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Protein

3-deoxy-manno-octulosonate cytidylyltransferase, mitochondrial

Gene

KDSB

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the production of the sugar nucleotide CMP-3-deoxy-D-manno-octulosonate (CMP-KDO). CTP is the preferred nucleotide donor, but it can partially be replaced with UTP. Activates KDO during the biosynthesis of rhamnogalacturonan II (RG-II), a structurally complex pectic polysaccharide of the primary cell wall. RG-II is essential for the cell wall integrity of rapidly growing tissues and pollen tube growth and elongation.2 Publications

Catalytic activityi

CTP + 3-deoxy-D-manno-octulosonate = diphosphate + CMP-3-deoxy-D-manno-octulosonate.1 Publication

Cofactori

Mg2+1 Publication

Enzyme regulationi

Inhibited by 2beta-deoxy-Kdo.1 Publication

Kineticsi

kcat is 8.77 sec(-1) for 3-deoxy-D-manno-octulosonate.1 Publication

Manual assertion based on experiment ini

  1. KM=88.59 µM for 3-deoxy-D-manno-octulosonate1 Publication
  1. Vmax=14.62 µmol/min/µg enzyme1 Publication

pH dependencei

Optimum pH is 9.5.1 Publication

Pathwayi: CMP-3-deoxy-D-manno-octulosonate biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes CMP-3-deoxy-D-manno-octulosonate from 3-deoxy-D-manno-octulosonate and CTP.Curated
Proteins known to be involved in this subpathway in this organism are:
  1. 3-deoxy-manno-octulosonate cytidylyltransferase, mitochondrial (KDSB)
This subpathway is part of the pathway CMP-3-deoxy-D-manno-octulosonate biosynthesis, which is itself part of Nucleotide-sugar biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes CMP-3-deoxy-D-manno-octulosonate from 3-deoxy-D-manno-octulosonate and CTP, the pathway CMP-3-deoxy-D-manno-octulosonate biosynthesis and in Nucleotide-sugar biosynthesis.

GO - Molecular functioni

  • 3-deoxy-manno-octulosonate cytidylyltransferase activity Source: TAIR

GO - Biological processi

  • cell wall organization Source: UniProtKB-KW
  • CMP-keto-3-deoxy-D-manno-octulosonic acid biosynthetic process Source: TAIR
  • pollen development Source: TAIR
  • pollen tube growth Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Biological processi

Cell wall biogenesis/degradation

Keywords - Ligandi

Magnesium

Enzyme and pathway databases

BioCyciARA:AT1G53000-MONOMER.
BRENDAi2.7.7.38. 399.
UniPathwayiUPA00358; UER00476.

Names & Taxonomyi

Protein namesi
Recommended name:
3-deoxy-manno-octulosonate cytidylyltransferase, mitochondrial1 Publication (EC:2.7.7.381 Publication)
Alternative name(s):
CMP-2-keto-3-deoxyoctulosonic acid synthase1 Publication
Short name:
AtCKS1 Publication
Short name:
CMP-KDO synthase1 Publication
Gene namesi
Name:KDSBCurated
Synonyms:CKS1 Publication, KDO11 Publication
Ordered Locus Names:At1g53000Imported
ORF Names:F14G24.28Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G53000.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: GO_Central
  • integral component of mitochondrial outer membrane Source: TAIR
  • mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Mitochondrion, Mitochondrion outer membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 50MitochondrionSequence analysisAdd BLAST50
ChainiPRO_000042146451 – 2903-deoxy-manno-octulosonate cytidylyltransferase, mitochondrialAdd BLAST240

Proteomic databases

PaxDbiQ9C920.

PTM databases

SwissPalmiQ9C920.

Expressioni

Tissue specificityi

Expressed in roots, leaves, stems and siliques.1 Publication

Gene expression databases

GenevisibleiQ9C920. AT.

Interactioni

Protein-protein interaction databases

BioGridi26958. 4 interactors.
STRINGi3702.AT1G53000.1.

Structurei

3D structure databases

ProteinModelPortaliQ9C920.
SMRiQ9C920.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the KdsB family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiENOG410IHX0. Eukaryota.
COG1212. LUCA.
HOGENOMiHOG000007602.
InParanoidiQ9C920.
KOiK00979.
OMAiNSGTERC.
OrthoDBiEOG09360IZ8.
PhylomeDBiQ9C920.

