<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 MDP10127

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSAGDVDLKQLVVLCLKRRVSAHVFNSLFKQLNHKNEVTISDLVSLLSAQDEFDPLLASYLTAVATEDQSTNLKLCSLLDNLPNAIEANQYLLLNSLTNTFRDERFKTSFPFNSFEVNDLITSITSYVKTLLEKQPQSYELLESLSYFLNVFFEIIPFEVPPLTQEQNDLLASVLNEVKQKNAPLAEFLEANMIKSLKRSSIVNIRQSVSLPSSSLQHAVHSSFLKTNKLPKFIWLNLIIQNWSSNSSKLLSSFEQFVKVKTNQNVLNELISLSFECITIALQSRDASDLVIKNWKLFLTKRLPLLIKELNLKNVESSLSNALNLIDPKISKTIKLNSSGGSDPNDDDIFSSFPSTNTDIRHDFLRSCIALKLLPQSAFAAILKEDAQAENRNLPTSDDVLQNGQPIDISTTLHATLIDINPEFIPLEDSGLLEFFSLVEEMEGTKQVELSNLILETINEFIKNNDVSHLYRLALALGLSPSALHAILFHLSPSAFLKPLLSFLDKWQVSNDDMNFQDVYSAFGCVLMLFLLIVKDYKISFESLLQIKDNPNEPSFCIKYLTKLGSLSQFDSSNTHQSDLLNGWITALFDSGGISDDLMRLSTVQECFQLFPVIFQQAFIACKQGLIDEDTVKGGLEYFLQPFLLSTIVGILSWSETFLWKRNDVDLLINLIKTLINPLDLSGESVHIHKFVLSIYGPNLFHLLSEINKNPQTSVDPILLSSLRQSVGLKKPTYFFEFDTSPTFMKYFRSILYDINKKTDVQASPLSLFHTQFNTLLNWSQTTIVPNYDFQLFSTLLEVLGEETMLDYFLDQIFEAQNLNSKPSQTILELSTFLLATNYVESSVIKDFLLNCLKQESLTDDSYNSISPSYKFAKVLIDKKKSISDNEAIENEVVQLFYEKFIESVQTIVPLK
Length912
PositionTail
OrganismWickerhamomyces anomalus (strain ATCC 58044 / CBS 1984 / NCYC 433 / NRRL Y-366-8) (Yeast) (Hansenula anomala)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Phaffomycetaceae> Wickerhamomyces.
Aromaticity0.10
Grand average of hydropathy0.018
Instability index41.89
Isoelectric point4.93
Molecular weight103262.05
Publications
PubMed=27535936

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

>MDP10127
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      95.98|      36|      49|      96|     144|       1
---------------------------------------------------------------------------
   78-  117 (15.60/18.66)	.............LLDNLPNAieanqYLLL.nsltntfrderfKTSFPFNSFEV
  118-  160 (52.50/31.81)	NDLITSITSYVKtLLEKQPQS.....YELLE......slsyflNVFFEIIPFEV
  168-  190 (27.89/ 7.67)	NDLLASVLNEVK...QKNAPL.....AEFLE.......................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     174.80|      50|      58|     353|     410|       2
---------------------------------------------------------------------------
  344-  385 (57.83/28.58)	...........PNDDDIFS.........sFPSTNTDIRHDFLRSCIALKLLPQSAFAAILKE
  386-  441 (65.78/44.92)	DAQAENRN..LPTSDDVLQngqpidisttLHATLIDINPEF....IPLEDSGLLEFFSLVEE
  445-  486 (51.19/24.52)	TKQVELSNliLETINEFIK..............NNDVSH.LYRLALALGLSPSALHA.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.42|      18|      18|     776|     793|       3
---------------------------------------------------------------------------
  776-  793 (33.15/22.55)	LLN.WSQTTIVPNYDFQLF
  796-  814 (26.27/16.24)	LLEvLGEETMLDYFLDQIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.33|      46|      47|     671|     717|       4
---------------------------------------------------------------------------
  671-  717 (73.24/54.61)	LIKTLINPLDLSgESVHIHKFVLSIYGPNLFH.LLSEINKNPQTSVDP
  719-  765 (73.09/49.28)	LLSSLRQSVGLK.KPTYFFEFDTSPTFMKYFRsILYDINKKTDVQASP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.65|      28|      84|     494|     530|       5
---------------------------------------------------------------------------
  222-  254 (41.33/17.99)	SSFLKTnkLPKFI..WLnliIQNWSSNSSKLLSSF
  494-  523 (47.32/45.10)	SAFLKP..LLSFLdkWQ...VSNDDMNFQDVYSAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.44|      35|     339|     255|     299|       8
---------------------------------------------------------------------------
  255-  289 (56.26/42.05)	EQFVKVKTNQNVLNELISLSFECI..TIALQSRDASD
  307-  343 (50.18/20.62)	IKELNLKNVESSLSNALNLIDPKIskTIKLNSSGGSD
---------------------------------------------------------------------------




































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 MDP10127 with Med5 domain of Kingdom Fungi
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