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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.
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)DescriptionActionsGraphical viewLength
ChainiPRO_0000033454? – 464Cystathionine beta-lyase, chloroplastic
Transit peptidei1 – ?ChloroplastSequence analysis

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei278N6-(pyridoxal phosphate)lysine1

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 interactors.
IntActiP53780. 2 interactors.
STRINGi3702.AT3G57050.1.

Structurei

Secondary structure

1464
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi87 – 91Combined sources5
Beta strandi117 – 120Combined sources4
Turni128 – 130Combined sources3
Helixi133 – 146Combined sources14
Beta strandi149 – 156Combined sources8
Helixi157 – 165Combined sources9
Beta strandi173 – 179Combined sources7
Helixi182 – 190Combined sources9
Helixi193 – 195Combined sources3
Beta strandi198 – 202Combined sources5
Helixi207 – 213Combined sources7
Beta strandi216 – 223Combined sources8
Turni228 – 230Combined sources3
Helixi236 – 244Combined sources9
Turni245 – 247Combined sources3
Beta strandi249 – 253Combined sources5
Turni255 – 257Combined sources3
Turni259 – 261Combined sources3
Helixi264 – 266Combined sources3
Beta strandi270 – 275Combined sources6
Turni276 – 281Combined sources6
Beta strandi289 – 293Combined sources5
Helixi296 – 308Combined sources13
Helixi315 – 325Combined sources11
Helixi328 – 347Combined sources20
Beta strandi354 – 356Combined sources3
Helixi366 – 369Combined sources4
Turni370 – 372Combined sources3
Beta strandi378 – 383Combined sources6
Helixi387 – 396Combined sources10
Beta strandi398 – 402Combined sources5
Beta strandi408 – 410Combined sources3
Beta strandi412 – 414Combined sources3
Turni416 – 421Combined sources6
Beta strandi426 – 433Combined sources8
Beta strandi439 – 442Combined sources4
Helixi448 – 460Combined sources13

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1IBJX-ray2.30A/C1-464[»]
ProteinModelPortaliP53780.
SMRiP53780.
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)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_00889463 – 78GQTHS…DSLNT → A in isoform 2. 1 PublicationAdd BLAST16

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_115564.4. [P53780-1]
NP_850712.1. NM_180381.3. [P53780-2]
UniGeneiAt.24673.

Genome annotation databases

EnsemblPlantsiAT3G57050.1; AT3G57050.1; AT3G57050. [P53780-1]
GeneIDi824872.
GrameneiAT3G57050.1; AT3G57050.1; AT3G57050.
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_115564.4. [P53780-1]
NP_850712.1. NM_180381.3. [P53780-2]
UniGeneiAt.24673.

3D structure databases

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

Protein-protein interaction databases

BioGridi10188. 2 interactors.
IntActiP53780. 2 interactors.
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.
GrameneiAT3G57050.1; AT3G57050.1; AT3G57050.
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.
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: November 30, 2016
This is version 133 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.