<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 MDP32898

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHMVEEGFWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFIRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLITEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGMKEEEELGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPVSQSTASAAGHINVGQQGLGSVKDPVSTCGMPLTPPTSPEQAVMGESGCCQSSISHPAVQEGTVSVHSPKKSSKITPKFHNRIVHRVWKECILNRAQSKRNQITAADLEEEVPNNSVSWDFVDPVQRVSCSCSRKHKVLKQRCVGASGRPPSLPQPGFGVGPAAASALPPPASSKHKTTERQDKGDKLQKRPLMPFHHRPSVTEELCMEQDTSGQKLGLAGMEPALEVPSSRKYEKPLSLPARNPSKQMNMNPMDSPHSPTSPLPPTLSPQPRGQETENLDPPSVPVNPALYSSGLELQPLPSLDDRTVLVGQRLPLMAEVSETALYCGITQSNEAVDVWRSYSVPSSDNPEFRPPELPCERYDGRMEISPDSTALKRLLAQPNKRFKILEEQKPVQTLNYLDPLLLLQAPGEGWGDTSDPYTFEDGDIKYSFTVNKKCKLGAEKDPSKKNKSEDGSKEIPPAGHSTPVPDGKDAMSIFSSAPKTEPRQDGAARPGSGSLTQVTDLAPSLQDLDNIFDNSDEDELGAVSPALRSSKLPAAGSEERPPGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTALGMMESPMVNMVPTQLAEFKMEVEDGLGSPKPEEIKDFSYVHRVPSFQPFVGSSLFAPLKILPSQCLLPLKIPDACIFRPSWAVPPKIEQLPLPPAATFIRDGYKIVTDAAGLSCIMIRNSSEMIRIMTRGGGAPASNSAGVLPSPATPRPRFSVPTPRTPRTPRTPRGGGTASAQGSVKYDSTDQGSPASTPSTTRPLNSVEPGTVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMICQSNLISQMGEGARRSQEPPMSLLLLLQNQHTQPFTSLSCLDYMASNNRQTLPCVNLSYDRLQADSNDSWVECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMQVGKSVAQKLTDELVSEWFSQPWGSEDCDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPAASQPPGAAGSSGPGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGASATPGASQMGASSTPGFSSAAGSGQGGSAAGGAAERPQGSAGPGADSEPGPSLPQQQQEGQEGAAERERIGIPTEPDAADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPSRSRRSKLSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGTGVGSHYHHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2206
PositionMiddle
OrganismFicedula albicollis (Collared flycatcher) (Muscicapa albicollis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Passeriformes> Muscicapidae> Ficedula.
Aromaticity0.07
Grand average of hydropathy-0.357
Instability index60.78
Isoelectric point5.66
Molecular weight240223.54
Publications









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	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

