<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 MDP09306

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDEWATFFAHALDRRLPTEKLDQFAKVLSTKSPLAAPLVAELLLRPSESRHYDLDPQVSPYTQALLRANILDVPSVLRALLRHSTSRPVEAAKDGQEGAGGSQTRWTKSYGHEERLVYGLSKIVAAGERPKSAQEVLGTVSALTEWMRLLVMANAADDMMREIGAGNNTHNQETMAVRVAVGALLVALAENATVNEALRNRCPKDTLKGFSQSLANFTPLLINGSSMFAERLELYTKTLVALEPIDKKAQKAGAEIDEIIDSAMALGMDNIPVVEIPTMNSRAGLYVYLNSLLTGRPMVDDNQLLNFLHNRYQGDIQTTCIDLIVSSFDILANAIFRSENPQTTFLLRSFLINKVPLLIGMISAPMFPPLSPELCITEALSHVDTNAFPTFSSMFDDTSAGDMFSDSVRQDFCFSCCLHGLIPEDSIERLLGEIPMQTLPAGGRYTKDEVLEQCLSDSEKIEAFTDELEHMDGNVGAVSQAITELLRRLCDSKDTMALKSLCAHLARKPSSLDVLLIFDKPLTILPPICQLLDAWRYDDDQGEYQPVYEEFGSILLLVLAFVYRYDLSATELGVQTPDSFIAKLLVRGSTARHLDDLSSVESSQLDGWIKGLFNAEGGGLGDEPMALCPPQDFYLLVPTLFSQIVLASQHGHLTDDVLRGGLEYLLDPSLLPSLIPALLSLTSNILTTPPPSSLLHALILPQSISAEASLLHNAILPIPAPHLSRSLRALQRSVPTRTDLEPLISALRPHLHFSRTAIDLTTDFPVPPNLPTAVRHAARALINWNPPAAPPNYSPRLPVLAVRMLGARRVLLALLEELGHQCALGNSGTAYDVVASLVCAPPKAAAGVQGRMTLREALATEAARVGKEVGKEGPGAESAEVVVRLYRRVEVLTAGGGVDEQAGLMSADLGIGGVGGEGLVGEDMMGVLSGEGMMGLEGGMLDDMKLDF
Length948
PositionTail
OrganismPseudogymnoascus sp. 23342-1-I1
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Leotiomycetes> Leotiomycetes incertae sedis> Pseudeurotiaceae> Pseudogymnoascus> unclassified Pseudogymnoascus.
Aromaticity0.06
Grand average of hydropathy0.050
Instability index45.04
Isoelectric point4.94
Molecular weight102784.90
Publications
PubMed=29295979

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

>MDP09306
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.23|      27|      27|     665|     691|       1
---------------------------------------------------------------------------
  665-  684 (26.10/11.63)	...................LLDPSLLPSLIPALLSLTSN
  685-  713 (42.15/24.13)	ILTTPPP..........ssLLHALILPQSISAEASLLHN
  715-  747 (20.99/ 7.65)	ILPIPAPhlsrslralqrsVPTRTDLEPLISAL......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.29|      21|      36|      34|      57|       2
---------------------------------------------------------------------------
   34-   54 (36.67/13.43)	LAAPLVAELLLRPSESRHYDL
   71-   91 (34.61/13.90)	LDVPSVLRALLRHSTSRPVEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.56|      35|      35|     841|     875|       3
---------------------------------------------------------------------------
  786-  827 (46.85/22.33)	PPAAPPNYSPRLPVLAVRMLGARRVllalLEE..LGHQcalGNS
  841-  875 (57.24/28.82)	PPKAAAGVQGRMTLREALATEAARV....GKE..VGKE...GPG
  891-  926 (49.47/23.97)	VLTAGGGVDEQAGLMSA.DLGIGGV....GGEglVGED...MMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.66|      29|      36|     353|     382|       4
---------------------------------------------------------------------------
  353-  382 (49.50/36.37)	NKVPLLIGMI...SA.PMFP.PLSPELCITEALsH
  386-  419 (43.16/26.55)	NAFPTFSSMFddtSAgDMFSdSVRQDFCFSCCL.H
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.95|      24|      27|     556|     581|       5
---------------------------------------------------------------------------
  556-  581 (32.95/30.99)	LLVLAFVYRY..DLSATElGVQTpDSFI
  584-  609 (38.00/24.36)	LLVRGSTARHldDLSSVE.SSQL.DGWI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.79|      16|      37|      93|     108|       6
---------------------------------------------------------------------------
   93-  108 (30.11/19.42)	KDGQE..GAGGSQTRWTK
  131-  148 (23.68/13.79)	KSAQEvlGTVSALTEWMR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.26|      22|      36|     449|     471|       7
---------------------------------------------------------------------------
  449-  471 (31.59/26.64)	EVLEQcLSDSEKIEAFTDELEHM
  484-  505 (37.67/25.33)	ELLRR.LCDSKDTMALKSLCAHL
---------------------------------------------------------------------------




































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 MDP09306 with Med5 domain of Kingdom Fungi
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