<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 MDP26925

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHMVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFIRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGMKEEEALGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPMSQNAASTGGHINVGQQGLGSVKDPSSTCGMPLTPPTSPEQAVMGESGCSQSSISHSAVQEGTVSVHSPKKSSKITPKFHNHMVHRVWKECILNRSQSKRTQITTANLEEEVPNNTVSWDFVDPVQRVSCSCSRHKVFKQRCAAGSSRPPMINQPGFSVGTSSSSSLPPPASSKHKATERQDKGEKLQKRPMMPFHHRPSVTEELCVEQDTSGQKLGLAGMEPSLEVPNSRKYEKPLSIPARNPSKQINMNPMDSPHSPSSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSGLELQPLPSLDERTVLVGQRLPLMAEVSETALYCGIIQNNESLDMWRTYSVPSSDDPEFRPPALPCERDDAKMEVNPDSTALKRLLAQPNKRFKILEEQKPVQTLSYLDPLSLIQQPGEGLGDASDPYTFEDGDIKYSFTGNKKCKLVAEKDLLKKNKSEDGIGTKEIPAAGHSTPVPDGKDAMSIFSSAPKADTRQDNAAGRVGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTTLGMMESPMVSMVPTQLAEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSVFAPLKILPSQCLLPLKIPDACIFRPSWAVPPKIEQLPLPPATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMICQSNLISQMGEGARRTQEPPMSLLLLLQNQHTQPFTSLSCLDYMSSNNRQTLPCMNWSYDRLQADSNDSWIECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWGTEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPAPASQTQTIPGNTGPVPSNSTCLSTSGAPPTGSSFNSTPNGGTTSLPAGSSSSSGSSVPQLSASSATPGVNQMSATPTPGFSGNIGSGQNTSTGGNAADRSQGSTGPGGDTEAGQNLSQQQQEGQEGVTERERIGIPTEPESADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKLSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISSADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHYQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISIAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2216
PositionMiddle
OrganismGallus gallus (Chicken)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Galloanserae> Galliformes> Phasianidae> Phasianinae> Gallus.
Aromaticity0.07
Grand average of hydropathy-0.377
Instability index58.86
Isoelectric point5.57
Molecular weight243524.02
Publications
PubMed=15592404

Function

Annotated function Component of the Mediator complex, a coactivator involved in regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. 
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26925
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.63|      20|      20|    1615|    1634|       1
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 1615- 1634 (35.48/19.62)	GNIGSGQNTSTGGNAADRSQ
 1635- 1654 (35.14/19.35)	GSTGPGGDTEAGQNLSQQQQ
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.32|      17|      20|    1553|    1572|       3
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 1553- 1572 (26.98/19.69)	TCLSTSGAPPTGSsfnSTPN
 1576- 1592 (29.33/13.15)	TSLPAGSSSSSGS...SVPQ
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.90|      18|      18|     961|     978|       4
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  961-  978 (35.96/19.21)	PLKIPDACIFRPSWAVPP
  982-  999 (33.94/17.69)	QLPLPPATFIRDGYNNVP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.12|      18|      18|    1241|    1258|       5
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 1241- 1258 (33.62/22.38)	SCLDYMSSNNRQTLPCMN
 1260- 1277 (31.50/20.40)	SYDRLQADSNDSWIECFN
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     269.67|      99|     424|    1356|    1507|       6
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  175-  294 (160.03/91.83)	SNVCTSVEIAQHQPIYLINEEHI.HMAQSSPSPF.QVLVS.....PYGLNGTLTGQSYKMSDPATRKLmeEWQYFYPMVLKKKEGMKE.EEAL.......GYDNDFpvavevivggvrmvypsafVLISQSDIPM
 1356- 1403 (40.65/24.03)	..................................................................PL..TWQQFHKMAGRGTYGSEEsPEPLpiptllvGYDKDF...................LTISPFSLPF
 1442- 1507 (68.98/110.01)	SAVYEMCRLGQHKPICKVLRDGImRVGKTVAQKLtDELVSewfnqPWGTEECDNHSRLKLYAQVCR.....................................................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.31|      22|      27|    1014|    1035|       7
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 1014- 1035 (38.80/22.75)	TPQMNTPVTLNSTAPASNSGAG
 1042- 1063 (42.51/25.82)	TPRFSVPTPRTPRTPRTPRGGG
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.39|      16|      17|     575|     590|       8
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  575-  590 (28.78/16.30)	PSVPVNPALYGSGLEL
  594-  609 (27.60/15.29)	PSLDERTVLVGQRLPL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     150.72|      47|    1649|     446|     498|       9
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  446-  498 (75.86/67.17)	NQP...GFSVGTSSSSSLPP.PASSKHKAterQDKGEKLQKRPMmpfHHRPSV..TEEL
 2098- 2150 (74.85/48.93)	QQPlalGYFVSTAKAENLPQwFWSSCPQA...QNQCPLFLKASL...HHHISIaqTDEL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     160.32|      51|     425|    1721|    1779|      10
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 1721- 1779 (77.93/81.26)	LPenMRNSfilQIVPCQYMLQTMKDEQVFYIQHLKSLAFsVYC....QCRRP.LPtqIHIKSLT
 2151- 2206 (82.40/57.77)	LP..ARNS...QRVPHPLDSKTTSDVLRFVLEQYNALSW.LTCnpatQDRSScLP..VHFVVLT
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     257.36|      65|     434|     306|     373|      11
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  306-  351 (65.40/27.66)	..........................NVGQQGLGSVKDPSSTCGMPLTPPTS..PEQAVMGESGCSQSSISHSA
  743-  787 (54.85/21.85)	..........................NKSEDGIGTKEIPAAGHSTPV.PDGK..DAMSIFSSAPKADTRQDNAA
  788-  854 (84.64/36.06)	GRVGSGSLTQVTDLAPSLHdldnifdNSDEDELGAVSPALRSSKMPAV..GS..EERPV.GKDG..RTAVPYPP
  858-  907 (52.47/23.23)	DLQRMFPTPPSLEQHPAFS.....pvMSYKDGISS..ETVTTLGMMESPMVSmvPTQ.................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.69|      12|     505|     699|     713|      12
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  685-  696 (22.30/ 9.90)	QKPVQTL.SYLDP
  701-  713 (18.39/ 9.51)	QQPGEGLgDASDP
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.36|      24|     504|    1164|    1208|      13
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 1137- 1162 (42.70/23.98)	MNIK.GADVGLYIPDssNEDQYRCTCG
 1167- 1191 (39.66/44.79)	MNRKlGYNSGLFIED..ELDIFGKTSD
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.69|      15|     425|     510|     537|      14
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  510-  530 (17.56/30.80)	GLAGMEPslevPNSRkyEKPL
  542-  556 (30.13/ 8.95)	NMNPMDS....PHSP..SSPL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.57|      27|      27|    1865|    1891|      19
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 1865- 1891 (47.29/39.27)	IDLPNRSRRSKLS.ARKIGLQKLWEWCI
 1894- 1921 (43.27/35.07)	VQMTSLPWRVVIGrLGRLGHGELKDWSI
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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 MDP26925 with Med13 domain of Kingdom Metazoa
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