<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 MDP13520

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLSDSSLTNILTVSGVSQIRYRAYQQCCSQSSLTTSFTWQDPRTSPTLPTTLIAAYNQLIQQNIPCMWQLQPSAKPSTSSKMDTPSDSVTLELWVFWFDDRHTGLIDANSLLKELDELRMGSFTWENVSSKNTHRSNACTWVTVVVEYKLFVKAIRNLITPYMLKKDALPLGEFFVFPPSYLERPVGEESDSDQSSSLCCTYNIYLASTNLIFQPNTRRIRLRPLQSVDLHQNAKGAKVLLSPSGEYAYLSSNSRQMAHHFEDQVLQQWSALLYIPLSKLISTSSNVPALVSIRMSWGETMYYPSRLVFIKTPTRQSPSALAGMNGTMGCNHGLTEDIAQKWNREMWIEQVMANQTDKTKHKVDYWFYTNPRLNTTLAALDSLSTSTLSTPNSIDANSPMMIQGGVLMRALSEPVISSPLMASKSVATPSSPLPKDEGDDDNDKALSNNGDTPGGSNSNFGGSGMGLRGNQTSLADFVQQYFGSGSVDDLAMQLNGSMDMSLLPRATNTPGSTPLMMAPTPQHQQDTLTMTPGQNYPTPNAIQQQQSPYNYSGNNNMVPNASYTSPLQASYTALQQQQTPIQQYQQQQQQQQQQQQQQQQHLPQQQQQHQQQMSNHLQQQPALHGNRNQQAPEGTNGENLDVTSMDALDSIGYDMSTPWGGDAGLDNLELDLDVTEEDFNFFESEPVKPTTSSALPMGSTVSDLQSMDAFFSVKNEDALQPDAMLDAFGFQKTDPTSMTDTDMDGLLTNSNYDTMVLDTPKQEIYQDSDMAVDTSALENTGDTTASANHGIKQESPTGMLSNTSASLVAPSSSSLGSTHQSNVTEISENRNNINTSWSPNVSQGVRKEQRLVPPSFAPLYLSIHVNDAKYMHGGKFTYTPGEDDDREKRMATATSFSFDSTAKTAAAATKRRKPKDRTYHPDYVPIVKKKRNKKKVEGNDDNDDHGRSLQTTNEGVDLIDTTSNQMLDGDGDIAMNITNKGMAIDGEGGGDNSSNSSSNDSGDSMSDSSDSDSDDSGTASDSDQSMMQLLGGGDTVGSGGMSNFRIAGTPLKRTPSASTTTTTPGQDIKKESGNDTEDNESISRQSLASFATTTDGYANGAGAVSIGVGINVPVDDDDDMNGGSDGDSNRWLENLAKARIVYLHRLIGDVKITHGGKRRYVLDRLDLDYDTPFATTVASGLVHPERYNEEDERSLHYLCQQAVLGGYPFTGGLAEISTNGGEVALGESTRMVITRRRDLVQHARGGATHVPCLPSDFDRVTQDFKSILGDIFDPKTATNDDPMSLNVADFTSSVSVNGPLNVQQYYELSESNQIHSKYGKYQVKKRRPAEPNFDTLHSPDIVVSRHEEFIEGSPKMIDFWDKLRLEPYSPKKNISYFVVCPNNDELESAVQVFFKGLSTVYETCCLGAHHPGHIGSYRRGTVPVPLLPEEQGQSKRERQLKSYMTTCEHLGTSLGGVMAENVYIVIYMVNPYSNLSSHMDLSKCYDRLMTAFEKARLQQLNAPIPSSSAASTRFPSEKTRARLVMQIVPVEHIVRCTDFGSYSKNGLKEVAFSVYSKCPTIVNSPSKKIRNGTTSTVMTTSEIYAPPFVLTKEIPDHVAFTLSPSLKAPVILEQDATLHLAYGYSLDRRWMVAVWTDHRGELVEYAVLRASSKQSAPFVKVFEEAWNRTKEIASQTDFVWTFVIVKLGLMFESELQAWIHVLPENERAAVVSMDMESSLHVDTLDGQEESIPYYAPDTPQTPQTPNVGPNHVSTPPPTPQQVSSSATTPSSSSATGATKSNSGTSIDTLDSVTTTTTTKILLLNHRVAYSRKRQRVSEGVTLMDAVSDSESWILPLASGYLIQLPKQRAPTAASEEQFGRTPCVVELHLVYNKIQHSSYTTLRDIIKRYYALSFVNMVPTAFNCLPLHIILADRLWRLLLVVDY
Length1924
PositionKinase
OrganismAbsidia repens
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Mucoromycota> Mucoromycotina> Mucoromycetes> Mucorales> Cunninghamellaceae> Absidia.
Aromaticity0.07
Grand average of hydropathy-0.510
Instability index50.22
Isoelectric point5.19
Molecular weight212143.07
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

