<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 MDP00862

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSPSALESVLRYAYIHGYTCREWAEPVRDYKDQVDGDISTELCELLLGRFFAQTRVAEPLLERYIAYAATGDDEQHYPLTLNPQECLIPPITFLSCLVKFVDTTAIRNPHQWSHLLKCLPTLLSVIDTDQVISDLLQQKDQQPWPRLLCNVFIMLSRLVAVGLYYDYYARDILRNKHDTTIVASDEAGGPAAAGSPPSSSQQFNNTQTSSSYPFNFPLSQPSGTFDPDATLDLESFAAAEPPTSFEASAASTDGHTARDSTQGSTTDTNRIETANAILAAQVMEELVEKKGAKRIFEIMNTQNKREAGKAEEPWATCQAILAPPSTHTQTTTDVAQNTHIQKLLLLINRLTDRDLDRRMAVHLKYQELEDEGTARALPSAGLMGFLYHLVQIRPGLSDEYILDYLTKMQTIKGSFDESFYLEIWFAALTGLREASELGHQHTMQGDDGVTQPADITINANRLLWRSMVLVKVPFIIEQLYTRKQSQSRHYSFLKRENDDSDATEMNPLEASLRELKSFTGLLKGCSPSLAALDMFEPGASKLLDQLNNGNSKAEKDDGDDFMNLINDMSNTVDFNTPAVAKAIRQVASEDIFTQIVRVCQQYGLVQESVADILVTAPKTTEIKSEQNDDGGMDIIDDTMMLDFGDDNQNGSKSNDLEVVAQNVDQRINALRETISMTGITELLHIAFVSMAHTKKIVDFVVELLRDKADSRDIYGLAKICDALNKCPCAIDLIGQLHHPFILLESLEQFCNEWKPSDSEMDVDNRSSSESDNDDDMDGVRVLYGKFGKVWTLVVLIVRKFNLYRDIPSVFRNEDGFLYRFFTQGPLIYGVDATDETIEEFAREWQTALLGNGGISDDLLRFSTPQQLLQAAPTLFARAILVYENGHLGEDTLMGIVSYFQESFLNFTLCPVTIMYLCDDVLMRNPSVGVKCLHQLLMKGRPPHALMQICGSNILGALMGLSEQLKQERMVRPASVAEKGQEAMMALDELVTQLQAHIKNKLGIEEKSDQKQHHTETVSTGVTCDNLAHKAQEMFRYIVKSGRSMFMRDVDADVVALWDPCKAPKSVIVHYLDMAMFQMALDMGGPHWFVNMIVEQVLEAGKSGGAVRAAELGSCLITTPLTTDMDSDGSCFNLLRCLLQDVVPSFLEKCASANASFFQGQTLGVFTSNCLVLMHDRGDQPKERQFVDEFGRQFFETLVVDNENAPQMIHQTHGSAIKKEEAASGGDNSTDQSIRLGVFGSWPDNVTESPIWRGFLKGLMSNPLVNEAWPNTFIY
Length1274
PositionTail
OrganismLichtheimia corymbifera JMRC:FSU:9682
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Mucoromycota> Mucoromycotina> Mucoromycetes> Mucorales> Lichtheimiaceae> Lichtheimia.
Aromaticity0.08
Grand average of hydropathy-0.236
Instability index38.20
Isoelectric point4.80
Molecular weight142204.55
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

>MDP00862
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.74|      26|      31|     950|     980|       1
---------------------------------------------------------------------------
  954-  980 (38.31/37.87)	LGALMGLSEQLkQERMVRPASVAEKGQ
  983- 1008 (42.43/24.72)	MMALDELVTQL.QAHIKNKLGIEEKSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.12|      18|      32|     840|     868|       2
---------------------------------------------------------------------------
  840-  859 (26.28/36.53)	FARewQTALLGNGGISDDLL
  875-  892 (31.84/12.43)	FAR..AILVYENGHLGEDTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     172.65|      58|     149|     554|     633|       3
---------------------------------------------------------------------------
  492-  552 (89.15/66.64)	FLKRENDDSDATEMN.PLEA.SLRELKS...FTGLLKGCSPslAALdMFEPGASKLLDQLNNGNSK
  561-  623 (83.50/82.44)	FMNLINDMSNTVDFNtPAVAkAIRQVASediFTQIVRVCQQ..YGL.VQESVADILVTAPKTTEIK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.05|      11|      31|     107|     118|       4
---------------------------------------------------------------------------
  107-  118 (19.58/16.22)	RNPHQWSHLLkC
  139-  149 (23.46/14.25)	KDQQPWPRLL.C
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.45|      23|      31|     663|     685|       7
---------------------------------------------------------------------------
  663-  685 (37.52/27.63)	VDQRINALRETISMTGITELLHI
  697-  719 (36.93/27.07)	VDFVVELLRDKADSRDIYGLAKI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.15|      10|      23|      94|     103|       8
---------------------------------------------------------------------------
   94-  103 (17.59/12.79)	LSCLVKFVDT
  119-  128 (16.56/11.52)	LPTLLSVIDT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.12|      26|      63|     179|     208|      10
---------------------------------------------------------------------------
  183-  208 (45.86/30.17)	ASDEA.GGPAAAGSPPSSSQQFNNTQT
  210-  230 (31.57/11.28)	SSYPF.NFPL...SQPSGTFDPDAT..
  247-  273 (35.69/14.22)	ASAAStDGHTARDSTQGSTTDTNRIET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.10|      12|     768|      46|      61|      11
---------------------------------------------------------------------------
   46-   61 (17.35/21.03)	LLGRFFAQtrvaEPLL
  816-  827 (24.76/16.34)	FLYRFFTQ....GPLI
---------------------------------------------------------------------------




































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 MDP00862 with Med5 domain of Kingdom Fungi
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