<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 MDP25750

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceSNKDEKSEELSALMQRLRTKSAQIKSWSDTSKLVRSAMDKRAVDNMDHSRLRKCINALQKALKVTTLPSMVERLDSVARQVGLNFKVSSSGHECCISSELFYVEIRLDTSGGVQDVRVAHHGSESQGCLEMLRVLRNGDFKEFVGHLKGLLNIYRIPGDSKIKMRTYQTLLCMESDLTKMADAYKMSGGRGDPMTQIQKGIVGYVIPRQGGHPMQLKCFISPYDMLNVEREKSETIHDNVPRDVGQSVNVVLEGSTSHKLQTQPLFAGINPPQHDSKGSPAFAGINNNNMMLLPACFSLVPPSPIPLSISTIKRIHSATGILCGDEGKAVPMNRLVTQNVMEAKGIADMDNNNGRNKLFHVTLPDQHHSYYINDAPDLKGVLVSKIPFTHPACVPRVLEALRQQTVYNTLITSCVRKGCEEAKENAQLFEVNTTSPTGISVTFEHPVQESMACLEIDLADPNHVKCKVHIPAGDAPVCTDEYATMVMNRCLSIPVLMRAIARHA
Length504
PositionMiddle
OrganismBranchiostoma floridae (Florida lancelet) (Amphioxus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Cephalochordata> Leptocardii> Amphioxiformes> Branchiostomidae> Branchiostoma.
Aromaticity0.05
Grand average of hydropathy-0.286
Instability index41.27
Isoelectric point8.41
Molecular weight55687.56
Publications
PubMed=18563158

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	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

>MDP25750
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.67|      27|      92|     265|     306|       1
---------------------------------------------------------------------------
  265-  301 (42.53/35.76)	LFAGINPPQHDS...KGSPAFAGInnnnmmlL........PACfslVP
  358-  395 (42.14/12.60)	LFHVTLPDQHHSyyiNDAPDLKGV.......LvskipfthPAC...VP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.61|      13|      73|     139|     155|       3
---------------------------------------------------------------------------
  127-  141 (19.64/17.40)	GCLE.MLRVLR.ngDFK
  145-  161 (13.97/ 7.83)	GHLKgLLNIYRipgDSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.58|      13|      18|     191|     204|       4
---------------------------------------------------------------------------
  191-  204 (21.46/18.20)	GDPMtQIQKGIVGY
  211-  223 (28.12/18.72)	GHPM.QLKCFISPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.45|      19|      93|     323|     346|       5
---------------------------------------------------------------------------
  323-  341 (35.37/30.88)	CGDEGKAVPMNRLVTQNVM
  478-  496 (36.08/18.88)	CTDEYATMVMNRCLSIPVL
---------------------------------------------------------------------------




































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 MDP25750 with Med1 domain of Kingdom Metazoa
Unable to open file!