>MDP13520
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     114.80|      20|      20|     575|     594|       1
---------------------------------------------------------------------------
  531-  546 (21.83/ 7.47)	....TPGQNYPTPNAIQQQQ
  554-  572 (20.10/ 6.28)	NNNMVPNASYTSPLQASYT.
  575-  594 (38.94/19.22)	QQQQTPIQQYQQQQQQQQQQ
  596-  615 (33.93/15.77)	QQQQQHLPQQQQQHQQQMSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.31|      20|      26|     943|     968|       2
---------------------------------------------------------------------------
  943-  964 (29.59/30.29)	DDHGRSLQTTNEGVDliDTTSN
  976-  995 (34.73/16.50)	NITNKGMAIDGEGGG..DNSSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.45|      12|      26|     269|     281|       3
---------------------------------------------------------------------------
  269-  281 (18.22/13.25)	WSALLYIPlSKLI
  297-  308 (25.23/14.18)	WGETMYYP.SRLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.47|      12|      84|      36|      47|       5
---------------------------------------------------------------------------
   36-   47 (24.81/13.29)	SFTWQDPRTSPT
  122-  133 (22.66/11.50)	SFTWENVSSKNT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     100.23|      28|      28|     680|     707|       6
---------------------------------------------------------------------------
  685-  712 (48.11/27.80)	EPVKPTTSSALPMGS..TVSDLQSMDAFFS
  713-  730 (24.27/ 9.86)	..VK..NEDALQ.......PDAM.LDAFGF
  731-  755 (27.85/12.56)	QKTDPTSMTDTDMDGllTNSNYDTM.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      62.63|      13|      28|    1053|    1065|       7
---------------------------------------------------------------------------
 1053- 1065 (22.74/13.00)	RTPSASTTTTTPG
 1084- 1096 (21.29/11.62)	RQSLASFATTTDG
 1097- 1109 (18.60/ 9.05)	YANGAGAVSIGVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.03|      13|      28|     764|     776|       8
---------------------------------------------------------------------------
  764-  776 (23.78/13.69)	IYQDS..DMAVDTSA
  791-  805 (18.25/ 8.71)	IKQESptGMLSNTSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.15|      40|     497|     634|     673|       9
---------------------------------------------------------------------------
  634-  673 (72.93/45.65)	GTNG......ENLDVTSMDALDSIGYDMSTPWGGDAG..LDNLELDLD
 1123- 1170 (59.22/35.66)	GSDGdsnrwlENLAKARIVYLHRLIGDVKITHGGKRRyvLDRLDLDYD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     175.89|      41|     973|     810|     850|      12
---------------------------------------------------------------------------
  810-  850 (66.00/42.88)	PSSSSLG.STHQSNVTEISENRNNINTSWSPNVSQGVRKEQR
  854-  889 (54.43/33.82)	PSFAPLYlSIHVNDAKYMHGGK....FTYTPGEDDD..REKR
  893-  931 (55.46/34.63)	ATSFSFD.STAKT.AAAATKRRKPKDRTYHPDYVPIVKKKR.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.43|      20|    1232|     504|     523|      13
---------------------------------------------------------------------------
  504-  523 (39.94/20.43)	PRATNTPGSTPLMMA...PTPQH
 1739- 1761 (35.49/17.28)	PQTPQTPNVGPNHVStppPTPQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.36|      26|    1232|     240|     268|      14
---------------------------------------------------------------------------
  240-  268 (42.81/33.90)	LLSPsgeYAYLSSN...SR...QMAHHFEDQVLQQ
 1468- 1499 (36.55/20.66)	MVNP...YSNLSSHmdlSKcydRLMTAFEKARLQQ
---------------------------------------------------------------------------




































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 MDP13520 with Med13 domain of Kingdom Fungi
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