<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 MDP04650

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDQFISITRLSCSKGLDQLEWLNAINKAHIDPSHYTTSLIQLIISTEPFSVRLLTYYRAALNTIIDPSDAATHLIKSLPELLPRQSNLIINSISLPLINSNPKLKITHPTQSISLLKSLLDLINKLSGNDSPALTLAEILLKSITQSILSYPPNHLIQSTQLETVIQSIITTIHHSSSSSTIYQYELPSILRHLSPSAAKQLALSNNSNHPQPSSITTTASDLIAYILLNPGASALHSDQVPQTTSPIISRIISLALSQPPHSNFILELLLAAVNLGNYHPSTPLQPQSKSVATLANDDEDENDQYLENDKMSWKALLAGGRLAELIRSAVNSELLKNRQVVRLLTIPDLEILSKKIITPQKPTPSVQEQQNLTVTRIAGDTPMDIDQITTRAVEHTSRHRLCDVELGLQPLIESLGKNKHTPICELAVKLQESITTATNSFDLSTCISLTKALSSLDSVCTIFLWLQPRKLLDPLRTLLDDWNDIRNNNNQVINSSDNDESSSGSEFEKFGGLLGWLQGVVGRFGVKLDPISWIYIHLYLMSNLGYHLGSTKGFTIHYLSNPSTAYPLCSLPSTHVSTLASWVEALYGSSGIPDDLLSNTDPRVFFTISATLLKQSFDALTNGLIDLQTFRDGLSYFEHKLLIGGCAVGVVGWLLNELTRVGPISATSYPTALLEILQAILLSDSITSTALHLVSARSLALLRAFDLSFSRAPPDHLGPAADLNRRVQLDLPAIERRLTVLPASDMILPTAFLAFDFRNPEITNGQAVDWTDALRTAVRMAVDAEGDRPGPDPTVAVWSLMPHIMKAISVEEFVRMTICATIEASCTGDDHELGETAPLPSRPSRLGVRVQKAWDAAKYRRVERSIGLAVDILTWWIDGVHPFGPSPGPLRLVLDELFQHWGARLGTTADVEEAEIERDIVLGCLDRIESLELVNAQTSPKQSTLSSPGNKDQSITTDPADPQPGPQPPVEKNGQQLGINQPVPSVTDQLRQVCLESLRRQKRLSIGLVENVEHDRPLPSAPAAPRLDKAREKPQLAVVTPAVRVEGCVEVAGEMDVAGLTKEEASESNDAAGQGEGKQKEGNQETEKKAERKKENAGEKEKEREQGEESEENAADRQENGMGVDDKMEEELADGATTVEGPLGAEASGDCKPVDSLEPTIGPATDSLSVFDWIVATLKIAPLSTSSPNHHSPLTLDLPRLLLHSHPPFPLPYKLVGIIHR
Length1222
PositionTail
OrganismPuccinia sorghi
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Pucciniomycotina> Pucciniomycetes> Pucciniales> Pucciniaceae> Puccinia.
Aromaticity0.05
Grand average of hydropathy-0.185
Instability index48.21
Isoelectric point5.23
Molecular weight133533.05
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

>MDP04650
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.08|      16|      16|    1083|    1098|       1
---------------------------------------------------------------------------
 1083- 1098 (26.08/19.12)	GNQETEK.KAERKKENA
 1099- 1115 (22.00/14.90)	GEKEKEReQGEESEENA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.70|      14|      16|     184|     197|       2
---------------------------------------------------------------------------
  184-  197 (25.20/12.47)	QYELPSILRHLSPS
  201-  214 (25.50/12.69)	QLALSNNSNHPQPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.97|      19|      20|     560|     578|       3
---------------------------------------------------------------------------
  560-  578 (34.34/18.77)	LSNPSTA.YPLCSLPSTHVS
  580-  599 (28.63/14.41)	LASWVEAlYGSSGIPDDLLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     135.35|      47|      75|     883|     934|       4
---------------------------------------------------------------------------
  883-  918 (40.02/34.50)	.........................................PFGPSPGPLRLVldelfQHWGARLGTTADVEEAEIE
  919-  990 (69.75/46.30)	RDIVLGCLDRIESLELvnaqtspkqstlsspgnkdqsittdPADPQPGPQPPV.....EKNGQQLGINQPVPSVTDQ
  992- 1028 (25.58/ 9.21)	RQVCLESLRRQKRLSI...............glvenvehdrPLPSAPAAPRL.........................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.45|      21|      22|      79|      99|       5
---------------------------------------------------------------------------
   79-   99 (35.32/20.40)	PELLPRQSNLIINSIS..LPLIN
  102-  124 (30.13/16.27)	PKLKITHPTQSISLLKslLDLIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.50|      12|      23|     675|     686|       6
---------------------------------------------------------------------------
  675-  686 (19.33/12.95)	LEILQAILLSDS
  700-  711 (20.17/13.88)	LALLRAFDLSFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.25|      20|      27|     216|     239|       7
---------------------------------------------------------------------------
  216-  239 (29.52/24.63)	ITTTASDLIAYI....LLNPGasalHSD
  241-  264 (31.74/17.15)	VPQTTSPIISRIislaLSQPP....HSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.57|      12|      20|     402|     413|       8
---------------------------------------------------------------------------
  402-  413 (20.97/13.26)	LCDVELGLQPLI
  424-  435 (19.60/11.89)	ICELAVKLQESI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.67|      13|      20|     843|     855|       9
---------------------------------------------------------------------------
  843-  855 (24.23/18.94)	RPSR...LGVRVQKAW
  862-  877 (19.44/13.45)	RVERsigLAVDILTWW
---------------------------------------------------------------------------




































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 MDP04650 with Med5 domain of Kingdom Fungi
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