<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 MDP06879

Description Mediator of RNA polymerase II transcription subunit 15
SequenceMGASGQMITATMARGGMQIRPRFPPTTAVSATPPSSIPLGGQQMPQVSQNNITMMSSPSPVQQAQTPQSMPPPPQPQPSPQPGQPTSQPNSNVSSGPAPSPSSFLPSPSPQPSQSPAAARTPQNFSVPSPGPLNTPGNPNSVMSPASSNQSEEQQYLDKLKQLSKYIEPLRRMINKIDKNEDRKKDLSKMKSLLDILTDPSKRCPLKTLQKCEIALEKLKNDMAVPTPPPPPVPPTKQQYLCQPLLDAVLANIRSPVFNHSLYRTFMPAMTAIHGPPITAPVASPRKRKYEEDERQTIPNVLQGEVARLNPKFLVNLDPSHCSNNGTVHLICKLDDKNLPNVPPLQLSVPADYPDQSPLWIDNPRQYANPFLQSVYRYMTSKLLQLPDKHSVTALLNTWAQSIRQACLSAA
Length411
PositionTail
OrganismAlligator mississippiensis (American alligator)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Crocodylia> Alligatoridae> Alligatorinae> Alligator.
Aromaticity0.04
Grand average of hydropathy-0.596
Instability index84.23
Isoelectric point9.50
Molecular weight44901.96
Publications
PubMed=22293439

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

>MDP06879
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     156.58|      28|      28|      74|     101|       1
---------------------------------------------------------------------------
   30-   54 (40.35/ 9.69)	SATP.P.....SS.......I.PLGGQQMPQ.VSQNNITM
   55-   93 (44.89/11.61)	MSSPSPvqqaqTPqsmpppPQ.PQPSPQPGQPTSQPNSNV
  117-  143 (32.81/ 6.50)	..AAAR.....TP......QNfSVPSPGPLNTPGNPNSVM
  223-  244 (38.53/ 8.92)	MAVPTP......P......PP.PVP.PTKQQYLCQP....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.53|      14|      22|     306|     319|       2
---------------------------------------------------------------------------
  306-  319 (24.62/10.98)	VARLNPKFLVNLDP
  331-  344 (26.92/12.60)	ICKLDDKNLPNVPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.95|      28|     203|     145|     179|       3
---------------------------------------------------------------------------
  145-  173 (43.15/35.53)	PASSNQSEEQQYLDKLKQLSKYIePLRRM
  182-  209 (46.80/22.06)	DRKKDLSKMKSLLDILTDPSKRC.PLKTL
---------------------------------------------------------------------------




































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 MDP06879 with Med15 domain of Kingdom Metazoa
Unable to open file!