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Protein

Probable AMP deaminase

Gene

AMPD

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

AMP deaminase plays a critical role in energy metabolism.By similarity

Catalytic activityi

AMP + H2O = IMP + NH3.

Cofactori

Zn2+By similarityNote: Binds 1 zinc ion per subunit.By similarity

Pathway:iIMP biosynthesis via salvage pathway

This protein is involved in step 1 of the subpathway that synthesizes IMP from AMP.
Proteins known to be involved in this subpathway in this organism are:
  1. Probable AMP deaminase (AMPD)
This subpathway is part of the pathway IMP biosynthesis via salvage pathway, which is itself part of Purine metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes IMP from AMP, the pathway IMP biosynthesis via salvage pathway and in Purine metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi367 – 3671Zinc; catalyticBy similarity
Metal bindingi369 – 3691Zinc; catalyticBy similarity
Binding sitei369 – 3691SubstrateBy similarity
Metal bindingi635 – 6351Zinc; catalyticBy similarity
Binding sitei638 – 6381SubstrateBy similarity
Active sitei657 – 6571Proton acceptorPROSITE-ProRule annotation
Metal bindingi712 – 7121Zinc; catalyticBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Nucleotide metabolism

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiREACT_344572. Purine salvage.
UniPathwayiUPA00591; UER00663.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable AMP deaminase (EC:3.5.4.6)
Gene namesi
Name:AMPD
Ordered Locus Names:Os07g0693500, LOC_Os07g49270
ORF Names:P0034A04.129
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
ProteomesiUP000000763 Componenti: Chromosome 7

Organism-specific databases

GrameneiQ84NP7.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei5 – 2723HelicalSequence AnalysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 815815Probable AMP deaminasePRO_0000238456Add
BLAST

Proteomic databases

PRIDEiQ84NP7.

Expressioni

Gene expression databases

ExpressionAtlasiQ84NP7. baseline.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi39947.LOC_Os07g49270.1.

Structurei

3D structure databases

ProteinModelPortaliQ84NP7.
SMRiQ84NP7. Positions 187-813.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni438 – 4436Substrate bindingBy similarity
Regioni713 – 7164Substrate bindingBy similarity

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi55 – 6915Asp-richAdd
BLAST
Compositional biasi125 – 1306Poly-Asp
Compositional biasi604 – 61613Tyr-richAdd
BLAST

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiCOG1816.
HOGENOMiHOG000092200.
InParanoidiQ84NP7.
KOiK01490.
OMAiMMELNEP.

Family and domain databases

InterProiIPR006650. A/AMP_deam_AS.
IPR001365. A/AMP_deaminase_dom.
IPR006329. AMPD.
[Graphical view]
PANTHERiPTHR11359. PTHR11359. 1 hit.
PfamiPF00962. A_deaminase. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01429. AMP_deaminase. 1 hit.
PROSITEiPS00485. A_DEAMINASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q84NP7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDSTYALHLA VATLLGASFA AASAYYMHRK TLDQLLRFAR SLDRDHRRRN
60 70 80 90 100
RHLLDADDDD DDDPPRDHDR RTTLPIPPGL PPLHTGREGK PIISPASTKR
110 120 130 140 150
VGPLVRPTTP RSPVPTVSAF ETIEDSDDDD ENIAPDAKNN AVSLLTNGTI
160 170 180 190 200
GSDPLPGKAS QNGDTKPVPS TNMIRSQSAT GSLHGAQHNP VAADILRKEP
210 220 230 240 250
EHETFSRINI TAVETPSPDE IEAYKVLQKC LELREKYMFR EEVAPWEKEI
260 270 280 290 300
ITDPSTPKPN PNPFYYEQQT KTEHHFEMVD GVIHVYPNKD AKERIYPVAD
310 320 330 340 350
ATTFFTDMHY ILRVLAAGDI RTVCYKRLNL LEQKFNLHLM VNADRELLAQ
360 370 380 390 400
KAAPHRDFYN VRKVDTHVHH SACMNQKHLL RFIKSKLRKE PDEVVIFRDG
410 420 430 440 450
TYLTLKEVFE SLDLTGYDLN VDLLDVHADK STFHRFDKFN LKYNPCGQSR
460 470 480 490 500
LREIFLKQDN LIQGRFLAEL TKEVFSDLEA SKYQMAEYRI SIYGRKKSEW
510 520 530 540 550
DQMASWIVNN ELYSENVVWL IQIPRIYNVY REMGTINSFQ NLLDNIFLPL
560 570 580 590 600
FEVTVDPASH PQLHVFLQQV VGLDLVDDES KPERRPTKHM PTPEQWTNVF
610 620 630 640 650
NPAYAYYVYY CYANLYTLNK LRESKGMTTI KLRPHCGEAG DIDHLAAAFL
660 670 680 690 700
TSHNIAHGVN LKKSPVLQYL YYLAQIGLAM SPLSNNSLFI DYHRNPFPTF
710 720 730 740 750
FLRGLNVSLS TDDPLQIHLT KEPLVEEYSI AASLWKLSSC DLCEIARNSV
760 770 780 790 800
YQSGFSHRLK SHWIGRNYYK RGHDGNDIHQ TNVPHIRIEF RHTIWKEEME
810
LIHLRNVDIP EEIDR
Length:815
Mass (Da):93,854
Last modified:June 1, 2003 - v1
Checksum:iE9C9C55382961A7F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP004333 Genomic DNA. Translation: BAC75568.1.
AK064333 mRNA. No translation available.
AK102007 mRNA. No translation available.
RefSeqiNP_001060730.1. NM_001067265.1.
UniGeneiOs.8779.

Genome annotation databases

EnsemblPlantsiOS07T0693500-01; OS07T0693500-01; OS07G0693500.
GeneIDi4344386.
KEGGiosa:4344386.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP004333 Genomic DNA. Translation: BAC75568.1.
AK064333 mRNA. No translation available.
AK102007 mRNA. No translation available.
RefSeqiNP_001060730.1. NM_001067265.1.
UniGeneiOs.8779.

3D structure databases

ProteinModelPortaliQ84NP7.
SMRiQ84NP7. Positions 187-813.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os07g49270.1.

Proteomic databases

PRIDEiQ84NP7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS07T0693500-01; OS07T0693500-01; OS07G0693500.
GeneIDi4344386.
KEGGiosa:4344386.

Organism-specific databases

GrameneiQ84NP7.

Phylogenomic databases

eggNOGiCOG1816.
HOGENOMiHOG000092200.
InParanoidiQ84NP7.
KOiK01490.
OMAiMMELNEP.

Enzyme and pathway databases

UniPathwayiUPA00591; UER00663.
ReactomeiREACT_344572. Purine salvage.

Gene expression databases

ExpressionAtlasiQ84NP7. baseline.

Family and domain databases

InterProiIPR006650. A/AMP_deam_AS.
IPR001365. A/AMP_deaminase_dom.
IPR006329. AMPD.
[Graphical view]
PANTHERiPTHR11359. PTHR11359. 1 hit.
PfamiPF00962. A_deaminase. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01429. AMP_deaminase. 1 hit.
PROSITEiPS00485. A_DEAMINASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  2. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
    The rice full-length cDNA consortium
    Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Nipponbare.

Entry informationi

Entry nameiAMPD_ORYSJ
AccessioniPrimary (citable) accession number: Q84NP7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: June 1, 2003
Last modified: June 24, 2015
This is version 74 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.