<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 MDP29913

Description Mediator of RNA polymerase II transcription subunit 13
SequenceCNFLVFFQAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRLVYPSAFVLISQNDIPVPQSVAGAGGHITVGQQGLGSGKDPSNCGMPLTPPTSPEQAVIGESGGTQSAVSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRAQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPAISQPGFSAGPSSSSSLPPPASKHKTTERPEKGDKLQKRPLIPFHHRPSVADEFCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGVRPSNPESSDKWWHSYRLPPIDDAEFRPPELQGDRCDAKMEVNSESTALQRLLAQPNKRFKIWQEKQPQMQPLHFLDPLPLSQQPGDSLGEINDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPAVGAEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEVKDFSYVHKVPTFQPLVGSSMFAPLKMLPSQCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAAIFNRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQMEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNSRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQSPPAAAPGQATPGNAGPLASNAGSTVSSAGSAFNPTSSSSSGNPAASSSASGSSVPPVSSSAPAPVINQISTTSSSGFSASVVGQNPGTGASSADRTQGNLGCVGDPEPGQSSSQSLQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTADEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2194
PositionMiddle
OrganismCanis lupus familiaris (Dog) (Canis familiaris)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Canidae> Canis.
Aromaticity0.07
Grand average of hydropathy-0.372
Instability index58.35
Isoelectric point5.66
Molecular weight241127.40
Publications
PubMed=16341006

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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

>MDP29913
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.71|      27|      27|     993|    1019|       1
---------------------------------------------------------------------------
  987- 1013 (45.78/22.18)	VGSLAD...............PDYLNTPQMNTPVTLNSAAPA
 1014- 1041 (42.52/19.99)	SNSGAG.............vlPSP.ATPRFSVPTPRTPRTPR
 1042- 1081 (34.41/14.52)	TPRGGGtasgqgsvkydstdqGSPASTPSTTRP..LNSVEPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      80.54|      19|      19|    1526|    1544|       2
---------------------------------------------------------------------------
 1526- 1544 (31.41/15.07)	GNAGPLAS....NAGSTVSSAGS
 1548- 1566 (29.95/13.99)	PTSSSSSG....NPAASSSASGS
 1587- 1607 (19.18/ 6.06)	SSSGFSASvvgqNPGTGASSA..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     170.94|      54|     626|    1433|    1493|       3
---------------------------------------------------------------------------
 1433- 1493 (77.37/67.06)	LGQHKPicKVLRDGIMRVGKTVAQKLTDELvSEWFnqpWSS.EENDNHSRLKLYAQVcRHHL
 2066- 2120 (93.57/54.48)	LSREAP..EELKQQPLALGYFVSTAKAENL.PQWF...WSScPQAQNQCPLFLKASL.HHHI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.33|      18|      28|    1117|    1141|       4
---------------------------------------------------------------------------
 1117- 1134 (36.92/29.61)	CACN....MNIK.GADVGLYIPD
 1143- 1165 (27.41/ 7.92)	CTCGfsaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      76.48|      16|      18|     539|     554|       5
---------------------------------------------------------------------------
  547-  563 (24.01/10.62)	RGQETESLdPPSVPVNP
  672-  688 (25.66/12.04)	QMQPLHFLdPLPLSQQP
  846-  858 (26.82/13.04)	RMFPT....PPSLEQHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      80.54|      18|      18|     443|     460|       6
---------------------------------------------------------------------------
  425-  441 (24.86/ 9.93)	.P..PAISQPGFSAGPSSSS
  443-  460 (32.49/15.52)	LP..PPASKHKTTERPEKGD
  462-  478 (23.19/ 8.71)	LQkrPLIPFH...HRPSVAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.77|      17|      20|     922|     940|       7
---------------------------------------------------------------------------
  922-  940 (27.96/22.56)	PTFQPlvGSSMFAPLKMLP
  946-  962 (33.81/20.81)	PLKIP..DACLFRPSWAIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.93|      20|      20|    1671|    1690|       8
---------------------------------------------------------------------------
 1671- 1690 (37.33/23.59)	YTADEDSTSG...NFWLLSLMRC
 1691- 1713 (31.61/18.73)	YTEMLDNLPEhmrNSFILQIVPC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.95|      23|      24|    1359|    1381|       9
---------------------------------------------------------------------------
 1359- 1381 (41.19/30.74)	SPEPLPIPTLLVGY....DKDFLTISP
 1382- 1408 (37.75/27.32)	FSLPFWERLLLDPYgghrDVAYIVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.10|      12|      24|    1617|    1628|      10
---------------------------------------------------------------------------
 1617- 1628 (23.48/13.28)	VGDP.EPGQSSSQ
 1643- 1655 (18.62/ 8.49)	IGIPtEPDSADSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.35|      18|      27|    1850|    1876|      11
---------------------------------------------------------------------------
 1850- 1868 (30.47/30.25)	RSkVSAR..KIGLQKLWEWCI
 1879- 1898 (27.88/ 8.68)	RV.VIGRlgRLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      63.09|      17|      17|     580|     596|      12
---------------------------------------------------------------------------
  565-  583 (20.07/10.38)	LYGNGLELqqLSTLDDRTV
  584-  600 (26.85/17.06)	LVGQRLPL..MAEVSETAL
  601-  612 (16.17/ 6.54)	YCGVR.PS..NPESS....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.31|      17|      17|    1216|    1232|      13
---------------------------------------------------------------------------
 1209- 1225 (28.94/16.54)	LLLLQNQHTQ..PFASLSF
 1226- 1244 (27.38/15.19)	LDYISSNSRQtlPCVSWSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.94|      14|      17|     753|     769|      14
---------------------------------------------------------------------------
  753-  766 (23.25/19.61)	NAMSIFSSATKTDV
  770-  783 (22.70/ 8.64)	NAAGRAGSSSLTQV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.35|      19|      22|    1984|    2005|      15
---------------------------------------------------------------------------
  963-  981 (36.33/14.71)	PKIEQLPMPPAAIFNRDGY
 1984- 2002 (35.03/22.04)	PTSSTIQVAPANYPNEDGF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.41|      14|      17|     209|     224|      16
---------------------------------------------------------------------------
  209-  222 (24.00/21.38)	YKMSDPATRKLIEE
  227-  240 (23.41/10.30)	YPMVLKKKEELKEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.49|      21|      27|    2140|    2160|      17
---------------------------------------------------------------------------
 2140- 2160 (37.12/21.74)	PLDSKTTSDV.LRF.VLEQ.YNAL
 2167- 2190 (26.37/13.39)	PATQDRTSCLpVHFvVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.43|      20|      23|      49|      68|      19
---------------------------------------------------------------------------
    8-   31 (29.09/15.17)	QAELTGI...........kWRRynfGGHGDCGPII
   49-   68 (39.44/23.43)	QANLLCV............WRR...DVKPDCKELW
   75-  105 (20.89/ 8.63)	EPNLVGVihhelqvveeglWEN...GLSYECRTL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.39|      19|      22|    2014|    2033|      23
---------------------------------------------------------------------------
 2014- 2033 (31.76/21.09)	PFPDDmDNDIGILMTGNL.HS
 2039- 2058 (32.63/16.65)	PVPSP.GSPSGIGVGSHFqHS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.79|      12|     298|     111|     122|      24
---------------------------------------------------------------------------
  111-  122 (23.47/19.69)	HNLLERCLMDKN
  412-  423 (23.32/19.50)	HKLLKRCAVGPN
---------------------------------------------------------------------------




































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 MDP29913 with Med13 domain of Kingdom Metazoa
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