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Protein

Cystathionine beta-lyase, chloroplastic

Gene

At3g57050

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

Functioni

Catalytic activityi

L-cystathionine + H2O = L-homocysteine + NH3 + pyruvate.

Cofactori

Pathwayi: L-methionine biosynthesis via de novo pathway

This protein is involved in step 1 of the subpathway that synthesizes L-homocysteine from L-cystathionine.
Proteins known to be involved in this subpathway in this organism are:
  1. Cystathionine beta-lyase, chloroplastic (At3g57050)
This subpathway is part of the pathway L-methionine biosynthesis via de novo pathway, 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-homocysteine from L-cystathionine, the pathway L-methionine biosynthesis via de novo pathway and in Amino-acid biosynthesis.

GO - Molecular functioni

  • cystathionine beta-lyase activity Source: TAIR
  • pyridoxal phosphate binding Source: GO_Central

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Lyase

Keywords - Biological processi

Amino-acid biosynthesis, Methionine biosynthesis

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciARA:AT3G57050-MONOMER.
ARA:GQT-1028-MONOMER.
ARA:GQT-2569-MONOMER.
MetaCyc:AT3G57050-MONOMER.
BRENDAi4.4.1.8. 399.
ReactomeiR-ATH-1614558. Degradation of cysteine and homocysteine.
R-ATH-1614603. Cysteine formation from homocysteine.
SABIO-RKP53780.
UniPathwayiUPA00051; UER00078.

Names & Taxonomyi

Protein namesi
Recommended name:
Cystathionine beta-lyase, chloroplastic (EC:4.4.1.8)
Short name:
CBL
Alternative name(s):
Beta-cystathionase
Cysteine lyase
Gene namesi
Ordered Locus Names:At3g57050
ORF Names:F24I3.130
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G57050.

Subcellular locationi

GO - Cellular componenti

  • chloroplast Source: TAIR
  • chloroplast stroma Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini? – 464Cystathionine beta-lyase, chloroplasticPRO_0000033454
Transit peptidei1 – ?ChloroplastSequence analysis

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei278 – 2781N6-(pyridoxal phosphate)lysine

Proteomic databases

PaxDbiP53780.
PRIDEiP53780.

Expressioni

Gene expression databases

ExpressionAtlasiP53780. baseline and differential.
GenevisibleiP53780. AT.

Interactioni

Subunit structurei

Homotetramer.1 Publication

Protein-protein interaction databases

BioGridi10188. 2 interactions.
IntActiP53780. 2 interactions.
STRINGi3702.AT3G57050.1.

Structurei

Secondary structure

1
464
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi87 – 915Combined sources
Beta strandi117 – 1204Combined sources
Turni128 – 1303Combined sources
Helixi133 – 14614Combined sources
Beta strandi149 – 1568Combined sources
Helixi157 – 1659Combined sources
Beta strandi173 – 1797Combined sources
Helixi182 – 1909Combined sources
Helixi193 – 1953Combined sources
Beta strandi198 – 2025Combined sources
Helixi207 – 2137Combined sources
Beta strandi216 – 2238Combined sources
Turni228 – 2303Combined sources
Helixi236 – 2449Combined sources
Turni245 – 2473Combined sources
Beta strandi249 – 2535Combined sources
Turni255 – 2573Combined sources
Turni259 – 2613Combined sources
Helixi264 – 2663Combined sources
Beta strandi270 – 2756Combined sources
Turni276 – 2816Combined sources
Beta strandi289 – 2935Combined sources
Helixi296 – 30813Combined sources
Helixi315 – 32511Combined sources
Helixi328 – 34720Combined sources
Beta strandi354 – 3563Combined sources
Helixi366 – 3694Combined sources
Turni370 – 3723Combined sources
Beta strandi378 – 3836Combined sources
Helixi387 – 39610Combined sources
Beta strandi398 – 4025Combined sources
Beta strandi408 – 4103Combined sources
Beta strandi412 – 4143Combined sources
Turni416 – 4216Combined sources
Beta strandi426 – 4338Combined sources
Beta strandi439 – 4424Combined sources
Helixi448 – 46013Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1IBJX-ray2.30A/C1-464[»]
ProteinModelPortaliP53780.
SMRiP53780. Positions 85-464.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP53780.

Family & Domainsi

Sequence similaritiesi

Belongs to the trans-sulfuration enzymes family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG0053. Eukaryota.
COG0626. LUCA.
HOGENOMiHOG000246415.
InParanoidiP53780.
KOiK01760.
OMAiFHQNAMG.
OrthoDBiEOG093609BF.
PhylomeDBiP53780.

