<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 MDP11970

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFIRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLMDKDFVRIGKWFVKPYDLEEKHMGTSEHLSCSFTFFLHGESNVCTSVEVAQHQPAYHITDDHTRLAQISSAPVQVILSPYGLAGSLTGQAYKMSDPAVRKLMEEWSYFYPMVLQRHREGGAGTGGMGAEREGTDRPYDPHSHVAVEVIVGGVRMIYPAAFVLVAQGDLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTTVSSVLPAQESAMGVTNSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGPREREAGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALKRLFMQTQKRFKISEACVREHIQTLGLLHQPGDPGDDPYDFKEGDIEYSFPTSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETDLVVLISDLENIFDEDEEELRTACPNQHTARVLVSGSEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMASPKPEDIKPQMGCSMFAPLRTLPSQCLPPLKLPDQCYYRPSWALLPKMEHYSSLPPSHHTTFIRDGYVNVPSVGDQEYAQLSASALSVGTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPPIPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGQAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMVLLQQQCSQPISSLASMHLPPSCSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNMLDISMLSSQDVVRMLLSLQPYLQDAIQKKRMGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDYYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSDTLLAGAQVFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAVDTETETEKEKEKERQEEEQVDQWFTGPWAGQQHIDNLRKLKLYARACRRQLGPQLSALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGGVRDGGGGGEEEEGEEVEAGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTKTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPPRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRVRRPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHISIATAQSDEPNQTSSDKTTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2147
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.06
Grand average of hydropathy-0.440
Instability index59.27
Isoelectric point5.62
Molecular weight233978.53
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

>MDP11970
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     236.80|      40|      63|     439|     478|       1
---------------------------------------------------------------------------
  388-  443 (34.28/ 7.54)	LQH....KCSGPSSvTPKKEAPNgVPTWDFTD.PE..............ERAPcscsrlkqqkqqqqtntSSANP
  444-  478 (54.93/16.54)	PSG....ANTTPSS.GPALPPPS.LPKHKATDKPEK............ADKQP......................
  543-  574 (34.17/ 7.49)	..........SPVS..P.LPPTL.SPHPRGGQDPE................VP.............dntvGMAPC
  975- 1007 (34.14/ 7.48)	...........PSP.SPATPRFS.VPTPRTPRTPRG............VGTTS.................GQGSV
 1510- 1546 (36.09/ 8.33)	PSGpgvpAEGEPAA.APSSGSTT.TPTAAALD...................QP.................GPAEI
 1547- 1598 (43.18/11.42)	TQGgaaeAKTTPNA.TPPPPPPS.QP...A.ETPESlaererigiptlADSAD.................SHAHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.16|      12|      20|    1724|    1736|       2
---------------------------------------------------------------------------
 1724- 1736 (20.87/15.43)	PEhPSPLQGYSPP
 1747- 1758 (25.29/13.16)	PE.PGEVWAEIPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     423.62|     121|     261|     787|     920|       3
---------------------------------------------------------------------------
  261-  365 (59.94/21.24)	...................GAE..REG.TDRPYdPHShvaveviVGGVRMIYPAAFVL.........VAQ.GDLPVEEpPPAPGA.qgGSRDPSHcsiPLTPPtspeqpcsadsgfvttvssvlPAQESAMGVTN...SPK....................................................
  586-  659 (66.14/23.91)	................................................................................PSETA...LYAAPLG...P.........................REREAGAGWWRGFRTPRAD.......KAEFRP.PELPSDrvevktetqategvALKRLFMQTQKRFKIS
  660-  745 (93.06/39.76)	E....ACVrehiqtlgLLHQPGDPGDD....PY.DFK.......EGDIEYSFPTSKRLK.....GPCRDHsKRGPKGE.EISNGAlpdGKD.AMS...IFSS....................................APKADDDSPQ.............................................
  787-  920 (204.48/126.19)	PnqhtARV........LVSGSEDRREGrVAVPY.PST.......VADLQRMFPTPPSLEqhpafSPIMTY.RDTPSQE.PPAPSA...GSDHPLG...PLSST.....................QLQEYRMEVEEGMASPKPEDIKPQmgCSMFAPlRTLPSQ..............CLPPLKLPDQCYYRPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.13|      17|      23|    1643|    1662|       4
---------------------------------------------------------------------------
 1643- 1662 (23.26/19.48)	CyTEMLQtlPESMRPALVLQ
 1666- 1682 (32.87/15.65)	C.QYLLQ..PASGESPLYLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.04|      19|      23|    1284|    1302|       5
---------------------------------------------------------------------------
 1284- 1302 (35.28/21.86)	QKKRM.GRTWENIQHVQGPL
 1306- 1325 (29.76/17.12)	QFHKMaGRGSYGSEESPEPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.59|      24|     261|    1763|    1786|       7
---------------------------------------------------------------------------
 1763- 1786 (47.20/34.02)	LFVGYCLSHDQ.....RWILVSCTDQQGE
 2027- 2055 (42.39/29.61)	LALGYYVSTAQadslpHWFWASCPQAQNQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.95|      18|      25|    1330|    1347|       8
---------------------------------------------------------------------------
 1330- 1347 (34.41/18.77)	LLLGYYDYYDRNFLALSP
 1357- 1374 (34.55/18.87)	LLEPYGGQRDVAFLVLCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.98|      17|      23|    1683|    1699|       9
---------------------------------------------------------------------------
 1683- 1699 (30.23/20.33)	HLRSL.AFSAYSQCRRLL
 1704- 1721 (24.75/14.99)	HIKSLtGFGPASTLESVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      31.50|      10|      23|    1199|    1212|      10
---------------------------------------------------------------------------
 1199- 1212 (13.28/18.27)	ALLQSwmadKQWTD
 1223- 1232 (18.21/ 8.87)	ALVQG....QQYVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.72|      30|    1574|     487|     519|      11
---------------------------------------------------------------------------
  489-  518 (53.66/35.17)	HRLSVGQEACLEQDSSGGSQLGL.VSL......DPPL
 1457- 1493 (42.06/15.14)	RKLKLYARACRRQLGPQLSALSLdSSLfippkhQPPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.19|      33|     260|    1111|    1146|      12
---------------------------------------------------------------------------
 1111- 1146 (48.29/31.76)	LAHGTGLFLEdELDIFGRGSEVGQaaERRLALCRRD
 1379- 1411 (56.90/28.34)	LLAGAQVFFQ.ELSAVYETCRLGK..HRPLAKVSRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.10|      26|     147|    1019|    1046|      13
---------------------------------------------------------------------------
 1019- 1046 (45.65/26.26)	PTST.....PSTSLPMSSVAEPHTssPPIPEAH
 1164- 1194 (46.45/21.59)	PSSVmvllqQQCSQPISSLASMHL..PPSCSCH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     120.38|      36|     773|     145|     185|      15
---------------------------------------------------------------------------
  145-  185 (56.54/49.58)	WFVKPYDLEEKHMGTSEHLscsfTFFLHGESNVcTSV...EVAQ
  921-  959 (63.84/38.71)	WALLPKMEHYSSLPPSHHT....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 MDP11970 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALK
2) ALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSA
3) DEDEEELRTACPNQHTARVLVSGSEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMASPKPEDIKPQMGCS
4) DIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEE
5) DLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTT
6) GTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPP
7) KCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGP
8) TSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETD
9) VGAVDTETETEKEKEKERQEEEQVDQWFTGP
603
1476
776
1970
301
968
391
697
1416
646
1592
893
2021
346
1041
598
763
1446










Molecular Recognition Features






MoRF SequenceStartStop




1) GWWRGFR
606
612