<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 MDP25000

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMVTNESASHDLCAAGLQRKFFVKVNNLKTQLTVTVSDWAVVCCTFYCSMTAMFTDSLTQVHPFAENNFNQIHANFKNSIANMKQHLDNILQMDNSSRILLLCQDKFQQQENCKYIKSYLRNIIESLGVHSSASDTDYIPYLEIIARSANLKFVHHGDNCFISSDMFYVEITLKNHKEVTEVKVVHGEDPKVTPVMTDLLRKRQFQEFKKHLLGLSSLYQLFGTSTEKSLAFMALQAVETDLSTLAAYQNLSGQNNPMEIINKGYVGHVTEREGGLPMKLTFYISPKDMFDNNTSEKINLEDAIIKGRAIGFSASVLIEQGKKCLLPKLPVVVLPTQVTDVPSYKKLCNENSAELPASFVLVFDDFIPVDASIMAKIYKIVKGQDKVYINSSSATIEDLLASNFREEKAKNGFHRNRNSSFVVKLPDQKQKYVFCKSLDSVPLGTLNVKRIPFLNPQQVPRIITLLRQQIVFNELISSCVCGQPNDLRDDEVGITTFEVITFPPNLLCLTFQHPLSDFLMSVYVVICLLCLYEIWTNGRLPQFALLCFSCLSIPVTLRAILRKSVSYSANQQGDSHDIAIPSSAGSTDAENQVMQFSNILSPTTSLSMKLTDAVEQNPTKRKRNDSEIEEANVNDFGQESAVRVVEAGTGSVTETKSASNDNNEIETPPAKVFIEDTDVMESPIVGETEYSKMSEMNDKPEDENNHEPEPVVENIVTSAIEEPADARVVSELEAFVHNTVHDSPSTLSKDPATYLQTVDLSNTTAESNSEPINDVSIPESDRDEIDRLPNPASIGEMDSDGNIMITSIDEVITGSIPSVEDSMVATSDPGMEGADLLSAISDLAGSGSVNLEKSDDPSSLPSINDPTISKLLGLSREDETELDEEMIAGAEQNLLGLASYNSPEMDDSFAQIGSIIGEPDKELEEEENN
Length928
PositionMiddle
OrganismTrichoplax adhaerens (Trichoplax reptans)
KingdomMetazoa
LineageEukaryota> Metazoa> Placozoa> Trichoplacidae> Trichoplax.
Aromaticity0.06
Grand average of hydropathy-0.252
Instability index45.12
Isoelectric point4.60
Molecular weight102674.56
Publications
PubMed=18719581

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. 
ECO:0000256	RuleBase:RU364059
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP25000
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.79|      37|      41|     643|     682|       1
---------------------------------------------------------------------------
  643-  682 (56.56/45.68)	VVEAGTGSVTETKSASNDNNEIETPPAkvfIED..TDVMESP
  684-  722 (60.23/40.08)	VGETEYSKMSEMNDKPEDENNHEPEPV...VENivTSAIEEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      65.42|      14|      20|     870|     883|       2
---------------------------------------------------------------------------
  870-  883 (22.22/10.85)	LLGLSREDETELDE
  893-  906 (22.72/11.24)	LLGLASYNSPEMDD
  911-  924 (20.47/ 9.48)	IGSIIGEPDKELEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.01|      29|      43|     793|     823|       3
---------------------------------------------------------------------------
  793-  823 (44.59/31.37)	IGEMDSDGNIMITSIDEviTGSIPSVEDSMV
  839-  867 (48.42/28.35)	ISDLAGSGSVNLEKSDD..PSSLPSINDPTI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.05|      15|      19|     516|     530|       4
---------------------------------------------------------------------------
  516-  530 (27.42/19.08)	DFLMSVYVVICLLCL
  536-  550 (27.63/19.29)	NGRLPQFALLCFSCL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.45|      10|     227|      44|      53|       5
---------------------------------------------------------------------------
   44-   53 (22.12/14.72)	TFYCSMTAMF
  280-  289 (21.33/13.93)	TFYISPKDMF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.03|      16|      18|     565|     580|       7
---------------------------------------------------------------------------
  565-  580 (29.44/20.56)	SYSA.NQQGDSHDIAIP
  585-  601 (23.59/14.92)	STDAeNQVMQFSNILSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.20|      13|      16|     440|     452|       8
---------------------------------------------------------------------------
  440-  452 (23.85/13.68)	VP.LGTLNVKRIPF
  458-  471 (18.35/ 9.13)	VPrIITLLRQQIVF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.46|      12|      44|     105|     117|       9
---------------------------------------------------------------------------
  105-  117 (19.59/15.16)	KF.QQQENCkYIKS
  151-  163 (20.87/11.17)	KFvHHGDNC.FISS
---------------------------------------------------------------------------




































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 MDP25000 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGSGSVNLEKSDDPSSLPSINDPTISKLLGLSREDETELDEEMIAGAEQNLLGLASYNS
2) ARVVSELEAFVHNTVHDSPSTLSKDPATYLQTVDLSNTTAESNSEPINDVSIPESDRDEIDRLPNPASIGEMDSDGNIMITS
3) LTDAVEQNPTKRKRNDSEIEEANVNDFGQESAVRVVEAGTGSVTETKSASNDNNEIETPPAKVFIEDTDVMESPIVGETEYSKMSEMNDKPEDENNHEPEPVVENIVTSAIEEPA
843
725
609
901
806
723










Molecular Recognition Features






MoRF SequenceStartStop




1) DRLPNPASI
2) DSFAQIGSIIGEPDKELEEEENN
3) PTISKLLGLSREDETELDEEMIAGAEQNLLGLASY
785
906
865
793
928
899