Conserved Protein Domain Family
FokI_D1
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pfam02981: FokI_D1 
FokI, recognition domain, subdomain 1
Type IIS restriction endonuclease FokI is a member of an unusual class of bipartite restriction enzymes that recognizes the double-stranded DNA sequence 5'-GGATG-3' and cleave DNA phosphodiester groups 9 base pairs away on this strand and 13 base pairs away on the complementary strand. FokI contains amino- and carboxy-terminal domains corresponding to the DNA- recognition and cleavage functions, respectively. The recognition domain is made of three smaller subdomains (D1, D2 and D3) which are evolutionarily related to the helix-turn-helix- containing DNA-binding domain of the catabolite gene activator protein CAP. This entry represents the subdomain D1 of FokI. Subdomain D1 of the recognition domain covers the DNA major groove, recognizing base pairs at the 3' end of the recognition sequence (GGATG).
Links
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Statistics
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PSSM-Id: 397228
Aligned: 3 rows
Threshold Bit Score: 244.056
Created: 21-Mar-2022
Updated: 17-Oct-2022
Structure
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Aligned Rows:
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
jgi:Closa_2523   4 RTFGWVQEAYTLENLKKVVSAFVPDSAINRSLRMDKIPRLIS----EKDGRDEFIQELSGNEISIPYPHLKGKGt-PVGY 78 
CDA45432         4 RTFGWIQNPSSTDTLRNILGIFVPGSDFHTFMVSERLPLLASaglfKTPGLYMDFQKILRRNKSIAYDILKGQG--AGGE 81 
WP_003531523    13 RTFGWVQDPSDFRSLCDVVAIFDETSLKHQELAGQVIPALVE----ERDGRQRLLDALNQRPLRISYTDLVGTSftP--- 85  [Clostridium]...

jgi:Closa_2523  79 TRSNAPCSGIIQAVLPGQ--------------RKEYQSDWPADSFLRWAVSIGFLDYSRKEDVCSLSALGRLYA 138
CDA45432        82 SRSKAKCSGLAQAAVTGQqfkdyvvdgkniriKKPYTDDWTADGFLRWAVSLGFLDYNYADDTCCITNSGVSLV 155
WP_003531523    86 -RSAARCNGIVQAAVRGQ--------------VRPFIGDWPADNFVRWAHALGFLRYGYQGDAFELTETGKALA 144 [Clostridium] innocuum
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