<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 MDP11985

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFMRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLLDKDFVRIGKWFVKPYELEEKPLATSEHLSCSFTFFLHGESNVCTSVEIAQHQPAYHITDDHIRLAQTSSAPVQVILSPYGLAGSLTGQAYKMSDQAVRKLMEEWSYFYPMVLQRHREGGTGGAGMGGMGAEKEGSDLPFDPNSHVAVEVIVGGVRMIYPAAFVLVAHGDLPVDQPLPAPGAQGLSRDPSHCSIPLTPPTSPEQPCSADSGFVTVSSILPAQERAIGATNHSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSVPSNVTPKKEAPNGVTTWDFIDSGERAPCSCSRLKQQQKQQQQKQQQQKQQQQTNTSSANPLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQEGCLEQDSTEGSQLGLVALDPLLDPMPTCKYPKPLSAGRKGPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPLGPREREAGVGWWRGFRTPRADKAEFRPPELPSDRVEIKTETQVTEGVALKRLFAQTEKCFKISEERVREHIQTLGLLQQPGVEGMGDLGDDPYDFKEGDIEYSFPTSKRLKGRDPSKRGPKGEDISNGALPDGKDAMSIFSSAPKADDDSPQDDEAAKAQNPPLTRETDLVVLISDLENIFDEDEEELGHTARVLVSGGEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQLQEYRMEVEEGMASPKHEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPIKVPDQCYYRPSWALLPKMEHYSSLPPSFIRDGYVNVPSVGDQEYAQLSASALSIGTTGSILPSPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPHASCPALPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGRAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMGLLQEQCSQPISSLASLHLPPACSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNVLDISILSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDNYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSETLLAGAQAFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAETETETDKEKEKERHEEEQVDQWFTGPWAGQQHSDNLRKLQLYARACRKQLGPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGESTAPPVAHSSESTPTPTAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGQARDGGGGEEEEGEEVETGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTQTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPSRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRARWPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHIAIATAQSDEPNQTNSDKTTKRIPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2163
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-0.425
Instability index58.47
Isoelectric point5.56
Molecular weight235967.78
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