>MDP32898
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      95.76|      18|      18|    1545|    1562|       1
---------------------------------------------------------------------------
 1537- 1555 (29.59/ 7.80)	GAAGSSGpGGGGGGGGGGG
 1556- 1574 (32.93/ 9.42)	GGGGGGGgGGGGGGGGGGG
 1575- 1592 (33.24/ 9.57)	GGGGGGG.GGGGASATPGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.55|      16|      16|    1224|    1239|       3
---------------------------------------------------------------------------
 1224- 1239 (27.37/17.32)	LLLLQNQHTQPFTSLS
 1243- 1258 (29.17/19.02)	YMASNNRQTLPCVNLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.39|      18|      27|     538|     563|       5
---------------------------------------------------------------------------
  538-  556 (31.18/25.31)	PSKQMNMNpMDSPHSPTSP
  565-  582 (32.21/ 7.67)	PRGQETEN.LDPPSVPVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.16|      20|      27|    1737|    1763|       6
---------------------------------------------------------------------------
 1743- 1762 (40.11/32.62)	HLKSL.....AFSVYCQCR...RPLPTQ
 1764- 1791 (25.06/ 8.85)	HIKSLtgfgpAASIEMTLKnpeRPSPIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     251.46|      64|     423|    1629|    1696|       7
---------------------------------------------------------------------------
  438-  465 (36.88/10.36)	.GASGRP.PSLP.QP................GFGVGP.AAASALPPPA.......................
 1629- 1696 (112.75/57.11)	PGADSEPGPSLPQQQQEGQEGAAER...ERIGIPTEPDAADSNAYPPAVVIYmvdpFTYTADEESASTNFW
 2047- 2110 (101.83/44.37)	PNSSPVPSPGSPSGTGVGSHYHHSRsqgERL...LSREAPEELKQQPLALGY....FVSTAKAENLPQWFW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     193.91|      59|     423|     636|     699|       8
---------------------------------------------------------------------------
  636-  697 (94.06/61.36)	YSVPSSDNPEFRPPeLPCEryDGRMEISPDSTALKRLLAQ..PNKRFKILEEQKPVQTLNYLDP
  701-  761 (99.85/50.69)	LQAPGEGWGDTSDP.YTFE..DGDIKYSFTVNKKCKLGAEkdPSKKNKSEDGSKEIPPAGHSTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     135.65|      27|      27|    1833|    1859|       9
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 1833- 1859 (46.94/26.65)	QR.W..LLASCTDL.HG.......ELLETCIV..NIDLPS
 1862- 1888 (36.70/19.19)	RRsK..LSARKIGL.Q........KLWEWCIG..IVQMTS
 1889- 1920 (28.21/13.01)	LP.WrvVIGRLGRLgHG.......ELKDWSILlgECSLQT
 1922- 1952 (23.80/ 9.80)	SK.Q..LKEVCR.M.CGisaadspSILSACLV..AME.P.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.31|      27|      27|    1117|    1143|      10
---------------------------------------------------------------------------
 1118- 1144 (53.78/38.90)	NIFKDRNFDSC.CICACN..MNIK.GADVG......L
 1145- 1181 (34.53/21.74)	YIPDSSNEDQYrCTCGFSaiMNRKlGYNSGlfiedeL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.05|      12|      15|    1072|    1083|      11
---------------------------------------------------------------------------
 1072- 1083 (21.28/ 9.68)	DSTDQGSPASTP
 1090- 1101 (21.76/10.09)	NSVEPGTVQPIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     285.94|      87|     425|     888|     997|      12
---------------------------------------------------------------------------
  797-  884 (148.73/60.65)	TDLAPSLQDLDNIFDNSDEDELGAVSPALR.SSKLPAAGSEERPPGKDGRTAVPYPPTVADLQRMFPT...PPSLEQHPaFSPVMSY.KDG..IS
  904-  997 (137.22/91.23)	TQLAEFKMEVEDGLGSPKPEEIKDFSYVHRvPSFQPFVGSSLFAPLKILPSQCLLPLKIPDACIFRPSwavPPKIEQLP.LPPAATFiRDGykIV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.89|      19|     425|    1716|    1735|      13
---------------------------------------------------------------------------
 1700- 1722 (25.84/14.17)	LMRC.YteMLDNLPEnmRNSFILQ
 1723- 1742 (31.05/23.85)	IVPCqY..MLQTMKD..EQVFYIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     165.14|      50|      65|    1280|    1331|      14
---------------------------------------------------------------------------
 1280- 1331 (83.34/51.35)	GR.....QYVDNPTGGKVDEALVRSATVHSWPHSNVLDI.SMLSSQDvvRMLLSLQPF
 1342- 1397 (81.80/45.27)	GRtweniQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIpTLLVGYD..KDFLTISPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     171.82|      52|    1264|     163|     215|      15
---------------------------------------------------------------------------
  163-  215 (92.38/69.70)	LSCAFTFFlHGESNVCTSVEIAQHQPIYLITEEHI.HMAQSSPSPF.QVLVS.....PYG
 1429- 1487 (79.44/54.62)	LDGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGImQVGKSVAQKLtDELVSewfsqPWG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.14|      22|      28|     473|     494|      20
---------------------------------------------------------------------------
  473-  494 (41.49/22.00)	ERQDKGDKLQKRPLMPFHHRPS
  502-  523 (37.65/19.29)	EQDTSGQKLGLAGMEPALEVPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.63|      14|      17|    1997|    2012|      21
---------------------------------------------------------------------------
 1997- 2012 (20.72/16.58)	PTSATIQVAPanYPNE
 2017- 2030 (27.91/15.68)	PTNDDMFDLP..FPDD
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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 MDP32898 with Med13 domain of Kingdom Metazoa
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