Structure of PDB 3cmw Chain A Binding Site BS01

Receptor Information

>3cmw Chain A (length=1609) Species: 562 (Escherichia coli)

VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE
GKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSG
AVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSN
TLLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAVKEGEN
VVGSETRVKVVKNKIAAPFKQAEFQILYGEGINFYGELVDLGVKEKLIEK
AGAWYSYKGEKIGQGKANATAWLKDNPETAKEIEKKVRELLLSNPNSAID
ENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGA
GGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY
ARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKA
EIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF
GNPETTTGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAA
PFKQAEFQILYGEGINFYGELVDLGVKEKLIEKAGAWYSYKGEKIGQGKA
NATAWLKDNPETAKEIEKKVRELLLSNPNSAIDENKQKALAAALGQIEKQ
FGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESS
GKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPD
TGEQALEICDALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARM
MSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTGGNALKFYAS
VRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQAEFQILYGEGINF
YGELVDLGVKEKLIEKAGAWYSYKGEKIGQGKANATAWLKDNPETAKEIE
KKVRELLLSNPNSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDV
ETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREG
KTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGA
VDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNT
LLIFINQIRMKIGVMFGNPETTTGGNALKFYASVRLDIRRIGAVKEGENV
VGSETRVKVVKNKIAAPFKQAEFQILYGEGINFYGELVDLGVKEKLIEKA
GAWYSYKGEKIGQGKANATAWLKDNPETAKEIEKKVRELLLSNPNSAIDE
NKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAG
GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYA
RKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTPKAE
IEMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRNPETTTGGNALKFYA
SVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQAEFQILYGEGIN
FYGELVDLGVKEKLIEKAGAWYSYKGEKIGQGKANATAWLKDNPETAKEI
EKKVRELLL

Ligand information

>3cmw Chain B (length=12)

tttttttttttt

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3cmw Mechanism of homologous recombination from the RecA-ssDNA/dsDNA structures.
• Resolution: 2.8 Å
• Binding residue (original residue number in PDB): R196 M197 K198 I199 M1164 A1168 R1169 S1172 R1196 M1197 K1198 I1199 G1212 M2164 A2168 R2169 S2172 R2196 M2197 I2199 G2212 N2213 M3164 A3168 R3169 S3172 R3196 M3197 K3198 I3199 G3212 R4169 S4172 G4212 N4213
• Binding residue (residue number reindexed from 1): R160 M161 K162 I163 M461 A465 R466 S469 R493 M494 K495 I496 G509 M794 A798 R799 S802 R826 M827 I829 G842 N843 M1127 A1131 R1132 S1135 R1159 M1160 K1161 I1162 G1175 R1458 S1461 G1493 N1494

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003684 damaged DNA binding
• GO:0003697 single-stranded DNA binding
• GO:0005515 protein binding
• GO:0005524 ATP binding
• GO:0008094 ATP-dependent activity, acting on DNA
• GO:0016887 ATP hydrolysis activity
• GO:0140297 DNA-binding transcription factor binding
• GO:0140664 ATP-dependent DNA damage sensor activity

Biological Process

• GO:0000725 recombinational repair
• GO:0006259 DNA metabolic process
• GO:0006281 DNA repair
• GO:0006310 DNA recombination
• GO:0006974 DNA damage response
• GO:0009432 SOS response
• GO:0010212 response to ionizing radiation
• GO:0019985 translesion synthesis
• GO:0035825 homologous recombination
• GO:0048870 cell motility

Cellular Component

• GO:0005737 cytoplasm
• GO:0009355 DNA polymerase V complex

External links

• PDB: RCSB:3cmw, PDBe:3cmw, PDBj:3cmw
• PDBsum: 3cmw
• PubMed: 18497818
• UniProt: P0A7G6|RECA_ECOLI Protein RecA (Gene Name=recA)