>MDP11985
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      79.42|      18|      20|    1507|    1525|       1
---------------------------------------------------------------------------
  838-  855 (25.79/ 6.23)	LEQHPAFSPIMTYR.DTPS
  856-  873 (25.59/ 6.11)	QE.PPAPSGGSDHPlGPLS
 1508- 1523 (28.04/ 8.62)	..PPPAPTPSSAQP.APSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.92|      18|      20|    1698|    1715|       2
---------------------------------------------------------------------------
 1698- 1715 (32.40/19.66)	Q.HLRSL.AFSAYSQCRRLL
 1718- 1737 (22.52/11.19)	QtHIKSLtGFGPASTLESVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.06|      22|      22|    1532|    1553|       3
---------------------------------------------------------------------------
 1532- 1553 (42.01/21.80)	APAEG.....ESTA.PPVAHSSESTPTP
 1555- 1578 (24.20/ 8.49)	AAASGqpgpaESTQ....GGSTEVKNTP
 1595- 1615 (22.86/ 7.49)	..AER.....ERIGiPTLADSADSHAHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.23|      20|      24|     541|     563|       4
---------------------------------------------------------------------------
  541-  563 (26.52/19.41)	PKPlSAGrKGPQsLLHSPV..SPLP
  568-  589 (36.71/14.64)	PHP.RVG.QDPE.VLDAPVgmAPCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.77|      23|      24|    1343|    1365|       6
---------------------------------------------------------------------------
 1343- 1365 (43.72/26.36)	LPIPTLLL..GYYDNYDRNFLALSP
 1368- 1392 (41.05/24.28)	LPFWEKLLlePYGGQRDVAFLVLCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.06|      24|      24|    1905|    1928|       7
---------------------------------------------------------------------------
 1905- 1928 (44.06/28.43)	AMEPQGSIVVMP.DA.VTMGSVFGRS
 1930- 1955 (35.00/20.86)	ALNLQTSQLNTPqDAsCTHILVFPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.38|      14|      15|    1138|    1151|       8
---------------------------------------------------------------------------
 1138- 1151 (23.87/10.50)	EDELDIFGRGSEVG
 1155- 1168 (26.51/12.40)	ERRLALCRRDPPMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.00|      18|      22|    1654|    1675|       9
---------------------------------------------------------------------------
 1654- 1675 (25.27/24.18)	LGLLRC.YteMLQtlPESMRPAL
 1677- 1695 (29.74/14.99)	LQVVPCqY..LLQ..PASGESPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     281.99|      62|      66|     368|     429|      10
---------------------------------------------------------------------------
  325-  380 (41.79/12.96)	..............HCSIPltP..PTSPEQpcSADSGfV...TVSSILPAQERA...IGAtnhspKHSGKKLTNQVVH
  381-  447 (98.27/40.43)	QAWKECYL.NQLQHKCSVP..S..NVTPKK..EAPNG.V...TTWDFIDSGERAPCSCSRlkqqqKQQQQKQQQQKQQ
  448-  494 (59.20/21.43)	QQTNTSSA.NPLSGANPTP..SlgPALPPP..SLPKH.K...AT....DKSEKPDKQPKR..................
  909-  972 (82.72/32.87)	QPQMGCSMfAPLR...TLP..S..QCLPPI..KVPDQ.CyyrPSWALLPKMEHYSSLPPS....fIRDGYVNVPSVGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      79.60|      19|      21|    1211|    1230|      11
---------------------------------------------------------------------------
 1211- 1230 (31.81/21.51)	CHGR.QGALLQSwMADKQWTD
 1235- 1250 (28.80/13.50)	CVEC.YNALVQG....QQYVD
 1253- 1270 (18.99/ 6.46)	AGGKvDPAVVRS.SALHSW..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     184.38|      58|     701|    1036|    1097|      12
---------------------------------------------------------------------------
 1036- 1097 (97.73/58.91)	SPAStPStslPMSSLTEPHASCPA...LPEAHSLYAAL...........LLS.DS..VLNVFKDRNFDSCCICACNMNV
 1739- 1813 (86.64/42.81)	SPEH.PS...PLQGYSPPYILGPTrakMPEPGEVWAEIpsrynvlfvgyCLShDQrwILVSCTDQQGELLETCIINIDV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.59|       9|      15|     793|     802|      13
---------------------------------------------------------------------------
  793-  802 (12.35/10.00)	EDEEElGHTA
  810-  818 (16.24/ 8.07)	EDRRE.GRVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      85.40|      18|      21|    1861|    1878|      14
---------------------------------------------------------------------------
 1831- 1852 (23.59/10.75)	KLWDWCVgIIQMTSLPwriVIG
 1861- 1878 (31.28/16.70)	ELKDWSV.LLGEHSLH...SIS
 1880- 1897 (30.53/16.12)	QLKEACR.MCGISSAD...SPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.60|      16|      21|     650|     665|      15
---------------------------------------------------------------------------
  650-  665 (25.22/18.22)	ETQVTEGVALKRLFAQ
  674-  689 (26.37/19.43)	EERVREHIQTLGLLQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.35|      34|     394|      99|     133|      16
---------------------------------------------------------------------------
   99-  133 (60.49/34.70)	HHELEVAEEGLWECGlSYECRTLLFKAIHNLLE...RC
  502-  538 (56.86/28.74)	HHRLSVGQEGCLEQD.STEGSQLGLVALDPLLDpmpTC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.24|      22|     394|     591|     624|      17
---------------------------------------------------------------------------
  602-  624 (38.62/35.73)	ATALYAAPLgPR..EREAGVGWWRG
  998- 1021 (36.62/10.53)	ATPRFSVPT.PRtpRTPKGVGTASG
---------------------------------------------------------------------------




































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 MDP11985 with Med13 domain of Kingdom Metazoa
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