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Protein

Imidazoleglycerol-phosphate dehydratase 1, chloroplastic

Gene

HISN5A

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalytic activityi

D-erythro-1-(imidazol-4-yl)glycerol 3-phosphate = 3-(imidazol-4-yl)-2-oxopropyl phosphate + H2O.

Cofactori

Mn2+Note: Binds 2 manganese ions per subunit.

Pathwayi: L-histidine biosynthesis

This protein is involved in step 6 of the subpathway that synthesizes L-histidine from 5-phospho-alpha-D-ribose 1-diphosphate.
Proteins known to be involved in the 9 steps of the subpathway in this organism are:
  1. ATP phosphoribosyltransferase 1, chloroplastic (HISN1A), ATP phosphoribosyltransferase 2, chloroplastic (HISN1B)
  2. Histidine biosynthesis bifunctional protein hisIE, chloroplastic (HISN2)
  3. Histidine biosynthesis bifunctional protein hisIE, chloroplastic (HISN2)
  4. 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase, chloroplastic (At2g36230), 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase, chloroplastic, 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase, chloroplastic (HISN3), 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase, chloroplastic (AXX17_At2g32880)
  5. Imidazole glycerol phosphate synthase hisHF (AXX17_At4g31050), Imidazole glycerol phosphate synthase hisHF, chloroplastic (HISN4)
  6. Imidazoleglycerol-phosphate dehydratase 2, chloroplastic (HISN5B), Imidazoleglycerol-phosphate dehydratase (HISN5B), Imidazoleglycerol-phosphate dehydratase (AXX17_At3g24180), Imidazoleglycerol-phosphate dehydratase (At3g22425), Imidazoleglycerol-phosphate dehydratase 1, chloroplastic (HISN5A), Imidazoleglycerol-phosphate dehydratase (HISN5B), Imidazoleglycerol-phosphate dehydratase (AXX17_At4g17260), Imidazoleglycerol-phosphate dehydratase (AXX17_At4g17260)
  7. Histidinol-phosphate aminotransferase 2, chloroplastic (HISN6B), Histidinol-phosphate aminotransferase 1, chloroplastic (HISN6A)
  8. Bifunctional phosphatase IMPL2, chloroplastic (HISN7)
  9. Histidinol dehydrogenase, chloroplastic (HISN8), Histidinol dehydrogenase, chloroplastic (AXX17_At5g63470)
This subpathway is part of the pathway L-histidine biosynthesis, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-histidine from 5-phospho-alpha-D-ribose 1-diphosphate, the pathway L-histidine biosynthesis and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi110Manganese 11
Metal bindingi136Manganese 21
Metal bindingi137Manganese 11
Metal bindingi140Manganese 21
Metal bindingi208Manganese 21
Metal bindingi232Manganese 11
Metal bindingi233Manganese 21
Metal bindingi236Manganese 11

GO - Molecular functioni

  • imidazoleglycerol-phosphate dehydratase activity Source: TAIR
  • metal ion binding Source: UniProtKB-KW

GO - Biological processi

  • histidine biosynthetic process Source: TAIR

Keywordsi

Molecular functionLyase
Biological processAmino-acid biosynthesis, Histidine biosynthesis
LigandManganese, Metal-binding

Enzyme and pathway databases

BioCyciMetaCyc:AT3G22425-MONOMER
UniPathwayiUPA00031; UER00011

Names & Taxonomyi

Protein namesi
Recommended name:
Imidazoleglycerol-phosphate dehydratase 1, chloroplastic (EC:4.2.1.19)
Short name:
IGPD 1
Alternative name(s):
Protein HISTIDINE BIOSYNTHESIS 5A
Gene namesi
Name:HISN5A
Ordered Locus Names:At3g22425
ORF Names:MCB17.17
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

AraportiAT3G22425
TAIRilocus:1005716545 AT3G22425

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Chloroplast, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 62ChloroplastCombined sourcesAdd BLAST62
ChainiPRO_000015825363 – 270Imidazoleglycerol-phosphate dehydratase 1, chloroplasticAdd BLAST208

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei63N-acetylserineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiP34047

PTM databases

iPTMnetiP34047

Expressioni

Gene expression databases

ExpressionAtlasiP34047 baseline and differential
GenevisibleiP34047 AT

Interactioni

Protein-protein interaction databases

BioGridi7144, 1 interactor
DIPiDIP-48462N
STRINGi3702.AT3G22425.2

Structurei

Secondary structure

1270
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi75 – 81Combined sources7
Beta strandi86 – 92Combined sources7
Beta strandi99 – 102Combined sources4
Helixi106 – 119Combined sources14
Beta strandi122 – 128Combined sources7
Turni131 – 133Combined sources3
Helixi136 – 154Combined sources19
Beta strandi166 – 170Combined sources5
Beta strandi173 – 180Combined sources8
Beta strandi186 – 190Combined sources5
Beta strandi194 – 198Combined sources5
Helixi205 – 217Combined sources13
Beta strandi220 – 227Combined sources8
Helixi231 – 250Combined sources20

