4KXT


Conserved Protein Domain Family
ArgoMid

?
pfam16487: ArgoMid 
Click on image for an interactive view with Cn3D
Mid domain of argonaute
The ArgoMid domain is found to be part of the Piwi-lobe of the argonaute proteins. It is composed of a parallel four-stranded beta-sheet core surrounded by four alpha-helices and two additional short alpha-helices. It most closely resembles the amino terminal tryptic core of the E.coli lactose repressor. There is an extensive interface between the Mid and the Piwi domains. The conserved C-terminal half or the Mid has extensive interactions with Piwi, with a deep basic pocket on the surface of the `Mid adjacent to the interface with Piwi. The Mid carries a binding pocket for the 5' phosphate overhang of the guide strand of DNA. The N, Mid, and Piwi domains form a base upon which the PAZ domain sits, resembling a duck. The 5' phosphate and the U1 base are held in place by a conserved network of interactions from protein residues of the Mid and Piwi domains in order to place the guide uniquely in the proper position observed in all Argonaute-RNA complexes.
Statistics
?
PSSM-Id: 318647
View PSSM: pfam16487
Aligned: 34 rows
Threshold Bit Score: 105.378
Threshold Setting Gi: 925176686
Created: 29-Jul-2016
Updated: 4-Aug-2016
Structure
?
Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4KXT_A        432 TPNQGVWDMR-GKQFYN-G-IEIKVWAIACFAp---qKQCREEVLKNFTDQLRKISKDAGMPIQGQPCFCKYAQGaDSVE 505
gi 968043407  602 LPSNGAWRMD-RCQFLK-PtPKAHKWAILHCEg---aRLL-YNKVCEFEKMVVNQCNDVNVSLEPRAEIRTFKDE-RNLD 674
gi 968078793  982 MVRNGSWRMDqRAQFLE-PkQKVHKWAILHSDg---rRRLPYNQIADFGNMFRRQGLSVNVCLEEMPDIRCFKDD-RELD 1056
gi 968068685  377 SVRNGSWRMD-NAKFLElP-TKVHKWAVLYFHe---pRGLVYNEVADFARKFRSQALTTAVNLEEQAEIQQWKDD-RQLD 450
gi 195327799  366 LVNKGSWRMD-NMQFLQ-PkNVAHKWTVLYCDsrsggHKIPYNQINDFGRKILSQSKAFNISLDSEVSIRPFTDDeRSLD 443
gi 195019542  703 TPMNGSWRMD-RNQFLTrG-PKVHKWAILHCEa---aR-MQYNKIMDLQNMVLKQAKFVDITLEPAAEIRSFKDD-RNLD 775
gi 925176686  259 SVRNGSWRMD-GMQFLE-PkPKSHKWAILY-------GKINYLYVDELQKMVIQKSRKVNLCLDAKAEKLYYKDE-RELD 328
gi 969452118  308 SVRNGSWRMD-RMQFFE-PkPKPHKWAILY-------GKINYQYVDELQKMVLQQSRTVNLCLDTKADKRNYKDE-RELD 377
gi 195152642  368 SVRNGSWRMD-RMQFFE-PkPKPHKWAILH-------GKINYMSVVDFQGMIIQQSRTVNVCLNEKADIRNYRDE-RELD 437
gi 969513383  536 SVWNGSWRMD-GMQFYD-PkPKPHKWAILY-------GKIDYIRVVDFQGMIIQLSRTVNVCLNDNAEIRNYLDL-RELD 605

                  ....*...
4KXT_A        506 PMFRHLKN 513
gi 968043407  675 DHFKELKl 682
gi 968078793 1057 VYFDDLRR 1064
gi 968068685  451 NCFVDLKR 458
gi 195327799  444 TVFADLKR 451
gi 195019542  776 IPFNDLKK 783
gi 925176686  329 ALFRYFKK 336
gi 969452118  378 AHFHDFKR 385
gi 195152642  438 SHFQDFKK 445
gi 969513383  606 SHFLDLKN 613
| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap