UniProtKB - Q5I0K3 (CLYBL_RAT)
Protein
Citramalyl-CoA lyase, mitochondrial
Gene
Clybl
Organism
Rattus norvegicus (Rat)
Status
Functioni
Mitochondrial citramalyl-CoA lyase indirectly involved in the vitamin B12 metabolism. Converts citramalyl-CoA into acetyl-CoA and pyruvate in the C5-dicarboxylate catabolism pathway. The C5-dicarboxylate catabolism pathway is required to detoxify itaconate, a vitamin B12-poisoning metabolite. Also acts as a malate synthase in vitro, converting glyoxylate and acetyl-CoA to malate. Also displays malyl-CoA thioesterase activity. Also acts as a beta-methylmalate synthase in vitro, by mediating conversion of glyoxylate and propionyl-CoA to beta-methylmalate. Also has very weak citramalate synthase activity in vitro.By similarity
Caution
This organism lacks the other subunits that are necessary for ATP-independent citrate lyase activity. Even though this protein has clear similarity to citrate lyase beta subunit, it is expected to have a somewhat different enzyme activity.Curated
Catalytic activityi
Cofactori
Mg2+By similarityNote: Binds 1 Mg2+ ion per subunit.By similarity
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Binding sitei | 48 | SubstrateBy similarity | 1 | |
Binding sitei | 55 | SubstrateBy similarity | 1 | |
Binding sitei | 59 | SubstrateBy similarity | 1 | |
Binding sitei | 105 | SubstrateBy similarity | 1 | |
Metal bindingi | 169 | MagnesiumBy similarity | 1 | |
Metal bindingi | 204 | MagnesiumBy similarity | 1 | |
Active sitei | 318 | By similarity | 1 |
GO - Molecular functioni
- (S)-citramalyl-CoA lyase activity Source: UniProtKB
- hydrolase activity Source: UniProtKB-KW
- magnesium ion binding Source: UniProtKB
- malate synthase activity Source: UniProtKB
GO - Biological processi
- positive regulation of cobalamin metabolic process Source: RGD
- protein homotrimerization Source: UniProtKB
- regulation of cobalamin metabolic process Source: UniProtKB
Keywordsi
Molecular function | Hydrolase, Lyase, Transferase |
Ligand | Magnesium, Metal-binding |
Names & Taxonomyi
Protein namesi | Recommended name: Citramalyl-CoA lyase, mitochondrialBy similarity (EC:4.1.3.25By similarity)Alternative name(s): |
Gene namesi | Name:Clybl |
Organismi | Rattus norvegicus (Rat) |
Taxonomic identifieri | 10116 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Rattus |
Proteomesi |
|
Organism-specific databases
RGDi | 1304615, Clybl |
Subcellular locationi
Mitochondrion
- Mitochondrion By similarity
Mitochondrion
- mitochondrion Source: UniProtKB-SubCell
Keywords - Cellular componenti
MitochondrionPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Transit peptidei | 1 – 20 | MitochondrionSequence analysisAdd BLAST | 20 | |
ChainiPRO_0000286391 | 21 – 338 | Citramalyl-CoA lyase, mitochondrialAdd BLAST | 318 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 55 | N6-acetyllysineBy similarity | 1 | |
Modified residuei | 59 | N6-acetyllysineBy similarity | 1 | |
Modified residuei | 64 | N6-acetyllysineBy similarity | 1 | |
Modified residuei | 80 | N6-acetyllysine; alternateBy similarity | 1 | |
Modified residuei | 80 | N6-succinyllysine; alternateBy similarity | 1 | |
Modified residuei | 90 | N6-acetyllysine; alternateBy similarity | 1 | |
Modified residuei | 90 | N6-succinyllysine; alternateBy similarity | 1 | |
Modified residuei | 307 | N6-succinyllysineBy similarity | 1 |
Keywords - PTMi
AcetylationProteomic databases
PaxDbi | Q5I0K3 |
PRIDEi | Q5I0K3 |
PTM databases
iPTMneti | Q5I0K3 |
PhosphoSitePlusi | Q5I0K3 |
Expressioni
Gene expression databases
Bgeei | ENSRNOG00000014075, Expressed in kidney and 21 other tissues |
Genevisiblei | Q5I0K3, RN |
Interactioni
Subunit structurei
Homotrimer.
