<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 MDP25408

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceTEQGSWENGLSYECRSLLFKALHNLIQRCLLSRGFTRLGKWFLQPCDTSEKDRGGPQLTFAFHFFVHGDSTVCASVDVRQHPAIYRLSRHHLLQTQAGTHTPTKVILGPFGLAGTLTGQGYKETDAATQTLLSEWHQFFPLPPHASAVPQRGDATPPGGDEELLPCAVEALVGGVKLRYPSAYVFVVETDEPAGRQETPPVAPNPATPVPNPGAPLCGPHLPRGGPPGYPGGMKLPPGLTGVLTPPTSPRDPGYFHHGGGAHLRGPGQVAAAGGPGPPGRPACPPAPPPSSIVPADGPPVAVVAHKTKGAAWQDGLLSRGPCEDEPGGWDFVEPCGQTHCFCYRCHRNKPRPTTPGPAAVCAASSGTPLCPSGPPQGSSGAQAAPSPSAKKSSSDKGSGRPRGPPATPFHRRSPVPGGAAPFVDYESIALPPAAGKLPQPQGGAGSLLPQLHTQQGPPPSVGSCSHPGTPLLLSEGGGPASQASQADPAMPTLSPHPPPREEGPAAPRPSPAPQDAGGATGASPAPPQGDAAKDRPPGEQLLSPSSLLDVKPPLEAPPSCSPGGGSHQWGGPGSCSSAAATPAAPSGLPAPSSASSVGPGEDGVKRPCLPTIAHEALVEAETPPMGSRLLYDYSSVYPPPWEVPPCKRPHLGAAPRRPNAGDVCGPYSSQPYRRVEGEPPCEPQQSAPPAPGGSRDPYEFHEDCDDDAAGPASTAARAALQGTPGQPALLVPKEEDKEGVPMDTSGQELGSAATPNSGTGGSATPVPDCGALLPGSKEGSKEGAPRGGSLAGSATPGSTGDLPGVGSPPTPRHPGFTRVEDLKVTDCDLENIFDTSSSDESSDDPFQAPSTPSSTKPAGASDEPPGKSKNSTTAGILGAAELTRMFPTPPSLEHNAAPSPSGPVGVPDLLMGDGSDPFFTKGMDAYCNYGSPGFEAVRDWSYVFKPPMVHQFLSSPRYAPLGQLPSAALPPLPALECAYKPSWQRDGGAGSQAPQGSPAGAPLQGQRHLPHYHPAVHHPPTPAGPSPVGPMSSQQHMMPQEAFLRMGGHVMAGAGLHPSLLDRHPSHHQPGMDERVPYPGMLDHPSQLGPMGGPPMMGGYELGPYAANGPLGPLGAAAYMGPHGGRHLALPHQGMHPLHGQQQALGPAEGGGAVLPEADSLLVNLLLSDSLLELFRDHNFSSCTLCVCNMNIKGADVGVYLPASLVPTASEEPQYKCTCGFSAVVNRHHSHRTGLFYQDEQDVTGIPYEATPGPHRAQVGPGGGPQLPHRGPGGPLANGSLQLPKVHEEGLLEYVQSQCLGMALSPCSVLHKTLQLGAERQHDLGASPVVTGLLQVPPQLRGQGQSSLLQRQNLHHRQGPLALLPALDGCEVTLGALEAAASRPLDEPLGSPCLHRWPYLHCPCPPSSLVSVGLLRGLQPLLQDAVHKKRNQGLWEVTYRVAGPLTWRQFHRLAGRGTEDQCEPQPIPSLLVGYDRDWLALSPFALKYWDLSATYQALNLGRHCPLSRGGLREGLLRVSAQGPPPETPGGTNAEDDWFTGLGEGPLGTRLRLFARACRMQLGPHLASQSLDRGLLEGPPGAPKSGDSKAPLASPRPPPTPEGAGSAGQQEGSSTRDGGTTPRPQADSEAHNFVRWTLTIGVSVSAPRAESSQDACGALSATAPGNPSQGTSLGAPAGIGASAGPTSTGGASSTGGAASAPGGAGLGVSEEGEEEQQPPALVVYLVEPFTLGSSDPEVLRLATVGLHRCFAQLLDCLPEPLQSNTHAQILSLDSILGAGGRSAEGFRRQEQLRALSLSVFYQCARLLVHQSSVKSLTGFGPAAAQDDFLKARTAFLQTRRKKACARRLGLHKLLDWLLGVAACGPRGAGAITQPWRLVVGRLGRPDGALRLFHDRYTPDERFSSACHSCDLSTPQDASATHILVFPTSATTQSSQATFQQDHMDPLSTTLGDDDEIFKSLTEDIAVGNDFNDILNWTDSPEAPCSPTRRSSPPGSPGAMMGGGPGGRQSPFQHGGALRGPGSGGADAQEEPMQLLQQPLALGYYVSTAPTGSLPRWFWASCPHLRESCPVFLKSALLLHCPTVHQNHDDLLHGNPHLRNYHPLDSTLTTDVLRYVLEGYNTLSWLSLDPHSHDRQSCLPLHMQNLMKLYHAVEALL
Length2155
PositionMiddle
OrganismIxodes scapularis (Black-legged tick) (Deer tick)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Chelicerata> Arachnida> Acari> Parasitiformes> Ixodida> Ixodoidea> Ixodidae> Ixodinae> Ixodes.
Aromaticity0.05
Grand average of hydropathy-0.408
Instability index59.12
Isoelectric point6.12
Molecular weight224695.65
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	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

>MDP25408
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            10|     777.50|      93|      93|     948|    1040|       1
