<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 MDP11969

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFIRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLMDKDFVRIGKWFVKPYDLEEKHMGTSEHLSCSFTFFLHGESNVCTSVEVAQHQPAYHITDDHTRLAQISSAPVQVILSPYGLAGSLTGQAYKMSDPAVRKLMEEWSYFYPMVLQRHREGGAGTGGMGAEREGTDRPYDPHSHVAVEVIVGGVRMIYPAAFVLVAQGDLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTTVSSVLPAQESAMGVTNSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGPREREAGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALKRLFMQTQKRFKISEACVREHIQTLGLLHQPGDPGDDPYDFKEGDIEYSFPTSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETDLVVLISDLENIFDEDEEELRHTARVLVSGSEDRREGRVAVPYPSIADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMASPKPEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPLKLPDQCYYRPSWALLPKMEHYSSLPPSHHTTFIRDGYVNVPSVGDQEYAQLSASALSVGTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPPIPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGQAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMVLLQQQCSQPISSLASMHLPPSCSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNMLDISMLSSQDVVRMLLSLQPYLQDAIQKKRMGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDYYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSDTLLAGAQVFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAVDTETETEKEKEKERQEEEQVDQWFTGPWAGQQHIDNLRKLKLYARACRRQLGPQLSALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGGVRDGGGGGEEEEGEEVEAGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTKTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPPRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRVRRPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHISIATAQSDEPNQTSSDKTTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2152
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.07
Grand average of hydropathy-0.435
Instability index59.14
Isoelectric point5.62
Molecular weight234702.37
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

>MDP11969
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     341.13|      62|      62|    1477|    1538|       1
---------------------------------------------------------------------------
  387-  446 (35.02/ 6.15)	.QLQHKCSGPSSVTPKKEAPNGVPTWDFTDPeerAPcscsrlkqqkqqqqtntSSA...NPPS...G............................
  447-  486 (40.11/ 8.15)	.....................ANTTPSSGPA...LP.................PPS...LPKH...K....ATDK....PEKADKQPKRAaamTP
  504-  562 (75.76/22.14)	SGGSQLGL.VSL......DPPLDPMPSCKYP...KP.................LSAgrkAPESllhSPVSPL..P....PTLSPHPRGGQ...DP
 1477- 1538 (111.24/36.07)	PQLSALSLDSSLFIPPKHQPPLAPTPSSAQP...AP.................SSS...QPPS...GPGVPAEGE....PAAAPSSGSTT...TP
 1546- 1603 (79.00/23.41)	........PGPAEITQGGAAEAKTTPNATPP...PP.................PPS...QPAE...TPESLAERErigiPTLADSADSHA...HP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     366.96|     114|     585|    1077|    1207|       2
---------------------------------------------------------------------------
 1077- 1206 (180.00/105.50)	ICACNMNVKGADvGvyipDSTLEDQYRCMCGFSA.ivnRRLAhGTGLFLEdELDIFGRGS...EVGQAAERRLALCRRDPP..MGDPRAKRPQDS...SPAPSSVMVLLQQQCsqpissLASMHLPPSCSCHGRQGALL
 1668- 1793 (186.96/77.55)	VVPCQYLLQPAS.G....ESPLYLQHLRSLAFSAysqcRRLL.PTKTHIK.SLTGFGPAStleSVLKSPEHPSPLQGYSPPyiLGPTRAKMPEPGevwAEIPPRYNVLFVGYC......LSHDQRWILVSCTDQQGELL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     301.90|     107|     219|     695|     830|       3
---------------------------------------------------------------------------
  698-  855 (149.42/110.44)	SKRLKGPCRdhskrgpkgeeisngalpdgkdaMSIFSSApkaddDSPQDDDAAAKAQNP..SLTRETDLVVLISDL..ENIFDEDEEELR.....HTARVLVSGSEDRREgRVAVPYPSIADLQRMF..PTPPSLEQH...............PAFSPImtyrdtpsqeppapsagsdhplGPL
 1867- 2002 (152.48/72.42)	SRQLKEACR.......................MCGISSA.....DSPSILSACLVAMEPqgSIVVMPDAVTMGSVFgrSTALNLQTSQLNtpqdaSCTHILVFPTSATTQ.LAASSYPTEDNADDMFdlPFPDELENDighdilnlhpspntsPVPSPG...................spsGMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     335.69|     105|     776|     122|     275|       5
---------------------------------------------------------------------------
  134-  275 (158.63/181.49)	LMDKDFVRiGKWFVKPYDLEEKHMGTSEHLscsfTFFLHGESNVcTSV...EVAQhqpayhitddhtrlaqissapvqviLSPYGLAGSLTGQAYKMSDPAVRKlmeeWSYFYPMVLQRHRegGAG.TGGMGA.EREGTDRPY.DPHS
  916- 1026 (177.06/100.64)	LPDQCYYR.PSWALLPKMEHYSSLPPSHHT....TFIRDGYVNV.PSVgdqEYAQ.........................LSASALSVGTTGGILPSPSPATPR....FSVPTPRTPRTPR..GVGtTSGQGSvKQEGTGTELsSPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.91|      16|      27|     586|     601|       6
---------------------------------------------------------------------------
  586-  601 (28.58/16.01)	P.SETALYAAPLGPRER
  614-  630 (25.33/13.09)	PrADKAEFRPPELPSDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.28|      14|     605|     711|     724|       7
---------------------------------------------------------------------------
  711-  724 (26.60/12.43)	RGPKGEEISNGALP
 1318- 1331 (27.67/13.25)	RGSYGSEESPEPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.07|      12|     789|     903|     914|       8
---------------------------------------------------------------------------
  903-  914 (23.85/11.44)	LRTLPSQCLPPL
 1653- 1664 (22.22/10.08)	LQTLPESMRPAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.92|      22|     679|     346|     367|       9
---------------------------------------------------------------------------
  346-  367 (39.27/21.60)	TVSSVLPAQESAMGVTNSP....KHS
 1027- 1052 (35.64/18.82)	TPSTSLPMSSVAEPHTSSPpipeAHS
---------------------------------------------------------------------------




































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 MDP11969 with Med13 domain of Kingdom Metazoa
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