<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 MDP00442

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSASVGFKLLFHLLLGGVRMVYPAAFVLVAHGDLPVDQPQPAPGAHGLSRDPSHCSIPLTPPTSPEQPCSADSGFVTVSSILLDQERAIGATNHSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSVPSSVTPKKEAPNGVTTWDFIDSGERAPCSCSRLKQQKQQQQTNTSSANLLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQETCLEQDSAGGSQLGLVALDPLLDPMPTCKYPKPLSAGRKAPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPLGPKEREAGASWWRGFRTPRADKAEFRPPELPSDRVELKTETQATEGVALKRLFAQTEKCFKISEERVREHIQTLGLLQQPGVEGLGDLGDDPYDFKEGDIEYSFPTSKRLKGRDHSKRGPKVMTLLAGVVEILLMIGYEKPTDIYSWALMLLKVISSRPNLLTAWFSALYCPSNHANINANVIENQIKHFMRAHELIVLMASIKKRIPSAFYRLGILYFFSNFPNIKHIYLLHNRTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQLQEYRMEVEEGMASPKHEDITDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPIKVPDQCYYRPSWALLPKMEHYSSLPPSFIRDGYVNVPSVGDQEYAQMSASALSIGTTGGILPSPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPQASCPALPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGLAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMELLQEQCSQPISSLASLHLPPACSCHGRQGALLQSWMADKQWADGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNVLDISILSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDNYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSETLLAGAQAFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAETETETDKEKQKERHEEEKIDQWFTGPWAGQQHSDNLRKLKLYARTCRKQLGPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGEATAPPVALSSESTPTPTAAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCLGRARDGGEEEEGEEVEAGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTQTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKQPEPGEVWAEIPPRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRARWPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNAGKGSTLDLHVECSNDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHIAIATAQSDEPNQTSSDKTTKRIPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length1902
PositionMiddle
OrganismOncorhynchus mykiss (Rainbow trout) (Salmo gairdneri)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Oncorhynchus.
Aromaticity0.06
Grand average of hydropathy-0.348
Instability index58.17
Isoelectric point6.32
Molecular weight207147.17
Publications
PubMed=24755649

