Structure of PDB 6rti Chain A

Receptor sequence

>6rtiA (length=693) Species: 9606 (Homo sapiens)

HNMKAFLDELKAENIKKFLYNFTQIPHLAGTEQNFQLAKQIQSQWKEFGL
DSVELAHYDVLLSYPNKTHPNYISIINEDGNEIFNTSLFEPPPPGYENVS
DIVPPFSAFSPQGMPEGDLVYVNYARTEDFFKLERDMKINCSGKIVIARY
GKVFRGNKVKNAQLAGAKGVILYSDPADYFAPGVKSYPDGWNLPGGGVQR
GNILNLNGAGDPLTPGYPANEYAYRRGIAEAVGLPSIPVHPIGYYDAQKL
LEKMGGSAPPDSSWRGSLKVPYNVGPGFTGNFSTQKVKMHIHSTNEVTRI
YNVIGTLRGAVEPDRYVILGGHRDSWVFGGIDPQSGAAVVHEIVRSFGTL
KKEGWRPRRTILFASWDAEEFGLLGSTEWAEENSRLLQERGVAYINADSS
IEGNYTLRVDCTPLMYSLVHNLTKELKSPDEGFEGKSLYESWTKKSPSPE
FSGMPRISKLGSGNDFEVFFQRLGIASGRARYTKNWNKFSGYPLYHSVYE
TYELVEKFYDPMFKYHLTVAQVRGGMVFELANSIVLPFDCRDYAVVLRKY
ADKIYSISMKHPQEMKTYSVSFDSLFSAVKNFTEIASKFSERLQDFDKSN
PIVLRMMNDQLMFLERAFIDPLGLPDRPFYRHVIYAPSSHNKYAGESFPG
IYDALFDIESKVDPSKAWGEVKRQIYVAAFTVQAAAETLSEVA

3D structure

• PDB: 6rti Structural basis of prostate-specific membrane antigen recognition by the A9g RNA aptamer.
• Chain: A
• Resolution: 2.2 Å

Enzymatic activity

• Enzyme Commision number: 3.4.17.21: glutamate carboxypeptidase II.

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	rna	A	E183 D316 S317 S318 R320 G321 P504 R511 K514 K545 F546 R605 D609 K610 Y612 S613 I614 M616 K617 P619 Q620 K623 F633 N698 Y700 A701 G702 E703 Y709	E128 D261 S262 S263 R265 G266 P449 R456 K459 K488 F489 R548 D552 K553 Y555 S556 I557 M559 K560 P562 Q563 K566 F576 N641 Y643 A644 G645 E646 Y652
BS02	ZN	A	D387 E425 H553	D332 E370 H496
BS03	ZN	A	H377 D387 D453	H322 D332 D398
BS04	CA	A	T269 Y272 E433 E436	T214 Y217 E378 E381
BS05	G88	A	R210 D387 E424 E425 L428 D453 G518 Y552 H553 K699 Y700	R155 D332 E369 E370 L373 D398 G463 Y495 H496 K642 Y643	BindingDB: Ki=0.280000nM,IC50=300nM,Kd=0.5nM

Gene Ontology

Molecular Function

• GO:0004180 carboxypeptidase activity
• GO:0004181 metallocarboxypeptidase activity
• GO:0008233 peptidase activity
• GO:0008237 metallopeptidase activity
• GO:0016805 dipeptidase activity
• GO:0046872 metal ion binding
• GO:1904492 Ac-Asp-Glu binding
• GO:1904493 tetrahydrofolyl-poly(glutamate) polymer binding

Biological Process

• GO:0006508 proteolysis
• GO:0006760 folic acid-containing compound metabolic process
• GO:0035609 C-terminal protein deglutamylation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005886 plasma membrane
• GO:0009986 cell surface
• GO:0016020 membrane
• GO:0070062 extracellular exosome

External links

• PDB: RCSB:6rti, PDBe:6rti, PDBj:6rti
• PDBsum: 6rti
• PubMed: 32525981
• UniProt: Q04609|FOLH1_HUMAN Glutamate carboxypeptidase 2 (Gene Name=FOLH1)