<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 MDP13088

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDTGDYETNTFVVNNISSVSFAFYEPTASSSVLFSSSGNEIEAALRKDGYLPFWDASRRGLWCFRLVTKDKSSTDLLDAPNFERNIESAGFTLTITEESTFEPAALVKHRFGHNAVNTPSSSSSSASSALDAAFRSAQSATTPSFPTLVAEQDGKALGAPDPKLGSAASVRDIYECLLHASYSAISSSFCARTGAVPLSSRTVLLPITDENECCSSPPILASLRIYLTTTGCLIVSMSHSFANNLATLSENIISQLPPLGVTVLAAPLGMFATCQPYGLTDATTTEGSLGQSPDTQHRFKSEKDEGPWKNLCSKLVQSRTLSLSMKAAQRLVGLQRLRRKLVEQSSDGKRTPMMGPTPTMYWPASLCFCKALTNLTINEPEEPHGSHLDKNFDPLTAAKTWFSNSAERDTILAQRKKERNDAAVQEVALAERPVQISSSLSPVASHRPSQNGAPVGGMYPTPPDGIQGAVGVTPSMDGNLSSPSNNLNAATIAEIDTTSHAPAELYGENWEAVETKRERMGPSFESENLFGELGPDMFGDNDITEADFNFFDEQPDSNIDLTSLDLAAVSSVNPSPSHDVGLATGQVAPGKSDPSHMATPNPAPIFAKPELRHARSSLIDEPRRQIVSDTSQPNNAGGKRPASPFNPDTVYKRIRASLDNHKATQQNSQVYAGHGSIFDKVDFGPSLSWVNSKYEGSGRFDFSIDRSKGVKPSNLDTPPTTDYLRRHGKGRRNFKELPMAYGELFIRMRGNQNSASNRPSPQHIDGSHSDADDMSLMSDQDDSSYDSDEPPSPVKSSSVRRRRGDDDGDSLATSFKDLEMDFQAPHLPFELSRNSKFEIGIPLTKYFADPEPAWVQYSLPDDQFIMAAQILTDQVTASTLLSGSATGYSLRAGVDRRRHLSNVARNSMKELQQGFPSCLNPTTCYQLRSFIELQDVPLLGQPTRLQPRPPGSDHIKPSNIFQVPSPRFEMRRYESRLSVLPSSISFWESLGLSPTHGTKDISALCLFPSQEGVADGISVFTDRMRSTYESLKLGSFSRLSTTSGDEDGLFPFDVDRDVVLFGKSTSFLGPSLQNCASRVCKALSSVSAEQVNFVLFFVYTPDVPGSIVECCAAFNEIFEGYKRILTNKKLPVVNEMALQLIPQSLVASSNSVPMPSPGDLSRLALEIYDRCTIFGGAMPSPAIMLEQALPRMIDFKLNPTPSASVLHENTCLHLGYAQSIDERWITVAWTDNRGSQQMTTSYCLGRKGKNITTPLADVIQEIWSTTRELISSWKVNWRIIVAKCGVMDTHEIELWSNLVQPDSKSWTNLTLVTVDTDPSLQLLPPAAKIPNSATSVFYTTPGSTPQGVVVSPEQSGNAATPFRDSTATSGQTPGGDNNATDSDADATLTDATDQTWGVILSHRLQSSASLTDLNPALVSGYLVKRGGIRMEDPPIVMEVNIVHSEGNPRAYETLLREMLTYYRGLGTLARARGMVDKDTDIRPWHIAAAEKGARALYMLM
Length1500
PositionKinase
Organismfungal sp. No.14919
KingdomFungi
LineageEukaryota> Fungi.
