Structure of PDB 6pcm Chain B Binding Site BS02

Receptor Information
>6pcm Chain B (length=783) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NVRRLVIVESPTKARKIAGYLGSNYVVESSRGHIRDLPRNAADVPAKFKS
EPWARLGVNVDQNFEPLYIVSPEKKSTVTELKGLLKDVDELYLATDGDRE
GEAIAWHLLETLKPRVPVKRMVFHEITEPAIRNAAENPRDLDIALVDAQE
TRRILDRLYGYEVSPVLWKKVAPKLSAGRVQSVATRIIVQRERERMAFHS
ASYWDVTAELDASVSDPSASPPKFTAKLNTVDGRRVATGRDFDSLGQLKR
PDEVLVLDEASAGALASGLRGAQLAVTSVEQKPYTRRPYAPFMTSTLQQE
AARKLRFSSERTMSIAQRLYENGYITYMRTDSTTLSESAINAARTQARQL
YGEEYVHPSPRQYTRKVNAQEAHEAIRPAGDVFQTPGQLHSALDTDEFRL
YELIWQRTVASQMADARGTTLSLRIGGSASSGEQVVFNASGRTITFPGFL
KAYVSRLPNLTQGQRVDAADLSADGHQTSPPARYTEASLIKALEELGIGR
PSTYSSIIKTIQDRGYVQKKGSALVPSWVAFAVVGLLEQHFGRLVDYDFT
AAMEDELDEIANGQEQRTNWLNNFYFGGEHGVEGSIARAGGLKQLVGGNL
EGIDAREVNSIKVFDDSEGRPVYVRVGRNGPYLERMVDDPDNQKPQRANL
KEDLTPDELTPELAEKLFATPQEGRSLGIDPETGHEIVAKDGRFGPYVTE
VLPETGPKPRTGSLFRSMDLETVTLEDALKLLSLPRVTTNEEITAQNGRY
GPYLKRGTDSRSLATEDQIFTITLDEALKIYAE
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6pcm Mechanistic insights from structure of Mycobacterium smegmatis topoisomerase I with ssDNA bound to both N- and C-terminal domains.
Resolution3.107 Å
Binding residue
(original residue number in PDB)		E21 S22 P23 R43 G44 H45 D48 R51 E112 R164 R165 D168 R169 G172 Y173 S176 W180 S188 A189 G190 R191 V192 Q193 Q329 Y339 R341 R528 S530 T531 R542
Binding residue
(residue number reindexed from 1)		E9 S10 P11 R31 G32 H33 D36 R39 E100 R152 R153 D156 R157 G160 Y161 S164 W168 S176 A177 G178 R179 V180 Q181 Q317 Y327 R329 R500 S502 T503 R514
Enzymatic activity
Catalytic site (original residue number in PDB) E21 S22 D108 D110 Y339 R341
Catalytic site (residue number reindexed from 1) E9 S10 D96 D98 Y327 R329
Enzyme Commision number 5.6.2.1: DNA topoisomerase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003916 DNA topoisomerase activity
GO:0003917 DNA topoisomerase type I (single strand cut, ATP-independent) activity
GO:0046872 metal ion binding
Biological Process
GO:0006265 DNA topological change

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:6pcm, PDBe:6pcm, PDBj:6pcm
PDBsum6pcm
PubMed32232337
UniProtA0R5D9|TOP1_MYCS2 DNA topoisomerase 1 (Gene Name=topA)

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