<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 MDP29297

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMPASLALPACPLLVNVLLADTVLNVFRDHNFDSCTVCVCNEGTKVIGNIRGADAATYLSEGGEGSGEEPASCTCGFSAIVNRRLAHRSGLFYEDEMEITGCAETVSSAGGARLGDVTGAVLAQLGSVHAAPTALARAARSAAAAHHPHEHLRLNLLEYSDGGAAAAKALRAAGGAYAGAGPPCSNAPVGGSINESAPSAVHRWPFIGARAPRSSRDVVRLMRRLRPLLQDAIQKRCCGARMWDGVTGPLTWRQFHRLAGRRNEDLCEPQPVPSLLVGHDRDWISLSPYALRHWERLSLEPYAYSRDVAYVVVAADCDALADPLRAFFRELSTAYEACRLGRHRPVTRLARDGLVRTGAARSGETDEWAGPLPAGRLGRYLRAYSEALRTALIISLESVSEQWSGAGVGAGARALAFTVYSGARRLLHHHANGKSLTGFGTAAAANLFLQAKDDKNRAPYRLYSPAWVLAAPRALREVAETWGQGGTADAVLFVSYCLSHDQRWLLAAATDSRGELLDTIAINIHVPHRSRRRRSGTARRLGLTKLMDFTLGVMSQAAQPWRLVIGRVGRIGHGELKGWSWLLSRKNLDQVSTTLKDLCGSCGSGAPCVLSACLVSTEPDSCLRLMADRFTPDERFSQASIQSHLHTPRDVSATHILVFPTSATTQSTPMTFEQPLANGEDGDMMLLDINDEDGEHIDELLNCDMFNNMWAPGSPRRADDDAASPTPHLAQQRLRDDGREERVGTVLQQPLALGYTVSTAPLAGMPAWWWASCAHLRDACPAFLKTALHLHSVHGADDYAAFTQRRDQPAHPLDSQTTTDVLRYVLEGYNALSWLALDTSTHDRLSCLPLHVQVLMQLYHAAAALG
Length865
PositionMiddle
OrganismBombyx mori (Silk moth)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Lepidoptera> Glossata> Ditrysia> Bombycoidea> Bombycidae> Bombycinae> Bombyx.
Aromaticity0.07
Grand average of hydropathy-0.173
Instability index48.21
Isoelectric point7.03
Molecular weight93648.96
Publications
PubMed=19121390

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

>MDP29297
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.24|      31|      35|     336|     369|       1
---------------------------------------------------------------------------
  336-  369 (51.31/33.43)	ACRLGRH.RPVTRLARDGLVRTGAARSgetDEWAG
  373-  404 (48.93/24.91)	AGRLGRYlRAYSEALRTALIISLESVS...EQWSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     231.80|      62|      63|      50|     111|       2
---------------------------------------------------------------------------
    2-   44 (50.08/25.68)	....................PASLALpACPLLVNVLLAD..TVLNV.FRDH.NFDSCTVCVCNEGTK
   50-  111 (104.67/62.71)	R.GADAATYLSEGGEGSGEEPASCTC.GFSAIVNRRLAH..RSGLF.YEDEMEITGCAETVSSAGGA
  112-  175 (77.05/43.97)	RlGDVTGAVLAQLGSVHAAPTALARA.ARSAAAAHHPHEhlRLNLLeYSDGG..AAAAKALRAAGGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     170.78|      36|      36|     203|     238|       3
---------------------------------------------------------------------------
  176-  201 (30.30/12.80)	..YAGAGPPCSNAPVGGSI.NESAP....SAVH.....
  203-  238 (64.67/35.95)	WPFIGARAPRSSRDVVRLM.RRLRPLLQ.DAIQKRCCG
  242-  277 (51.02/26.76)	WD..GVTGPLTWRQFHRLAgRRNEDLCEpQPVPSLLVG
  282-  300 (24.79/ 9.10)	W..I.SLSPYALRHWERL...SLEP.............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.27|      35|      42|     412|     447|       4
---------------------------------------------------------------------------
  412-  447 (57.26/29.89)	RAlAFTVYSGARRLLHHHA..NGKSLTGFGTAAAANLF
  456-  492 (60.01/28.06)	RA.PYRLYSPAWVLAAPRAlrEVAETWGQGGTADAVLF
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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 MDP29297 with Med13 domain of Kingdom Metazoa
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