Structure of PDB 4nge Chain A

Receptor sequence

>4ngeA (length=985) Species: 9606 (Homo sapiens)

AAACERALQYKLGDKIHGFTVNQVTSVPELFLTAVKLTHDDTGARYLHLA
REDTNNLFSVQFRTTPMDSTGVPHILQHTVLCGSQKYPCRDPFFKMLNRS
LSTFMNAFTASDYTLYPFSTQNPKDFQNLLSVYLDATFFPCLRELDFWQE
GWRLEHENPSDPQTPLVFKGVVFNEMKGAFTDNERIFSQHLQNRLLPDHT
YSVVSGGDPLCIPELTWEQLKQFHATHYHPSNARFFTYGNFPLEQHLKQI
HEEALSKFQKIEPSTVVPAQTPWDKPREFQITCGPDSFATPSKQTTVSVS
FLLPDITDTFEAFTLSLLSSLLTSGPNSPFYKALIESGLGTDFSPDVGYN
GYTREAYFSVGLQGIVEKDIETVRSLIDRTIDEVVEKGFEDDRIEALLHK
IEIQMKHQSTSFGLMLTSYIASCWNHDGDPVELLKLGNQLAKFRQCLQEN
PKFLQEKVKQYFKNNQHKLTLSMRPDDKYHEKQAQVEATKLKQKVEALSP
GDRQQIYEKGLELRSQQSKPQDASCLPALKVSDIEPTIPVTELDVVLTAG
DIPVQYCAQPTNGMVYFRAFSSLNTLPEELRPYVPLFCSVLTKLGCGLLD
YREQAQQIELKTGGMSASPHVLPDDSHMDTYEQGVLFSSLCLDRNLPDMM
QLWSEIFNNPCFEEEEHFKVLVKMTAQELANGIPDSGHLYASIRAGRTLT
PAGDLQETFSGMDQVRLMKRIAEMTDIKPILRKLPRIKKHLLNGDNMRCS
VNATPQQMPQTEKAVEDFLRSIGRSPVRPHTVEKPVIRKLVMEPTFKPWQ
MKTHFLMPFPVNYVGECIRTVPYTDPDHASLKILARLMTAKFLHTEIREK
GGAYGGGAKLSHNGIFTLYSYRDPNTIETLQSFGKAVDWAKSGKFTQQDI
DEAKLSVFSTVDAPVAPSDKGMDHFLYGLSDEMKQAHREQLFAVSHDKLL
AVSDRYLGTGKSTHGLAILGPENPKIAKDPSWIIR

3D structure

• PDB: 4nge Molecular basis of substrate recognition and degradation by human presequence protease.
• Chain: A
• 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	A	Q107 H108 F123 F124 L127 S130 S132 T133 F134 M135 N136 A137 F138 T139 E205 R215 G236 R900 Y906 S961	Q77 H78 F93 F94 L97 S100 S102 T103 F104 M105 N106 A107 F108 T109 E175 R185 G206 R848 Y854 S909
BS02	peptide	A	F344 S449 Y450 S453 L467	F313 S418 Y419 S422 L436
BS03	ZN	A	H104 H108 E205	H74 H78 E175

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)