<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 MDP26854

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHLHMAQSSPAPFQVLVSPYGLNGTLTGHAYKMSDPAARKLIEEWHCFYPMVLRKREEPREEAELGYDDDFPVAVEVIVGGVRMVYPSAFVLVSQNDIPVPQSGHGTVAQQGLGSVKDPSNCGMPLTPPTSPEQVVIGESGGVQSAASHLGSQDGGMSTMHSPKRSRKTPPKLHSHMVRRVWRECILSRAQSKRSQMSTPTREEEAAHSPAAWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPAISQPGFSAGLPSSSSLPPPASSKHKTTERQEKGDKLQKRPLVPFHHRPSVAEELCVEQDAPGQKLGLAGIDASLEVSNTRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQEAESLDPPSVPVNPALYGNGLDLQQLSTIEDRTVLVGQRLPLMAEASETALYSGLRPSYTESSDRWWQSFRLPSSEDAEFRPPELQGERFDTALDLNPESTALQRLLAQPNKRFKIWQDEQPQVQPLPFLDPSPLSQQPGDTLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDSAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPTVGTEERPPGKDGRAAGPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGVSSETVTALGMMESPVVSMVPTHLTEFRMEVEDGLGSPKPEEIKDFSYVHKVPQFQPFVGSSMFAPLKTLPSHCLLPLKTPDACLFRPSWAVPPKMEQLPMPPAASSIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNVFKDRNFDSCCICACNMNIKGADVGLYIPDSSKEDQYRCTCGFSAIVNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQSSGQSTLLPQVEGARKAPEPPVSLLLLLQNQHTQPFASLSFLDYISSANRHALPCVSWTYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHCWPHSNVLDTSMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKEFLTISPFSLPFWERLLLEPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTEELVSEWFNQPWSSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSGLLMPPKHQSPPAEAQGQATPGNAGSLPSNSGSGAPPAGSAFNPTSSSSANPTTSSSSASSGPPGSSAASAPGITQMNTTSSSGFGGGVGGQNPSAGGSSTDRTPGNVACGDTEPGQSCTQSSQDGQDSVTERERIGIPTEPDSADSHAYPPAVVIYMVDPFTYTAEEDSSSGNFWLLSLMRCYTEMLDHLPEHMRSSFILQIVPCQYMLQTMKDEHVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTEPGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPSRSRKSKVSARKVGLQKLWEWCLGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQARNQCPLFLKASLHHHISVAQTDELLPARTSQRAPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNML
Length2207
PositionMiddle
OrganismMus musculus (Mouse)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Mus> Mus.
Aromaticity0.07
Grand average of hydropathy-0.398
Instability index61.03
Isoelectric point5.75
Molecular weight241783.44
Publications
PubMed=19468303
PubMed=21183079

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	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

