<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 MDP05538

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHQNHQTNGASLEDCHTNFYALTDLCGIKWRKFVNGERPNASSDPLADPILRSYSRCMQADMLCVWRRVQSTKQDNTDPNALNFEITTSTTVHPPLSLAAAKELWIFWYGEEPDLSELVDAELLKIAANQSLWNGTWKGELTYECRSLLFKALHNLMERFVLTKDIVRFGKWFVQPCTSSDRLFGRSSQHLSFSFTFFVHGDTVCASIDLREHPAVRPLTKEHLAEAAAAFAAASGQTSGTARAQQDAASAGTATLPAGSPLLEASGVAEKSASASAAAAAATPTQARKVMLAPFGIAAILTGNSYKASDPMAEKILEDWASFFPLCNKDNTDVPPVVEVVSGGHKMYHPTNYVLVTDLDDMEHMEFAELHKANDQAAAAAAAAATPAATQAAASAKDSRKATTQAISALERLTFQPYYDQRPTSGFTFNTNNTHIPATAAIEMPERAWQDCIMNTLHVDAAAAAAAAAAAAAAEEDENKQTDSKQHVQQQIQQQQQQQQQQKQRQKLWNFVDPMQKAPCICTKHLNVGSASSGGSSSTPCQGGGASSTYSRNTQLGDPTVAAATAAAAASSSVGSPATPAPSPHPLSNSAHSQPTSVPPAEQLLNMSPHAPTSVSNLQQPPTPIDHLLDKNTPAPTPTDQHDNKSITASPYVHQTPSVEPPTYAEHGNAAGGGGSQSLNAAPGSVPQQPATPTPATAGAAATTTATTTTSATAAGTGTAGAATGAGAGAGGATQCGTISVKKLEMQQQAPQQVLAIKQEPGLARISQVQQQQQQQVPLASSALEAVTNLFNLYKPPQLTLKDGDSVYDEEWLKDVYDFSFQETWDNLPVKRPKLNESAKQRRPRYARNLYEGHTHFKPLMPSPGSVYGPLLSIEGSAAALGAAGEGSSSGGGGGGLVGIAGGAGAGAGGAYGGASSADEADNALGGSGSGSGSGNMTATTTGNSFFQGLDIKTEPGLHSPCKESKSTSTAGSGSAGNNLFTAEGLNPSLNDLEQLFETSSNDECSSVQIHTPPDSNNPSNGGCSAVSNTIDELKRSTAVASAVVAAVVASSGAGSIQAEDLTKMFPTPPSHEQQHPNSSPCQTDVVMTDLSVDTTTNNSSSTTTNVGVAVGLGVVLKMVKQEYSVELGSPVEEPIDDWSYVYRPPQQEKFVGSSRYAPLTNLPSQTQPPLQIPANCYYNPTWSHSQKSRAATLAKAAAAQQQQQQLQKHQQLQQRIQQHQQLQQQHQQQQLQLQQQQQQQHKHQQLHELLSAGPRTPMNAAMPSPSTTTTATTTVPQPLSSGGSQLLLNQLNCPQAPPGSSMQQLMQRAGMSPIPSPGGPGVVPFPRSSPMHLGGMRQTPTHPPPPYPYELAAASPATSTSSYLNKQYNSQEPPGHPHTPQSVHHVMFGPMSAGAGGSGGAGAGLMPAGDGSKLAMMQYSGGGAGSTGLGSSSSSSVAAAAAAAAAAMSLLQELPEVNSVLINILLYDTALNVFRDHNFDSSSVCVCNADTQKIGNIRGADSGLYVPLPGSSFNPFPSQRLLNSHPAGTPYNPFGGSASGGGGGGGGGGGGMRMISAFGGGLDSSPVAALSGAGSVHHGHGPNGGSSSSSCTPPSSNPHITGYVDDDPVECTCGFSAVVNRRLSHRAGLFYEDELEITGIVDDPARHKQPTLLSLIQSLCRKGNNNHNHNHNNKSVNEPVGKELEKLTTTTTTTSGQQQQQQQLEQLAHAIFDLLLDQCSIIQTSSSSVHRALQSHRRRMSRQRRLFGQNSASLASIANVLEFTDAHDVVSLALEQARLAFESQRMDMNMLEFGHNNHHGQQHNPHQHSQHPHHPHQPHPAQHSQQLTAFQAAPALRQKLLVLGSSRLTVHKWPYLPVGFTRSNKEIVRTMNAIQPMLQSAFHCKSRGGAAGSKDASSYNTVSGPLTWRQFHRLAGRASGQCEPQPIPSVVVGYEKDWISVAPHSIHYWDKFLLEPYSYARDVVYVVVCPDNEHVAASTRTYFRELSSTYEMCKLGRHTPIRGWEGVLQVGTEREAPLTPLDDWLRTLDHAPLAEQIRRYAVAFLYQLAPYLSRVPGDKTLLNPPDASASGSHSTKAPGAVPPSAAEHPHEPVIKLEPGTEPTPATQSSSNSSSGGAGGAGQEQDSKADVKAGGDSKPALVLGDPLGMGETLEDINPSAIVLYVVNPFTFASDSFELERLALIALLRCYAELLKAVPDSVRAQMNIQIISLEAIMELGPCGNRRRFSDEIKCLALNIFSQCRRHLVHAQPVKSLTGFGTAANMEAFLKTKDEPNRRAYKMYTAPFVLAPMHERNDKTDFSRAAGSMHGQNETRYSVMYCNYCLSEDQSWLLATATDERGELLEKVCINIDVPNRARRRKAPARYVALRKLMDFVMGLISQTSQMWRLVIGRIGRIGHSELKSWSYLLSKQQLQKASKQFKDMCKQCTLMYPPTILSACLVTLEPDAKLRVMPDQFTPDERFSQISMQNPLSTPQDVTCTHILVFPTSAVCASFTRQFQNEPQVDDDFIFGEEEGNEDFSDADIGDLFWDSHMDRVSNHGSPGRMEDNRSWQSAGGNNFKCTPPQEVEEVGSLNQQPISVGYMVSTAPTGRMPAWFWSACPHLEDVCPVFLKTALHLHVPNIQIADDILNSTNAHQSANDHPLDSTLTADVLRFVLEGYNALSWLALDSNTHDRLSCLPINVQTLMDLYYLTAAIA
Length2697
PositionMiddle
OrganismDrosophila virilis (Fruit fly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Ephydroidea> Drosophilidae> Drosophila.
Aromaticity0.06
Grand average of hydropathy-0.410
Instability index52.08
Isoelectric point6.09
Molecular weight288698.02
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

>MDP05538
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.30|      21|      21|    1203|    1223|       1
---------------------------------------------------------------------------
  483-  503 (38.15/19.32)	TDSKQHVQQQIQQQQQ......QQQQQ
  758-  777 (33.65/16.14)	IKQ.EPGLARISQVQQ......QQQQQ
 1208- 1234 (35.50/17.45)	LQKHQQLQQRIQQHQQlqqqhqQQQLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.18|      24|      82|     376|     402|       2
---------------------------------------------------------------------------
  226-  249 (33.21/ 7.99)	AEAAAAFAAASGQTSGTARAQQDA
  377-  400 (37.64/11.41)	QAAAAAAAAATPAATQAAASAKDS
  879-  894 (19.33/ 8.27)	..AAALGAAGEG......SSSGGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     447.58|      76|     152|    1358|    1437|       3
---------------------------------------------------------------------------
  530-  625 (45.30/12.68)	GSASSGGSSSTPC.Q..GGGASStysrnTQLGDPTVA...........................................................aataaaaasssvgsPATP.APSphplsnsahsqptsvpPAEQLLNMS.....PHA....ptsvsnlqQPP...TP...................................
