase large subunit;
PDBTitle: crystal structure of naphthalene 1,2-dioxygenase from rhodococcus sp.
36c4aayH_



not modelled 99.9 19
PDB header:oxidoreductase
Chain: H: PDB Molecule:arob;
PDBTitle: crystal structure of the arsenite oxidase protein complex2 from rhizobium species strain nt-26
37d1rfsa_



not modelled 99.8 14
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
38d1g8kb_



not modelled 99.8 14
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
39d1q90c_



not modelled 99.8 13
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
40d3cx5e1



not modelled 99.8 14
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
41d2e74d1



not modelled 99.8 14
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
42d1riea_



not modelled 99.7 14
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
43d1nyka_



not modelled 99.7 21
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
44c2e76D_



not modelled 99.6 14
PDB header:photosynthesis
Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit;
PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus
45c2fyuE_



not modelled 99.6 13
PDB header:oxidoreductase
Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit,
PDBTitle: crystal structure of bovine heart mitochondrial bc1 with jg1442 inhibitor
46c1p84E_



not modelled 99.6 16
PDB header:oxidoreductase
Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit;
PDBTitle: hdbt inhibited yeast cytochrome bc1 complex
47c2fynO_



not modelled 99.5 19
PDB header:oxidoreductase
Chain: O: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur
PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex
48c2nvgA_



not modelled 99.5 25
PDB header:oxidoreductase
Chain: A: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit;
PDBTitle: soluble domain of rieske iron sulfur protein.
49d1jm1a_



not modelled 99.4 22
Fold:ISP domain
Superfamily:ISP domain
Family:Rieske iron-sulfur protein (ISP)
50c6hwhB_



not modelled 99.4 13
PDB header:electron transport
Chain: B: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit;
PDBTitle: structure of a functional obligate respiratory supercomplex from2 mycobacterium smegmatis
51c6fo2R_



not modelled 98.9 16
PDB header:membrane protein
Chain: R: PDB Molecule:cytochrome b-c1 complex subunit rieske, mitochondrial;
PDBTitle: cryoem structure of bovine cytochrome bc1 with no ligand bound
52d2hf1a1



not modelled 57.0 19
Fold:Trm112p-like
Superfamily:Trm112p-like
Family:Trm112p-like
53d2jnya1



not modelled 56.9 19
Fold:Trm112p-like
Superfamily:Trm112p-like
Family:Trm112p-like
54d2pk7a1



not modelled 53.6 16
Fold:Trm112p-like
Superfamily:Trm112p-like
Family:Trm112p-like
55c2jr6A_



not modelled 48.5 22
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0434 protein nma0874;
PDBTitle: solution structure of upf0434 protein nma0874. northeast structural2 genomics target mr32
56c2kpiA_



not modelled 46.9 19
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein sco3027;
PDBTitle: solution nmr structure of streptomyces coelicolor sco30272 modeled with zn+2 bound, northeast structural genomics3 consortium target rr58
57c2js4A_



not modelled 46.0 22
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:upf0434 protein bb2007;
PDBTitle: solution nmr structure of bordetella bronchiseptica protein2 bb2007. northeast structural genomics consortium target3 bor54
58c6f5zC_



not modelled 40.0 13
PDB header:transferase
Chain: C: PDB Molecule:upf0434 family protein;
PDBTitle: complex between the haloferax volcanii trm112 methyltransferase2 activator and the hvo_0019 putative methyltransferase
59c3tenD_



not modelled 33.5 0
PDB header:hydrolase
Chain: D: PDB Molecule:cs2 hydrolase;
PDBTitle: holo form of carbon disulfide hydrolase
60c4esjA_



not modelled 31.0 19
PDB header:hydrolase/dna
Chain: A: PDB Molecule:type-2 restriction enzyme dpni;
PDBTitle: restriction endonuclease dpni in complex with target dna
61c3wwnB_



not modelled 27.3 13
PDB header:metal binding protein/transferase
Chain: B: PDB Molecule:orff;
PDBTitle: crystal structure of lysz from thermus thermophilus complex with lysw
62c3vrkA_



