<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 MDP11968

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFIRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLMDKDFVRIGKWFVKPYDLEEKHMGTSEHLSCSFTFFLHGESNVCTSVEVAQHQPAYHITDDHTRLAQISSAPVQVILSPYGLAGSLTGQAYKMSDPAVRKLMEEWSYFYPMVLQRHREGGAGTGGMGAEREGTDRPYDPHSHVAVEVIVGGVRMIYPAAFVLVAQGDLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTTVSSVLPAQESAMGVTNSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGPREREAGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALKRLFMQTQKRFKISEACVREHIQTLGLLHQPGDPGDDPYDFKEGDIEYSFPTSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETDLVVLISDLENIFDEDEEELRHTARVLVSGSEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMASPKPEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPLKLPDQCYYRPSWALLPKMEHYSSLPPSHHTTFIRDGYVNVPSVGDQEYAQLSASALSVGTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPPIPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGQAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMVLLQQQCSQPISSLASMHLPPSCSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNMLDISMLSSQDVVRMLLSLQPYLQDAIQKKRMGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDYYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSDTLLAGAQVFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAVDTETETEKEKEKERQEEEQVDQWFTGPWAGQQHIDNLRKLKLYARACRRQLGPQLSALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGGVRDGGGGGEEEEGEEVEAGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTKTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPPRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRVRRPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHISIATAQSDEPNQTSSDKTTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2153
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 index59.12
Isoelectric point5.62
Molecular weight234789.45
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. 


ECO:0000256	RuleBase:RU364134

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

>MDP11968
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.95|      19|      21|    1714|    1733|       1
---------------------------------------------------------------------------
 1714- 1733 (23.92/ 8.56)	LTGFGPASTL.ESVLKSPEhP
 1736- 1755 (27.03/ 6.42)	LQGYSPPYILgPTRAKMPE.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.87|      21|      22|    1492|    1512|       2
---------------------------------------------------------------------------
  392-  412 (26.86/ 6.12)	CSGPSSVT..PKKEAP..NGVPTWD
 1505- 1528 (28.71/ 7.13)	SAQPAPSSsqPPS.GPgvPAEGEPA
 1566- 1581 (29.31/ 7.46)	ATPPPP.....PPSQP....AETPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     269.59|      86|     119|     996|    1113|       3
---------------------------------------------------------------------------
  996- 1087 (135.59/60.78)	RtpRTPRGVG.......TTSGQGSVKQEGTGTELSSPTSTPST..........................SLPMSSVAEPHTssPPIPEAHSLYAALLLSDSVLNVFKDRNfDSCCICAcNMNVKG
 1115- 1233 (133.99/73.70)	R..RLAHGTGlfledelDIFGRGSEVGQAAERRLALCRRDPPMgdprakrpqdsspapssvmvllqqqcSQPISSLASMHL..PPSCSCHGRQGALLQSWMADKQWTDGS.DACVECY.NALVQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     191.21|      40|      63|     439|     478|       4
---------------------------------------------------------------------------
  327-  346 (32.37/ 8.63)	......LTPPTSP.............EQP.....................................CSADS..G.FVTT
  451-  478 (41.65/13.28)	PSSGPALPPPSLPKHKATDKPEKAD.KQP..................................................
  480-  515 (40.35/12.63)	..RAAAMTP...FHHRLSVGQEACL.EQD.....................................SSGGSQLGlVSLD
  544-  614 (44.48/14.70)	PVS.P.LPPTLSPHPRGGQDPE.....VPdntvgmapcpdgasgmgvmepsetalyaaplgprereAGAGWWRG.FRTP
 1539- 1563 (32.34/ 8.61)	PTAA.AL...........DQPGPAEiTQG.....................................GAAE.....AKTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     135.00|      30|     220|    1447|    1476|       5
---------------------------------------------------------------------------
  893-  915 (37.69/13.88)	....QPQMGCS..MFAPLRTL...P.SQCLPPL
 1447- 1476 (54.67/22.96)	QWFTGPWAGQQ..HIDNLRKLKLYA.RACRRQL
 1673- 1705 (42.64/16.53)	QYLLQPASGESplYLQHLRSLAFSAySQCRRLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.87|      13|      22|     713|     729|       6
---------------------------------------------------------------------------
  713-  729 (18.93/17.08)	PKGEEISngalPDGKDA
  737-  749 (24.94/11.80)	PKADDDS....PQDDDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     283.24|      72|    1146|     802|     889|       7
---------------------------------------------------------------------------
  816-  889 (124.70/66.45)	FPTPPSLEQHPAFSpIMTYRDTPSqEPPAPSAGSDHPLGPLSSTQLQEYRMEVE.EGMA..SPKPEDIKD..FSFVYRV
 1302- 1341 (43.49/12.33)	..................................QHVQGPLTWQQFHKMAGRGSyGSEE..SPEPLPIPT..LLLGYY.
 1967- 2039 (115.06/52.97)	LPFPDELENDIGHD.ILNLHPSPN.TSPVPSPGS..PSGMGGSSHFQHNRSQGE.RLLSreNP.PEELKQqpLALGYYV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.63|      25|    1211|     667|     706|       8
---------------------------------------------------------------------------
  667-  692 (39.12/15.35)	IQTLGLLHQpGDPGDDPYDFKEGDIE
 1841- 1865 (42.51/12.86)	IGRLGRLGH.GELKDWSVLLGEHSLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.96|      36|    1584|      39|      78|       9
---------------------------------------------------------------------------
   39-   78 (57.38/44.07)	GGG..EYGPVISApaqDDPVLRSFIRCvQANLLCVWRRKVKP
 1626- 1663 (60.57/34.36)	GGGeeEEGEEVEA...GSVWLLGLLRC.YTEMLQTLPESMRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     154.49|      46|     777|     134|     185|      18
---------------------------------------------------------------------------
  134-  185 (69.84/59.62)	LMDKDFVRiGKWFVKPYDLEEKHMGTSEHLscsfTFFLHGESNVcTSV...EVAQ
  917-  965 (84.64/50.46)	LPDQCYYR.PSWALLPKMEHYSSLPPSHHT....TFIRDGYVNV.PSVgdqEYAQ
---------------------------------------------------------------------------




































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 MDP11968 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALK
2) ALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSA
3) DIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEE
4) DLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTT
5) FDEDEEELRHTARVLVSGSEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMA
6) GTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPP
7) KCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGP
8) TSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETD
9) VGAVDTETETEKEKEKERQEEEQVDQWFTGP
603
1482
1976
301
775
974
391
697
1422
646
1598
2027
346
873
1047
598
763
1452










Molecular Recognition Features






MoRF SequenceStartStop




1) GWWRGFR
606
612