Structure of PDB 3cmv Chain D

Receptor sequence

>3cmvD (length=1175) Species: 83333 (Escherichia coli K-12)

VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE
GKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSG
AVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSN
TLLIFINQGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIA
APFKQAEFQILYGEGINFYGELVDLGVKEKLIEKAGAWYSYKGEKIGQGK
ANATAWLKDNPETAKEIEKKVRELLLKQKALAAALGQIEKQFGKGSIMRL
GEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQV
IAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEIC
DALARSGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLA
GNLKQSNTLLIFINQGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVK
VVKNKIAAPFKQAEFQILYGEGINFYGELVDLGVKEKLIEKAGAWYSYKG
EKIGQGKANATAWLKDNPETAKEIEKKVRELLLKQKALAAALGQIEKQFG
KGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGK
TTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTG
EQALEICDALARSGAVDVIVVDSVAALTPKAEIEGLAARMMSQAMRKLAG
NLKQSNTLLIFINQGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKV
VKNKIAAPFKQAEFQILYGEGINFYGELVDLGVKEKLIEKAGAWYSYKGE
KIGQGKANATAWLKDNPETAKEIEKKVRELLLKQKALAAALGQIEKQFGK
GSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKT
TLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGE
QALEICDALARSGAVDVIVVDSVAALTPLAARMMSQAMRKLAGNLKQSNT
LLIFINQGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAA
PFKQAEFQILYGEGINFYGELVDLGVKEKLIEKAGAWYSYKGEKIGQGKA
NATAWLKDNPETAKEIEKKVRELLL

3D structure

• PDB: 3cmv Mechanism of homologous recombination from the RecA-ssDNA/dsDNA structures.
• Chain: D
• Resolution: 4.3 Å

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	MG	D	T73 D144	T37 D108
BS02	MG	D	T1073 D1144	T344 D415
BS03	MG	D	T2073 L2099	T651 L677
BS04	MG	D	T3073 D3144	T950 D1021
BS05	ANP	D	E68 S69 G71 K72 T73 T74 Y264	E32 S33 G35 K36 T37 T38 Y212
BS06	ANP	D	S1069 G1071 K1072 T1073 T1074	S340 G342 K343 T344 T345
BS07	ANP	D	E2068 S2069 G2071 K2072 T2073 T2074	E646 S647 G649 K650 T651 T652
BS08	ANP	D	E3068 S3069 G3071 K3072 T3073 T3074 Y3103 Y3264	E945 S946 G948 K949 T950 T951 Y980 Y1111

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