Protein profile

PA2445

glycine dehydrogenase

Genome: NC_002516.2

Gene: gcvP2 Structure source: Unavailable
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Amino acids 959
Annotations 4
Features 26
PDB binders 2

Overview

Basic information about this protein and its source genome.

Accession
PA2445
Assembly
Pseudomonas aeruginosa PAO1, complete genome
Gene
gcvP2
Status
annotated
Amino acids
959
Structure source
Unavailable
GO
GO:0006546 The chemical reactions and pathways resulting in the breakdown of glycine. GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic. GO:0006544 The chemical reactions and pathways involving glycine, aminoethanoic acid. GO:0004375 Catalysis of the reaction: N(6)-[(R)-lipoyl]-L-lysyl-[glycine-cleavage complex H protein] + glycine + H+ = N(6)-[(R)-S(8)-aminomethyldihydrolipoyl]-L-lysyl-[glycine-cleavage complex H protein] + CO2.

Target profile

Computed evidence for target prioritization.

Human off-target
hit
Human identity (%)
71.698
Human E-value
7.24e-23
Gut microbiome off-target
hit
Essential (DEG)
Y
Localization
Cytoplasmic

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

4 GO

Gene Ontology (GO)

4
  • GO:0006546 The chemical reactions and pathways resulting in the breakdown of glycine.
  • GO:0003824 Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
  • GO:0006544 The chemical reactions and pathways involving glycine, aminoethanoic acid.
  • GO:0004375 Catalysis of the reaction: N(6)-[(R)-lipoyl]-L-lysyl-[glycine-cleavage complex H protein] + glycine + H+ = N(6)-[(R)-S(8)-aminomethyldihydrolipoyl]-L-lysyl-[glycine-cleavage complex H protein] + CO2.

Sequence Features

Domain/signature hits from InterPro and related databases.

26 records
Show feature table
Start End DB Term Name
466 952 SUPERFAMILY SSF53383 PLP-dependent transferases
466 952 InterPro IPR015424 Pyridoxal phosphate-dependent transferase
635 655 Coils Coil Coil
13 956 PANTHER PTHR11773 GLYCINE DEHYDROGENASE, DECARBOXYLATING
13 956 InterPro IPR020581 Glycine cleavage system P protein
483 743 Pfam PF02347 Glycine cleavage system P-protein
483 743 InterPro IPR020581 Glycine cleavage system P protein
21 444 Pfam PF02347 Glycine cleavage system P-protein
21 444 InterPro IPR020581 Glycine cleavage system P protein
770 904 Gene3D G3DSA:3.90.1150.10 Aspartate Aminotransferase, domain 1
770 904 InterPro IPR015422 Pyridoxal phosphate-dependent transferase, small domain
21 950 NCBIfam TIGR00461 aminomethyl-transferring glycine dehydrogenase
21 950 InterPro IPR003437 Glycine dehydrogenase (decarboxylating)
21 446 SUPERFAMILY SSF53383 PLP-dependent transferases
21 446 InterPro IPR015424 Pyridoxal phosphate-dependent transferase
99 359 FunFam G3DSA:3.40.640.10:FF:000005 Glycine dehydrogenase (decarboxylating), mitochondrial
100 359 Gene3D G3DSA:3.40.640.10 -
100 359 InterPro IPR015421 Pyridoxal phosphate-dependent transferase, major domain
528 769 Gene3D G3DSA:3.40.640.10 -
528 769 InterPro IPR015421 Pyridoxal phosphate-dependent transferase, major domain
12 956 Hamap MF_00711 Glycine dehydrogenase (decarboxylating) [gcvP].
12 956 InterPro IPR003437 Glycine dehydrogenase (decarboxylating)
527 758 FunFam G3DSA:3.40.640.10:FF:000007 glycine dehydrogenase (Decarboxylating), mitochondrial
488 873 CDD cd00613 GDC-P
488 873 InterPro IPR020581 Glycine cleavage system P protein
766 904 FunFam G3DSA:3.90.1150.10:FF:000007 Glycine dehydrogenase (decarboxylating), mitochondrial

Ligand evidence

Ligands grouped by evidence source. PDB ligands keep the source crystal visible, and loaded crystals can be opened directly in the structure viewer.

8 records

Structural evidence inferred from similar proteins. The source crystal indicates where the ligand was observed; the UniProt column identifies the homologous protein carrying that ligand.

Show only:
Ligand Source crystal UniProt (homolog) MW · LogP · TPSA Lipinski PAINS SMILES
AOA
1WYV
Q5SKW7 91.1 Da LogP -1.04 TPSA 72.5 ✓ Ro5 ✓ Clean C(C(=O)O)ON
PLG
6I35
P23378 306.2 Da LogP -0.12 TPSA 149.2 ✓ Ro5 ✓ Clean Cc1c(c(c(cn1)COP(=O)(O)O)CNCC(=O)O)O

PDB and ChEMBL records on this protein are shown in full. ChEMBL records from similar proteins are capped at the top 100 per protein (by pchembl) and ZINC at the top 50 (Tanimoto ≥ 0.5). ADME columns are descriptor-based screening flags, not experimental toxicity results.

3D Structure

No structural model is available for this protein.

Structure unavailable

No pre-computed model was found in the AlphaFold database and no ColabFold prediction is available for this protein.

Sequence length: 959 aa