<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 MDP10049

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMSMDTISISKLIKKSINQKLPPKLFISLFNKLIKKQSINNEEFINELLILDYDQHTCSSFSSLKQHKWNEYKQTLIIELSFSNVENNHLFWNNLNQIPNNLQCKYLSKITKLLSHQSQHYDKEVLKNFIKNEIIDYVMKYTSITSITTTTTTTTSKVSGNVLENIVLLLSVLIDKFEKYLQEDTTNSFQNFIVKLLSSSNLLSSLVNDDGYLTNYLLNKSKIILSKNQYDQIVNVNIMVRTERERERERQASIVALNNNNIIDIRSGNTMQQQQHVNVASLKMVNSIDEYYTKMRQIWIRKIFHNFEYDNNNNNILTIFMGNFIPSSIQRNPYLIAYEFIKTIFGCLNMKGYCLFNVKNYILTRLPILFNNFRFNNEDNLEKAVIDALKSIEFDDNDEFKQLFLKGFSITTTTTNEESVVGFNLREKFNGKLLDINSEFTSLEESGLIEFINSLASSSSSSSSPSSSSSPTSTTIMFRSAKLQQEFTQLVLNIIDELKYSRDFEKLNRLILAIMNNIEIVNIILFNSNLSLLYKLIDIIDSSNFTTDDNGNGNDKNNGNDNDNNNNNDNDNDDDDNVGVENFQDYYSYCGNLIISVITIVEIFQIDLSKLEIKLSSGSSESFIIDYLNNFYYRMCDNLVNTEPTNCDNDDRIIIDNYNNLMIDWVNALFDDRNEGLSDELIKSLNIKQIYKIIPIIYRQGIIDTNNKKINWEILNNGLEYLSQPFLTPIIPIIIKSLLRDFTIDNDLKFKIIRELIKDNNNNSNNIIIKMVINICGNEILTFNPPADIRESIIKTMVYLDKSDPIARDINFKEFIKHQLLGDIHIQIEENFLNKYILNNRLNFISNLIEEIYNFQKFNHEDSKIYINLMIFIMLLDSIETKSDKDYWKKNFNLPYPMNLETNDSVVVVAVDSRFELSMDNHYSSIFNDDSRSSSSSSSSSSSSNSKDVDNFLKNGDEDEDEFMKDDNNTNNNNNNNGERITTSQQLEKLNEKIHRHECLLNEFRKIRTNTTETNLFAKSIRLLNDKLIEKITNWTI
Length1036
PositionTail
OrganismCandida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Candida/Lodderomyces clade> Candida.
Aromaticity0.10
Grand average of hydropathy-0.401
Instability index36.43
Isoelectric point5.03
Molecular weight120340.50
Publications
PubMed=15123810
PubMed=17419877
PubMed=24025428

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:InterPro

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP10049
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.58|      15|      18|     543|     558|       1
---------------------------------------------------------------------------
  543-  557 (27.58/ 6.37)	NFTTDDNGNGNDKNN
  563-  577 (28.00/ 7.45)	NNNNNDNDNDDDDNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.85|      11|      45|     581|     593|       2
---------------------------------------------------------------------------
  581-  593 (20.05/21.58)	NFqdYYSYCGNLI
  629-  639 (24.80/17.50)	NF..YYRMCDNLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.14|      20|      20|       6|      25|       3
---------------------------------------------------------------------------
    6-   25 (35.38/21.68)	ISI.SKLIKK.SI.NQKLPPKLF
   26-   48 (20.76/ 9.36)	ISLfNKLIKKqSInNEEFINELL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     385.03|     127|     260|     145|     288|       4
---------------------------------------------------------------------------
  115-  212 (90.39/42.97)	...........................................................HQSQHYDKEVLKnfIKNEIidyvmkytsitSITTTTTTTTSkVSGNvLENIVLLLSVLIDK.FEKYLQEDTTNSFQ........NFIVKLLSSSNLLSSLVNDDGYL
  213-  334 (153.36/89.02)	TNYLLNKSKIILSKNQYDQIVNV.NIMVRTERERERERQASIVALnnnniidirsgntmQQQQHVNVASLK..MVNSI............................DEYYTKMRQIWIRKiFHNFEYDNNNNNIL........TIFM.....GNFIPSSIQRNPYL
  358-  471 (141.28/64.62)	KNYILTRLPILFNNFRFNNEDNLeKAVIDALKSIEFDDNDEFKQL.......................................flkgfSITTTTTNEES.VVGF...N.......LREK.FNGKLL.DINSEFTsleesgliEFINSLASSSSSSSSPSSSSSPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     180.53|      47|      56|     690|     745|       5
---------------------------------------------------------------------------
  651-  688 (44.99/16.71)	.RII.......IDNYNNLMID...WvnALFD.DRNEGLSDEL.....IKSLNIKQ.............
  690-  740 (77.78/49.27)	YKIIpiiyRQGIIDTNNKKIN...W..EILN.NGLEYLSQPFLTP..IIPIIIKSLL.........RD
  749-  808 (57.77/21.60)	FKII....RELIKDNNNNSNNiiiK..MVINiCGNEILT..FNPPadIRESIIKTMVyldksdpiaRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.67|      14|      20|      51|      70|       6
---------------------------------------------------------------------------
   51-   70 (20.61/21.12)	DYdqhtcsSFSSLKQHK..WNE
   78-   93 (22.07/ 8.76)	EL......SFSNVENNHlfWNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.39|      15|      18|     946|     961|       7
---------------------------------------------------------------------------
  946-  961 (22.52/13.17)	KDvDNFLKNGDEDEDE
  964-  978 (27.87/12.75)	KD.DNNTNNNNNNNGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.35|      18|      18|     481|     498|       8
---------------------------------------------------------------------------
  481-  498 (27.24/16.82)	KLQQEFTQLVLNIIDELK
  501-  518 (28.10/17.60)	RDFEKLNRLILAIMNNIE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.63|      15|      40|     810|     828|       9
---------------------------------------------------------------------------
  810-  828 (18.93/18.25)	NFKEFiKHQllgDIHIQIE
  853-  867 (28.70/13.57)	NFQKF.NHE...DSKIYIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.05|      14|      18|     911|     924|      10
---------------------------------------------------------------------------
  911-  924 (26.28/16.56)	DSRFELSMDNHYSS
  929-  942 (22.77/13.30)	DSRSSSSSSSSSSS
---------------------------------------------------------------------------




































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 MDP10049 with Med5 domain of Kingdom Fungi
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