<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 MDP04629

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDFPGGSVTNIRVLDGFSNIYWRIYTEDPNITNLPGEAPANGFTILKHLSRLKDLELRLRNSDCLVSSYPRRLGLWVFSATPEFESVASLRSDESKGEQSRLIVGSSTLKVSASGSVTPRELVKNLSTDPQTAGSSTGSQRPQATPTSTRRVDSYSSSVAIYAAFISAITGSLNLQLIRRSSAIPLGSRTLFTVVERDYYETSRIVNDDLSSISALTTIQVQLTSAGKLTVSLQTTSQHGIAPLCRPGESPSDVCDIAPGADIWLSPSGSVARLVSTSPGPPNASSPYPSTGGIGTDNLGAAGRKQWKANVLDWLRNFGLPIDTVDETAWVEIEIWEPFYSRLAGETLRLNEDNSSTLPLKRVLWPAVYCFRRTKSASPGSSQWMESACPVVSDPLDFAENWRVVEKPKHDETSPKPPSSHPEQQSRNTEPSSATTDILEGIESLSRASEYPDLQTISLVYPTPPDGAAVMGLNLAGASDTFAEEPELVPSLLQNQNKPKYYEQFTAKDRSDADPSAGFGPLGGLAVGSGLYDTNEDDDLFGDMDERDFGTKGITDADFNFFDDPSFAAMDTDDPADDAQEMPDMANLEAAEAHPTVSEDAILEDIPAQKTPAEDLEVTQASPDEVTPKVQHEHLDAEEITEAASPYIEQNQTISPPLSPVEIKRILLPEPNGDSHVPTKGSRKQSYYNPVAFKPNMSAWDQKYGADGKFRFTTAGPSASKVYTNSDIPTVGMPRRRIKKYPTAGASAMGLDGHASPSSEGHYLQTVSDSSSDTSDDSDNSASESDAPPLLSRKRKRACSNSVSSPALSQVKSLGEGDQEIPIHRPEHSIFLGNLLSTFSDWSMTGYFSLAENRLFPVLTRKDMQIQIAQLFVDQITQSSLDHKLDGGFCLSDLEAKAYSVQSFLEEEGVLGSIERLDLNSWISLQDNEQASPAPNGTVARQPSQRKETGKGLITKLSPPHLRVRRGKEYLEALPPAISFWETFGLEPADGPKDISAYCIHPQIAADAANVFLERLGLLYASCNLGKHVRGCRSSAFEWGLCSWDVGPLDTAQFLPAMQSLKVICEELGTALLKGSPSNDSLVIYIINPFAHASALVDICSAFWCLFQKYITDTGKQQARQLNEVVLQIIPISFIMSTGSVVVPPQTQYLNLALEIYSRCPPKALQSSLVNCAPPVLLAEPLPRTISFRLASEKTSPLQEGKCLHIAYSKSQDQRWIGVAWSDNSGALQRTISYNLRYRNASAVRSISDVRSEIWVATKDIVDRIQARWKVFVVSTEPVDQDEVDAWTGFIEQYNKANSIPLELTILSVNTAPDLYIEPPFLPMSMSVFNPQTSSTPVATPNASGNVFSPDQWGTAPTPPSGGNAPANASTPTEPTLEAESESVLTDICDESWGVVLSHRLNNSPHLTEYRPALASGYLLRRKGDTDGDGVYAMTLNLIYTQRPSSCETILRETLGMYRDLGTLARARGTRTVQRNTLPWHIATAVRAQELLSHVL
Length1496
PositionKinase
OrganismAspergillus nomius NRRL 13137
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Eurotiomycetes> Eurotiomycetidae> Eurotiales> Aspergillaceae> Aspergillus.
Aromaticity0.07
Grand average of hydropathy-0.350
Instability index53.99
Isoelectric point4.92
Molecular weight163174.60
Publications