  635-  684 (36.36/ 8.53)	..............................................................................................................PA....PT................PTDQHDNKS.....ITA............SPYvhqTP.SVEpptyaeH.......G.NAAGGGGSQslNAAP
  685-  731 (62.24/20.90)	GSVPQQPATPTPA....TAGAAA.....TTTATTTTS....................................................................................................................................................ataaGTGTAGAATGA..GAGA
  910-  978 (81.36/29.75)	GG..AYGGAS.......SADEAD.....NALGGSGSG...................................................................sgsgnmTATTTGNS................FFQGLDIKT.....EPG............L.H...SPCK................ESKSTSTAGSG..SAG.
 1257- 1322 (57.04/18.49)	.RTPMNAAMPSP....ST..........TTTATTTVP........................................................................qPLSS.GGS..................QLLLNQLncpqaPPGssmqqlmqragmSP....IP.SP.............................GGP
 1323- 1405 (83.40/34.51)	GVVPFPRSSP...........................................................................mhlggmrqtpthppppypyelaaasPATSTSSY................LNKQYNSQE.....PPG............HPH...TPQSVH......HvmF....GPMSAGAGGSG..GAGA
 1406- 1437 (21.61/ 7.82)	GLMPAGDGSKLAMmQySGGGAGS.....TGLGSSSSS.........................................................................................................................................................................
 1511- 1551 (60.26/19.61)	.....................................svaaaaaaaaaamsllqelpevnsvlinillydtalnvfrdhnfdsssvcvcnadtqkignirgadsglyvplPGSSFNPF................PSQRLLNSH.....PAG............TPY...NP.............F....GGSASGGGGGG..GGGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.90|      11|     461|    1340|    1350|       4
---------------------------------------------------------------------------
 1340- 1350 (26.36/11.25)	QTPTHPPPPYP
 1812- 1822 (27.54/12.13)	QHPHHPHQPHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.38|      12|      23|    1072|    1094|       6
---------------------------------------------------------------------------
 1072- 1087 (18.41/10.54)	SHEqqhpNSSPCQTDV
 1097- 1108 (20.98/12.15)	TTN....NSSSTTTNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.32|      21|      23|    1127|    1149|       8
---------------------------------------------------------------------------
 1127- 1149 (35.19/24.95)	VelGSPVEEPIDDWSYVYRPPQQ
 1153- 1173 (38.13/21.10)	V..GSSRYAPLTNLPSQTQPPLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     172.62|      52|     166|    2434|    2486|       9
---------------------------------------------------------------------------
 2434- 2486 (89.02/61.32)	PTILSACLVTLEPDAKLRVmPD.QFTPDERFSQISMQNPLSTPQDVTCT.HILVF
 2602- 2655 (83.59/52.49)	PHLEDVCPVFLKTALHLHV.PNiQIADDILNSTNAHQSANDHPLDSTLTaDVLRF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.97|      20|      28|    1874|    1894|      11
---------------------------------------------------------------------------
 1874- 1894 (31.85/23.95)	NAIQ.PMLQSAFHcKSRGGAAG
 1902- 1922 (33.12/18.76)	NTVSgPLTWRQFH.RLAGRASG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.50|      19|      28|     252|     270|      12
---------------------------------------------------------------------------
  252-  270 (31.96/17.11)	AGTATLP..AGSPLLEASGVA
  279-  299 (27.55/13.60)	AAAAATPtqARKVMLAPFGIA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.72|      15|      23|    1601|    1622|      15
---------------------------------------------------------------------------
 1601- 1616 (25.32/27.77)	HITGYVDDDPVECTcG
 1627- 1641 (27.40/ 9.68)	HRAGLFYEDELEIT.G
---------------------------------------------------------------------------




































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 MDP05538 with Med13 domain of Kingdom Metazoa
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