<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 MDP32417

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSSPSHQLEAVLRYAFLHGLTPEQWIEPTRECMEAGNLETELSGNLLLTSIFSFTQITDPLLESYLTFATTGKTILGNESATTTTTTTTTTTTKIDPLIMSTTFISKLISFGESTGSRNPYQWSYLLKLLPELLDFSTDDIVSDLQKGQDNPWVDILANVFQLLSHLVAVGLYPNWYAQSIAQTPVTVTSALSFNNGNNNNNNTQVFDSQFSFQSQQSMNYDADATLDMDNTQQIMDDDDDDQPLAVKDTHMTDPVDMEKKTSKKTIEIDNAALAAHIMIELIEKRGTKRIFEVRNNQRRQAGTVEVDHEPWVQCQAKLESKQNSSLFSAASQNPHIQKLLLLMQRLTDRDLERRMAVHMKYHELEDEGTARAMPSAGLMGLLYHMVQIRPALDDDYIIDHLLKLQTIKGSFDESFFLEIWHTALTGLREASLNTSCQSLPTIESTMATASPAKNNGDQDKNCNALVATNRLLWKSLVLVKLPHLLEKLQSKKQEKDDFMTEKAPAEGELNSFEASLKELKAFSGLINACSPPACCSEFYAPDSMSSILVDKIAFGQEENDDDDDIMKMINDISYTSDLNTPALTKSIRSISSNDIFTNIVNVCERYGFVRSSVAADLTKKSDTMEIDENADKMTPISAIDQNIDARCEAITANLSFSALTELLHIGLVSPIHLRKIIDFVLNLLKQKSASNDFYALSKICDALSECPCSVDLILQLYTPADLLGPLESMCTQWNPADYEMETEDESTTRRIEGEDELDGVQLLYSKFGNIWNFAVSVVKKFKLCRDINKVFQDKQGLLYTYFDECPAVYGVDIEDDSVEPLINRWMNALAGGDGVSDELLRTSTPQQLLQIVPTIMQRSILLHANQQMEQDAFIGMISYFQKRFLNFALYGIFNYLCQELLSGHSAIALDCLCQLIMSDTSFTRDFDLHPVLGSLESLLEFKRQEAAFAIKNEQESNAKLATDMSKLMQYIHTNDKNKLTEDHSVLFLETVTTGVTPNTLFEKTELMFKYIVKSGRSMFMSDVDADTNPLWDDQPPSKMQMVSHYLDMVLFETALEIGGGHWFVGMIVDQVLEAGRSGGAVRAAELGSCLITTPLFYSANTHNSCVNLLRCLLQDVLPSRLESCAEQNMSFFQGQTLGVFTSDCLVLMQNRNEAVKTLGKWFFEALVIDQQDTAAKRKQKLEDGHYPQDVDGTHFATWDDHVTKSAVWRGFIKGLMSNPMIEEIWPNAFI
Length1231
PositionTail
OrganismMucor circinelloides f. circinelloides (strain 1006PhL) (Mucormycosis agent) (Calyptromyces circinelloides)
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Mucoromycota> Mucoromycotina> Mucoromycetes> Mucorales> Mucorineae> Mucoraceae> Mucor.
Aromaticity0.08
Grand average of hydropathy-0.227
Instability index45.91
Isoelectric point4.71
Molecular weight138239.22
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

>MDP32417
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.11|      68|     321|     237|     308|       4
---------------------------------------------------------------------------
  237-  308 (99.73/101.85)	DDDDDDQPLAVKDTHMTDpvDMEKKTSKKTIE.IDNAALAAHImIELIEKRGTKRiFEVRNNQRRQAGTVEVD
  560-  628 (110.38/91.79)	NDDDDDIMKMINDISYTS..DLNTPALTKSIRsISSNDIFTNI.VNVCERYGFVR.SSVAADLTKKSDTMEID
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     450.97|     147|     207|     666|     822|       5
---------------------------------------------------------------------------
  666-  822 (228.79/174.17)	IGLVSPIHlRKIIDF....VLNLLKQKSAS.NDFYALSKICD.ALSECPCSVDLILQlytPadLLGPLESMCT.QWNPADYEMETEDESTTRRIEGEDELdgVQLLYSKFGNIWNFAVSVVKKFKLCRDI..NKVFqDKQGLLYTYFDECP.AVYGVDIEDDSvEPL
  875- 1031 (222.19/139.15)	IGMISYFQ.KRFLNFalygIFNYLCQELLSgHSAIALDCLCQlIMSDTSFTRDFDLH...P..VLGSLESLLEfKRQEAAFAIKNEQESNAKLATDMSKL..MQYIHTNDKNKLTEDHSVLFLETVTTGVtpNTLF.EKTELMFKYIVKSGrSMFMSDVDADT.NPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.42|      11|      98|    1061|    1071|       6
---------------------------------------------------------------------------
 1061- 1071 (23.71/17.15)	GHWFV.GMIVDQ
 1160- 1171 (17.71/10.81)	GKWFFeALVIDQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     115.57|      28|     802|     318|     345|       7
---------------------------------------------------------------------------
  318-  345 (46.65/37.91)	KLES..KQNSSLFSAASQNPHIQKLLLLMQ
 1097- 1115 (25.17/16.11)	...........FYSANTHNSCVNLLRCLLQ
 1121- 1150 (43.75/34.97)	RLEScaEQNMSFFQGQTLGVFTSDCLVLMQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.75|      37|     258|     179|     215|       8
---------------------------------------------------------------------------
  179-  215 (63.50/43.18)	QSIAQTPVTVTSAL.SFNNGNNNNN.NTQVFDSQFSFQS
  438-  476 (53.26/34.95)	QSLPTIESTMATASpAKNNGDQDKNcNALVATNRLLWKS
---------------------------------------------------------------------------




































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 MDP32417 with Med5 domain of Kingdom Fungi
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