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

>MDP00442
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     110.93|      22|      22|    1243|    1264|       1
---------------------------------------------------------------------------
  594-  614 (33.51/ 8.24)	PSQEPPAPS.GGSDHPLGPLSS
 1243- 1264 (42.96/12.75)	PPKPQPPPAPTPSSAQPAPSSS
 1266- 1287 (34.46/ 8.69)	PPYGPGAPAEGEATAPPVALSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.92|      18|      21|    1434|    1454|       2
---------------------------------------------------------------------------
 1437- 1454 (32.40/23.39)	Q.HLRSL.AFSAYSQCRRLL
 1457- 1476 (22.52/ 6.32)	QtHIKSLtGFGPASTLESVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      84.56|      20|      22|    1102|    1122|       3
---------------------------------------------------------------------------
 1079- 1095 (27.22/11.32)	..SPEPL.PIPT.LLL.GYYDN
 1102- 1122 (34.98/21.08)	ALSPLAL.PFWEKLLLePYGGQ
 1126- 1142 (22.36/ 7.88)	AF..LVLcPNSETLL...AGAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     107.12|      20|      25|     276|     300|       4
---------------------------------------------------------------------------
  276-  295 (41.24/19.01)	PVSPLPPTLS.PHPRVGQDPE
  735-  754 (32.54/ 6.17)	P.SPATPRFSvPTPRTPRTPK
 1319- 1333 (33.34/ 6.60)	PNAPPPP......PSQPETPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     416.97|      88|     262|      33|     124|       5
---------------------------------------------------------------------------
   33-  120 (155.97/68.86)	DLPVDQPQPAP.GAHGLS.RDPSHCSIPLTP..PTSPEQPCSADS..GFVTVSSILLDQERAIGATNHSPK..HSGKKLTN....QVVHQAWKECYLNQL
  124-  187 (69.64/33.86)	........................CSVPSS....VTPKK..EAPN..G.VTTWDFIDSGERAPCSCSRLKQ..QKQQQQTNtssaNLLSGANPTPSLGP.
  204-  275 (79.57/31.90)	....EKPDKQP..KRVAA.MTPFHHRLSVGQ..ETCLEQDSAGGSqlGLVALDP.LLDPM....PTCKYPKplSAGRKAPQ....SLLHS..........
  298-  380 (111.79/46.30)	DAPVGM.APCPdGASGLGvMEPSATALYAAPlgPKEREAGASWWR..GFRT........PRADKAEFRPPE..LPSDRVEL....KTETQATEGVALKRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.00|      18|      23|    1393|    1414|       7
---------------------------------------------------------------------------
 1393- 1414 (25.27/21.69)	LGLLRC.YteMLQtlPESMRPAL
 1416- 1434 (29.74/13.44)	LQVVPCqY..LLQ..PASGESPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.63|      24|      25|    1655|    1679|       8
---------------------------------------------------------------------------
 1656- 1679 (40.01/26.12)	DA.VTMGSVFGRSTALNLQTSQLNT
 1682- 1706 (36.62/17.51)	DAsCTHILVFPTSATTQLAASSYPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     103.75|      22|      25|     646|     670|       9
---------------------------------------------------------------------------
  649-  670 (45.67/27.15)	QPQMGCSMFAPLRTLPSQCLPP
  767-  786 (29.89/ 8.28)	QEGTGTELSSPAST.PSTSLP.
  930-  947 (28.18/ 9.85)	..QEQCSQ..PISSLASLHLPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.46|      16|      23|     951|     973|      10
---------------------------------------------------------------------------
  951-  970 (25.58/28.41)	CHGRQGALLQSwmadKQWAD
  975-  990 (30.88/12.43)	CVECYNALVQG....QQYVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     110.14|      26|      27|    1550|    1576|      11
---------------------------------------------------------------------------
 1529- 1547 (21.67/ 9.77)	.......RWILVSCT.dQQG..ELLETCI
 1550- 1576 (46.57/37.37)	IDVPNrARWPKVSAR..KMGLQKLWDWCV
 1579- 1606 (41.91/27.81)	IQMTS.LPWRIVIGRlgRLGHGELKDWSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      96.03|      27|      28|     843|     870|      12
---------------------------------------------------------------------------
  812-  840 (24.45/10.22)	...LSDSVLnvfKDRN....FdscCICACN..MNVKGA
  843-  870 (47.93/30.52)	GVYIPDSTL...EDQY....R...CMCGFSAiVNRRLA
  874-  899 (23.65/ 9.67)	GLF.....L...EDELdifgR..gSEVGLAA..ERRLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.73|      24|     262|    1505|    1528|      13
---------------------------------------------------------------------------
 1504- 1527 (47.47/36.75)	PGEVW..AEIPP...RYNVLFVGYCLSHD
 1763- 1791 (35.26/24.63)	QGERFlsRENPPeelKQQPLALGYYVSTA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.47|      21|      23|     678|     698|      14
---------------------------------------------------------------------------
  678-  698 (40.19/21.55)	YYRPSWALLPKM..EHYSSLPPS
  699-  721 (31.28/15.12)	FIRDGYVNVPSVgdQEYAQMSAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.14|      18|      21|     460|     477|      15
---------------------------------------------------------------------------
  460-  477 (33.09/20.47)	ILLMIGYEKPTDIYSW..AL
  478-  497 (26.05/14.46)	MLLKVISSRPNLLTAWfsAL
---------------------------------------------------------------------------




































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 MDP00442 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AFSPIMTYRDTPSQEPPAPSGGSDHPLGPLSSTQ
2) CSCSRLKQQKQQQQTNTSSANLLSGANPTPSLGPALPPPSLPKHKATDKSEKPDKQPKRVAAMTPFHHRLSVGQETCLEQDSAGG
3) DILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERFLSRENPPE
4) GPQLSALSLDSSLLLPPKPQPPPAPTPSSAQPAPSSSQPPYGPGAPAEGEATAPPVALSSESTPTPTAAAASGQPGPAESTQGGSTEVKNTPNAPPPPPSQPETPESVAERERIGIPTLADSA
5) PTCKYPKPLSAGRKAPQSLLHSPVSPLPPTLSPHPRVGQDPEVLDAPVGMAPCPDGASGLGVMEPSATALYAAPL
6) RDGLVRVGAETETETDKEKQKERHEEEKIDQWFTGPW
7) SPSPATPRFSVPTPRTPRTPKGVGTASGQGSVKQEGTGTELSSPASTPSTSLPMSSLTEPQ
583
154
1729
1228
254
1168
734
616
238
1775
1350
328
1204
794










Molecular Recognition Features






MoRF SequenceStartStop




NANANA