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2F1DX-ray3.00A/B/C/D/E/F/G/H/I/J/K/L/M/N/O/P64-270[»]
ProteinModelPortaliP34047
SMRiP34047
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP34047

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG3143 Eukaryota
COG0131 LUCA
HOGENOMiHOG000228064
KOiK01693
OMAiHIDTHHT
OrthoDBiEOG09360JJC
PhylomeDBiP34047

Family and domain databases

CDDicd07914 IGPD, 1 hit
Gene3Di3.30.230.40, 2 hits
HAMAPiMF_00076 HisB, 1 hit
InterProiView protein in InterPro
IPR038494 IGPD_sf
IPR000807 ImidazoleglycerolP_deHydtase
IPR020565 ImidazoleglycerP_deHydtase_CS
IPR020568 Ribosomal_S5_D2-typ_fold
PANTHERiPTHR23133 PTHR23133, 1 hit
PfamiView protein in Pfam
PF00475 IGPD, 1 hit
SUPFAMiSSF54211 SSF54211, 2 hits
PROSITEiView protein in PROSITE
PS00954 IGP_DEHYDRATASE_1, 1 hit
PS00955 IGP_DEHYDRATASE_2, 1 hit

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Note: Experimental confirmation may be lacking for some isoforms.
Isoform 1 (identifier: P34047-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MELSSASAIL SHSSSAAQLL RPKLGFIDLL PRRAMIVSSP SSSLPRFLRM
60 70 80 90 100
ESQSQLRQSI SCSASSSSSM ALGRIGEVKR VTKETNVSVK INLDGTGVAD
110 120 130 140 150
SSSGIPFLDH MLDQLASHGL FDVHVRATGD VHIDDHHTNE DIALAIGTAL
160 170 180 190 200
LKALGERKGI NRFGDFTAPL DEALIHVSLD LSGRPYLGYN LEIPTQRVGT
210 220 230 240 250
YDTQLVEHFF QSLVNTSGMT LHIRQLAGEN SHHIIEATFK AFARALRQAT
260 270
ETDPRRGGTI PSSKGVLSRS
Length:270
Mass (Da):29,225
Last modified:February 1, 1994 - v1
Checksum:i7132D80CC687E20C
GO
Isoform 2 (identifier: P34047-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     205-270: LVEHFFQSLV...PSSKGVLSRS → VLSLLLELSS...YDSSHPAARW

Note: May be due to an intron retention.
Show »
Length:264
Mass (Da):28,691
Checksum:i8551F5DED1EB8CAD
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti201Y → C in BAD44082 (Ref. 6) Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_008895205 – 270LVEHF…VLSRS → VLSLLLELSSFGFICVIRCL VIIESVAKNCLTFRFVVGGA LFPVVGEYFWYDSSHPAARW in isoform 2. 1 PublicationAdd BLAST66

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U02689 mRNA Translation: AAA93196.1
AB022215 Genomic DNA Translation: BAB01781.1
CP002686 Genomic DNA Translation: AEE76636.1
CP002686 Genomic DNA Translation: AEE76637.1
AK118815 mRNA Translation: BAC43405.1
AY070442 mRNA Translation: AAL49845.1
AK176319 mRNA Translation: BAD44082.1
AK176429 mRNA Translation: BAD44192.1
AY087948 mRNA Translation: AAM65496.1
RefSeqiNP_850624.1, NM_180293.1 [P34047-2]
NP_850625.1, NM_180294.2 [P34047-1]
UniGeneiAt.19962

Genome annotation databases

EnsemblPlantsiAT3G22425.1; AT3G22425.1; AT3G22425 [P34047-2]
AT3G22425.2; AT3G22425.2; AT3G22425 [P34047-1]
GeneIDi821812
GrameneiAT3G22425.1; AT3G22425.1; AT3G22425 [P34047-2]
AT3G22425.2; AT3G22425.2; AT3G22425 [P34047-1]
KEGGiath:AT3G22425

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiHIS5A_ARATH
AccessioniPrimary (citable) accession number: P34047
Secondary accession number(s): Q67YN9, Q67YZ9, Q8VYM1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: April 25, 2018
This is version 141 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome
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Main funding by: National Institutes of Health