<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP29333

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDEAEDIPVTWRIAHENEENLDNQILLELWVFWFDDGHTGKVDSNESLRELDEAKVGSFTWENAYSKLQSPTASPLSSGVQADTAAPVEVSTEYKMFIRSLRNLVDAQMKNQGAVPLGEFYIFPSNDEFNDVMRDESIDSHMLTSSLCCSYNVYLASTNLIFQPNTRRMRLKPIALYQNRMRGRKAIISPSGEYVTVVSNTYNLPRQTEEVILKKWSSLLDIPYTSLIQHNLLKPLSLQEQKLEQPHNFNKRSPSLIALKNMNDGTIFYYPIALVFVSSSSKMSPTDMAGTNGLFKFNQGISENLGDKWNRSSWNEKVANYWEFVCPKDSVVSSVLDMLSQESTTSGNQAGFLQKPIHESTTNASPLMVTTPMATPASTTGNQQRTDSSISSTPITHQEEGEDKSKLRNQQNLSLAEFAMANFALSDSNNGDMPEYPQQYANDYSNGSIVMDNGSSIQQPQQQQMHLSPQVESIKLENLPMAIRNNGLLPVAGHASNSSAYHSPQMANLGLDAFNLGDNMGVNDMILDIPDRWNDDTMGGLDNFDLGVTEEDFDFFKSEPVTAPAIMSVKNEMFIDSNATADSLMLIDTDIKQDESNIDNNFDMLDKDKLLVLDDKSAVMMNTDIESTTARIHDLSVTPLGVGMAQQDNIEFQQDQRVDPNLLHKQLLFHQQQQVDQDNLSFQRDKPKQRELFIPPTFAPVKINFLVNDSKYFNGGKFTYPSIDQDSNVESRLQKSNYYRPDYIPISRSKRLRKRKALKPAKALKEDKDVTESNNAAEGQFVQKVESTTKLDSSHSSKHGSVVNSNMTGNSSSVTNCSSSSSSGSSSDYDSSSCYESDYSDDDDMTNKPGRVLDHVSSAQDSYIDKLIFASPFQPSPKQSVDKTMFEYDSPFADAVADTYSKSNRQITIKNMEDYKTLEYLCQQVVLGGYPFSGGFESVSSNGIEANEGESTKAVIARRRNLLQTFYGDQPLLPASVTVKGPLNVQQYYDLSETNQAHSKYGKYQVKRRRPAEPNLDTLRPPNIVVNRQEELIEGTTKFIMFWEKLRLEPYSCKKHINYFIIYPENDSTERSISQFFKNLGTLYETCQLGSHQPGNIGSYRKGLVPVRLLSLAQDESLEDQQMRSYLTECQNLGSTLGSVPGENVYNVIYMLNPSSDLQSNVHLTRCFSKLVEAYDTAVLNSGTRTSNAKPIMQLIPVEHVLRSSSFGGCLKFGLKEIAFSVYSKCRAVVTRRRNNGNLESSVSTAEIYAPLFVLPKSVPNSVQYSLKKALCPFPSILESHAVLHMGYCFSFDKRWMIIVWTDNNGELIEFATLDSQSQYRNMSQLFEEAWRRTKIISKRTGFIWTFVIAKIGLLFREELKIWINCIGQDEKAAIVCLDLESPLNILPIPSAPMTESMASSSMMDSIGTNVPSIVNSTSNVGGIGAGFNSKKSSFLADENGVGQTKALLLNHRVAYSSKRERASLAILSMDPSSNTENWMIPLASGYTIYTPLPTENSRHGLFNSNPPVIEIHLVFNQTSHSAYSTLRDIIQKFHALSYVNIMSSNSNRLPIHLALVERLSRILLVVNT
Length1569
PositionKinase
OrganismRhizopus delemar (strain RA 99-880 / ATCC MYA-4621 / FGSC 9543 / NRRL 43880) (Mucormycosis agent) (Rhizopus arrhizus var. delemar)
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Mucoromycota> Mucoromycotina> Mucoromycetes> Mucorales> Mucorineae> Rhizopodaceae> Rhizopus.
Aromaticity0.08
Grand average of hydropathy-0.444
Instability index51.68
Isoelectric point5.40
Molecular weight175815.56
Publications
PubMed=19578406

Function

Annotated function Component of the SRB8-11 complex. The SRB8-11 complex is a regulatory module of the Mediator complex which is itself involved in regulation of basal and activated RNA polymerase II-dependent transcription. The SRB8-11 complex may be involved in the transcriptional repression of a subset of genes regulated by Mediator. It may inhibit the association of the Mediator complex with RNA polymerase II to form the holoenzyme complex. 
GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29333
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.35|      25|      29|     789|     816|       1
---------------------------------------------------------------------------
  792-  816 (43.75/28.14)	DSSHSSKHGSVVNSNMTGNS.....SSVTN
  818-  847 (38.60/16.84)	SSSSSSGSSSDYDSSSCYESdysddDDMTN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.23|      48|     234|    1051|    1104|       3
---------------------------------------------------------------------------
 1051- 1104 (73.35/71.90)	YSCKKHInYFIIYPEND......STERSISQfFKNLGTLYETcqlgSHQPGNIGSYRKGL
 1290- 1343 (81.88/56.82)	FSFDKRW.MIIVWTDNNgeliefATLDSQSQ.YRNMSQLFEE....AWRRTKIISKRTGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.60|      35|      47|     520|     559|       5
---------------------------------------------------------------------------
  520-  556 (61.35/48.18)	MGV.NDMILDipDRWNDDTMGGLD...NFDLGVTEEDFDFF
  567-  605 (45.25/22.31)	MSVkNEMFID..SNATADSLMLIDtdiKQDESNIDNNFDML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.34|      26|      47|     675|     701|       8
---------------------------------------------------------------------------
  675-  701 (40.92/28.57)	VDQDNLSFQRDKpKQRELFIPPTFAPV
  706-  721 (22.00/ 8.92)	LVNDSKYFNGGK......FTYP.....
  723-  746 (41.43/23.63)	IDQDSNVESR...LQKSNYYRPDYIPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     100.29|      29|     167|     235|     265|       9
---------------------------------------------------------------------------
  235-  265 (49.05/42.45)	PLSLQEQ.....KLEQPHNFnkRSPSL.......IALKNMNDG
  394-  431 (30.88/18.62)	PITHQEEgedksKLRNQQNL.....SLaefamanFALSDSNNG
  456-  478 (20.36/ 9.16)	..SIQQP.....QQQQMH....LSPQV.....esIKLEN....
---------------------------------------------------------------------------




































Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP29333 with Med13 domain of Kingdom Fungi
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