Structure of PDB 5dlj Chain D Binding Site BS01

Receptor Information

>5dlj Chain D (length=267) Species: 83333 (Escherichia coli K-12)

VSMIFLQYGQIDVIDGAFVLIDKTGIRTHIPVGSVACIMLEPGTRVSHAA
VRLAAQVGTLLVWVGEAGVRVYASGQPGGARSDKLLYQAKLALDEDLRLK
VVRKMFELRFGEPAPARRSVEQLRGIEGSRVRATYALLAKQYGVTWNGRR
YDPKDWEKGDTINQCISAATSCLYGVTEAAILAAGYAPAIGFVHTGKPLS
FVYDIADIIKFDTVVPKAFEIARRNPGEPDREVRLACRDIFRSSKTLAKL
IPLIEDVLAAGEIQPPA

Ligand information

>5dlj Chain G (length=39)

ttttttcgtagctgagggcctcagctacgtttttttttt

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5dlj Structural and Mechanistic Basis of PAM-Dependent Spacer Acquisition in CRISPR-Cas Systems.
• Resolution: 2.6 Å
• Binding residue (original residue number in PDB): Y22 G57 G79 E80 R84 Y86 R138 R146 W160 R163 R164 Y165 P167 W170 S181 T184 S185 Y188 H208 K211 Y217 R245 R248
• Binding residue (residue number reindexed from 1): Y8 G43 G65 E66 R70 Y72 R124 R132 W146 R149 R150 Y151 P153 W156 S167 T170 S171 Y174 H194 K197 Y203 R231 R234

Enzymatic activity

• Enzyme Commision number: 3.1.-.-

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0004519 endonuclease activity
• GO:0004520 DNA endonuclease activity
• GO:0005515 protein binding
• GO:0008821 crossover junction DNA endonuclease activity
• GO:0017108 5'-flap endonuclease activity
• GO:0042802 identical protein binding
• GO:0042803 protein homodimerization activity
• GO:0046872 metal ion binding

Biological Process

• GO:0006281 DNA repair
• GO:0006974 DNA damage response
• GO:0043571 maintenance of CRISPR repeat elements
• GO:0051607 defense response to virus
• GO:0099048 CRISPR-cas system

Cellular Component

• GO:0005737 cytoplasm

External links

• PDB: RCSB:5dlj, PDBe:5dlj, PDBj:5dlj
• PDBsum: 5dlj
• PubMed: 26478180
• UniProt: Q46896|CAS1_ECOLI CRISPR-associated endonuclease Cas1 (Gene Name=ygbT)