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

>MDP04629
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     439.93|     124|     133|     448|     577|       1
---------------------------------------------------------------------------
  448-  515 (87.08/41.74)	............................................................................ASEYPDLQTI..SL....VYPTPPDGAAVMGLNLAGASDTFAEEPELVPSLLQNQNKPK.YYEQFTAKDRSD.ADP
  516-  646 (167.26/105.32)	SAGFGPLGGLAVGSGLYDtnEDDdlfGDMDERDFGTKGITDADFNFFdDPSFAAMDTDDPAD.............dAQEMPDMANLeaAE....AHPTVSEDAI...LEDIPAQKTPAEDLE.VTQASPDEVTPKvQHEHLDAEEITEaASP
  652-  789 (185.60/100.87)	QTISPPLSPVEIKRILLP..EPN...GDSHVPTKGSRKQSYYNPVAF.KPNMSAWDQKYGADgkfrfttagpsaskVYTNSDIPTV..GMprrrIKKYPTAGASAMGLD..GHASPSSEGHYL..QTVSDSSSDT.SDDSDNSASESD.APP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.37|      14|      15|     946|     960|       2
---------------------------------------------------------------------------
  946-  960 (20.79/16.21)	RKETGKGLITKLsPP
  963-  976 (25.58/15.09)	RVRRGKEYLEAL.PP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.99|       9|      15|    1340|    1350|       3
---------------------------------------------------------------------------
 1340- 1350 (13.59/13.51)	TPNASGNvfSP
 1358- 1366 (19.39/10.58)	TPPSGGN..AP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.11|      30|     135|     252|     287|       4
---------------------------------------------------------------------------
  252-  287 (47.48/32.75)	SDVCDIAPGADIWLSPSGSvarlvSTSPGPPnASSP
  393-  422 (56.64/26.14)	SDPLDFAENWRVVEKPKHD.....ETSPKPP.SSHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.04|      13|      15|    1260|    1273|       5
---------------------------------------------------------------------------
 1260- 1273 (19.55/14.12)	DIVDR..IQArWKVFV
 1277- 1291 (20.49/ 9.79)	EPVDQdeVDA.WTGFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.50|      18|     137|    1155|    1187|       6
---------------------------------------------------------------------------
 1170- 1187 (33.91/36.16)	VNCAPPVLLAEP.LPRTIS
 1309- 1327 (30.59/ 6.73)	VNTAPDLYIEPPfLPMSMS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.01|      63|     151|    1041|    1104|       7
---------------------------------------------------------------------------
 1041- 1104 (105.68/72.26)	LCSWDVGPLDTAQFLPAMQSLKVICEELGTALLKGSPSNDSLVIYIINpFAHASA...LVDICSAFW
 1190- 1255 (104.34/66.31)	LASEKTSPLQEGKCLHIAYSKSQDQRWIGVAWSDNSGALQRTISYNLR.YRNASAvrsISDVRSEIW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     153.37|      47|     288|      50|     100|       9
---------------------------------------------------------------------------
   50-  100 (68.19/54.10)	SRLKDLELRLrNSDClVSSYPRRLGLWvfSATPEFESVASLRSDESKGEQS
  341-  387 (85.18/51.42)	SRLAGETLRL.NEDN.SSTLPLKRVLW..PAVYCFRRTKSASPGSSQWMES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.02|      38|     645|     150|     197|      10
---------------------------------------------------------------------------
  150-  187 (60.72/28.79)	RRVDSYSSSVAIYAAFISAIT.GSLNLQLIRRSSAIPLG
  796-  833 (60.87/28.89)	KRACSNSVSSPALSQVKSLGE.GDQEIPIHRPEHSIFLG
  865-  885 ( 9.43/ 8.54)	........QIQIAQLFVDQITqSSLDHKL..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.26|      21|     955|     216|     247|      12
---------------------------------------------------------------------------
  223-  243 (36.14/42.26)	LTSAGKLT....VSLQTTSQHGIAP
  911-  935 (31.12/ 7.97)	LGSIERLDlnswISLQDNEQASPAP
---------------------------------------------------------------------------




































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 MDP04629 with Med13 domain of Kingdom Fungi
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