<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 MDP25252

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHQNHQTNGASLEDCHTNFYALTDLCGIKWRKFVNGERPNASSDPLADPILRSYSRCIQADMLCVWRRVQSTKTDNADPNALTFEMTTSTKVHPPLSLAAAKELWIFWYGEEPDLSELVDAELLRVAANQALWNGTWKGALTYECRSLLFKALHNLMERFVLTKDIVRFGKWFVQPCTSSDRLFGRSSQHLSFSFTFFVHGDTVCASIDLREHPAVRPLTKEHLTEAAAAFAAASSPPGSNGSAATAGGAVPNPGQDPNGASMDGLEGGEGATKAAPPPHARKVMLAPFGIAGILTGNSYKASDPIAEKILEDWASFFPLCNKDNTDVPPVVEVVSGGHKMYHPTNYVLVTDLDDMEHMEFVEMQKMQSSVAGAAAESAVLASLSCPPGAAAAPSSMGAAPSATAVPLGPASLNAPALAGAGVGATASSAAKEISRKAAPQAVSALERLAFQPYYDQRPTSGFTFNTNNTHIPASAAVEMPERTWQDCVMNTLHVDAAAAAAAAASSTPASGTGSSSADGDENEQNKPPQDSKQLVQQQIQQQQQRQKLWNFVDPMQKAPCICTNAQCSSSSNISNNKRPQQPLGSPALRAAVTGGSGNKSSSSSSSSSSSSSYQQQHYHQQHLQQQQQQQRPGTPVLPATAATSSHHSSSLGNTSASNSSAATPRRHNVPFHKRLLHSLASTASSTASTFRAKNHSNTTTDTNIPKQRHLGNTPHGTPHGGASTYSRNSLGGDSSMPVASVESPATPAPSPHPNSAHSQPTFVPLAEQPPTPIDHLLDKNTPAPTPTDQHDNKSITASPYVHQTPSVEPPSYTDHAAGGGPAGGQSLGTGPGSVPTQQPATPTAATSAGGAGSGGPSNAIGGNAVGTISVKKLEMQQQTPSAAMAIKQEPGAQGRGVGGVTSTTEALNNFKRLYNPPKLTLKDPDSFYDGEWLKEVIYDFQYQEYWDYSTVKRPKMEKQRKPRYAKNLYEGQNHVKPVMPSPGSVYGSQLLSLDESASAAGGGGGGQAAGSSGGGLVGIANSTASGSDVEADGSSFFQGLNIKTEPGLHSPSCKETSKSSGGNSSGGGSGSGGNLFTAEGLNPSLNDLEQLFETSSNDECSSVQIHTPPDSNNPSNGGCSAVTNTIEDLKRSTAVASAAVAAAAAAVASGAGNIQAEDLTKMFPTPPSHEQQHPNSSPCQTDVVMTDLSVDTTTTIITSSITTTCHTTITSSINTTTTACSNPSNSIMLVTGQAPVTVVAIQTVSKMVKQEYNLELGSPMEEPINDWDYVYRPPQQEKFVGSTRYAPLTNLPSQTQPPLTLPTGCFYQPTWSSHKSRAATLAKAAAAQQQQHQKHQALQQRIQLHQQKLQQLQLQNQQQQQAAAAAAAAAAGGVGHQKHQHQHLHDLLSAAPRTPLTPSTVPQPLSSGGSQYLLNQLNCPQAPPGASMQQLMHRAGMSPISPGPGMGPYAARSSPMSRATPTHPPPPYPYDLAVASPATSTSSYLNRPLHSQEHPHMHGMGGGAAGGVGHGTAGGGHMGMVPYTGDAGIASGGTAMAAGSSSLLQELPEVNSVLVNILLYDTALNVFRDHNFDSSSVCVCNADTQKIGNIRGADSGVYVPLPGVSFNPFPSGAGGAAAGQRMLNGPSSAGFGGMRMISAFGGSPASASMPGAGSGHGHGPNGGSNSSSCTPPSSNPHITGYVDDDPVECTCGFSAVVNRRLSHRAGLFYEDEVEITGIADDPGRNKQPTLLSIIQSLSRKNQIKQGPGETSSALDKIGAGGLPGGQLEQLAHAVFDLLLDQCSIIQTSSSSVHRALQSHRRRMSRQRRIFGTNGAPTASLASIANVLEFMDAHDVISLALEQSRLAFENQRMDNMMDFHGNGSSSSHQQQQLTAFHAPPPALRHKLAGIGAGRLTVHKWPYLPVGFTRSNKEIVRTMNAIQPMLQNAFHCKSRGGSGSKDASSYNTVSGPLTWRQFHRLAGRASGQCEPQPIPSVVVGYEKDWISVAPHSIHYWDKFLLEPYSYARDVVYVVVYFRELSSTYEMCKLGKHTPIRGWDGFLQVGAARNNVPADRETTPLDDWLRTLEHAALAEQIRRYAVAFIHQLAPYLSRVPNDKTLLNPPDGTGNSHSKGGSSSSSNSSSGSGLPGGDLPTDNIKLEPGTEPQVQPMETNEIKQEPGVGKGGAAAGDTKPALILGDPLGMGETLEDINPSAIVLYVVNPFTFASDSCELERLALIALLRCYAELLKAVPDSVRSQMNIQIISLESVMELGPCGNRKRFSDEIRCLALNIFSQCRRHLVHAQSVKSLTGFGTAANMEAFLKTKDEPNRRAYKMYTAPFVLAPMHERNDKTDFSRSAGSMHGQNEHRYSVMYCNYCLSEDQAWLLATATDERGEMLEKICINIDVPNRARRRKAPARYVALKKLMDFIMGIISQTSQMWRLVIGRIGRIGHSELKSWSFLLSKQQLQKASKQFKDMCKQCTLMYPPTILSACLVTLEPDAKLRVMPDQFTPDERFSQISMQNPLATPQDVTCTHILVFPTSAVCAPFTRQFQNEPQVDDDFLTFEEEGNEDFSDADIGDLFWDTHMDRVSNHGSPGRMDDNRSWQSAGGNNFKCTPPQEVEEVGSLNQQPISVGYMVSTAPTGRMPAWFWSACPHLEDVCPVFLKTALHLHVPSIQSADDILNSTNAHQSANDHPLDSILTADVLRFVLEGYNALSWLALDSNTHDRLSCLPINVQTLMDLYYLTAAIA
Length2731
PositionMiddle
OrganismDrosophila simulans (Fruit fly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila> Sophophora.
Aromaticity0.06
Grand average of hydropathy-0.404
Instability index52.07
Isoelectric point6.36
Molecular weight291522.59
Publications
PubMed=17994087

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

>MDP25252
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     112.68|      29|      33|     795|     823|       1
---------------------------------------------------------------------------
  801-  832 (41.35/13.66)	PYVHQTPSVEPP...SYTDHAA...GGGPaggQSLGTG
 1428- 1456 (43.39/14.76)	ASMQQLMHRAGM...SPISPGP...GMGP...YAARSS
 1511- 1543 (27.94/ 6.44)	G..HGTAGGGHMgmvPYTGDAGiasGGTA...MAAGSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     148.72|      34|      34|     720|     753|       2
---------------------------------------------------------------------------
  640-  662 (30.35/ 8.78)	PATAATSShH.SS........SLG.NTS...ASNSS
  720-  745 (37.04/12.46)	.........P.HGGASTYSRNSLGGDSSMPVASVES
  746-  780 (55.78/22.77)	PATPAPSPhP.NSAHSQPTFVPLAEQPPTPIDHLLD
 1398- 1425 (25.54/ 6.13)	.LTPSTVPqPlSSGGSQYLLNQLNC.PQAP......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     159.49|      33|      33|    1603|    1635|       3
---------------------------------------------------------------------------
  390-  417 (42.62/13.41)	GAAAAP...SSMGAAP.SATAVPLGPAS.LN.......AP
  846-  882 (41.13/12.68)	AATSAGGAGSGGPSNAIGGNAVG..TIS.VKklemqqQTP
 1022- 1048 (27.74/ 6.10)	..ANSTASGSD.VEADGSSFFQGL...N.IK......TEP
 1613- 1646 (47.99/16.05)	SGAGGAAAGQRMLNGPSSAGFGGMRMISaFG......GSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     108.36|      23|      41|    1316|    1338|       4
---------------------------------------------------------------------------
  621-  632 (18.97/ 6.67)	HQQHLQ......QQQQQQ.....
 1316- 1338 (41.73/24.26)	HKSRAATLAKAAAAQQQQHQKHQ
 1347- 1363 (25.85/11.99)	HQQKLQQL.QLQNQQQQQ.....
