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Protein

Putative xanthine dehydrogenase YagR molybdenum-binding subunit

Gene

yagR

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

Xanthine + NAD+ + H2O = urate + NADH.
Hypoxanthine + NAD+ + H2O = xanthine + NADH.

Cofactori

Mo-molybdopterinBy similarityNote: Binds 1 Mo-molybdopterin (Mo-MPT) cofactor per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi211MolybdenumSequence analysis1
Metal bindingi242Molybdenum; via carbonyl oxygenSequence analysis1
Metal bindingi350Molybdenum; via amide nitrogenSequence analysis1

GO - Molecular functioni

  • molybdenum ion binding Source: EcoCyc
  • oxidoreductase activity, acting on the aldehyde or oxo group of donors Source: EcoCyc
  • xanthine dehydrogenase activity Source: UniProtKB-EC

GO - Biological processi

Keywordsi

Molecular functionOxidoreductase
Biological processPurine metabolism, Purine salvage
LigandMetal-binding, Molybdenum, NAD

Enzyme and pathway databases

BioCyciEcoCyc:G6155-MONOMER.
MetaCyc:G6155-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative xanthine dehydrogenase YagR molybdenum-binding subunit (EC:1.17.1.4)
Gene namesi
Name:yagR
Ordered Locus Names:b0284, JW0278
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13557. yagR.

Subcellular locationi

GO - Cellular componenti

  • periplasmic space Source: EcoCyc

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001660901 – 732Putative xanthine dehydrogenase YagR molybdenum-binding subunitAdd BLAST732

Proteomic databases

PaxDbiP77489.
PRIDEiP77489.

Interactioni

Subunit structurei

Heterotrimer of YagR, YagS and YagT.Curated

Protein-protein interaction databases

BioGridi4261492. 16 interactors.
IntActiP77489. 10 interactors.
STRINGi511145.b0284.

Structurei

Secondary structure

1732
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi11 – 14Combined sources4
Helixi27 – 31Combined sources5
Helixi38 – 40Combined sources3
Helixi42 – 44Combined sources3
Beta strandi49 – 55Combined sources7
Beta strandi57 – 67Combined sources11
Helixi69 – 72Combined sources4
Beta strandi77 – 82Combined sources6
Helixi83 – 86Combined sources4
Beta strandi103 – 105Combined sources3
Beta strandi111 – 119Combined sources9
Helixi120 – 127Combined sources8
Beta strandi131 – 136Combined sources6
Helixi143 – 147Combined sources5
Beta strandi160 – 163Combined sources4
Helixi165 – 171Combined sources7
Beta strandi173 – 182Combined sources10
Beta strandi194 – 200Combined sources7
Beta strandi203 – 208Combined sources6
Helixi213 – 224Combined sources12
Helixi228 – 230Combined sources3
Beta strandi231 – 234Combined sources4
Turni242 – 245Combined sources4
Helixi250 – 262Combined sources13
Beta strandi266 – 269Combined sources4
Helixi272 – 274Combined sources3
Helixi275 – 278Combined sources4
Beta strandi285 – 293Combined sources9
Beta strandi299 – 311Combined sources13
Helixi321 – 324Combined sources4
Beta strandi330 – 340Combined sources11
Helixi354 – 372Combined sources19
Helixi376 – 382Combined sources7
Beta strandi386 – 388Combined sources3
Beta strandi391 – 397Combined sources7
Helixi401 – 412Combined sources12
Helixi414 – 416Combined sources3
Beta strandi429 – 441Combined sources13
Beta strandi447 – 453Combined sources7
Beta strandi459 – 462Combined sources4
Beta strandi468 – 470Combined sources3
Helixi472 – 484Combined sources13
Helixi488 – 490Combined sources3
Beta strandi491 – 494Combined sources4
Helixi511 – 534Combined sources24
Helixi538 – 540Combined sources3
Beta strandi541 – 544Combined sources4
Beta strandi547 – 550Combined sources4
Beta strandi553 – 556Combined sources4
Helixi557 – 560Combined sources4
Turni561 – 563Combined sources3
Beta strandi566 – 574Combined sources9
Helixi577 – 580Combined sources4
Beta strandi584 – 596Combined sources13
Turni597 – 599Combined sources3
Beta strandi602 – 612Combined sources11
Helixi619 – 638Combined sources20
Turni646 – 649Combined sources4
Beta strandi650 – 653Combined sources4
Turni656 – 658Combined sources3
Helixi664 – 666Combined sources3
Beta strandi669 – 674Combined sources6
Turni680 – 682Combined sources3
Helixi693 – 695Combined sources3
Helixi698 – 710Combined sources13
Beta strandi716 – 718Combined sources3
Helixi721 – 723Combined sources3
Helixi725 – 727Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5G5GX-ray1.70C1-732[»]
5G5HX-ray2.30C1-732[»]
ProteinModelPortaliP77489.
SMRiP77489.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the xanthine dehydrogenase family.Curated

Phylogenomic databases

eggNOGiENOG4105C7W. Bacteria.
COG1529. LUCA.
HOGENOMiHOG000244716.
InParanoidiP77489.
KOiK11177.
PhylomeDBiP77489.

