Conserved Protein Domain Family
INT_Flp_C

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cd00217: INT_Flp_C 
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Flp Tyrosine-based site-specific recombinases (also called integrases), C-terminal catalytic domain.
Yeast Flp-like recombinases mediate the amplification of the 2 micron circular plasmid copy number by catalyzing the intra-molecular recombination between two inverted repeats during replication. They belong to the DNA breaking-rejoining enzyme superfamily, which also includes prokaryotic tyrosine recombinases and type IB topoisomerases. These enzymes share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism. Flp-like recombinases are almost exclusively found in yeast and are highly diverged in sequence from the prokaryotic tyrosine recombinases. They cleave their target DNA in trans with a composite active site in which the catalytic tyrosine is provided by a promoter bound to a site other than the one being cleaved. Thus each active site within Flp complexes is assembled by domain swapping and contains catalytic residues from two different monomers. Two DNA segments are synapsed by the tetrameric enzyme, carrying the nucleophilic tyrosine in each active site with only two of the four monomers active at a given time. The catalytic domain is linked through a flexible loop to the N-terminal domain, which is largely responsible for non-specific DNA binding and isomerization. Its overall fold is similar to the SAM domain fold also found in the N-terminal domains of lambda integrase and XerD recombinase.
Statistics
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PSSM-Id: 271174
View PSSM: cd00217
Aligned: 5 rows
Threshold Bit Score: 553.222
Threshold Setting Gi: 387511676
Created: 4-Sep-2001
Updated: 2-Mar-2014
Structure
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Program:
Drawing:
Aligned Rows:
Hierarchy
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Display:
 
Conserved site includes 4 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Comment:DNA Holliday junction is held in a square planar conformation by the tetramer
  • Comment:tetramer contains an active pair and an inactive pair of monomers; each active pair can make 2 shared active sites
  • Comment:forms a shared trans active site between the RHR triad of one monomer with the Tyr from a second monomer
  • Comment:Lys binds the scissile phosphate in the active pair; this orients Tyr in the isomerization step; Arg and His, the RHR triad, bind the scissile phosphate in both pairs of monomers

