<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 MDP28015

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMRPIERLLHLSNRRNVSDKQFLHLFKQLDGKTPVTAGEFVDLLEDSSNERYLTVVSLIKLNSFWKAVAKLPTNQQVRILRKYHLKIHLITDVEAFLPIFVEYSEHVLDQNNEELLNELIFNWGTLISKFSLKDKEVVKVFVTKLMSFLNANNYTKQFEYCSNKFTTSKQNLTIQPRLNNLNLNVNSKNHSSYESIKIFFYFNEMFKSYQVPDNEKLFKNFNEVFKGDCYKLIYSMFNGIYLSEQAKQPSFVKNNWLNFLSSRVPKLILLYKVDNLEDTINKAFENFDNFDKINTNLKQYFIKSLIFNKILSIKSFHRFFPNEGKVNQQTLIHEMSNVNSSENFQDNLNDKLYSINCEFISIDESNLMEYLDTTINKVEFSMQKQVDLISTMKNMMDLLVDEQSLEKLNRLLLILLKSPKLFQVFMFNLSDREIIFKLIKLLDNDSFKLNDNNEGSFQEFFSYFGVLLLFIMQCSEYINMDFNMKNSFTSTYLHNYNLNYTNLTPVFNEEVENDKTIASNYNSLINDWINSLFDEAEGLSDDLIKSIDVKQVYQLIPLIYQQAVIAFINGKINLKILNNGLDYLSQNFLLPCSVSIVKWILSKISLKNKNLNNYLTVLKEIMKIISKVKDESSNELKLTAEVVLNFIIQLAVSELRYLNIPGNLINNDMLTEQIRLSEAPAKVNSLCFEVFETNLIKALNGNEADFELINYYVYSSDSMIKDLLITLNTSNTSIKTNNENLKLVIDFVIFINLNRTIKSEPVKQFWINKFSSLKIDTSKYDFNTTFEKNIDYHFSTIFNVDGNDDGNEDLEEGNADELFEPISFDYCLNEMAKASNDLTEFLYIVQRFQDLSENKSFLSSINLIHTKLLNDLKSFQC
Length876
PositionTail
OrganismCandida tenuis (strain ATCC 10573 / BCRC 21748 / CBS 615 / JCM 9827 / NBRC 10315 / NRRL Y-1498 / VKM Y-70) (Yeast) (Yamadazyma tenuis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Yamadazyma.
Aromaticity0.12
Grand average of hydropathy-0.216
Instability index20.63
Isoelectric point5.30
Molecular weight102361.91
Publications
PubMed=21788494

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

>MDP28015
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.13|      22|      23|     768|     790|       1
---------------------------------------------------------------------------
  768-  790 (33.51/23.87)	KFSSL.KIDTSKyDFNTTFEK.NID
  792-  815 (30.62/16.19)	HFSTIfNVDGND.DGNEDLEEgNAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.02|      28|      32|     554|     583|       2
---------------------------------------------------------------------------
  554-  583 (43.65/30.51)	LIPLiyQQAVIAFINGKINLK..ILNNGLDYL
  588-  617 (44.38/24.57)	LLPC..SVSIVKWILSKISLKnkNLNNYLTVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.05|      13|      15|     844|     856|       3
---------------------------------------------------------------------------
  844-  856 (22.11/12.31)	VQRFQD..LSENKSF
  860-  874 (16.95/ 7.68)	INLIHTklLNDLKSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     530.81|     114|     116|     194|     307|       4
---------------------------------------------------------------------------
   75-  183 (113.83/52.11)	QVRIL..RKYH.............L..KIHLITDVEaflPIFVEYSEhVLDQNNEELLNELiFNwGTLI......SKfSLKDKEVVK....VF....VTKLM........SFLNANN....Y..TKQFEYCSNkFTTSKQN.L......TiQPRLNNLNLN
  194-  307 (195.44/94.85)	SIKIF..FYFNE...........MF..KSYQVPDNE...KLFKNFNE.VFKGDCYKLIYSM.FN.GIYL......SE.QAKQPSFVKNNWLNFLSSRVPKLI........LLYKVDNLEDTI..NKAFENFDN.FDKINTN.L......K.QYFIKSLIFN
  311-  427 (98.77/44.23)	SIKSFhrFFPNEgkvnqqtliheM.....SNVNSSE...NFQDNLND.........KLYSI..N.CEFI......S........IDESNLMEYLDTTINKVEfsmqkqvdLISTMKNMMDLLvdEQSLE.......KLNRL.LlillksP.KLF.QVFMFN
  433-  533 (122.77/56.80)	...II..FKLIK...........LLdnDSFKLNDNN...E..GSFQE.FF.........SY.F..GVLLlfimqcSE.YINMDFNMKN...SFTSTYLHNYN........LNY..TNLTPVF..NEEVEN.DK.TIASNYNsL......I.NDWINSL.FD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      71.51|      16|      20|     730|     748|       5
---------------------------------------------------------------------------
  709-  724 (24.13/14.46)	NYYVYSSDSMIK...DLLI
  730-  748 (21.86/20.99)	NTSIKTNNENLKlviDFVI
  753-  766 (25.53/15.80)	NRTIKS..EPVK...QFWI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.72|      28|     582|      44|      73|       6
---------------------------------------------------------------------------
   44-   73 (43.27/38.62)	EDSSNEryLTVVSLIKLNSFWK.AVAKL.....PTN
  629-  662 (36.45/24.31)	DESSNE..LKLTAEVVLNFIIQlAVSELrylniPGN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.00|      15|      15|      10|      24|       7
---------------------------------------------------------------------------
   10-   24 (25.08/17.79)	LSNRRNVSDKQFLHL
   28-   42 (24.92/17.63)	LDGKTPVTAGEFVDL
---------------------------------------------------------------------------




































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 MDP28015 with Med5 domain of Kingdom Fungi
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