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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

Pathwayi: IMP 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)DescriptionActionsGraphical viewLength
Metal bindingi367Zinc; catalyticBy similarity1
Metal bindingi369Zinc; catalyticBy similarity1
Binding sitei369SubstrateBy similarity1
Metal bindingi635Zinc; catalyticBy similarity1
Binding sitei638SubstrateBy similarity1
Active sitei657Proton acceptorPROSITE-ProRule annotation1
Metal bindingi712Zinc; catalyticBy similarity1

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

ReactomeiR-OSA-6798695. Neutrophil degranulation.
R-OSA-74217. 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:OsJ_25692Imported, P0034A04.129
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
Proteomesi
  • UP000059680 Componenti: Chromosome 7

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei5 – 27HelicalSequence analysisAdd BLAST23

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002384561 – 815Probable AMP deaminaseAdd BLAST815

Proteomic databases

PaxDbiQ84NP7.

Expressioni

Gene expression databases

ExpressionAtlasiQ84NP7. baseline and differential.
GenevisibleiQ84NP7. OS.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

STRINGi39947.LOC_Os07g49270.1.

Structurei

3D structure databases

ProteinModelPortaliQ84NP7.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni438 – 443Substrate bindingBy similarity6
Regioni713 – 716Substrate bindingBy similarity4

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi55 – 69Asp-richAdd BLAST15
Compositional biasi125 – 130Poly-Asp6
Compositional biasi604 – 616Tyr-richAdd BLAST13

Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1096. Eukaryota.
COG1816. LUCA.
HOGENOMiHOG000092200.
InParanoidiQ84NP7.
KOiK01490.
OMAiMMELNEP.
OrthoDBiEOG093602O5.

Family and domain databases

CDDicd01319. AMPD. 1 hit.
InterProiIPR006650. A/AMP_deam_AS.
IPR001365. A/AMP_deaminase_dom.
IPR006329. AMPD.
IPR032466. Metal_Hydrolase.
[Graphical view]
PANTHERiPTHR11359. PTHR11359. 1 hit.
PfamiPF00962. A_deaminase. 1 hit.
[Graphical view]
SUPFAMiSSF51556. SSF51556. 1 hit.
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.
AP008213 Genomic DNA. Translation: BAF22644.1.
AP014963 Genomic DNA. Translation: BAT03357.1.
CM000144 Genomic DNA. Translation: EAZ41190.1.
AK064333 mRNA. No translation available.
AK102007 mRNA. No translation available.
RefSeqiXP_015646516.1. XM_015791030.1.
UniGeneiOs.8779.

Genome annotation databases

EnsemblPlantsiOS07T0693500-01; OS07T0693500-01; OS07G0693500.
GeneIDi4344386.
GrameneiOS07T0693500-01; OS07T0693500-01; OS07G0693500.
KEGGiosa:4344386.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP004333 Genomic DNA. Translation: BAC75568.1.
AP008213 Genomic DNA. Translation: BAF22644.1.
AP014963 Genomic DNA. Translation: BAT03357.1.
CM000144 Genomic DNA. Translation: EAZ41190.1.
AK064333 mRNA. No translation available.
AK102007 mRNA. No translation available.
RefSeqiXP_015646516.1. XM_015791030.1.
UniGeneiOs.8779.

3D structure databases

ProteinModelPortaliQ84NP7.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os07g49270.1.

Proteomic databases

PaxDbiQ84NP7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS07T0693500-01; OS07T0693500-01; OS07G0693500.
GeneIDi4344386.
GrameneiOS07T0693500-01; OS07T0693500-01; OS07G0693500.
KEGGiosa:4344386.

Phylogenomic databases

eggNOGiKOG1096. Eukaryota.
COG1816. LUCA.
HOGENOMiHOG000092200.
InParanoidiQ84NP7.
KOiK01490.
OMAiMMELNEP.
OrthoDBiEOG093602O5.

Enzyme and pathway databases

UniPathwayiUPA00591; UER00663.
ReactomeiR-OSA-6798695. Neutrophil degranulation.
R-OSA-74217. Purine salvage.

Gene expression databases

ExpressionAtlasiQ84NP7. baseline and differential.
GenevisibleiQ84NP7. OS.

Family and domain databases

CDDicd01319. AMPD. 1 hit.
InterProiIPR006650. A/AMP_deam_AS.
IPR001365. A/AMP_deaminase_dom.
IPR006329. AMPD.
IPR032466. Metal_Hydrolase.
[Graphical view]
PANTHERiPTHR11359. PTHR11359. 1 hit.
PfamiPF00962. A_deaminase. 1 hit.
[Graphical view]
SUPFAMiSSF51556. SSF51556. 1 hit.
TIGRFAMsiTIGR01429. AMP_deaminase. 1 hit.
PROSITEiPS00485. A_DEAMINASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiAMPD_ORYSJ
AccessioniPrimary (citable) accession number: Q84NP7
Secondary accession number(s): Q0D3C9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2006
Last sequence update: June 1, 2003
Last modified: November 30, 2016
This is version 83 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

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.