Structure of PDB 4xg1 Chain B

Receptor sequence

>4xg1B (length=418) Species: 357804 (Psychromonas ingrahamii 37)

DHFNYQNDGRLFVEGLPVEQVVKKTGTPAYIYSRATIERHWQAFDSAAGK
HPHLICYAVKANSNLAVLNLMARMGSGFDIVSVGELMRVIQAGGDPKKIV
FSGVGKTEIEISAALQANIMCFNVESISELYRINSVAKALNVKAPISIRI
NPNIDAGTHPYISTGLKENKFGIEIEQALDVYKIASDLEFLEIKGVDCHI
GSQLTEIAPFIEALDKLLILIDLLAEKGITISHLDLGGGLGVPYDDETPP
EPAEYMTAIINRMAGRSLKLIFEPGRAIMANAGVLVTKVEFLKLNKNFAI
VDAAMNDLIRPALYSAWQNIIPLNTDYQDGQDRPVRSYDIVGPICETGDF
LGKERQLALAEGDYLVIRSTGAYGSTMSSNYNSRCRAAEILVDGEKAFIV
REREELKDLWRGEHILPI

3D structure

• PDB: 4xg1 Expression to crystallization of diaminopimelate decarboxylase from the psychrophile Psychromonas ingrahamii
• Chain: B
• Resolution: 2.5 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): K61 H200 E274
• Catalytic site (residue number reindexed from 1): K60 H199 E273
• Enzyme Commision number: 4.1.1.20: diaminopimelate decarboxylase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	LLP	B	C348 E349	C345 E346
BS02	TME	B	E207 I208 A209	E206 I207 A208
BS03	TME	B	A36 E39	A35 E38
BS04	LLP	B	K61 D80 H200 S203 G240 E274 G276 R277 R313 Y317 Y376	K60 D79 H199 S202 G239 E273 G275 R276 R310 Y314 Y373

Gene Ontology

Molecular Function

• GO:0003824 catalytic activity
• GO:0008836 diaminopimelate decarboxylase activity
• GO:0016830 carbon-carbon lyase activity
• GO:0016831 carboxy-lyase activity
• GO:0030170 pyridoxal phosphate binding

Biological Process

• GO:0009085 lysine biosynthetic process
• GO:0009089 lysine biosynthetic process via diaminopimelate

External links

• PDB: RCSB:4xg1, PDBe:4xg1, PDBj:4xg1
• PDBsum: 4xg1
• UniProt: A1SR00