not modelled 25.4 17
PDB header:hydrolase
Chain: A: PDB Molecule:carbonyl sulfide hydrolase;
PDBTitle: crystal structutre of thiobacillus thioparus thi115 carbonyl sulfide2 hydrolase / thiocyanate complex
63c3vpbF_



not modelled 23.5 15
PDB header:ligase
Chain: F: PDB Molecule:alpha-aminoadipate carrier protein lysw;
PDBTitle: argx from sulfolobus tokodaii complexed with2 lysw/glu/adp/mg/zn/sulfate
64c3lasA_



not modelled 22.7 17
PDB header:lyase
Chain: A: PDB Molecule:putative carbonic anhydrase;
PDBTitle: crystal structure of carbonic anhydrase from streptococcus mutans to2 1.4 angstrom resolution
65c5ztpB_



not modelled 22.2 8
PDB header:lyase
Chain: B: PDB Molecule:carbonic anhydrase;
PDBTitle: carbonic anhydrase from glaciozyma antarctica
66c2k5hA_



not modelled 22.2 21
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved protein;
PDBTitle: solution nmr structure of protein encoded by mth693 from2 methanobacterium thermoautotrophicum: northeast structural3 genomics consortium target tt824a
67c2w3nA_



not modelled 20.9 17
PDB header:lyase
Chain: A: PDB Molecule:carbonic anhydrase 2;
PDBTitle: structure and inhibition of the co2-sensing carbonic anhydrase can22 from the pathogenic fungus cryptococcus neoformans
68d2exda1



not modelled 20.9 22
Fold:OB-fold
Superfamily:NfeD domain-like
Family:NfeD domain-like
69d1ddza2



not modelled 19.8 21
Fold:Resolvase-like
Superfamily:beta-carbonic anhydrase, cab
Family:beta-carbonic anhydrase, cab
70c6gwuB_



not modelled 19.4 8
PDB header:lyase
Chain: B: PDB Molecule:carbonic anhydrase;
PDBTitle: carbonic anhydrase cance103p from candida albicans
71c6g4wr_



not modelled 18.5 22
PDB header:ribosome
Chain: R: PDB Molecule:40s ribosomal protein s17;
PDBTitle: cryo-em structure of a late human pre-40s ribosomal subunit - state a
72c3cp0A_



not modelled 18.4 17
PDB header:membrane protein
Chain: A: PDB Molecule:membrane protein implicated in regulation of membrane
PDBTitle: crystal structure of the soluble domain of membrane protein implicated2 in regulation of membrane protease activity from corynebacterium3 glutamicum
73c2a8cE_



not modelled 18.2 17
PDB header:lyase
Chain: E: PDB Molecule:carbonic anhydrase 2;
PDBTitle: haemophilus influenzae beta-carbonic anhydrase
74d1ddza1



not modelled 18.0 17
Fold:Resolvase-like
Superfamily:beta-carbonic anhydrase, cab
Family:beta-carbonic anhydrase, cab
75c1ylkA_



not modelled 18.0 17
PDB header:unknown function
Chain: A: PDB Molecule:hypothetical protein rv1284/mt1322;
PDBTitle: crystal structure of rv1284 from mycobacterium tuberculosis in complex2 with thiocyanate
76c5cxkG_



not modelled 18.0 17
PDB header:lyase
Chain: G: PDB Molecule:carbonic anhydrase;
PDBTitle: crystal structure of beta carbonic anhydrase from vibrio cholerae
77d2nn6g3



not modelled 17.9 21
Fold:Eukaryotic type KH-domain (KH-domain type I)
Superfamily:Eukaryotic type KH-domain (KH-domain type I)
Family:Eukaryotic type KH-domain (KH-domain type I)
78c3eyxB_



not modelled 17.7 17
PDB header:lyase
Chain: B: PDB Molecule:carbonic anhydrase;
PDBTitle: crystal structure of carbonic anhydrase nce103 from2 saccharomyces cerevisiae
79c5swcE_



not modelled 17.7 8
PDB header:lyase
Chain: E: PDB Molecule:carbonic anhydrase;
PDBTitle: the structure of the beta-carbonic anhydrase ccaa
80c1ddzA_



