<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 MDP08289

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSGSGSAGIGGAASDAGVASLEDCYTNIFHITELTGLKWCCLVSASDQRQQQQSRPISAADNAGGATSSAVPPSRDACTDGADDAVLRAYTQCVADGVLCAWRRRQPPCATAAYESPVPRANATKELWLFWYSADEPKHIEQLKAEGLAVLIHTETVDMDSPRVEFEYETRTLFFKALNTAIERRLLAEGFVRFGHWLCRPLEPRGAAPLSRDDRRALPRFVNAVRFNFFLHRESLVCASLCVQRQPTILRLSRAQLQERTRAQPVILAPWSIRARLVPGQQDLLRLASSSPVSTDEQGPATSSKTEEVSTADFSSLKQAEQQRVMVKRESVDIASDQLRPNSSSSVCGQTDLRESSVVKGCDDGGDDVRANIASLFDRQWTEWKRLYQNLAEPPPQMTVFTASDAQSSSAPSPQINSTTSRSTTNSSSSTAHSGRNSSGGNAGGCDGDSSAKQQQQTYQQALPRLVLVEVNGHRMLYPSQFVAVLFDELLPTQPKKPSTITGTNKGEEATEANSNCMPAADANGPIASVDNSQRNGDAKSPSTSLERCSLFPQRMRRRAAAAIGKCAARRSFEDAFLRPRGVATTARQQQQQTAQPLTAERTLDEFNYDYARREFCYCRICYGGSVKNGVTSSAATTPLATANIALYSPSSSGAGAPLAPATQLAIAPAVASLPSQRIAPPAPFHHRQNVASVDGIYIESSQHLHQQQQVRAVEQQQHKIPSSLRKKATLLGGGKGSSSKSNTSTKFAGDDAAQSQSVPGQQPNRWAHGCSSAAVSSSASAAWEWVPDWDLLKSPSSFANRRKTQQQLIAGSKTESLPKLAASGTSAHGTLHHATTAVPIDPSASALAELLMDEDDGMVTDGADGCDPIVHRPIQDLLMLGHPLGHHQMPSHMIMPSDTMSLLAQQRQRAATFGIVQQQLHHQQQRHQQQQLQQLLDAERRQKRQRMAVRGRGFLPDETNQITELFTVNPFDAFPPLPLTGNEKAVVDRQQQYFQATERHQSSSNSILQHQQQPVVHHQSILERLLLSPAGAVVAKSFILIIRNHRRHLLHTVIIISNNNKRKCSVDHQIPQQTDDMLPDAESMPNAETPPALLDTSEASASTDQHISAAAEEPWSTNCSDISTATIRNNGKDDEEMIEADEDQERNNNNEREEDDERMMSMSSIDTSPASATSPATGPSSVGGQSGAISGSGSLAAHRMVPVAAALLMRGGAGIGPTGDDHQLQVVQLNPHHILSPPASNERIDSSVGSAYSQQQQHGAQSGACWTKQRAKKLRNINGKQQLTKTTNLLDTMEQLAERLRRLPDESPLYDGVKARPIAMFGLFAGDLLNEQLAPEERIRQCCGASTCGGNNGGPLEQNELPESKAKLMRQLHEQLNQRRKRLSELCQEPSSSLTSLPLLPVPPAYTKRAKLAMAARLAADKADGDAGLDARLQEVERLRYRGGGGSTDNDFQQGATGQFGQPPQQWAPGANNLQFSQLPSAIPPSMLQQRSILSSMPHNFSPSQLFPSGNVRLPQSVALATMGQPPRLAPSAALVNPMRSPSSFPPTSLATLALTSPASSAMYQQQQQHLLVRQQQMMTGASTLSRSPSVTALQQQSLLQRRSSVLVITSPNISTAPTSVGAVTMSEAQAKSTTSTSALQTSTAAAVMWDGLLQAGKVGVSCSARLVLLIQDTMADLHYDIVFDSCPLCCCNSNIRSAELGIYIGAPRELLLRCDQLQRRQRQLVMGGGGGTAAAVLLPKQWSGFRIVPTAELQKCNCGFSAVRHRYLCGQGSGLFADDIAEAGGLLWLPILQQQQKQLNNRSRQLFGRFNPANPADRQFVDLLMHLCISQDVAVIVRNGGLALDAAAESSISKKASSDYTQSPVDVYELNDVMDGILELIVTSSGEKMSKNQMERDSILHPWGYQAADGVGEPRDVECLGLFEELKESFMRTAPPLAVASLTSCSAAAPMIPSYSNGRRLEQLTLRAFARKSGSTVAPGNKDANGGAAAIDVDNGRVEPIPQVLVLSHAEREPMLVSAQVLRDWDRLELMPADQCKDVLYLTVIPDVNVIASKCKVYMEELSNMYERRCRLGIHVPIGIRDAPRDGILRVGREQNSSIGGGSSAAAMPSFPHAVHAMFMHLGPEFGDDMQPNVQRLRTYVEGCYVDLCRFFLLNDHLFERRAFHESAYRQQQQPPQGTSLASVPDAVAMPPPAVPSGSIGGGGSMSVQSGPASATGSMHHHHHTGGPGSSSGSILHSPMAQHQQQTSPATGNTGPNSVPILHGGDGSSTAGQTVSPASSTSMAAALQRQTAEEMAQLEEKLVADLNVITGELENTAYLPHVIVCYLVNPFGTFGSDAAHRHFGVFASAVLLRMWNEFLHIMPPKRRPQLQLELLSLRSIYDYFAFVGGGPDVFNDVTDDDELCASTRRERSSAQDELKRMVFTVYTQTRILRPQIALDAMTKSMTRFGSMERIKDIIQMFGDSALFFKFNCNPYLLAPARSFPVSLLNNASGHTNAYSSIASNNNKVPLLLCPEGERVLFLAYCILPGDDWLCAAVTDERGALLDNTLINLCPSTTTTGQTPGVGIEWRHRQRHSQIADALQRLWMFAQSVMLMQEVRNWRLVIGRMGKLGHGEFKQWTEILSKKNLKSRNNALKGKAPPEESGAVSAPCHGCAQSHGWAETPALLSACLVSTEPEPHLRVMASTSPGVPSESVGGVGIACVAGSGGSGGMKPGGGGGSSNCVGMLSSASGHQAASNKPTMGTAAAGRQSALGISVGAQQQWWSQTAAACPDDRSITHIMVFQTILNVSMGHHQGEDLLQSGFDDDGDLTNVLGGFNFVEQNQDELDLDNLEIDKDEEAQINNQPMAIGYTVSTAPLPPGMPSSFWQQCPAARRRAGASGVAHLKSSLHINTSNLNEEYGGGAAQQRERDSGGAGSAGGGTSSAGGGTKASVEQQLQHPQHPLDAAATDDVLRFVLETYNALSWLSLDPVTGARRSCLPVHMQAIQRLHLAVNTFWGDADQQPQRPTL
Length3013
PositionMiddle
OrganismGlobodera pallida (Potato cyst nematode)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Tylenchina> Tylenchomorpha> Tylenchoidea> Heteroderidae> Heteroderinae> Globodera.
Aromaticity0.05
Grand average of hydropathy-0.376
Instability index59.28
Isoelectric point6.45
Molecular weight325164.89
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	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

>MDP08289
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     556.51|     182|     699|    1362|    1566|       1
---------------------------------------------------------------------------
  736-  826 (51.96/15.88)	............................................................................................................................................................GGKGSssksnTSTKFagDDA...AQSQSvpGQQPNRWAHGCSS...A.....AVSSSA..SAawewVP.....DWDLLKS.PSSFA.........NRRKTQQqlIAGSKTESLPKLAAS
  839- 1031 (166.83/105.71)	TAV.PiDPSA...SAlaellmdeddgmvtdgadgcdpivhrpiqdllmlghplghHQMP.SHMIMPSDTMSLLAQQRQRAATFgivqqqlhHQQQRHQQQQLQQLLDAERRQKRQRMAVRGRgFLPDETNQITELftVNPFDAFPPLPLT......GNEKA.....V.VDR..QQ.......QY..FQATERHQSSSNS..iL.....QHQQQP..VV....HHQSIL.ERLLLS........................................