Family and domain databases

CDDicd02517. CMP-KDO-Synthetase. 1 hit.
Gene3Di3.90.550.10. 1 hit.
HAMAPiMF_00057. KdsB. 1 hit.
InterProiIPR003329. Cytidylyl_trans.
IPR004528. KdsB.
IPR029044. Nucleotide-diphossugar_trans.
[Graphical view]
PfamiPF02348. CTP_transf_3. 1 hit.
[Graphical view]
SUPFAMiSSF53448. SSF53448. 1 hit.
TIGRFAMsiTIGR00466. kdsB. 1 hit.

Sequencei

Sequence statusi: Complete.

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

Q9C920-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVCSSSSSS QKTWIVNGIL AGTAIAAAIG ARAYLGRSKK FRSRVVGIIP
60 70 80 90 100
ARYASSRFEG KPLVQILGKP MIQRTWERSK LATTLDHIVV ATDDERIAEC
110 120 130 140 150
CRGFGADVIM TSESCRNGTE RCNEALEKLE KKYDVVVNIQ GDEPLIEPEI
160 170 180 190 200
IDGVVKALQV TPDAVFSTAV TSLKPEDGLD PNRVKCVVDN RGYAIYFSRG
210 220 230 240 250
LIPYNKSGKV NPDFPYMLHL GIQSFDSKFL KVYSELQPTP LQQEEDLEQL
260 270 280 290
KVLENGYKMK VIKVDHEAHG VDTPDDVEKI ESLMRERNMS
Length:290
Mass (Da):32,245
Last modified:June 1, 2001 - v1
Checksum:i7A6AE112A3D51E62
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ505021 mRNA. Translation: CAD43603.1.
AC019018 Genomic DNA. Translation: AAG52266.1.
CP002684 Genomic DNA. Translation: AEE32875.1.
AK317553 mRNA. Translation: BAH20217.1.
RefSeqiNP_175708.2. NM_104178.5.
UniGeneiAt.18072.

Genome annotation databases

EnsemblPlantsiAT1G53000.1; AT1G53000.1; AT1G53000.
GeneIDi841733.
GrameneiAT1G53000.1; AT1G53000.1; AT1G53000.
KEGGiath:AT1G53000.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ505021 mRNA. Translation: CAD43603.1.
AC019018 Genomic DNA. Translation: AAG52266.1.
CP002684 Genomic DNA. Translation: AEE32875.1.
AK317553 mRNA. Translation: BAH20217.1.
RefSeqiNP_175708.2. NM_104178.5.
UniGeneiAt.18072.

3D structure databases

ProteinModelPortaliQ9C920.
SMRiQ9C920.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi26958. 4 interactors.
STRINGi3702.AT1G53000.1.

PTM databases

SwissPalmiQ9C920.

Proteomic databases

PaxDbiQ9C920.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G53000.1; AT1G53000.1; AT1G53000.
GeneIDi841733.
GrameneiAT1G53000.1; AT1G53000.1; AT1G53000.
KEGGiath:AT1G53000.

Organism-specific databases

TAIRiAT1G53000.

Phylogenomic databases

eggNOGiENOG410IHX0. Eukaryota.
COG1212. LUCA.
HOGENOMiHOG000007602.
InParanoidiQ9C920.
KOiK00979.
OMAiNSGTERC.
OrthoDBiEOG09360IZ8.
PhylomeDBiQ9C920.

Enzyme and pathway databases

UniPathwayiUPA00358; UER00476.
BioCyciARA:AT1G53000-MONOMER.
BRENDAi2.7.7.38. 399.

Miscellaneous databases

PROiQ9C920.

Gene expression databases

GenevisibleiQ9C920. AT.

Family and domain databases

CDDicd02517. CMP-KDO-Synthetase. 1 hit.
Gene3Di3.90.550.10. 1 hit.
HAMAPiMF_00057. KdsB. 1 hit.
InterProiIPR003329. Cytidylyl_trans.
IPR004528. KdsB.
IPR029044. Nucleotide-diphossugar_trans.
[Graphical view]
PfamiPF02348. CTP_transf_3. 1 hit.
[Graphical view]
SUPFAMiSSF53448. SSF53448. 1 hit.
TIGRFAMsiTIGR00466. kdsB. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiKDSB_ARATH
AccessioniPrimary (citable) accession number: Q9C920
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2013
Last sequence update: June 1, 2001
Last modified: November 30, 2016
This is version 101 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Rhamnogalacturonan II (RG-II) RG-II is a structurally complex pectic polysaccharide present in the primary cell wall. RG-II consists of a linear 1,4-linked a-Dgalacturonic acid backbone with four distinct side chains, two of which contain apiosyl residues. Boric acid forms a diester with two apiosyl residues from separate RG-II molecules, thereby covalently cross-linking two RG-II molecules as a dimer.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  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.