<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 MDP19227

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDAFTSITRRSCARGLDQLEWMKEVKSILNIIPSSSSSSSREQATALIDLVLSTNPISVRLLTYYRAALNTLIDPSDAATHLITITPTVPLPLVRAELINQIALPLINSHPHLKCQNPSHAITLLNLLLNLINNQHLNHSPILTLTENLIKPLTHFILSYPPNCFIQSNPQAVQEAIQSITNTLDHPSTSTINNYQLPSILRHLSPSTAKQLALSSSQQPTQSPTTTTTTTTTTTTTTTTTSSSSSSASALIAYILLTPGASALASDQTTPSLILSRIISFALSDQPPHSNFILELLLAAIKLGNSHPPTPFQAPSKTDTLSDLNNNNNNNNNNNNNDEDDPYLENDKMCWKALLAGGRLAELIRSAIDSDAIKSQPEVMVQLLTITHLEILSQHIITQKKSIPDVQHQPISQTDEDVHMDMDPTVPAVEYTTRHHLWFALLSSLCSNQLIIPEDIEKLEQSNSAPNHLVLGHHSDVELGLQPLYESLGIDKQKPISELAGKLQESIMTATMSFDLSTCISLTKAISSLDSLCTILIWLQPRNILGPIRTLLDDWNNIRNNNNQVINNSDNDESSSGSEFEKFGGLLGWLQGVVGRFGLMSQLGYHLGTTKGFTIHYLSNPSTAYPLSSLPSTHTTTLASWIEALYGSSGIPDDLLSNTDPRIFFTISATLFKQSFDALTSGLIDLQTFRDGLSYFEHKLLIGGCAVGVVGWLLNELTAAGSSISATSFPTALLEILQAILLSDSITSTALRLVSARSLALLRGFDHSFSRAPPDHLGPGADLNRRVQLDLGAIERRLTVQPVSEMILPTGFLAFDFGRGQAVVRWTDALRLAVQMAVDGDRERPGPDPTIALWSLLPHILKAVSVREFVQMTIAAAVEPSRSTGEDHGLVVGDDTYPARLGVRVQKAWDAATYRRVERAVGLAVDILTWMTDDIHGPSSGPLSLVLEELFQRWGARLGTTSSVEAAEVERDIVLGCLDRLESWELVTARDPHKKQQQQSASQENSNQAVASGLSDPTPLQTKDQDSAPDPPLPVITDGFRKACLESLRREKLRSLGLVIKPEPPTPPGPRLDLASESAAVSGSAAAGRDEEARDMDASGPAPAKDGESGEDASGGQEEEKGGEAEAGKEEELPAAAEQAMEVVGESDTLAEKEKKDQLQGQANEQSGDGCHESEAGEGEDKMDEGAVEAVLAGRAVGERAGGEWKRVHFRDEAGAARTGDEGEKTSRDTPPSPPLKKKKGRPADPQQQDPPSALDWIVASLAVAPVPARPPYTQLPPAAHPDLATLVRDHLAPTLPYKLVGIIPR
Length1306
PositionTail
OrganismPuccinia coronata var. avenae f. sp. avenae
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Pucciniomycetes> Pucciniales> Pucciniaceae> Puccinia.
Aromaticity0.05
Grand average of hydropathy-0.248
Instability index49.26
Isoelectric point5.05
Molecular weight141218.34
Publications









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
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

>MDP19227
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     452.85|     174|     202|      34|     230|       1
---------------------------------------------------------------------------
   34-  152 (122.59/126.37)	..........................................................................................SSSSSSSreqATALIDLVLSTnPISVRLltyyraalntlidPSDAATHLITITPTVPLPL....VRAELINQI...ALPLINSHPHLKCQNPSHAITLLNLLLNLINNQHLNHS....PILTLTENLIKP
  153-  353 (262.80/224.10)	LTHFILSYPPNCFIQSNPQAVqeaIQSITNT.LDHPSTSTINNYQ.LPSIlRHlSPSTAKQLALSSSQQPTqSPTTTTTTttttttttttTSSSSSS...ASALIAYILLT.PGASAL.............ASDQTTPSLILSRIISFALsdqpPHSNFILELllaAIKLGNSHPPTPFQAPSKTDTLSDLNNNNNNNNNNNNNdeddPYLENDKMCWKA
  360-  433 (67.46/38.31)	LAELIRSAIDSDAIKSQPEVM...VQLLTIThLEILSQHIITQKKsIPDV.QH.QPISQTDEDVHMDMDPT.VPAVEYTT............................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     233.38|      69|     202|    1007|    1075|       2
---------------------------------------------------------------------------
  889-  948 (50.15/20.33)	.....................GLVVGDD..TYPA.RLGVRvqkawdaatyrrvERAV..GLAvDILTWMTDDIHGPSSGPLSLVLE
  955- 1038 (99.30/47.37)	GARlgtTSSVEAAEVERDIVLGCLDRLESWELVTAR.DPHkkqqqqsasqensNQAVASGLS.DPTPLQTKDQDSAPDPPLPVITD
 1039- 1112 (83.92/38.91)	GFR...KACLESLRREKLRSLGLVIKPEPPTPPGPRLDLAsesaavsgsaaagRDEEARDMD.ASGPAPAKDGESGED........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.43|      16|      19|    1218|    1233|       3
---------------------------------------------------------------------------
 1200- 1216 (22.43/ 8.36)	RAGGEWKRVHfRDEAGA
 1218- 1233 (28.29/12.25)	RTGDEGEKTS.RDTPPS
 1239- 1253 (26.71/11.20)	KKGRPADPQQ.QD.PPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.51|      30|      50|     586|     615|       5
---------------------------------------------------------------------------
  586-  615 (53.79/29.25)	LLGWLQGVVGRFGLMSQLGYHLGTTKGFTI
  638-  667 (52.73/28.54)	LASWIEALYGSSGIPDDLLSNTDPRIFFTI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.46|      14|      15|    1164|    1177|       6
---------------------------------------------------------------------------
 1164- 1177 (25.90/15.25)	NEQSGDGCHES.EAG
 1180- 1194 (18.56/ 8.99)	EDKMDEGAVEAvLAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.67|      21|      24|    1113|    1133|       8
---------------------------------------------------------------------------
 1113- 1133 (35.20/26.48)	ASGGQEEEKGGE....AEAGKEEEL
 1135- 1159 (28.47/19.89)	AAAEQAMEVVGEsdtlAEKEKKDQL
---------------------------------------------------------------------------




































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 MDP19227 with Med5 domain of Kingdom Fungi
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