<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 MDP17299

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAHRTQGKTLLMFTGLLQRVQRTGGAGASMPSLSAPPSKNLHFLFIWMSFLLVLFFSFFFFFSVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEESKEEDELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVASAGGHIAVGQQGLGSVKDPSNCGMPLTPPTSPEQAILGESGGMQSAASHLVSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPASNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPNRPPTVSQPGFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPSVAEELCMEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPSNPESSEKWWHSYRLPPSDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQDKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPAVGTEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSMFAPLKMLPSHCLLPLKIPDACLFRPSWAIPPKIEQLPMPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQSTFLPQVEGTKKPQEPPISLLLLLQNQHTQPFASLNFLDYISSNNRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSGEENDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLIPPKYQTPPAAAQGQATPGNAGPLAPNGSAAPPAGSAFNPTSNSSSTNPAASSSASGSSVPPVSSSASAPGISQISTTSSSGFSGSVGGQNPSTGGISADRTQGNIGCGGDTDPGQSSSQPSQDGQESVTERERIGIPTEPDSADSHAHPPAVVIYMVDPFTYAAEEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPNRSRRSKVSARKIGLQKLWEWCVGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKKLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2170
PositionMiddle
OrganismPan troglodytes (Chimpanzee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Hominidae> Pan.
Aromaticity0.07
Grand average of hydropathy-0.373
Instability index58.41
Isoelectric point5.83
Molecular weight238163.15
Publications
PubMed=16136131

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
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
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

>MDP17299
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     564.41|     113|     113|     398|     510|       1
---------------------------------------------------------------------------
  269-  372 (121.21/60.74)	.............QQGL.............GSVKDPSNcgmPLTP.......PTSP.EQailGESGGMQSAASHLVSQDGGMITMHSPKRSGKIP..PKLHNHMVHR.VWKE.CILNR..TQSKRSQMS..TPTLEeepA.SNPATW
  373-  485 (171.78/89.95)	D..FVDPTQRVSCSCSR.............HKL.LKRCavgPNRP.......PTVS.QP...GFSAGPSSSSSLPPPASSKHKTTERQEKGDKLQKRPLIPFHHRPS.VAEELCMEQD..TPGQKLGLAGIDSSLE...V.SSSRKY
  486-  593 (148.82/76.68)	DKQMAVPSRNTSKQMNL.............NPMDSPHSpisP.LP.......PTLSpQP......RG.QETESLDPPSVPVNPAL....YGNGLELQQLSTLDDRTVlVGQRLPLMAE..VSETAL.YCGIRPSNP...E.SSEKWW
  617-  741 (122.60/61.54)	DAKMEVNSESTALQRLLaqpnkrfkiwqdkQPQMQP.........lhfldplPLSQ.QP...GDSLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSL.....KKN.KSEDGFGTKDvtTPGHSTPVPDGKNAMS...IfSSATKT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      98.41|      24|      28|    1555|    1580|       2
---------------------------------------------------------------------------
 1538- 1555 (22.37/ 7.43)	......SASGSSVPPV.SSS...ASAPG
 1557- 1580 (42.15/16.17)	SQISTTSSSGFSGSVG.GQN...PSTGG
 1582- 1609 (33.90/10.92)	SADRTQGNIGCGGDTDpGQSssqPSQDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     301.76|      57|      69|     934|     990|       3
---------------------------------------------------------------------------
  825-  868 (52.97/18.16)	..FPTP.PSLEQHPaFSPVMNY.KDGISS.ETVTALG...MMESPMVSMVST.......
  873-  918 (67.12/24.84)	....FK.MEVEDGL.GSPKPEEIKD.FSYVHKVPSF.QP.FVGS.SMFAPLKM...LPS
  934-  990 (98.73/39.77)	PSWAIP.PKIEQLP.MPPAATFIRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPA
 1004- 1058 (82.94/32.31)	PRFSVPtPRTPRTP.RTPRGGGTASGQGSV.KYDSTDQGSPASTPSTTRP..LNSVEPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     222.88|      68|    1266|     123|     195|       4
---------------------------------------------------------------------------
  123-  195 (108.34/92.64)	LSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAP..FQVLVSPYgLNGTLTGQAykmSDPATR.KL
 1391- 1461 (114.54/78.85)	LEGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQklTDELVSEW.FNQPWSGEE...NDNHSRlKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.93|      26|      28|    2028|    2055|       5
---------------------------------------------------------------------------
 2028- 2055 (37.05/30.29)	GsHFQhSRSQGERL...LSREAPEELKQQPL
 2058- 2086 (44.88/26.38)	G.YFV.STAKAENLpqwFWSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.37|      18|      28|    1979|    2001|       6
---------------------------------------------------------------------------
 1979- 2001 (25.52/25.21)	SPNNDdmfvDLPFPDDmDNDIGI
 2010- 2027 (34.86/17.03)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.10|      23|      27|    1700|    1726|       7
---------------------------------------------------------------------------
 1704- 1726 (43.93/39.55)	IQYLKSM..AFSVYCQCR...RPLPTQI
 1728- 1755 (29.17/12.71)	IKSLTGFgpAASIEMTLKnpeRPSPIQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.53|      27|     898|     197|     234|       9
---------------------------------------------------------------------------
  199-  225 (52.66/51.25)	WQYFYPMVLKKKEESKEEDE........LGYDDDF
 1319- 1353 (46.87/20.19)	WQQFHKMAGRGTYGSEESPEplpiptllVGYDKDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.07|      12|      27|    1833|    1844|      10
---------------------------------------------------------------------------
 1833- 1844 (24.53/14.62)	KIGLQKLWEWCV
 1863- 1874 (21.53/11.89)	RLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.08|      17|     136|    1659|    1676|      13
---------------------------------------------------------------------------
 1659- 1676 (26.88/20.37)	WLLSLMRCyTEMLDNLPE
 1682- 1698 (31.20/18.17)	FILQIVPC.QYMLQTMKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     203.98|      63|     434|    1470|    1534|      14
---------------------------------------------------------------------------
 1470- 1534 (100.32/57.14)	LAPYLATLQLDSSLLIPPKYQTpPAAAQGQATPGN..AGPLAPNGSAAPPAGSAFnPTSNSSSTNPA
 1906- 1970 (103.66/51.40)	LSACLVAMEPQGSFVVMPDAVT.MGSVFGRSTALNmqSSQLNTPQDASCTHILVF.PTSSTIQVAPA
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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 MDP17299 with Med13 domain of Kingdom Metazoa
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