---------------------------------------------------------------------------
  204-  286 (94.37/17.34)	NP......AT...PV....P..NPGAPLCG.PH.L..................................P.............................RGGPPG..YP....GGMKL...PPgltgvL..TP.PTS.PRD..PGYfHHGGG.AHL.RGPgQ.V...AAAGGP..GPPG..RPA..CPPA..
  349-  416 (65.19/ 9.08)	KP.....rPT...TP...GP..AAVCAASSG......................................................................TPL....C....PSG.....PP.....QgsSG.AQA.APS..PSA.KKSSSdKGS.GRP.R.G...PPA.TPFHRRSP..VP.........
  503-  588 (65.45/ 9.15)	GP..aaprPS...PA....P..QDAGGATGASPAP..................................PQ.......................gdaAKDRPPGE..QL..lsPSSLLdvkPP.....L..EApPSC.SPG..GGS.HQWGG.PGScSSA.A.A...TPA.AP.SG.....L..........
  589-  677 (70.15/10.48)	........PA...PS...SA..SSVGPG..........................................EdgvkrpclptIAHEA......LV...EAETPPMG.sRLlydySSVYP...PP.....W..EV.PPC.K.R..PHL.....G.AAP.RRP.N.A...GDVCGPYSSQ......P..YRRVEG
  723-  806 (71.82/10.95)	.........T...PG...QP..ALLVPKEEDKEGV..................................PM.........dTSGQE......LG...SAATPNSG..TG....GSAT.....P.....V..P...DCgALL..PG..SKEGS.KEG..AP.RgG...SLAGSATPGS.....TG..DLPGVG
  889- 1017 (139.30/30.06)	.P......PSlehNA...AP..SPSGPVGVPDLLMgdgsdpfftkgmdaycnygspgfeavrdwsyvfkPP..........MVHQF......LS...SPRYAPLG..QL....PSAAL...PP.....L..PA.LEC.AYK..PSW.QRDGG.AGS.QAP.Q.G...SPAGAPLQGQRH..LPH..YHPAVH
 1018- 1068 (82.04/13.85)	HP......PT...PA...GP..SPVGPMSSQQHMM..................................PQ........................................................................EAF.LRMGG.....HVM.........AGAGLHPS....LLD..RHPSHH
 1069- 1139 (59.75/ 7.53)	QPgmdervPY...PGmldHP..SQLGPMGGPPMM......................................................................GgyEL...gPYAAN...GP.....L.....................GP.LGA.AAY.M.G...P......HGGRHlaLPHqgMHP.LH
 1260- 1355 (68.26/ 9.95)	GP.....gGG...PQ...LPhrGPGGPLANGSLQL..................................PK...............vheeglLE...YVQSQCLG..M........AL...SP.....C..SV.LHK.TLQlgAER.QHDLG.A.S.PVV.T.GllqVPPQLRGQGQSS..LLQ..RQ.NLH
 1356- 1401 (61.17/ 7.94)	H.......................................................................................................R..QG....PLALL...PA.....L..DG.CEV.TL...........G.A.L.EAA.A.S...RPLDEPL.GSPC..L.H..RWPYLH
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.80|      15|      16|    1855|    1870|       4
---------------------------------------------------------------------------
 1855- 1870 (24.66/16.88)	WLLGVAACGpRGAGAI
 1874- 1888 (29.14/14.74)	WRLVVGRLG.RPDGAL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     268.27|      62|     671|    1402|    1474|       8
---------------------------------------------------------------------------
  288-  344 (50.46/16.89)	...PPSSIVpadgppvavvahktkgaawQDGLLsR....GPCE...DEPGG......WDF...VE.PCG..QTHCFCYR..............
