<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 MDP12025

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMVGSKSFISDLHSKYAEKTWNETFKLVRRCMDKSRGDTKPCEPLIRCLKILHESLNVLSLSAMASRLEIIAKQRGMGSHLSPTETTCYLTADMFYLEVLLLPGGEVEDVKLAQHGEAPVSSESLLQLLKSKKFEEFSVKLKGLSSLYNIPGDNETKIKVYTALQFLGKDLQKISHLPRALREYNLQVDMILNGRIGYLLAGSEGIPMTIQYYISPSDILLMSDSERCSVGQLALVTVGPTDCTHKLQMASVIPQPPQLDAQGLPLFSPLCEVLSGMMPACFQLKLQPPLPMLSSFVEKLSQITDVAIADTDLQWAPFPQLMMTLRENGGDKTWDGQDAHFLVPLPGREMHSYVLPGAAWEEAALRGALVSTIPFTHPAHVPALLELLRHQCAINTLLASCITSHRPSPGPVCDLYCEVLPESGSSLSVTFHLSDSDSLSVLLVNVADSQKLTCSLFAVRSEDQSMDEYVSRVLKRCMSIPVTMRALNRRLSKRTCGEPLPACSSTVSTADGSPASPPLPMSCEADSQKRDCPGLESIGIPTTPSTAAMFSQDAMGPDATPMEAESAFCLSVTEVNTNPTVNPYPSASVCVYSHWMHNNHLPEFI
Length604
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.06
Grand average of hydropathy-0.042
Instability index53.45
Isoelectric point5.56
Molecular weight66091.58
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

>MDP12025
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.12|      18|      26|     252|     274|       1
---------------------------------------------------------------------------
  262-  284 (23.43/15.86)	GLPLfspLCEVLSgmMPACFQLK
  517-  535 (30.69/ 8.88)	PLPM...SCEADS.qKRDCPGLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.80|      21|      26|     361|     381|       2
---------------------------------------------------------------------------
  361-  381 (36.63/17.98)	EAALRGALVSTIPFTHPAHVP
  390-  410 (39.17/19.65)	QCAINTLLASCITSHRPSPGP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.03|      12|      24|     556|     568|       5
---------------------------------------------------------------------------
  556-  568 (18.37/12.82)	PDATPMEAESAfC
  578-  589 (23.66/11.68)	PTVNPYPSASV.C
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     152.02|      42|     257|     212|     256|       7
---------------------------------------------------------------------------
  212-  256 (68.80/47.47)	YISPsdILlMSDSERC...SVGQLAL......VTVGP..TDCTHKL..QMASVIPQPP
  432-  463 (33.24/14.20)	.........LSDSDSL...SV...LL......VNV....AD.SQKLtcSLFAVRSEDQ
  468-  516 (49.98/25.87)	YVSR..VL.....KRCmsiPVTMRALnrrlskRTCGEplPACSSTV..STADGSPASP
---------------------------------------------------------------------------




































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 MDP12025 with Med1 domain of Kingdom Metazoa
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