<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 MDP16285

Description Mediator of RNA polymerase II transcription subunit 16
SequenceMQPSFAGTPFAFTAIASCKNADTKEEREIFIPQVHIIDPDRPWERYSNTGDHKDPITLLEWESTGTRLLSGDAGGRIVLWQMKNHMLNDWSCSTETHISGEPIVATSWLHGVSKLYFDVDNIECPNWLEVFKHIPFQPSLKLHGSSHAEGWIAVTTQGMVTVKLLNLKGESEVSQRLSQTRPIHVAVADIAFQSSGHILIAVADGSTRLPVHVFRITLKWERNPTISHLKFLNKECMKPQIGSRATEQLVVCASGSNGSCIEICTLEKEPNPLNIPQVFQSTQMNRDKTSSQLVWMHRASHTDISTVSAIAMPRLPLNLSSKIYNGPGMCLAVTNVDGTIKLLHRLTLRLCDAFKYEKVKPDSQGKRQKVLQGKHVVCMEMSNSCCALMGVDRAGSVCLFRIRPMLGQSVDQGALRAHTISVVVNLFVYCLVTGFDQWDVILRVTPNMVEAILDKLTNGFKNQPKATQELLMMKFMSTRAALYR
Length484
PositionTail
OrganismStichopus japonicus (Sea cucumber)
KingdomMetazoa
LineageEukaryota> Metazoa> Echinodermata> Eleutherozoa> Echinozoa> Holothuroidea> Aspidochirotacea> Aspidochirotida> Stichopodidae> Apostichopus.
Aromaticity0.07
Grand average of hydropathy-0.124
Instability index40.13
Isoelectric point8.68
Molecular weight54066.00
Publications
PubMed=29023486

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

>MDP16285
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     186.81|      45|      45|     240|     284|       1
---------------------------------------------------------------------------
  199-  237 (38.97/22.26)	............LIAV..ADGSTRLPVHVfrITLKWERNPTIS.HLKFLNKEcM
  240-  284 (78.16/51.67)	QIGSRA...TEQLVVC..ASGSNGSCIEI..CTLEKEPNPLNI.PQVFQSTQ.M
  288-  329 (51.72/31.83)	KTSS.......QLVWMhrASHTDISTVSA..IAMPR..LPLNLsSKIYNGPG.M
  363-  386 (17.95/ 6.48)	SQGKRQkvlQGKHVVC..MEMSNSCC............................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.95|      22|      45|      55|      99|       2
---------------------------------------------------------------------------
   35-   61 (29.40/44.75)	HIIDpDrpWERYSNTGDHkdPITLLEW
   85-  108 (38.55/11.20)	HMLN.D..WSCSTETHISgePIVATSW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      86.61|      21|      22|     140|     160|       4
---------------------------------------------------------------------------
  109-  135 (19.81/ 8.76)	..LHGVSKlyfdvdnieCPNWLEVFKH.IP
  140-  160 (35.79/21.05)	LKLHGSSH.........AEGWIAVTTQGMV
  165-  185 (31.01/17.37)	LNLKGESE.........VSQRLSQTRPIHV
---------------------------------------------------------------------------




































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 MDP16285 with Med16 domain of Kingdom Metazoa
Unable to open file!