<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 MDP01450

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNIFSLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHNELSSEENGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKIINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLGEEHLSLAQQSSSPLQVILSPYGLNGTLTSQAFKMSDHPTQKLIEEWRQFYPICPNLKEVPEEKMEDADWEDDSLAAVEVLVAGVRMVYPSCLVLLPLSDLPAVVPQGSANTPGMQSGAHQGQAAHRDSAMSSVTLTPPTSPEEAHTDYQPAQRWLKMSSGSDCYSSNNTLHGGKIPRRLSSQMVETVWQEYNINRAGNKRKFTTLTNGACEEEPDRSRLWDFVEPTHRPSCNCSRPKNQKQRSSSTSGYPPSSGQPPQPAAKHKLGEKLEKGEKQQRRPQTPFHHRNSVSEEQSMETQTQRLCPRPQEEGSYPSLHHADTAPPKAPSLHAHGPPADLVGSPPPPPLSPRPCDHVDGELTPSGAKNSSTPIHQAFYPPSVEPCLMPQKGSTEEPQPDSAAYPSNYNETLEPTLFTGSAIKPGEDSTHNPWKYFNLPRKKASSFLTPQLPVDKIRDDSSGGSETVVSVTELMCNSSRPLKVSQELVRTYAQRRNSHLGSSAGDGEHGDESDPYAFVDGDDEFRITEKRDKNGPEKDGNKKQKLDDGGMAATSDDGQGQSSCKPSASTSLIHEKDLVVSLSDLEKMFNSDEDEQEPGSKRAGTGNDDKTSLKEPKPERLDPLSSSDLMMMYPTPPSLDQNGYSPGNSGTKDGLETGAGLALLDSSQLSSHFKIEVEEGFCSPKPSEIKDFSFVYKPETCQSIIGCSMYAPLKTLPSQCLLPVKLPEDCVYTPSWTMGKMELMPPVSTVSLLTKDSNVPSVEPDYNQPFTPQTNTPFLPGSAPPSNSGPGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGEDQYPCTCGFSAVANRRFGQSAGLFLEDELDVVGRGSDAGRDTERRFEELRGSLKEKPPDELILLLQDQCTNPLAPMAGVEWPKPSAVTVAAPSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTSLHQWPKCKSADISKLYSQDVLRVLLSLQPALQDTIQKKAVRSWGVQGPLTWQQFHKLAGRGTYGTDESPEPLPIPTFLVGFEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYVIICPENQALLRGAKTFFKDLSVMYETCQLGQHKPICKSHPEGVLTVGSPEGRSTTEQPLSDWFLKMAARESNNEAFHKLKLFAQVCRYDLAPNLSELLLDSSLLSQRNPTKPAPQTSTSSSASSGLQSTNTTSINSSQPAQVNSTPPPSSSSSSSSSGSQTNGAMASGKPGSYMPFGSGGLQGSTTQNGPQQTNSQSTGGLGDSGSSQPQVSAETQESTMERDKVGKPTDGESHAVSYPPAIVVYIVDPFSYENADTEVHSSTYTLGLLRCFMEMLPFLPAHIRNAVSVQIVPCQYLLQPVHSGDRHIYSQHLKSLAFSVYTQCRRPLPNSTNFKALTGFGPGLALDMALKNPERPECLRLYTPSFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLESCIISIDVPNRARRKKSSARRVGLQKLWEWCVGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRTNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVINTNTSEPIEISFNHINPEEGMGLFELFVNDMDPELINILPNSPTTSPVHSPGHHYHHGEAGKGQGADRMESHEEALSILQQPMALGYFISTAKAGPLPDWFWSACPEAQNQCPLFLKASLHLHVSSVQSDELLHGKHSHPLDSNCTSEVLRFVLEQYNALSWLTCNPATQDRRSCLPVHFVVLTQIYNFIMNML
Length2108
PositionMiddle
OrganismPoecilia formosa (Amazon molly) (Limia formosa)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Poecilia.
Aromaticity0.07
Grand average of hydropathy-0.483
Instability index57.74
Isoelectric point5.66
Molecular weight231938.34
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
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