 1365- 1382 (21.82/ 8.87)	....AAA.AAAAAAGGVGHQKHQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.41|      16|      33|      31|      48|       5
---------------------------------------------------------------------------
   31-   48 (26.79/21.18)	WRKFVNGERPNAssDPLA
   67-   82 (30.61/17.56)	WRRVQSTKTDNA..DPNA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.79|      19|      41|    1991|    2011|       6
---------------------------------------------------------------------------
 1991- 2011 (34.14/25.53)	HS.IHYWDKFLlePYSYARDVV
 2032- 2051 (32.65/18.14)	HTpIRGWDGFL..QVGAARNNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     167.81|      28|     498|     494|     521|       9
---------------------------------------------------------------------------
  243-  266 (33.12/ 9.99)	.......GSAATAGGAVPNPGQDPNGASMDG
  494-  521 (44.92/16.46)	LH...VDAAAAAAAAASSTPASGTGSSSADG
  993- 1049 (26.94/ 6.60)	LS...LDESASAAGGGGGGQAAG...SSGGG
 1050- 1075 (30.44/ 8.52)	LHspsCKETSKSSGGNSSGGGSG....SGG.
 2107- 2131 (32.40/ 9.59)	......TGNSHSKGGSSSSSNSSSGSGLPGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.86|      19|      23|    1671|    1692|      10
---------------------------------------------------------------------------
 1671- 1689 (37.76/19.75)	CTPPSSNPHITGYVDDDPV
 1697- 1715 (30.10/18.36)	AVVNRRLSHRAGLFYEDEV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.23|      14|      33|     570|     583|      11
---------------------------------------------------------------------------
  570-  583 (24.37/11.46)	SSSSNISNNKRPQQ
  605-  618 (23.86/11.04)	SSSSSSSSSSYQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.28|      18|      23|    1259|    1276|      13
---------------------------------------------------------------------------
 1259- 1276 (36.94/23.20)	GSPMEEPINDWDYVYRPP
 1283- 1300 (33.34/20.06)	GSTRYAPLTNLPSQTQPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.22|      29|     140|     300|     331|      15
---------------------------------------------------------------------------
  300-  331 (41.66/37.03)	SYKASdPIAEKILEDWA..........SFFPLcNKDNTDVpP
  436-  474 (44.56/24.13)	SRKAA.PQAVSALERLAfqpyydqrptSGFTF.NTNNTHI.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.29|      13|      33|     136|     151|      16
---------------------------------------------------------------------------
  136-  151 (21.43/20.97)	GTWkgaLTYECRS..LLF
  171-  185 (22.86/12.56)	GKW...FVQPCTSsdRLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.41|      14|     140|    1457|    1471|      18
---------------------------------------------------------------------------
 1457- 1470 (29.05/18.35)	PMSRATPTHPPPPY
 1473- 1486 (22.36/ 6.09)	DLAVASPATSTSSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     174.56|      54|     712|    1849|    1911|      19
---------------------------------------------------------------------------
 1849- 1911 (83.82/56.16)	FENQRMDNMMDfHGN.GSSSSHQQQQLTA...FHAPPPalrHKLAGIGagrlTVHKWPyLPVGFTRS
 2563- 2620 (90.73/40.58)	FWDTHMDRVSN.HGSpGRMDDNRSWQSAGgnnFKCTPP...QEVEEVG....SLNQQP.ISVGYMVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.07|      16|      41|     924|     939|      20
---------------------------------------------------------------------------
  924-  939 (30.57/19.79)	KDP...........DSFYDGE.WLKEVI
  954-  981 (17.50/ 7.81)	KRPkmekqrkpryaKNLYEGQnHVKPVM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.78|      21|     415|    1723|    1750|      22
---------------------------------------------------------------------------
 1723- 1750 (29.64/30.50)	DPGRNKQptllsiIQSLsRKNQIKQGPG
 2141- 2161 (42.15/22.88)	EPGTEPQ......VQPM.ETNEIKQEPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     251.30|      78|     857|    1765|    1843|      23
---------------------------------------------------------------------------
 1765- 1843 (126.00/79.87)	PGGQLEQLAHAVFDLLLDQCSIIQTSSSSVH.RALQSHRRRMSRQRRIFGTNGAPTASLASiANVLEF.MDAHDVIS.LALE
 2623- 2703 (125.30/75.38)	PTGRMPAWFWSACPHLEDVCPVFLKTALHLHvPSIQSADDILNSTNAHQSANDHPLDSILT.ADVLRFvLEGYNALSwLALD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.48|      13|     757|     883|     904|      33
---------------------------------------------------------------------------
  883-  901 (17.29/27.99)	SAAMaikqePGAqGRGVG.G
 1648- 1661 (24.19/ 7.06)	SASM.....PGA.GSGHGhG
---------------------------------------------------------------------------




































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 MDP25252 with Med13 domain of Kingdom Metazoa
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