Structure of PDB 6jjk Chain D Binding Site BS03

Receptor Information

>6jjk Chain D (length=388) Species: 83333 (Escherichia coli K-12)

QMPSLAPMLEKVMPSVVSINVEGSTQKFMALGSGVIIDADKGYVVTNNHV
VDNATVIKVQLSDGRKFDAKMVGKDPRSDIALIQIQNPKNLTAIKMADSD
ALRVGDYTVAIGNPFGLGETVTSGIVSALGRSGLNAENYENFIQTDAAIN
RGNAGGALVNLNGELIGINTAILAPDGGNIGIGFAIPSNMVKNLTSQMVE
YGQVKRGELGIMGTELNSELAKAMKVDAQRGAFVSQVLPNSSAAKAGIKA
GDVITSLNGKPISSFAALRAQVGTMPVGSKLTLGLLRDGKQVNVNLELQQ
SVDSSSIFNGIEGAEMSNKGKDQGVVVNNVKTGTPAAQIGLKKGDVIIGA
NQQAVKNIAELRKVLDSKPSVLALNIQRGDSTIYLLMQ

Ligand information

>6jjk Chain P (length=5) Species: 562 (Escherichia coli)

CYYKI

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6jjk Over-activation of a nonessential bacterial protease DegP as an antibiotic strategy
• Resolution: 3.6 Å
• Binding residue (original residue number in PDB): E264 L265 G266 I267 M268 G269 F321 V328
• Binding residue (residue number reindexed from 1): E208 L209 G210 I211 M212 G213 F265 V272

Enzymatic activity

• Enzyme Commision number: 3.4.21.107: peptidase Do.

Gene Ontology

Molecular Function

• GO:0004175 endopeptidase activity
• GO:0004252 serine-type endopeptidase activity
• GO:0005515 protein binding
• GO:0008233 peptidase activity
• GO:0008236 serine-type peptidase activity
• GO:0042802 identical protein binding

Biological Process

• GO:0006457 protein folding
• GO:0006508 proteolysis
• GO:0006515 protein quality control for misfolded or incompletely synthesized proteins
• GO:0006979 response to oxidative stress
• GO:0009266 response to temperature stimulus
• GO:0009408 response to heat
• GO:0061077 chaperone-mediated protein folding

Cellular Component

• GO:0005886 plasma membrane
• GO:0030288 outer membrane-bounded periplasmic space
• GO:0042597 periplasmic space

External links

• PDB: RCSB:6jjk, PDBe:6jjk, PDBj:6jjk
• PDBsum: 6jjk
• PubMed: 33005001
• UniProt: P0C0V0|DEGP_ECOLI Periplasmic serine endoprotease DegP (Gene Name=degP)