Structure of PDB 4nge Chain D

Receptor sequence

>4ngeD (length=987) Species: 9606 (Homo sapiens)

AACERALQYKLGDKIHGFTVNQVTSVPELFLTAVKLTHDDTGARYLHLAR
EDTNNLFSVQFRTTPMDSTGVPHILQHTVLCGSQKYPCRDPFFKMLNRSL
STFMNAFTASDYTLYPFSTQNPKDFQNLLSVYLDATFFPCLRELDFWQEG
WRLEHENPSDPQTPLVFKGVVFNEMKGAFTDNERIFSQHLQNRLLPDHTY
SVVSGGDPLCIPELTWEQLKQFHATHYHPSNARFFTYGNFPLEQHLKQIH
EEALSKFQKIEPSTVVPAQTPWDKPREFQITCGPDPSKQTTVSVSFLLPD
ITDTFEAFTLSLLSSLLTSGPNSPFYKALIESGLGTDFSPDVGYNGYTRE
AYFSVGLQGIVEKDIETVRSLIDRTIDEVVEKGFEDDRIEALLHKIEIQM
KHQSTSFGLMLTSYIASCWNHDGDPVELLKLGNQLAKFRQCLQENPKFLQ
EKVKQYFKNNQHKLTLSMRPDDKYHEKQAQVEATKLKQKVEALSPGDRQQ
IYEKGLELRSQQSKPQDASCLPALKVSDIEPTIPVTELDVVLTAGDIPVQ
YCAQPTNGMVYFRAFSSLNTLPEELRPYVPLFCSVLTKLGCGLLDYREQA
QQIELKTGGMSASPHVLPDDSHMDTYEQGVLFSSLCLDRNLPDMMQLWSE
IFNNPCFEEEEHFKVLVKMTAQELANGIPDSGHLYASIRAGRTLTPAGDL
QETFSGMDQVRLMKRIAEMTDIKPILRKLPRIKKHLLNGDNMRCSVNATP
QQMPQTEKAVEDFLRSIGRSKKERRPVRPHTVEKPVPVIRKLVMEPTFKP
WQMKTHFLMPFPVNYVGECIRTVPYTDPDHASLKILARLMTAKFLHTEIR
EKGGAYGGGAKLSHNGIFTLYSYRDPNTIETLQSFGKAVDWAKSGKFTQQ
DIDEAKLSVFSTVDAPVAPSDKGMDHFLYGLSDEMKQAHREQLFAVSHDK
LLAVSDRYLGTGKSTHGLAILGPENPKIAKDPSWIIR

3D structure

• PDB: 4nge Molecular basis of substrate recognition and degradation by human presequence protease.
• Chain: D
• Resolution: 2.704 Å

Enzymatic activity

• Enzyme Commision number: 3.4.24.-

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	peptide	D	H104 Q107 H108 F123 F124 L127 N136 F138 T139 E205 M206 Y906	H73 Q76 H77 F92 F93 L96 N105 F107 T108 E174 M175 Y856
BS02	peptide	D	S449 Y450 S453	S413 Y414 S417
BS03	ZN	D	H104 H108 E205	H73 H77 E174

Gene Ontology

Molecular Function

• GO:0004222 metalloendopeptidase activity
• GO:0008047 enzyme activator activity
• GO:0008237 metallopeptidase activity
• GO:0008270 zinc ion binding
• GO:0046872 metal ion binding

Biological Process

• GO:0006508 proteolysis
• GO:0006626 protein targeting to mitochondrion
• GO:0016485 protein processing

Cellular Component

• GO:0005739 mitochondrion
• GO:0005759 mitochondrial matrix

External links

• PDB: RCSB:4nge, PDBe:4nge, PDBj:4nge
• PDBsum: 4nge
• PubMed: 24931469
• UniProt: Q5JRX3|PREP_HUMAN Presequence protease, mitochondrial (Gene Name=PITRM1)