>MDP01450
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.21|      31|      32|    1439|    1470|       1
---------------------------------------------------------------------------
  809-  842 (39.18/15.26)	LSSSDLMMMYPTPPSlDQNGYSpgnSGTKDGLET.
 1439- 1469 (56.00/27.24)	LDSSLLSQRNPTKPA.PQTSTS...SSASSGLQST
 1474- 1501 (50.02/24.03)	INSSQPAQVNST.P..PPSSSS...SSSSSGSQ.T
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     110.99|      31|      33|     945|     976|       2
---------------------------------------------------------------------------
  530-  580 (26.70/ 6.08)	.....SPPPPPLSPRPcdhvdGeltpsgaknsstpihqafypP..S.VEP.CLMPQKGST
  960-  993 (45.49/18.85)	NTPFLPGSAPPSNSGP.....G..................ilP..SpATPrFSVP.TPRT
 1014- 1043 (38.80/12.33)	NSDLYSPASTPSTCRP...........................lsS.VEP.ATVPSIPE.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.60|      12|      35|     232|     243|       3
---------------------------------------------------------------------------
  232-  243 (25.48/18.03)	LIEEWRQFYPIC
  270-  281 (23.11/15.49)	LVAGVRMVYPSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     356.12|     111|     207|    1081|    1201|       4
---------------------------------------------------------------------------
 1081- 1201 (175.79/119.25)	ADVGVYLKDNGEDQYP...CTCGF..SAVANRRFGQSaglFLED.ELDVVGRGSDAGR..DTERRFEELRGSlKEKPPDelILLLQDQCtnPLAPMAGVEWPKPSAV.TVAAPSSflRVEERDCYNDCYM
 1285- 1404 (180.33/97.65)	AGRGTYGTDESPEPLPiptFLVGFeyDFVVLSPFGLP...YWEKlLLDPFGSQRDVGYviICPENQALLRGA.KTFFKD..LSVMYETC..QLGQHKPICKSHPEGVlTVGSPEG..RSTTEQPLSDWFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.84|      14|      36|      30|      45|       5
---------------------------------------------------------------------------
   30-   45 (23.99/22.77)	WRRFvwQGPTSSPI.LF
   69-   83 (24.85/14.09)	WRRH..HTPGRRELwLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     121.73|      34|      82|     683|     723|       6
---------------------------------------------------------------------------
  683-  719 (54.12/32.69)	SHLGSSAGDGEHGDESDPYAFVDGDDEfriTEKRDKN
  734-  753 (24.58/ 7.98)	GGMAATSDDGQGQSSCKPSA.................
 1537- 1565 (43.03/20.18)	....STGGLGDSGS.SQPQVSAETQES...TMERDKV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     131.69|      41|     280|     474|     523|       7
---------------------------------------------------------------------------
  417-  460 (72.63/32.40)	HRPSCNCSRP.KNQKQ....RSSSTSGYPP...SSGQPPQPAAKHKLGeklE
  475-  523 (59.06/46.13)	HRNSVSEEQSmETQTQrlcpRPQEEGSYPSlhhADTAPPKAPSLHAHG...P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.23|      44|    1057|     175|     222|       8
---------------------------------------------------------------------------
  175-  222 (67.55/55.65)	CTSVEIAQ..HQPLQRLgeeHLSL..AQQSSSPLQVILSpYGLNGTLTSQAF
 1234- 1281 (68.68/43.19)	CKSADISKlySQDVLRV...LLSLqpALQDTIQKKAVRS.WGVQGPLTWQQF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.34|      16|     207|     644|     666|       9
---------------------------------------------------------------------------
  644-  659 (28.03/29.05)	DDSSGG..SETVVSVTEL
 1211- 1228 (24.31/ 6.73)	DNMSGGkvDETLVKSTSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     158.68|      49|     207|    1668|    1716|      10
---------------------------------------------------------------------------
 1668- 1716 (84.98/45.57)	LPNSTNFKALTGFGPGLALDMA.LKNPERPECLR.LYTPSFILAPVKDKQT
 1868- 1918 (73.70/38.52)	MPDSVSTGSVFGRSTTLNMQTSqLSTPQDTSCTHiLVFPTSAMVQVINTNT
---------------------------------------------------------------------------




































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 MDP01450 with Med13 domain of Kingdom Metazoa
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