By similarityProtein-protein interaction databases
STRINGi | 10116.ENSRNOP00000018918 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 270 – 271 | Substrate bindingBy similarity | 2 |
Sequence similaritiesi
Keywords - Domaini
Transit peptidePhylogenomic databases
eggNOGi | ENOG502QQPK, Eukaryota |
GeneTreei | ENSGT00390000017163 |
HOGENOMi | CLU_044864_1_0_1 |
InParanoidi | Q5I0K3 |
OMAi | AWLFCPA |
OrthoDBi | 1527380at2759 |
PhylomeDBi | Q5I0K3 |
TreeFami | TF313596 |
Family and domain databases
Gene3Di | 3.20.20.60, 1 hit |
InterProi | View protein in InterPro IPR005000, Aldolase/citrate-lyase_domain IPR040186, Citramalyl-CoA_lyase IPR011206, Citrate_lyase_beta/mcl1/mcl2 IPR015813, Pyrv/PenolPyrv_Kinase-like_dom IPR040442, Pyrv_Kinase-like_dom_sf |
PANTHERi | PTHR11105, PTHR11105, 1 hit |
Pfami | View protein in Pfam PF03328, HpcH_HpaI, 1 hit |
PIRSFi | PIRSF015582, Cit_lyase_B, 1 hit |
SUPFAMi | SSF51621, SSF51621, 1 hit |
s (2)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry describes 2 produced by isoformsialternative splicing. AlignAdd to basketIsoform 1 (identifier: Q5I0K3-1) [UniParc]FASTAAdd to basket
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MALCVLQNAV RGAAALPRLK ASLVASVCRP GYSSLSNHKY VPRRAVLYVP
60 70 80 90 100
GNDEKKIRKI PSLKVDCAVL DCEDGVAENK KNEARLRIAK TLEDFDLGTT
110 120 130 140 150
EKCVRINSVS SGLAEADLET FLQARVLPSS LMLPKVEGPE EIQWFSDKFS
160 170 180 190 200
LHLKGRKLEQ PMNLIPFVET AMGLLNFKAV CEETLKIGPQ VGLFLDAVVF
210 220 230 240 250
GGEDFRASIG ATSNKDTQDI LYARQKIVVT AKAFGLQAID LVYIDFRDED
260 270 280 290 300
GLLRQSREAA AMGFTGKQVI HPNQIAVVQE QFTPTPEKIR WAEELIAAFK
310 320 330
EHQQLGKGAF TFQGSMIDMP LLKQAQNIVT LATSIKEK
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_025044 | 82 – 144 | Missing in isoform 2. 1 PublicationAdd BLAST | 63 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BF567092 mRNA No translation available. BC088243 mRNA Translation: AAH88243.1 |
RefSeqi | NP_001094155.1, NM_001100685.1 [Q5I0K3-1] |
Genome annotation databases
Ensembli | ENSRNOT00000018918; ENSRNOP00000018918; ENSRNOG00000014075 [Q5I0K3-1] |
GeneIDi | 306198 |
KEGGi | rno:306198 |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | BF567092 mRNA No translation available. BC088243 mRNA Translation: AAH88243.1 |
RefSeqi | NP_001094155.1, NM_001100685.1 [Q5I0K3-1] |
3D structure databases
SMRi | Q5I0K3 |
ModBasei | Search... |
Protein-protein interaction databases
STRINGi | 10116.ENSRNOP00000018918 |
PTM databases
iPTMneti | Q5I0K3 |
PhosphoSitePlusi | Q5I0K3 |
Proteomic databases
PaxDbi | Q5I0K3 |
PRIDEi | Q5I0K3 |
Genome annotation databases
Ensembli | ENSRNOT00000018918; ENSRNOP00000018918; ENSRNOG00000014075 [Q5I0K3-1] |
GeneIDi | 306198 |
KEGGi | rno:306198 |
Organism-specific databases
CTDi | 171425 |
RGDi | 1304615, Clybl |
Phylogenomic databases
eggNOGi | ENOG502QQPK, Eukaryota |
GeneTreei | ENSGT00390000017163 |
HOGENOMi | CLU_044864_1_0_1 |
InParanoidi | Q5I0K3 |
OMAi | AWLFCPA |
OrthoDBi | 1527380at2759 |
PhylomeDBi | Q5I0K3 |
TreeFami | TF313596 |
Miscellaneous databases
ChiTaRSi | Clybl, rat |
PROi | PR:Q5I0K3 |
Gene expression databases
Bgeei | ENSRNOG00000014075, Expressed in kidney and 21 other tissues |
Genevisiblei | Q5I0K3, RN |
Family and domain databases
Gene3Di | 3.20.20.60, 1 hit |
InterProi | View protein in InterPro IPR005000, Aldolase/citrate-lyase_domain IPR040186, Citramalyl-CoA_lyase IPR011206, Citrate_lyase_beta/mcl1/mcl2 IPR015813, Pyrv/PenolPyrv_Kinase-like_dom IPR040442, Pyrv_Kinase-like_dom_sf |
PANTHERi | PTHR11105, PTHR11105, 1 hit |
Pfami | View protein in Pfam PF03328, HpcH_HpaI, 1 hit |
PIRSFi | PIRSF015582, Cit_lyase_B, 1 hit |
SUPFAMi | SSF51621, SSF51621, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | CLYBL_RAT | |
Accessioni | Q5I0K3Primary (citable) accession number: Q5I0K3 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 1, 2007 |
Last sequence update: | May 1, 2007 | |
Last modified: | December 2, 2020 | |
This is version 104 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- SIMILARITY comments
Index of protein domains and families