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Protein

2,2-dialkylglycine decarboxylase

Gene

dgdA

Organism
Burkholderia cepacia (Pseudomonas cepacia)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

The dialkylglycine decarboxylase is of interest because it normally catalyzes both decarboxylation and amino transfer. It may be more properly described as a decarboxylating aminotransferase rather than an aminotransferring decarboxylase.

Miscellaneous

The enzyme may have evolved to use the rare dialkylglycines of cosmic origin, or it may be part of a metabolic pathway for breaking down cytotoxic peptides and the constituent amino acids.

Catalytic activityi

2,2-dialkylglycine + pyruvate = dialkyl ketone + CO2 + L-alanine.

Cofactori

GO - Molecular functioni

Keywordsi

Molecular functionDecarboxylase, Lyase
LigandPyridoxal phosphate

Enzyme and pathway databases

BRENDAi4.1.1.64. 1028.
SABIO-RKiP16932.

Names & Taxonomyi

Protein namesi
Recommended name:
2,2-dialkylglycine decarboxylase (EC:4.1.1.64)
Short name:
DGD
Gene namesi
Name:dgdA
OrganismiBurkholderia cepacia (Pseudomonas cepacia)
Taxonomic identifieri292 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaBetaproteobacteriaBurkholderialesBurkholderiaceaeBurkholderiaBurkholderia cepacia complex

Pathology & Biotechi

Chemistry databases

DrugBankiDB02849. N-Pyridoxyl-1-Amino-Cyclopropanecarboxylic Acid-5-Monophosphate.
DB04241. N-Pyridoxyl-2-Methylalanine-5-Phosphate.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001205092 – 4332,2-dialkylglycine decarboxylaseAdd BLAST432

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei272N6-(pyridoxal phosphate)lysine1

Interactioni

Subunit structurei

Homotetramer.

Structurei

Secondary structure

1433
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 16Combined sources10
Beta strandi31 – 34Combined sources4
Beta strandi36 – 38Combined sources3
Beta strandi44 – 47Combined sources4
Helixi50 – 53Combined sources4
Helixi62 – 74Combined sources13
Helixi85 – 97Combined sources13
Beta strandi104 – 109Combined sources6
Helixi111 – 126Combined sources16
Beta strandi130 – 134Combined sources5
Helixi143 – 147Combined sources5
Beta strandi151 – 153Combined sources3
Beta strandi155 – 157Combined sources3
Beta strandi164 – 167Combined sources4
Beta strandi172 – 174Combined sources3
Beta strandi178 – 183Combined sources6
Helixi185 – 199Combined sources15
Beta strandi204 – 209Combined sources6
Beta strandi211 – 213Combined sources3
Turni214 – 217Combined sources4
Beta strandi218 – 220Combined sources3
Helixi225 – 235Combined sources11
Beta strandi239 – 243Combined sources5
Turni245 – 252Combined sources8
Beta strandi253 – 256Combined sources4
Helixi258 – 261Combined sources4
Beta strandi266 – 270Combined sources5
Helixi272 – 275Combined sources4
Beta strandi281 – 285Combined sources5
Helixi287 – 295Combined sources9
Turni303 – 306Combined sources4
Helixi308 – 323Combined sources16
Helixi326 – 347Combined sources22
Beta strandi351 – 357Combined sources7
Beta strandi360 – 368Combined sources9
Turni369 – 372Combined sources4
Helixi378 – 388Combined sources11
Beta strandi395 – 397Combined sources3
Beta strandi404 – 407Combined sources4
Helixi415 – 432Combined sources18

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1D7RX-ray2.00A1-433[»]
1D7SX-ray2.05A1-433[»]
1D7UX-ray1.95A1-433[»]
1D7VX-ray2.80A1-433[»]
1DGDX-ray2.80A2-433[»]
1DGEX-ray2.80A2-433[»]
1DKAX-ray2.60A1-433[»]
1M0NX-ray2.20A1-433[»]
1M0OX-ray2.40A1-433[»]
1M0PX-ray2.60A1-433[»]
1M0QX-ray2.00A1-433[»]
1Z3ZX-ray2.90A3-433[»]
1ZC9X-ray2.00A1-433[»]
1ZOBX-ray2.75A1-433[»]
1ZODX-ray1.80A1-433[»]
2DKBX-ray2.10A1-433[»]
ProteinModelPortaliP16932.
SMRiP16932.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP16932.

Family & Domainsi

Sequence similaritiesi

Family and domain databases

CDDicd00610. OAT_like. 1 hit.
Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 2 hits.
InterProiView protein in InterPro
IPR005814. Aminotrans_3.
IPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_sub2.
PfamiView protein in Pfam
PF00202. Aminotran_3. 1 hit.
PIRSFiPIRSF000521. Transaminase_4ab_Lys_Orn. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
PROSITEiView protein in PROSITE
PS00600. AA_TRANSFER_CLASS_3. 1 hit.

Sequencei

Sequence statusi: Complete.

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

P16932-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLNDDATFW RNARQHLVRY GGTFEPMIIE RAKGSFVYDA DGRAILDFTS
60 70 80 90 100
GQMSAVLGHC HPEIVSVIGE YAGKLDHLFS GMLSRPVVDL ATRLANITPP
110 120 130 140 150
GLDRALLLST GAESNEAAIR MAKLVTGKYE IVGFAQSWHG MTGAAASATY
160 170 180 190 200
SAGRKGVGPA AVGSFAIPAP FTYRPRFERN GAYDYLAELD YAFDLIDRQS
210 220 230 240 250
SGNLAAFIAE PILSSGGIIE LPDGYMAALK RKCEARGMLL ILDEAQTGVG
260 270 280 290 300
RTGTMFACQR DGVTPDILTL SKTLGAGLPL AAIVTSAAIE ERAHELGYLF
310 320 330 340 350
YTTHVSDPLP AAVGLRVLDV VQRDGLVARA NVMGDRLRRG LLDLMERFDC
360 370 380 390 400
IGDVRGRGLL LGVEIVKDRR TKEPADGLGA KITRECMNLG LSMNIVQLPG
410 420 430
MGGVFRIAPP LTVSEDEIDL GLSLLGQAIE RAL
Length:433
Mass (Da):46,444
Last modified:January 23, 2007 - v3
Checksum:iEF441EC8DF8C37FE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05282 Genomic DNA. Translation: AAA50844.1.
PIRiA35173.

Similar proteinsi

Entry informationi

Entry nameiDGDA_BURCE
AccessioniPrimary (citable) accession number: P16932
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: January 23, 2007
Last modified: August 30, 2017
This is version 107 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Direct protein sequencing

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families