Structure of PDB 5xya Chain A Binding Site BS02

Receptor Information

>5xya Chain A (length=1358) Species: 1314 (Streptococcus pyogenes)

SLPPVNTDIHDWVKTKGAWDKGYKGQGKVVAVIDTGIDPAHQSMRISDVS
TAKVKSKEDMLARQKAAGINYGSWINDKVVFAHNYVENSDNIKENQFKYE
SHGMHVTGIVAGNSKEAAATGERFLGIAPEAQVMFMRVFANDVMGSAESL
FIKAIEDAVALGADVINLSLGTANGAQLSGSKPLMEAIEKAKKAGVSVVV
AAGNERVYGSDHDDPLATNPDYGLVGSPSTGRTPTSVAAINSKWVIQRLM
TVEELEKRADLNHGKAIYSESVDFKNIKDSLGYDKSHQFAYVKESTDAGY
NAPNKTYDEMIALAKKHGIPSAFISHEFGKAMSQLNGNGTGSLEFDSVVS
KAPSQKGNEMNHFSNWGLTSDGYLKPDITAPGGDIYSTYNDNHYGSQTGT
SMASPQIAGASLLVKQYLEKTQPNLPKEKIADIVKNLLMSNAQIHVNPET
KTTTSPRQQGAGLLNIDGAVTSGLYVTGKDNYGSISLGNITDTMTFDVTV
HNLSNKDKTLRYDTELLTDHVDPQKGRFTLTSRSLKTYQGGEVTVPANGK
VTVRVTMDVSQFTKELTKQMPNGYYLEGFVRFRDSQDDQLNRVNIPFVGF
KGQFENLAVAEESIYRLKSQGKTGFYFDESGPKDDIYVGKHFTGLVTLGS
ETNVSTKTISDNGLHTLGTFKNADGKFILEKNAQGNPVLAISPNGDNNQD
FAAFKGVFLRKYQGLKASVYHASDKEHKNPLWVSPESFKGDKNFNSDIRF
AKSTTLLGTAFSGKSLTGAELPDGYYHYVVSYYPDVVGAKRQEMTFDMIL
DRQKPVLSQATFDPETNRFKPEPLKDRGLAGVRKDSVFYLERKDNKPYTV
TINDSYKYVSVEDNKTFVERQADGSFILPLDKAKLGDFYYMVEDFAGNVA
IAKLGDHLPQTLGKTPIKLKLTDGNYQTKETLKDNLEMTQSDTGLVTNQA
QLAVVHRNQPQSQLTKMNQDFFISPNEDGNKDFVAFKGLENNVYNDLTVN
VYAKDDHQKQTPIWSSQAGAGASAIESTAWYGITARGSKVMPGDYQYVVT
YRDEHGKEHQKQYTISVNDKKPMITQGRFDTINGVDHFTPDKTKALGSSG
IVREEVFYLAKKNGRKFDVTEGKDGITVSDNKVYIPKNPDGSYTISKRDG
VTLSDYYYLVEDRAGNVSFATLRDLKAVGKDKAVVNFGLDLPVPEDKQIV
NFTYLVRDADGKPIENLEYYNNSGNSLILPYGKYTVELLTYDTNAAKLES
DKIVSFTLSADNNFQQVTFKMTMLATSQITAHFDHLLPEGSRVSLKTAQG
QLIPLEQSLYVPKAYGKTVQEGTYEVVVSLPKGYRIEGNTKVNTLPNEVH
ELSLRLVK

Ligand information

• Ligand ID: CA
• InChI: InChI=1S/Ca/q+2
• InChIKey: BHPQYMZQTOCNFJ-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Ca++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Ca+2]
• Formula: Ca
• Name: CALCIUM ION
• DrugBank: DB14577
• PDB chain: 5xya Chain A Residue 1705

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5xya Structure of ScpC, a virulence protease fromStreptococcus pyogenes, reveals the functional domains and maturation mechanism.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): S1190 N1192 D1194 N1196 D1198
• Binding residue (residue number reindexed from 1): S974 N976 D978 N980 D982
• Annotation score: 4

Enzymatic activity

• Enzyme Commision number: 3.4.21.110: C5a peptidase.

Gene Ontology

Molecular Function

• GO:0004252 serine-type endopeptidase activity
• GO:0008236 serine-type peptidase activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006508 proteolysis

Cellular Component

• GO:0005618 cell wall
• GO:0016020 membrane

External links

• PDB: RCSB:5xya, PDBe:5xya, PDBj:5xya
• PDBsum: 5xya
• PubMed: 30049896
• UniProt: Q3HV58