<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 MDP05498

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMFCHGTTNDSSTNALMEKLHLKYRQRPWTETLKLVHFCMDKPRQPDSNAPDGPLLSCMEKIQRMINAKPLFSVMNRLESLAKQKGLNAHVSPSGTTCYITSNMFYVEVQLEMDGKVVDVKLAHLGDAPVVCDDMAQHLSDMKAKGYHALQALEKDLYSMSLLHRFPGIQITALKLAPLYELIVQSTLKEKGSEDVSTYKSHFFVSLPGCPKHCYFINNGSEKSDSSGALVSKIPFSHPQCVPDVIEILRHQVAYNSLISSCVSDKHINEVTINIITSREIQCHLHLNPQDPTLDSSDDFITRAVKRCMSVPVVMRAIFRNAAKVKAARETQDVKADKKQKPEPPCEQVTHSDSPEDSHSVAGQQDLVVTHKPSITDSPKENLSTAKPETLGDNTEKSNPTVSTEALCGAEESNSTASTEAVMTDKKNTQSIV
Length432
PositionMiddle
OrganismAmazona aestiva (Blue-fronted Amazon parrot)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Psittaciformes> Psittacidae> Amazona.
Aromaticity0.05
Grand average of hydropathy-0.410
Instability index41.97
Isoelectric point6.41
Molecular weight47805.97
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

>MDP05498
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.19|      29|      39|     349|     377|       1
---------------------------------------------------------------------------
  349-  377 (49.15/28.68)	THSDSPEDSHSVAGQQDLVVTHKPSITDS
  389-  417 (47.04/27.19)	TLGDNTEKSNPTVSTEALCGAEESNSTAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.29|      15|      18|      53|      70|       4
---------------------------------------------------------------------------
   56-   70 (27.63/20.47)	SCMEKIQRMINAKPL
   72-   86 (21.66/ 6.77)	SVMNRLESLAKQKGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.48|      13|      32|       2|      14|       5
---------------------------------------------------------------------------
    2-   14 (24.51/15.33)	FCHGTTNDSSTNA
   37-   49 (25.98/16.67)	FCMDKPRQPDSNA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.41|      17|      25|     189|     207|       7
---------------------------------------------------------------------------
  189-  207 (26.38/20.59)	EKGSEdvSTYKSHFFVS.LP
  217-  234 (25.04/13.20)	NNGSE..KSDSSGALVSkIP
---------------------------------------------------------------------------




































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 MDP05498 with Med1 domain of Kingdom Metazoa
Unable to open file!