Family and domain databases

CDDicd00614. CGS_like. 1 hit.
Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
InterProiIPR000277. Cys/Met-Metab_PyrdxlP-dep_enz.
IPR006238. Cys_b_lyase_euk.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
[Graphical view]
PANTHERiPTHR11808. PTHR11808. 1 hit.
PfamiPF01053. Cys_Met_Meta_PP. 1 hit.
[Graphical view]
PIRSFiPIRSF001434. CGS. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
TIGRFAMsiTIGR01329. cysta_beta_ly_E. 1 hit.
PROSITEiPS00868. CYS_MET_METAB_PP. 1 hit.
[Graphical view]

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

Isoform 1 (identifier: P53780-1) [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
MTSSLSLHSS FVPSFADLSD RGLISKNSPT SVSISKVPTW EKKQISNRNS
60 70 80 90 100
FKLNCVMEKS VDGQTHSTVN NTTDSLNTMN IKEEASVSTL LVNLDNKFDP
110 120 130 140 150
FDAMSTPLYQ TATFKQPSAI ENGPYDYTRS GNPTRDALES LLAKLDKADR
160 170 180 190 200
AFCFTSGMAA LSAVTHLIKN GEEIVAGDDV YGGSDRLLSQ VVPRSGVVVK
210 220 230 240 250
RVNTTKLDEV AAAIGPQTKL VWLESPTNPR QQISDIRKIS EMAHAQGALV
260 270 280 290 300
LVDNSIMSPV LSRPLELGAD IVMHSATKFI AGHSDVMAGV LAVKGEKLAK
310 320 330 340 350
EVYFLQNSEG SGLAPFDCWL CLRGIKTMAL RIEKQQENAR KIAMYLSSHP
360 370 380 390 400
RVKKVYYAGL PDHPGHHLHF SQAKGAGSVF SFITGSVALS KHLVETTKYF
410 420 430 440 450
SIAVSFGSVK SLISMPCFMS HASIPAEVRE ARGLTEDLVR ISAGIEDVDD
460
LISDLDIAFK TFPL
Length:464
Mass (Da):50,430
Last modified:October 1, 1996 - v1
Checksum:iDE756848549D2CA6
GO
Isoform 2 (identifier: P53780-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     63-78: GQTHSTVNNTTDSLNT → A

Note: May be due to a competing donor splice site.
Show »
Length:449
Mass (Da):48,829
Checksum:iBBE2BE332C25314B
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei63 – 7816GQTHS…DSLNT → A in isoform 2. 1 PublicationVSP_008894Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L40511 mRNA. Translation: AAA99176.1.
AL138655 Genomic DNA. Translation: CAB72175.1.
CP002686 Genomic DNA. Translation: AEE79603.1.
CP002686 Genomic DNA. Translation: AEE79605.1.
AY064018 mRNA. Translation: AAL36374.1.
AY114051 mRNA. Translation: AAM45099.1.
PIRiS61429.
RefSeqiNP_191264.1. NM_115564.3. [P53780-1]
NP_850712.1. NM_180381.2. [P53780-2]
UniGeneiAt.24673.

Genome annotation databases

EnsemblPlantsiAT3G57050.1; AT3G57050.1; AT3G57050. [P53780-1]
GeneIDi824872.
KEGGiath:AT3G57050.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L40511 mRNA. Translation: AAA99176.1.
AL138655 Genomic DNA. Translation: CAB72175.1.
CP002686 Genomic DNA. Translation: AEE79603.1.
CP002686 Genomic DNA. Translation: AEE79605.1.
AY064018 mRNA. Translation: AAL36374.1.
AY114051 mRNA. Translation: AAM45099.1.
PIRiS61429.
RefSeqiNP_191264.1. NM_115564.3. [P53780-1]
NP_850712.1. NM_180381.2. [P53780-2]
UniGeneiAt.24673.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1IBJX-ray2.30A/C1-464[»]
ProteinModelPortaliP53780.
SMRiP53780. Positions 85-464.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi10188. 2 interactions.
IntActiP53780. 2 interactions.
STRINGi3702.AT3G57050.1.

Proteomic databases

PaxDbiP53780.
PRIDEiP53780.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G57050.1; AT3G57050.1; AT3G57050. [P53780-1]
GeneIDi824872.
KEGGiath:AT3G57050.

Organism-specific databases

TAIRiAT3G57050.

Phylogenomic databases

eggNOGiKOG0053. Eukaryota.
COG0626. LUCA.
HOGENOMiHOG000246415.
InParanoidiP53780.
KOiK01760.
OMAiFHQNAMG.
OrthoDBiEOG093609BF.
PhylomeDBiP53780.

Enzyme and pathway databases

UniPathwayiUPA00051; UER00078.
BioCyciARA:AT3G57050-MONOMER.
ARA:GQT-1028-MONOMER.
ARA:GQT-2569-MONOMER.
MetaCyc:AT3G57050-MONOMER.
BRENDAi4.4.1.8. 399.
ReactomeiR-ATH-1614558. Degradation of cysteine and homocysteine.
R-ATH-1614603. Cysteine formation from homocysteine.
SABIO-RKP53780.

Miscellaneous databases

EvolutionaryTraceiP53780.
PROiP53780.

Gene expression databases

ExpressionAtlasiP53780. baseline and differential.
GenevisibleiP53780. AT.

Family and domain databases

CDDicd00614. CGS_like. 1 hit.
Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
InterProiIPR000277. Cys/Met-Metab_PyrdxlP-dep_enz.
IPR006238. Cys_b_lyase_euk.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
[Graphical view]
PANTHERiPTHR11808. PTHR11808. 1 hit.
PfamiPF01053. Cys_Met_Meta_PP. 1 hit.
[Graphical view]
PIRSFiPIRSF001434. CGS. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
TIGRFAMsiTIGR01329. cysta_beta_ly_E. 1 hit.
PROSITEiPS00868. CYS_MET_METAB_PP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiMETC_ARATH
AccessioniPrimary (citable) accession number: P53780
Secondary accession number(s): Q8VZL8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: September 7, 2016
This is version 131 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.