cd00217 is part of a hierarchy of related CD models.
Use the graphical representation to navigate this hierarchy.
cd00217 is a member of the superfamily cl00213.
cd00217:INT_Flp_Ccd00397:DNA_BRE_Ccd00659:Topo_IB_Ccd00796:INT_Rci_Hp1_Ccd00797:INT_RitB_C_likecd00798:INT_XerDC_Ccd00799:INT_Cre_Ccd00800:INT_Lambda_Ccd00801:INT_P4_Ccd01182:INT_RitC_C_likecd01184:INT_C_like_1cd01185:INTN1_C_likecd01186:INT_tnpA_C_Tn554cd01187:INT_tnpB_C_Tn554cd01188:INT_RitA_C_likecd01189:INT_ICEBs1_C_likecd01190:INT_StrepXerD_C_likecd01191:INT_C_like_2cd01192:INT_C_like_3cd01193:INT_IntI_Ccd01194:INT_C_like_4cd01195:INT_C_like_5cd01196:INT_C_like_6cd01197:INT_FimBE_like1203551203611203591FLO B3875116761203551203611203591FLO B387511676
cd00217 Sequence Cluster
cd00217 Sequence Cluster
Sub-family Hierarchy
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 cd00217 Branch
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CD Hierarchy
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1FLO_B         6 LCKTPPKVLVRQFVERFerps--gekiALCAAELTYLCWMIthn-----gtAIKRATFMSYNTIISNSLSFDIVNKSLQF 78
gi 120355     10 LTPHQCANEINEILESDtfninakeirNKLASLFSILTMQSlsi-----rrEMKINTYRSYKSAIGKSLSFDKDDKIIKF 84
gi 120361     25 ILPLHQISKIKDILENEnpl-----pkEKLASHLTMIILMAnlasqkrkdvPVKRSTFLKYQRSISKTLQYDSSTKTVSF 99
gi 120359      7 LVDDEPATLYHKFVECLkage--nfcgDKLSGIITMAILKAika-----ltEVKKTTFNKYKTTIKQGLQYDVGSSTISF 79
gi 387511676  42 LIQVRFEIYEELFQELFgkdkv-iidkRIFGSLLSYYILHTfpk-----ikRVTYGTYRKNKAITINSLEIDYSRHKIQF 115
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1FLO_B        79 KYKTQKATILEASLKKLi----pAWEFTIIPYYGqkhqsditdivsslqlqfesseeadkgnsHSKKMLKALLSe---gE 151
gi 120355     85 TVRLRKTESLQKDIESAl----pSYKVVVSPFKNqevslfdry-----------eethkydasMVGLQFTNILSk---eK 146
gi 120361    100 EYHLKDPSKLIKGLEDVv----sPYRFVVGVHEKpddvmshlsavhm----rkeagrkrdlgnKINDEITKIAEt---qE 168
gi 120359     80 VYHLKDCDELSRGLSDAf----ePYKFKIKSNKEatsfktlfrgp-------sfgsqknwrkkEVDREVDNLFHstetdE 148
gi 387511676 116 KYRISGNRLIQLQTFLNeqsffkPWKFRILSDGRkeenlfiidknplknhnepntnskhirnsETNLKFNQNVLeylnkN 195
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                              #         
1FLO_B       152 SIWEITEKILNSFEYTSRFTKTKTLYQFLFLATFINCGRFSDIKNVDPKSFKLVQNKYLGVIIQCLVTETKTsvSRHIYF 231
gi 120355    147 DIWKIVSRIACFFDQSCVTTTKRAEYRLLLLGAVGNCCRYSDLKNLDPRTFEIYNNSFLGPIVRATVTETKSrtERYVNF 226
gi 120361    169 TIWGFVGKTMDLIEARTTRPTTKAAYNLLLQATFMNCCRADDLKNTDIKTFEVIPDKHLGRMLRAFVPETKTg-TRFVYF 247
gi 120359    149 SIFKFILNTLDSIETQTNTDRQKTVLTFILLMTFFNCCRNNDLMNVDPSTFKIVKNKFVGYLLQAEVKQTKTrkSRNIFF 228
gi 387511676 196 GDPWDIYSQCFAMFENHSREMSCIRYKLISVLTFTNACRISDLIRLDPSSFHLKKNKYLGTIVCGHTFNTLNniPRTVQF 275
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
1FLO_B       232 FSARGr-iDPLVYLDEFLrnSEPVLKRVNRTgnss-------snkQEYQLLKDnLVRSYNKALKKNapysIFAIKNGPKS 303
gi 120355    227 YPVNGd-cDLLISLYDYLrvCSPIEKTVSSNrp----------tnQTHQFLPEsLARTFSRFLTQHvdepVFKIWNGPKS 295
gi 120361    248 FPCKGr-cDPLLALDSYLqwTDPIPKTRTTDed----------arYDYQLLRNsLLGSYDGFISKQsdesIFKIPNGPKA 316
gi 120359    229 FPIREnrfDLFLALHDFFrtCQPTPKSRLSDqv----------seQKWQLFRDsMVIDYNRFFRKFpaspIFAIKHGPKS 298
gi 387511676 276 IPAYTrgcDMLQLLEEYLkiNKNGPFEYVPMqnnkspiqttndvnQKYQFFKEgVGAAYTKLMSVHpahhLFKLKNAPKT 355
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                 #               # #                                    
1FLO_B       304 HIGRHLMTSFLSMKGLTELTNVVGNWSDKRa---SAVARTTYTHQITAIPd---hYFALVSRYYaydpiske-mialkde 376
gi 120355    296 HFGRHLMATFLSRSEKGKYVSSLGNWAGDRei-qSAVARSHYSHGSVTVDd---rVFAFISGFYkeaplgs----eiyvl 367
gi 120361    317 HLGRHVTASYLSNNEMDKEATLYGNWSAAReegvSRVAKARYMHTIEKSPps--yLFAFLSGFYnitaerac--elvdpn 392
gi 120359    299 HLGRHLMNSFLHKNELDSWANSLGNWSSSQnq-rESGARLGYTHGGRDLPq---pLFGFLAGYCvrneeghivglglekd 374
gi 387511676 356 DLGIYLMINYLNKIGLQNEGHRLGNWTKVCpidgSELKKRNFTTTLTPCHsvrdsTRAIISGYYqisky-------tnnn 428
                        410       420       430       440       450       460
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
Feature 1                                                                             
1FLO_B       377 tNPIEEWQHIEqlkgsa-------------------------egsirYPAWNGIISqEVLDYLSSYINR 420
gi 120355    368 kDPSNKPLSREelleeegnslgspplsppssprlvaqsfsahpslqlFEQWHGIISdEVLQFIAEYRRK 436
gi 120361    393 sNPCEQDKNIPmisdie-------------------------tlmarYGKNAEIIPmDVLVFLSSYARF 436
gi 120359    375 iNDLFDGIMDPlneked------------------------teicesYGEWAKIVSkDVLIFLKRYHSK 419
gi 387511676 429 kKRMVRVHTLPeeptsfty---------------------sdnlqlhYGHWAKIVPhDVLAFLLEYSVT 476

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Conserved site includes 4 residues -Click on image for an interactive view with Cn3D