Structure of PDB 2ypp Chain A

Receptor sequence

>2yppA (length=460) Species: 1773 (Mycobacterium tuberculosis)

MNWTVDIPIDPSLPPLPTDLRTRLDAALAKPAAQQPTWPADQALAMRTVL
ESVPPVTVPSEIVRLQEQLAQVAKGEAFLLQGGDCAETFMDNTEPHIRGN
VRALLQMAVVLTYGASMPVVKVARIAGQYAKPRSADIDALGLRSYRGDMI
NGFAPDAAAREHDPSRLVRAYANASAAMNLVRALTSSGLASLHLVHDWNR
EFVRTSPAGARYEALATEIDRGLRFMSACGVADRNLQTAEIYASHEALVL
DYERAMLRLSDGDDGEPQLFDLSAHTVWIGERTRQIDGAHIAFAQVIANP
VGVKLGPNMTPELAVEYVERLDPHNKPGRLTLVSRMGNHKVRDLLPPIVE
KVQATGHQVIWQCDPMHGNTHESSTGFKTRHFDRIVDEVQGFFEVHRALG
THPGGIHVEITGENVTECLGGAQDISETDLAGRYETACDPRLNTQQSLEL
AFLVAEMLRD

3D structure

• PDB: 2ypp Three Sites and You are Out: Ternary Synergistic Allostery Controls Aromatic Aminoacid Biosynthesis in Mycobacterium Tuberculosis.
• Chain: A
• Resolution: 2.3 Å

Enzymatic activity

• Enzyme Commision number: 2.5.1.54: 3-deoxy-7-phosphoheptulonate synthase.

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	TYR	A	F91 R171 N175	F89 R169 N173	MOAD: Kd=39uM PDBbind-CN: -logKd/Ki=4.41,Kd=39uM
BS02	MN	A	C87 H369 E411 D441	C85 H367 E409 D439
BS03	TYR	A	V55 Y173 A174	V53 Y171 A172	MOAD: Kd=39uM PDBbind-CN: -logKd/Ki=4.41,Kd=39uM

Gene Ontology

Molecular Function

• GO:0003849 3-deoxy-7-phosphoheptulonate synthase activity
• GO:0005515 protein binding
• GO:0016740 transferase activity
• GO:0030145 manganese ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0008652 amino acid biosynthetic process
• GO:0009073 aromatic amino acid family biosynthetic process
• GO:0009423 chorismate biosynthetic process
• GO:0051260 protein homooligomerization

Cellular Component

• GO:0005829 cytosol
• GO:0005886 plasma membrane
• GO:0009274 peptidoglycan-based cell wall

External links

• PDB: RCSB:2ypp, PDBe:2ypp, PDBj:2ypp
• PDBsum: 2ypp
• PubMed: 23274137
• UniProt: O53512|AROG_MYCTU Phospho-2-dehydro-3-deoxyheptonate aldolase AroG (Gene Name=aroG)