 1362- 1535 (279.51/156.65)	.......................................................NELPeSKAKLMRQLHEQLNQRRKRLSEL........CQEPSSSLTSLPLLPVPPAYTKRAKLAMAAR.LAADKADGDAGL..DARLQEVERLRYR......GGGGS.....TDNDF..QQG...ATGQF..GQPPQQWAPGANN...L.....QFSQLP..SA....IPPSMLqQRSILSSMPHNFSPSQLFP.SGNVRLPQS..VALATMGQPPRLAPS
 2185- 2250 (21.59/14.15)	LASvP.DAVAmppPA.......................................................................................................................................vpsgsiGGGGS.....M..SV..QSGpasATGSM..HHHHHTGGPGSSSgsiLhspmaQHQQQ..............................................................
 2917- 2980 (36.62/ 6.89)	............................................................................................................................................................GGAGS.....AGGGT..SSA...GGGTK..ASVEQQ..........L.....QHPQHPldAA....ATDDVL..RFVLETY.NALSWLSLDPvTGARR.....................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     161.60|      37|      81|     333|     369|       2
---------------------------------------------------------------------------
  333-  369 (62.89/34.99)	SVDIASDQ.LRPNSSSSVCGQ....TDLRESS..VVKGCDDGGD
  415-  451 (52.24/27.69)	SPQINSTT.SRSTTNSSSSTA....HSGRNSSggNAGGCD..GD
  470-  511 (46.46/23.73)	LVEVNGHRmLYPSQFVAVLFDellpTQPKKPS..TITGTNKGEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     246.67|      74|    1512|    1167|    1268|       3
---------------------------------------------------------------------------
 1170- 1250 (123.86/64.00)	TSPASATspaTGPSSVGGQSGAISGSGSLAAHRMVPVAA.ALLMRggagIGPT.GDDHQLQV...........VQLNPHHILSPPASNERIDSS
 2099- 2170 (77.37/26.52)	..................QNSSIGGGSSAAAMPSFPHAVhAMFMH....LGPEfGDDMQPNVqrlrtyvegcyVDLCRFFLLNDHLFERRAFHE
 2251- 2287 (45.45/ 8.14)	TSPATGN...TGPNSVPILHG...GDGSSTAGQTVSPAS.STSM..................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.30|      33|    1514|      31|      79|       4
---------------------------------------------------------------------------
   31-   63 (57.70/28.98)	FHITELTGLKWCCLVSASDQRQQQQSRPISAAD
 1548- 1580 (59.59/30.56)	FPPTSLATLALTSPASSAMYQQQQQHLLVRQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.61|      19|      19|    2297|    2315|       5
---------------------------------------------------------------------------
 2292- 2310 (30.13/20.34)	QRQTA..EEMAQLEEKLVADL
 2311- 2331 (28.48/18.76)	NVITGelENTAYLPHVIVCYL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.07|      18|     241|    2341|    2359|       9
---------------------------------------------------------------------------
 2341- 2359 (30.12/24.20)	DAAHRhFGVFASAVLL....RMW
 2584- 2605 (30.95/18.92)	DALQR.LWMFAQSVMLmqevRNW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     245.89|      78|     203|    2615|    2705|      17
---------------------------------------------------------------------------
 2615- 2705 (129.83/113.53)	LGHGEF.KQWTEILSKKNLK.SRNNALKGKAPPEESG.AVS.APCHGCAQSHGWAETPAllsaclvstepePHLRVMASTSPGVPS..........ESVGGvGIA
 2818- 2909 (116.05/76.18)	LGGFNFvEQNQDELDLDNLEiDKDEEAQINNQPMAIGyTVStAPLPPGMPSSFWQQCPA............ARRRAGASGVAHLKSslhintsnlnEEYGG.GAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.94|      14|      73|    1715|    1728|      21
---------------------------------------------------------------------------
 1715- 1728 (25.84/18.03)	LLRCDQLQRRQRQL
 1790- 1803 (26.11/18.32)	LLWLPILQQQQKQL
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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 MDP08289 with Med13 domain of Kingdom Metazoa
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