Aromaticity0.07
Grand average of hydropathy-0.364
Instability index52.09
Isoelectric point5.37
Molecular weight163477.38
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

>MDP13088
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.51|      18|      21|     528|     548|       1
---------------------------------------------------------------------------
  528-  548 (25.25/25.48)	NLFGElGPDmfGDNDITEADF
  549-  566 (33.25/19.47)	NFFDE.QPD..SNIDLTSLDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.63|      14|      21|     667|     682|       2
---------------------------------------------------------------------------
  667-  682 (19.44/18.64)	NSQvYAGHGSiFD.KVD
  691-  705 (23.19/11.97)	NSK.YEGSGR.FDfSID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     193.26|      63|     115|     300|     379|       3
---------------------------------------------------------------------------
  300-  363 (105.09/63.24)	KSEKDEGPW...KNLCSKLVQSRTLSLSMKAAQRLVGLQR..LRRKLVEQSSD.....GKRTPMMG.PTPTMYwP
  387-  460 (88.17/43.36)	HLDKNFDPLtaaKTWFSNSAERDTILAQRKKERNDAAVQEvaLAERPVQISSSlspvaSHRPSQNGaPVGGMY.P
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     137.54|      43|     710|     572|     636|       4
---------------------------------------------------------------------------
  462-  508 (67.63/30.11)	PPDGIQGAVG.VTPsmdGNlSSPSN..NLNAATIAEIDTTSHAPAELYGE
  576-  621 (69.91/65.28)	PSHDVGLATGqVAP...GK.SDPSHmaTPNPAPIFAKPELRHARSSLIDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.21|      14|      29|    1261|    1277|       6
---------------------------------------------------------------------------
 1261- 1277 (22.80/21.60)	EIWSttrELISSWKVNW
 1293- 1306 (27.41/16.44)	ELWS...NLVQPDSKSW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     301.02|      93|     242|     707|     808|       7
---------------------------------------------------------------------------
  707-  808 (153.20/100.19)	SKGVKPSNLDTPPTTDYLRRHGKGRRNFKELPMAYGE.LFIR.MRGNQN.SA.SNRPSPQhidGShsdADDMSLMSDQDDSSYDSDEPPSPVKSSSVrrrRGDDDG
  952- 1048 (147.81/77.72)	SDHIKPSNIFQVPSPRFEMRRYESRLSVLPSSISFWEsLGLSpTHGTKDiSAlCLFPSQE...GV...ADGISVFTDRMRSTYESLKLGSFSRLSTT...SGDEDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.49|      20|      24|    1352|    1374|       8
---------------------------------------------------------------------------
 1355- 1374 (36.60/24.86)	SGNAATPFRDSTAT..SGQTPG
 1376- 1397 (31.89/12.61)	DNNATDSDADATLTdaTDQTWG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     118.72|      35|     185|      77|     111|       9
---------------------------------------------------------------------------
   77-  111 (59.43/33.31)	LDAP.NFERNIESAGFTLTITEESTFEPAALVKHRF
  264-  299 (59.29/33.22)	LAAPlGMFATCQPYGLTDATTTEGSLGQSPDTQHRF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      27.27|       8|     717|     365|     386|      10
---------------------------------------------------------------------------
  367-  375 (11.63/ 7.81)	CfCKALTNL
 1110- 1117 (15.64/ 8.09)	C.CAAFNEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     274.69|      68|     717|     160|     227|      11
---------------------------------------------------------------------------
  160-  227 (111.36/71.07)	PDPKLGSAASV.RDIYECLLHASYSAISSSFCA...RTGAVPLS.SRTVLLPITDENECCSSPPILASLRIYL
  811-  859 (62.77/36.46)	...................LATSFKDLEMDFQA.....PHLPFElSRNSKFEIGIPLTKYFADPEPAWVQYSL
  860-  931 (100.56/63.38)	PDDQFIMAAQIlTDQVTASTLLSGSATGYSLRAgvdRRRHLSNV.ARNSMKELQQGFPSCLNPTTCYQLRSFI
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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 MDP13088 with Med13 domain of Kingdom Fungi
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