not modelled 17.3 21
PDB header:lyase
Chain: A: PDB Molecule:carbonic anhydrase;
PDBTitle: x-ray structure of a beta-carbonic anhydrase from the red2 alga, porphyridium purpureum r-1
81c3ucoB_



not modelled 17.0 8
PDB header:lyase/lyase inhibitor
Chain: B: PDB Molecule:carbonic anhydrase;
PDBTitle: coccomyxa beta-carbonic anhydrase in complex with iodide
82c2a5vB_



not modelled 16.7 33
PDB header:lyase
Chain: B: PDB Molecule:carbonic anhydrase (carbonate dehydratase) (carbonic
PDBTitle: crystal structure of m. tuberculosis beta carbonic anhydrase, rv3588c,2 tetrameric form
83d2aqaa1



not modelled 16.5 20
Fold:Rubredoxin-like
Superfamily:Nop10-like SnoRNP
Family:Nucleolar RNA-binding protein Nop10-like
84c2j6aA_



not modelled 16.4 6
PDB header:transferase
Chain: A: PDB Molecule:protein trm112;
PDBTitle: crystal structure of s. cerevisiae ynr046w, a zinc finger2 protein from the erf1 methyltransferase complex.
85d1ekja_



not modelled 16.0 17
Fold:Resolvase-like
Superfamily:beta-carbonic anhydrase, cab
Family:beta-carbonic anhydrase, cab
86c5cm2M_



not modelled 16.0 0
PDB header:transferase
Chain: M: PDB Molecule:trna methyltransferase activator subunit;
PDBTitle: insights into molecular plasticity in protein complexes from trm9-2 trm112 trna modifying enzyme crystal structure
87c4rxyA_



not modelled 15.3 17
PDB header:lyase
Chain: A: PDB Molecule:carbonic anhydrase;
PDBTitle: crystal structure of the beta carbonic anhydrase psca3 isolated from2 pseudomonas aeruginosa
88d1i6pa_



not modelled 15.2 25
Fold:Resolvase-like
Superfamily:beta-carbonic anhydrase, cab
Family:beta-carbonic anhydrase, cab
89d1g5ca_



not modelled 14.4 8
Fold:Resolvase-like
Superfamily:beta-carbonic anhydrase, cab
Family:beta-carbonic anhydrase, cab
90c6g5iy_



not modelled 14.3 13
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
91d2apob1



not modelled 12.6 19
Fold:Rubredoxin-like
Superfamily:Nop10-like SnoRNP
Family:Nucleolar RNA-binding protein Nop10-like
92c3j20R_



not modelled 12.6 20
PDB header:ribosome
Chain: R: PDB Molecule:30s ribosomal protein s17p;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (30s3 ribosomal subunit)
93d2ey4e1



not modelled 12.5 19
Fold:Rubredoxin-like
Superfamily:Nop10-like SnoRNP
Family:Nucleolar RNA-binding protein Nop10-like
94c4o1kA_



not modelled 12.4 25
PDB header:lyase
Chain: A: PDB Molecule:carbonic anhydrase;
PDBTitle: crystal structures of two tetrameric beta-carbonic anhydrases from the2 filamentous ascomycete sordaria macrospora.
95d2j7ja2



not modelled 12.0 33
Fold:beta-beta-alpha zinc fingers
Superfamily:beta-beta-alpha zinc fingers
Family:Classic zinc finger, C2H2
96c2jrrA_



not modelled 11.8 15
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: solution nmr structure of q5lls5 from silicibacter2 pomeroyi. northeast structural genomics consortium target3 sir90
97c4o1jB_



not modelled 11.6 17
PDB header:lyase
Chain: B: PDB Molecule:carbonic anhydrase;
PDBTitle: crystal structures of two tetrameric beta-carbonic anhydrases from the2 filamentous ascomycete sordaria macrospora.
98d2c42a2



not modelled 11.2 0
Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:PFOR PP module
99d1ubdc1



not modelled 10.3 33
Fold:beta-beta-alpha zinc fingers
Superfamily:beta-beta-alpha zinc fingers
Family:Classic zinc finger, C2H2

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