<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 MDP28892

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMQHFYIIAINSGLHILDIFWPKLLLRRFDLKLQTHTEARSSIVRIAHDTMTVSIEHESIYSLGIKCEERDIPSIEFLNLYKEFYNEKFSQNIENEESDSNINTEAEVASVISDDFIKLLNSRKSLILADYAVEVLFVNYNSTLIEAFMPKLNLIDESMMLIHFLSKICLFFTKLTDRLVIDQLNKDLSQIIIPSILNADTNTSSNELIVCLCKVLQASIKFSASPIVISSNSSRESFHSLMNRLSKINRLLYKTMQHSVDMKLLFKGAGHFPKDTTREFVNSPTITSPNFVASPLSTMKTPMSSSAGSISVVKYKDMKLLRYYKNLWLNNKLLKWEPVDSDFLMRYASISGTLFQETAASLQNSDAILTDLIETSFTCFAQFVSNKQYHQTNANMNVLERQWIIFISKHLPLLILEHSSRNPQVVTNAMEKIDAKVIKVIRNYYSEKDDMKNRNEDLFDDFSSTCFDLRHDFIKSLIMLKLQPASYINEFLRDDQVVDPNSLPISDDLIIVTAQGVQETVHDIPSFVSQSIDSLELQMIIRPKTESYSNGLYQVLCSFESIPPTQQRKISKTILDLLTNSIEVQNYGRIAKIYGILFFNFSHSLTYVLSFCSPKMFAEVTMKFIDFSQQNTELTKKEPSEDSEEYNNISLSLSWALLLLILLVQDYNVSLRDVAYISNELTINNSFSISFISSLSDIPDDYKINNNQQFNLDSVKLIQNWLSDLFINGSISDTLLQKTDVKQLSTLIPFIFKQVMLALEIGFVTDINQIVGGLEYFLQPFMLASLIKISYWLEQYLLYLKDDKNKEKLLDMVFVILNSLFNPNTLNEDSQAFHVAVLKINAVSLLKTFRKFGTPKQSSYGVYSSDLQEQPALNSIINKLVSVLNVSPFYNVDQRVINSENMYSERKPLGYHEFLIVNENPINKIMTNQINSFWNLHSSTYYNLDYLREVINIVTPKVFLYDVLQTLDYKLTTYGVPAARNKMAAIESDHVFDYFFYFLVLYDCESHVEALNMIRLFEDENEGNITGTDYAALQKDEKNIPQLEEPQVKQDADDDFDMLFGENDTSTHVPDEDLKIISLEHESKNQKLKNLYISKRDSFGIIIHEARKSKETAFKDGIITKEEYERFFRYYKKYLSALKNVCILNKLLT
Length1148
PositionTail
OrganismKazachstania africana (strain ATCC 22294 / BCRC 22015 / CBS 2517 / CECT 1963 / NBRC 1671 / NRRL Y-8276) (Yeast) (Kluyveromyces africanus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Saccharomycetaceae> Kazachstania.
Aromaticity0.11
Grand average of hydropathy-0.133
Instability index38.81
Isoelectric point5.31
Molecular weight132370.01
Publications
PubMed=22123960

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:EnsemblFungi

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

GO - Biological Process
histone H3 acetylation	GO:0043966	IEA:EnsemblFungi
regulation of transcription by RNA polymerase II	GO:0006357	IEA:EnsemblFungi
transcription by RNA polymerase II	GO:0006366	IEA:EnsemblFungi









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28892
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.82|      41|      59|     220|     266|       1
---------------------------------------------------------------------------
  220-  266 (63.82/61.34)	KFSASPIVISSNSSRESFHSLMNRLS....KINRLLYKtmqhsvDMKLL..FK
  278-  324 (61.99/44.50)	EFVNSPTITSPNFVASPLSTMKTPMSssagSISVVKYK......DMKLLryYK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.95|      34|      59|     721|     756|       3
---------------------------------------------------------------------------
  721-  756 (51.30/33.07)	LSDLF.INGSISDTLLQKTDVKQLSTLIPFIFkqVML
  782-  816 (52.65/28.48)	LASLIkISYWLEQYLLYLKDDKNKEKLLDMVF..VIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.83|      25|      49|     867|     892|       6
---------------------------------------------------------------------------
  867-  892 (40.38/30.63)	QEQPaLNSII.NKLVSVLNV..SPFYNVD
  917-  944 (39.45/24.92)	NENP.INKIMtNQINSFWNLhsSTYYNLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      60.18|      16|     181|     150|     165|       7
---------------------------------------------------------------------------
  123-  138 (20.78/10.77)	KSLILAD.YAVEVLFVN
  139-  155 (20.81/10.79)	YNSTLIEaFMPKLNLID
  156-  169 (18.59/ 8.84)	ESMMLIH.FLSKICL..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     158.32|      51|      60|    1002|    1054|       8
---------------------------------------------------------------------------
 1002- 1054 (79.05/52.37)	DCESHV..EALNMIRLfEDENEGNITGTDYAAlQKDEKNIPQLEEPQVKQDADDD
 1063- 1115 (79.26/44.35)	DTSTHVpdEDLKIISL.EHESKNQKLKNLYIS.KRDSFGIIIHEARKSKETAFKD
---------------------------------------------------------------------------




































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 MDP28892 with Med5 domain of Kingdom Fungi
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