Family and domain databases

Gene3Di3.30.365.10. 4 hits.
3.90.1170.50. 1 hit.
InterProiView protein in InterPro
IPR000674. Ald_Oxase/Xan_DH_a/b.
IPR008274. AldOxase/xan_DH_Mopterin-bd.
PfamiView protein in Pfam
PF01315. Ald_Xan_dh_C. 1 hit.
PF02738. Ald_Xan_dh_C2. 1 hit.
SMARTiView protein in SMART
SM01008. Ald_Xan_dh_C. 1 hit.
SUPFAMiSSF54665. SSF54665. 1 hit.
SSF56003. SSF56003. 1 hit.

Sequencei

Sequence statusi: Complete.

P77489-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKFDKPAGEN PIDQLKVVGR PHDRIDGPLK TTGTARYAYE WHEEAPNAAY
60 70 80 90 100
GYIVGSAIAK GRLTALDTDA AQKAPGVLAV ITASNAGALG KGDKNTARLL
110 120 130 140 150
GGPTIEHYHQ AIALVVAETF EQARAAASLV QAHYRRNKGA YSLADEKQAV
160 170 180 190 200
NQPPEDTPDK NVGDFDGAFT SAAVKIDATY TTPDQSHMAM EPHASMAVWD
210 220 230 240 250
GNKLTLWTSN QMIDWCRTDL AKTLKVPVEN VRIISPYIGG GFGGKLFLRS
260 270 280 290 300
DALLAALAAR AVKRPVKVML PRPSIPNNTT HRPATLQHLR IGADQSGKIT
310 320 330 340 350
AISHESWSGN LPGGTPETAV QQSELLYAGA NRHTGLRLAT LDLPEGNAMR
360 370 380 390 400
APGEAPGLMA LEIAIDELAE KAGIDPVEFR ILNDTQVDPA DPTRCFSRRQ
410 420 430 440 450
LIECLRTGAD KFGWKQRNAT PGQVRDGEWL VGHGVAAGFR NNLLEKSGAR
460 470 480 490 500
VHLEQNGTVT VETDMTDIGT GSYTILAQTA AEMLGVPLEQ VAVHLGDSSF
510 520 530 540 550
PVSAGSGGQW GANTSTSGVY AACMKLREMI ASAVGFDPEQ SQFADGKITN
560 570 580 590 600
GTRSATLHEA TAGGRLTAEE SIEFGTLSKE YQQSTFAGHF VEVGVHSATG
610 620 630 640 650
EVRVRRMLAV CAAGRILNPK TARSQVIGAM TMGMGAALME ELAVDDRLGY
660 670 680 690 700
FVNHDMAGYE VPVHADIPKQ EVIFLDDTDP ISSPMKAKGV GELGLCGVSA
710 720 730
AIANAVYNAT GIRVRDYPIT LDKLLDKLPD VV
Length:732
Mass (Da):78,088
Last modified:February 1, 1997 - v1
Checksum:iAF198715794F0138
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U73857 Genomic DNA. Translation: AAB18013.1.
U00096 Genomic DNA. Translation: AAC73387.1.
AP009048 Genomic DNA. Translation: BAE76068.1.
PIRiD64754.
RefSeqiNP_414818.1. NC_000913.3.
WP_000667026.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73387; AAC73387; b0284.
BAE76068; BAE76068; BAE76068.
GeneIDi944961.
KEGGiecj:JW0278.
eco:b0284.
PATRICifig|1411691.4.peg.1994.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U73857 Genomic DNA. Translation: AAB18013.1.
U00096 Genomic DNA. Translation: AAC73387.1.
AP009048 Genomic DNA. Translation: BAE76068.1.
PIRiD64754.
RefSeqiNP_414818.1. NC_000913.3.
WP_000667026.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5G5GX-ray1.70C1-732[»]
5G5HX-ray2.30C1-732[»]
ProteinModelPortaliP77489.
SMRiP77489.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4261492. 16 interactors.
IntActiP77489. 10 interactors.
STRINGi511145.b0284.

Proteomic databases

PaxDbiP77489.
PRIDEiP77489.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73387; AAC73387; b0284.
BAE76068; BAE76068; BAE76068.
GeneIDi944961.
KEGGiecj:JW0278.
eco:b0284.
PATRICifig|1411691.4.peg.1994.

Organism-specific databases

EchoBASEiEB3327.
EcoGeneiEG13557. yagR.

Phylogenomic databases

eggNOGiENOG4105C7W. Bacteria.
COG1529. LUCA.
HOGENOMiHOG000244716.
InParanoidiP77489.
KOiK11177.
PhylomeDBiP77489.

Enzyme and pathway databases

BioCyciEcoCyc:G6155-MONOMER.
MetaCyc:G6155-MONOMER.

Miscellaneous databases

PROiPR:P77489.

Family and domain databases

Gene3Di3.30.365.10. 4 hits.
3.90.1170.50. 1 hit.
InterProiView protein in InterPro
IPR000674. Ald_Oxase/Xan_DH_a/b.
IPR008274. AldOxase/xan_DH_Mopterin-bd.
PfamiView protein in Pfam
PF01315. Ald_Xan_dh_C. 1 hit.
PF02738. Ald_Xan_dh_C2. 1 hit.
SMARTiView protein in SMART
SM01008. Ald_Xan_dh_C. 1 hit.
SUPFAMiSSF54665. SSF54665. 1 hit.
SSF56003. SSF56003. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiYAGR_ECOLI
AccessioniPrimary (citable) accession number: P77489
Secondary accession number(s): Q2MCD8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: June 7, 2017
This is version 126 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.