<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 MDP01831

Description Mediator of RNA polymerase II transcription subunit 16 (Fragment)
SequenceDLTHMVHIIDTEHPWDVYSVNSGHTEVITCLEWDQSGSRLLSADADGHIKCWSMTDHLANSWESTVGSVVEGDPVVALSWLHNGVKLALHVEKSGASNFGEKFSRVKFSPSLTLFGGKPMEGWIAVTISGLVTVSLLKPNGQVLTATESLCRLRCRVALADVAFTGGGNIVVATSDGSSTSPVQFYKVCVSVVNEKCKIDTEILPSLFMRCTTDPARKDKYPAITHLKFLARDMSEQVLLCASNQNNSIVECWSLRKEGLPVNNIFQQISPVVGDKQPMILKWRILSATNDLDRVSAVALPKLPISLTNTDLKVANDTKFFPGLGLALAFHDGSVHIVHRLSLQMMAVFYGSSSQRPVDEPSLKRPRTAGPLVHFKAMQLSWTSLALAGVDSHGKLSMLRISPSMGHVLDMNMSLRHLLFLLEYCMVTGYDWWDILLHVQPSMVQNLVEKLHEEYMRQNAALQQVLSTRIVAMKASLCKLSSSTIARVCDYHAKLFLIAISCTLKSLLRPHFLNTPDKSPGDRLTEICSKITDVDIDKVMINLKTEEFVLEMTTLQSLQQLIQWVGDFVLYLLASLPNQGSPVRPGHSFLRDGASLGMFRELMVVIRIWGLLKPSCLPVYTATSDTQDSMSLLFRLLTKLWLCCREENHITEPDDALIDECCLLPSQLLIPNIDWLPINDGIISKLQNKQLVRLQFGKAPGLVGHTVSSQFDAFVRAPGQPKIDHLRRLHLGAYPTEECKSCTRCGCVTMLKSPNKVTAVKQWEQRWIKNCLCGGLWRKMPLSYS
Length785
PositionTail
OrganismManacus vitellinus (golden-collared manakin)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Passeriformes> Pipridae> Manacus.
Aromaticity0.07
Grand average of hydropathy0.039
Instability index46.61
Isoelectric point8.20
Molecular weight87400.76
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
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP01831
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     152.59|      48|     200|      31|      80|       1
---------------------------------------------------------------------------
   31-   80 (81.97/66.04)	LEWDQSGSRLLSADADGH..IKCWSM.TDHL.ANSWESTVGSVVeGD..PVVaLSW
  230-  283 (70.62/47.74)	LARDMSEQVLLCASNQNNsiVECWSLrKEGLpVNNIFQQISPVV.GDkqPMI.LKW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.45|      24|      33|     582|     609|       2
---------------------------------------------------------------------------
  582-  609 (36.12/41.16)	PVRPGHSFLRDGASLgMFRelmVVIRIW
  618-  641 (43.33/31.90)	PVYTATSDTQDSMSL.LFR...LLTKLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     197.72|      62|     362|     300|     365|       3
---------------------------------------------------------------------------
  300-  365 (93.66/73.09)	LPKlPISLTNTDLKVAND...TKFFPGLGLALAFHDGSVHIVHRLSLQMMAvFYGSSSQRPVDEpsLKR
  664-  728 (104.07/65.74)	LPS.QLLIPNIDWLPINDgiiSKLQNKQLVRLQFGKAPGLVGHTVSSQFDA.FVRAPGQPKIDH..LRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     160.27|      38|      97|     372|     409|       4
---------------------------------------------------------------------------
  372-  409 (66.48/44.81)	LVHFKAMQLSWTSL.......ALAGV.DSHGKLSMLRISPSMGHVL
  411-  447 (40.32/24.17)	......MNMSLRHLlflleycMVTGY.DWWDIL..LHVQPSMVQNL
  470-  508 (53.47/34.55)	IVAMKASLCKLSSS.......TIARVcDYHAKLFLIAISCTLKSLL
---------------------------------------------------------------------------




































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 MDP01831 with Med16 domain of Kingdom Metazoa
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