<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 MDP24729

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSHACNIRASINTRCFRVFVLAFAEITLHYSSEAAVMRVVDQKSYRLAASARFDWRSAECTASTIGDVHPDDESSNDTDTDREWLQKIVDDFSITLIPSPARNNGNKNNNIENNEDNKDDNKEDHNKVHVYGKGIGARFRVSLDTLIFDSSVSLENNVDTPNYTEQKHITNSRSDSEDRRARSVYGRTLKFSRNQSVWNLFCIHYTRLSVSPSRETKGPVTRHIFGPLNFCLEHNKFTEHINSIRSKCLQCKSWPDGKREKAIKASLERHQQAQNLAPMKVFIKECLDKLQHALRDNSIKVVVQRLEAITRNVGLKFYDNGNGTDCFISSDMFYVEVKMETNGKVSEVKVAHAGDPESCPELTRVLREGDYEEFACHLKGLSDLYELSGDTFQKSKILMALKAAEVDLNMISALSGPCDTSTDTILQCPVGFATPRQGGRLMRLTYFASPYDLLDRNNPGKNLEFSKDNNSIKGVVQRLEAITRNVGLKFYDNGNGTDCFISSDMFYVEVKMETNGKVSEVKVAHAGDPELNKPMPVAVESVQKIYSAIHETGIRYTVPSMRQWLQSKGIEEGDNIDTFYAVIPNHYHTYYLNNCDPQEVTNVSRNGVLIHRVPFTHPRHVPVIIKVHTHTLVMSMSLPRYIHTPSSCACRYQGNFVHSSKVPIHSLVIREQLRRQATYNTLLTSALRTHKPPPTIEGKSEHTFELSTSGTFTVTITFAHPCSVGMASIDFAVGEDSSILASLHTVPGQPVFCSNDYISRVMQRCLSIPATMRCLIRKAESFKPEELPVKTTEPAVLTPALTSATQPSVKLDRLSIPGNPFFTPSGPTTPGFFTASPTFASLALETPSPTLGAFPFSISPTMSSFTFTGSEMGAMNLESGSIKQPEKKLDTPKPPSTPKLTLTLKRKRADEYVVKDFQMPDDVPKPEKKSPEHPTTQPSSVGVVSESQMDVDGPGMIDEGMMEGMASNFDSSFMLGPGFADVSGSDSRTTMNIVSSMASIASTSGLGRGGDSGGDLFELSTGGTDGGDLEGILQSLPGASHLPPGIVSVGGGLDFDAGLGPGVHNIDVDPNFDIDAAIDADTSNDPSIAGVVASAGAFDVDSALDFDLDHITGTPGDLSVTSAGDHGTGLPEGLLSPEDAMGMDTGLGAHGD
Length1152
PositionMiddle
OrganismNematostella vectensis (Starlet sea anemone)
KingdomMetazoa
LineageEukaryota> Metazoa> Cnidaria> Anthozoa> Hexacorallia> Actiniaria> Edwardsiidae> Nematostella.
Aromaticity0.07
Grand average of hydropathy-0.359
Instability index46.14
Isoelectric point5.62
Molecular weight125853.13
Publications
PubMed=17615350

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

>MDP24729
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     298.51|      68|     171|     290|     357|       1
---------------------------------------------------------------------------
  290-  357 (139.58/111.81)	LQHALRDNSIKVVVQRLEAITRNVGLKFYDNGNGTDCFISSDMFYVEVKMETNGKVSEVKVAHAGDPE
  463-  530 (139.95/112.13)	LEFSKDNNSIKGVVQRLEAITRNVGLKFYDNGNGTDCFISSDMFYVEVKMETNGKVSEVKVAHAGDPE
  993- 1017 (18.98/ 7.37)	............IVSSMASIASTSGL.....GRGGDS..GGDLF........................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     141.42|      30|      30|     783|     812|       2
---------------------------------------------------------------------------
  783-  802 (25.24/ 9.38)	...................KPEELPVKT..TEPAVLTPALT
  803-  835 (39.56/19.04)	SATQPSVKLD...rlsipgNPFFTPSGP..TTPGFFT...A
  836-  863 (37.81/17.87)	SPTFASLAL.............ETPSPTlgAFPFSISPTMS
  864-  901 (38.81/18.54)	SFTFTGSEMGamnlesgsiKQPEKKLDT..PKPPS.TPKLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     151.60|      37|      53|     103|     139|       3
---------------------------------------------------------------------------
   67-   92 (34.90/18.84)	.......DVHPDD.ESSNDTDTDRE....WLQKIVDDF
  103-  139 (62.89/40.06)	NNGNKNNNIENNE.DNKDDNKEDHNKVHVYGKGIGARF
  156-  191 (53.81/33.18)	NNVDTPNYTEQKHiTNSRSDSEDRRARSVYGRTL..KF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     176.70|      40|      40|     583|     622|       4
---------------------------------------------------------------------------
  531-  563 (36.11/20.25)	.........LNKPMPVAVESVQKIYSAIHEtgIRYTVPSMRQ
  583-  622 (74.27/49.97)	IPNHYHTYYLNNCDPQEVTNVSRNGVLIHR..VPFTHPRHVP
  625-  663 (66.33/43.78)	IKVHTHTLVMSMSLPRYIHTPSSCACR.YQ..GNFVHSSKVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     153.63|      30|      68|     955|     984|       5
---------------------------------------------------------------------------
  950-  977 (41.94/23.77)	...DV.DG....................................pGMIDEGMMEGMASNFDSSFMLG.P
  978- 1044 (32.59/16.66)	GFADV.SGsdsrttmnivssmasiastsglgrggdsggdlfelstGGTDGGDLEGILQSLPGASHLP.P
 1045- 1061 (31.61/15.91)	GIVSV.GG.....................................G.........L..DFDAG..LG.P
 1096- 1115 (28.25/13.36)	GAFDV.DS................................................ALDFDLDHITGtP
 1116- 1135 (19.23/ 6.50)	GDLSVtSA.....................................GDHGTGLPEGLL............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.78|      17|     229|     692|     710|       8
---------------------------------------------------------------------------
  692-  710 (29.21/22.55)	PPPtiEGKS.EH.TFELSTSG
  924-  942 (24.57/12.29)	PKP..EKKSpEHpTTQPSSVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.48|      25|      30|     390|     419|       9
---------------------------------------------------------------------------
  378-  408 (35.44/28.22)	LKGLSDlyelsgDTFQKSKI..........LMALK..AAEVDL
  414-  453 (30.04/11.94)	LSGPCD...tstDTILQCPVgfatprqggrLMRLTyfASPYDL
---------------------------------------------------------------------------




































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 MDP24729 with Med1 domain of Kingdom Metazoa
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