>MDP26854
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     158.65|      21|      41|     435|     455|       1
---------------------------------------------------------------------------
  436-  477 (26.54/ 9.12)	PPAIS..QPGFSAG..LPSSSSLPppasskhktterqekgdklqkR
  838-  858 (25.63/ 8.51)	PP..G..KDGRAAGpyPPTVADLQ.....................R
  983- 1004 (27.60/ 9.82)	PPAASsiRDGYN.N..VPSVGSLA.....................D
 1531- 1549 (28.84/10.64)	PPAEA..Q.GQATP...GNAGSLP.....................S
 1556- 1571 (25.89/ 8.69)	PPAGS.......AF..NPTSSSSA.....................N
 1572- 1591 (24.14/ 7.53)	PTT.S..SSSASSG..PPGSSAAS.....................A
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     164.63|      28|      28|    1029|    1056|       2
---------------------------------------------------------------------------
 1011- 1038 (42.28/17.76)	PQMNTPVTLNSAAPASNSGAGVLPSPAT
 1039- 1066 (48.55/21.60)	PRFSVPTPRTPRTPRTPRGGGTASGQGS
 1595- 1614 (34.87/13.22)	TQMNT.......TSSSGFGGGV.GGQNP
 1615- 1639 (38.93/15.71)	SAGGSS...TDRTPGNVACGDTEPGQSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.79|      27|      28|    2067|    2094|       3
---------------------------------------------------------------------------
 2067- 2094 (41.86/29.81)	HFQhSRSQGERL...LSREAPEELKQQPLAL
 2096- 2125 (45.94/27.61)	YFV.STAKAENLpqwFWSSCPQARNQCPLFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.29|      18|      28|    1129|    1146|       4
---------------------------------------------------------------------------
 1129- 1146 (36.30/20.16)	CACN....MNIK.GADVGLYIPD
 1155- 1177 (25.99/12.53)	CTCGfsaiVNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.60|      16|      21|    1703|    1722|       5
---------------------------------------------------------------------------
 1703- 1722 (23.32/28.45)	CYTeMLDHL.PEHMrssFILQ
 1726- 1742 (28.29/17.81)	CQY.MLQTMkDEHV...FYIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.84|      23|      28|    2151|    2173|       6
---------------------------------------------------------------------------
 2151- 2173 (40.93/24.25)	PHPLDSKTTSDVLRFVLEQ.YNAL
 2180- 2203 (37.91/21.90)	PATQDRTSCLPVHFVVLTQlYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.31|      19|      21|     938|     958|       7
---------------------------------------------------------------------------
  938-  958 (31.76/18.72)	PfvGSSMFAPLKTLPSHC.LLP
  962-  981 (34.55/14.96)	P..DACLFRPSWAVPPKMeQLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.90|      19|      21|     649|     667|       8
---------------------------------------------------------------------------
  659-  682 (25.82/13.49)	PESTALQRL..laqpnKRFKIWQDEQ
  683-  708 (26.08/13.72)	PQVQPLPFLdpsplsqQPGDTLGEVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.40|      18|      21|    1230|    1249|      12
---------------------------------------------------------------------------
 1230- 1248 (27.73/15.65)	NQHTQPFASLSFlDYISSA
 1249- 1266 (34.67/21.51)	NRHALPCVSWTY.DRVQAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      79.19|      18|      23|    1997|    2014|      14
---------------------------------------------------------------------------
 1973- 1989 (21.38/11.54)	.TALNMQSS...QLNTPQDAS
 1997- 2014 (31.10/21.13)	PTSSTIQVA...PANYPNEDG
 2017- 2037 (26.70/16.78)	PNNDDMFVDlpfPDDMDNDIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.72|      12|      23|     538|     551|      15
---------------------------------------------------------------------------
  538-  551 (20.65/13.22)	NPMDSPHSPISplP
  564-  575 (23.07/ 8.39)	ESLDPPSVPVN..P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     362.34|     117|    1265|     136|     266|      16
---------------------------------------------------------------------------
  136-  266 (185.20/158.78)	DKNFVRIGK.....W...FVRPY..DKDEK.....PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHLHMAQSSPAP..FQVLVSPYgLNGTLTGhayKMSDPAAR.KLieewhcfYPMVLRKREEPReEAELGYDDDF..P
 1389- 1525 (177.14/112.41)	DKEFLTISPfslpfWerlLLEPYggHRDVAyivvcPENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQklTEELVSEW.FNQPWSS...EESDNHSRlKL.......YAQVCRHHLAPY.LATLQLDSGLlmP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.52|      20|      24|      65|      84|      17
---------------------------------------------------------------------------
   65-   84 (38.38/28.09)	QANLLCVWRRDVKPDCKELW
   91-  110 (35.14/24.99)	EPNLVGVIHHELQVVEEGLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.37|      36|      41|     351|     388|      18
---------------------------------------------------------------------------
  351-  388 (59.97/45.19)	MSTMHSPKRSRKTPPKL.HSHMVRRVwrECILSRAQ.SKR
  391-  428 (57.40/35.18)	MSTPTREEEAAHSPAAWdFVDPTQRV..SCSCSRHKlLKR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.61|      18|      27|     457|     474|      20
---------------------------------------------------------------------------
  457-  474 (29.94/19.24)	PASSKHKTTERQEKGDKL
  486-  503 (30.67/19.92)	PSVAEELCVEQDAPGQKL
---------------------------------------------------------------------------




































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 MDP26854 with Med13 domain of Kingdom Metazoa
Unable to open file!