 1402- 1470 (111.63/68.97)	CPCPPSSLV...................SVGLL.R....GLQPllqDAVHKKRNQGLWEVTYRVAGPLTWRQFHRLAGRGtedqCEPQPIPSL
 1504- 1565 (106.18/46.26)	CPLSRGGL....................REGLL.RvsaqGPPP...ETPGGTNAEDDW.FTGLGEGPLGTRL..RLFARA....CRMQLGPHL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.34|      30|     117|      39|      69|      10
---------------------------------------------------------------------------
   39-   69 (56.12/40.22)	GKWFLQPCdTSEKDRGGPQLTF..AFHFFVHGD
  159-  190 (48.23/29.01)	GDEELLPC.AVEALVGGVKLRYpsAYVFVVETD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.53|      10|     671|     191|     200|      11
---------------------------------------------------------------------------
  191-  200 (20.54/ 7.82)	EPAGRQETPP
  856-  865 (19.99/ 7.39)	KPAGASDEPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.10|      28|     671|     462|     493|      12
---------------------------------------------------------------------------
  447-  469 (25.51/12.13)	..LL.....PQLHTQQGPP.........PSVGScSHPgT
  470-  498 (45.72/19.58)	PLLLseGGGPASQASQADPAM.......PTLS..PHP.P
 1703- 1735 (30.87/ 7.13)	AGL...GVSEEGEEEQQPPALvvylvepFTLGS.SDP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.79|      14|      16|    1914|    1929|      13
---------------------------------------------------------------------------
 1914- 1929 (21.00/16.40)	QDASAT....HIlvFPTSAT
 1931- 1948 (20.79/ 9.77)	QSSQATfqqdHM..DPLSTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.56|      18|     535|     140|     157|      14
---------------------------------------------------------------------------
  140-  157 (35.95/13.21)	PLPPHASAVPQRGDATPP
  680-  697 (37.61/14.23)	PCEPQQSAPPAPGGSRDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.35|      13|      16|    2096|    2109|      17
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 2096- 2109 (18.97/14.89)	LRNYHPLdSTLTTD
 2115- 2127 (23.38/12.84)	LEGYNTL.SWLSLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.34|      23|     450|    1140|    1187|      22
---------------------------------------------------------------------------
 1163- 1186 (36.14/26.44)	VNLLLSDSLLELFRDHNFSSCTlC
 1197- 1219 (42.20/ 9.57)	VGVYLPASLVPTASEEPQYKCT.C
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.65|      17|     464|    1140|    1160|      23
---------------------------------------------------------------------------
 1140- 1160 (26.24/13.66)	GQQQAlgpaEGGGAVLPEADS
 1607- 1627 (28.42/15.74)	GQQEGsstrDGGTTPRPQADS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.89|      18|    1089|     917|     936|      24
---------------------------------------------------------------------------
  917-  936 (32.96/23.34)	PFFTKGmdAYCNYGSPGFEA
 2009- 2026 (35.94/18.56)	PFQHGG..ALRGPGSGGADA
---------------------------------------------------------------------------




































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 MDP25408 with Med13 domain of Kingdom Metazoa
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