<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 MDP28549

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceVFFQAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEESKEEDELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAILGESGGMQSAASHLVSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPASNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPTMSQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDAPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSEKWWHSYCLPPSDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRPSKIPTVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFMGSSMFAPLKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQSTFLPQVEGTRKPQEPPISLLLLLQNQHTQPFASLSFLDYISSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSGEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGPLAPNGSAAPPAGSAFNPTSNSSTTNPAASSSASGSSVPPVSSSASAPGISQISTTSSSGFSGSVGGQNPSTGGISTDRTQGSIGCGGDTDPGQSSSQPSQDGQESVTERERIGIPTEPDSADSHAHPPAVVIYMVDPFTYAAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRSSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPSRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKKLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2190
PositionMiddle
OrganismMacaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Cercopithecidae> Cercopithecinae> Macaca.
Aromaticity0.07
Grand average of hydropathy-0.385
Instability index58.53
Isoelectric point5.68
Molecular weight240660.83
Publications
PubMed=22002653

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

>MDP28549
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.48|      21|      28|    1575|    1600|       1
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 1558- 1574 ( 5.71/ 6.48)	...SASGSSVppvSSS....ASA...P....
 1580- 1600 (39.61/16.61)	STTSSSGFSG...SVG....GQN...PSTGG
 1602- 1629 (29.17/ 8.70)	STDRTQGSIG...CGGdtdpGQSssqPSQDG
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     507.08|     107|     112|     800|     906|       2
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  506-  598 (108.38/49.31)	..........DKQMAV.PSRN.TSKQMNLNPMD.SP.........HSPISPLP.PTLSPQPRGQETesldPPS.....VPVNPAL.....Y.GN..GLEL.QQLstlddrTVLV...GQRLPL......MAEVS......ETALY
  599-  718 (130.21/60.97)	CGIRPSNPesSEKWWHSYCLP.PSD....DAEF.RPpelQGErcDAKMEVNSE.STA..LQRLLAQ....PNKrfkiwQDKQPQMQP.LHF.LDplPLSQ.QPG......DSLG...EVNDPYtfedgdIKYIFTANKKCKQGTE
  800-  898 (156.15/74.84)	..........DELGAVSPALR.PSKIPTVGTED.RP...LGK..DGRAAVPYP.PTVADLQRMFPT....PPS.....LEQHPAFSPVMNY.KD..GISS.ETV......TALG...MMESPM......VSMVSTQLTEFKMEVE
  899-  999 (112.34/51.42)	DGLGSPKP..EEIKDFSYVHKvPSFQPFMGSSMfAP...LKM.lPSHCLLPLKiPDACLFRPSWAI....PPK.....IEQLP.MPPAATFiRD..GYNNvPSV......GSLAdpdYLNTPQ......MN..............
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     236.92|      74|    1266|     136|     215|       3
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  136-  215 (114.53/92.69)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAP..FQVLVSPYgLNGTLTGQAykmSDPATR.KL
 1405- 1481 (122.39/76.76)	PENEA.LLEGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQklTDELVSEW.FNQPWSGEE...NDNHSRlKL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.01|      25|      26|    1506|    1530|       4
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 1021- 1045 (26.20/ 8.24)	PatPRFSVPtPRTPRTPRTPRGGGT...
 1506- 1530 (48.08/22.38)	P..PKYQTP.PAAAQGQATPGNAGPLAP
 1534- 1553 (27.73/ 9.23)	......AAP.PAGSAFNPT.SNSSTTNP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.14|      23|      26|    1720|    1745|       5
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 1720- 1745 (38.99/36.64)	QvfyIQYLKSM..AFSVYCQCR...RPLPTQ
 1747- 1774 (30.15/18.15)	H...IKSLTGFgpAASIEMTLKnpeRPSPIQ
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.93|      26|      28|    2048|    2075|       6
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 2048- 2075 (37.05/32.61)	GsHFQhSRSQGERL...LSREAPEELKQQPL
 2078- 2106 (44.88/28.39)	G.YFV.STAKAENLpqwFWSSCPQAQNQCPL
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---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.82|      26|      28|    1838|    1864|       7
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 1838- 1864 (42.51/27.97)	IALPSRSRRSkVSAR..KIGLQKLWEWCI
 1867- 1894 (43.32/24.22)	VQMTSLPWRV.VIGRlgRLGHGELKDWSI
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.13|      20|      28|    1112|    1138|       8
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 1112- 1131 (40.30/36.23)	CICACNMNIK.GADVGLYIPD
 1142- 1162 (33.83/14.24)	CGFSAIMNRKlGYNSGLFLED
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.63|      16|      23|    1679|    1696|       9
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 1679- 1696 (26.60/23.56)	WLLSLMRC.YteMLDNLPE
 1702- 1718 (26.03/15.63)	FILQIVPCqY..MLQTMKD
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.55|      25|      26|      40|      64|      11
---------------------------------------------------------------------------
    3-   27 (25.20/10.80)	....FQAELTGI...........kWRRynfGGHGDCGPII
   40-   64 (48.91/28.13)	FIRCLQANLLCV............WRR...DVKPDCKELW
   66-  101 (33.45/16.82)	FWWGDEPNLVGVihhelqvveeglWEN...GLSYECRTL.
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---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.84|      25|      26|     328|     352|      12
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  328-  352 (45.07/25.94)	HLVSQ..DGGMITMHSPKRSGKIPPKL
  355-  381 (39.76/21.96)	HMVHRvwKECILNRTQSKRSQMSTPTL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.29|      17|      17|    1214|    1230|      14
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 1214- 1230 (30.27/15.12)	TQPFASLSFLDYISSNN
 1233- 1249 (33.02/17.12)	TLPCVSWSYDRVQADNN
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.55|      18|      22|    1320|    1337|      15
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 1320- 1337 (33.04/20.38)	KKRTGRTWENIQHVQGPL
 1343- 1360 (32.51/19.92)	HKMAGRGTYGSEESPEPL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.28|      11|      24|    2010|    2021|      17
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 2010- 2021 (17.73/12.51)	PFPDDmDNDIGI
 2037- 2047 (21.55/10.03)	PSPGS.PSGIGV
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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 MDP28549 with Med13 domain of Kingdom Metazoa
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