<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 MDP26804

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMQLELLMEKLRHKTNHLNLTDCAKTFRMTILEKRYNNDSVEKLQYQKCLDLLQTNMKVTSLQSMLERLESISRQAGLKFTADGSGRAFFISSDMFYLEVIVEQGGSVCEVHIQHEGKSEPQTCIEIAVCLNSGNFSKFTSHLQGLCAIYQVSADKKLKAKAFAALSALEMDLVSVSKLQAYRQDIVTLVHKSPLGILMPRVGGLPLTLTYFLSPYDLVNVQSPTIAMTQEKIIENNAGISCTLGIDSSTNFQLPISPLFSVNRNSDGESVPAFSPLSATNSASLPANFVLRMRDPLVLCFSFAQQIKSITGMEIGNWDEPEYLFRSLVKTVSKGQMECPGNEDRISRALHVTLPDQQHSYFITESEDVALKCCCITSIPFCHPSHVPQILAILRRQGLLNVLLSSCIRPKSQTDSGAALTFEISAISLDHMSVTFEHPLLEQMCSVEIDLGMDPTFIRCSLFGADEERSSSDEYATKVLQRCLSIPVTMRAILRQMQSSSSRWTNGSDHQGSFERRFQPHINGDSDSHPGSNGQYGNPSFTGGVGGGFDAGHSPRTHNMGNSDVVMTHQSNPILHASTPKETDNECFGVEMEKSEDVVSLVEDTTSTNRSKTLFPPASESRIPTTLGNADSKYSAILHSSDSVLGVTLNNTTAHLNAVRKPNNDVSLKSDSIDMDVSVIEPVADGNQIIAEDADTLSSNDAVAALLNVTKSKESSSPKNKSAYPSVSITPVNSLHTSSLATTYPNINLERRPGIEIIPFSKDSPSSSIPSSLTITPVGGKPTKDKSKYKDFRLKEGLTLDSETKDRDREKERERKERKRRREGEKSPSSGGSGGKPTKMMNLSATLMGPPGALLKMDSSPKLNHKNSSSGSNSISTPPSNASLSPLTSPSKSSSKSSTPSSSPKHPSSGGKPSMSALSMSALKCTTSPSSKSKKSKDRDRERSDKERDRDKDRDRDRDRDKDKERDRDKERDRDRDRDKERSRDREKKSRTPTPTSNHHHSRGPPLLKTKSLDFSLAVEDKSEESKEDNSFNSILALATANSEMLPSQMDLQSSIHTVTQELLSFSPPILSDSENCKLSGNTGGISADGLMSCPSSGNPNKSPLRSRKSSLSAVIDKLRSQHNPESDIFQNSGPKYTGDSALRMEQSEGRSSYMDEFMEESDSSSSPKPNDAEDNMHFNRIHSGSNSPSDPFSQDDSGINETTDAHEGELNGESLPDKEFVKPFPPPSARGTYGIRPHGFLSNSEADLNPNSPSVSVHIVNVPSPLALQQTRSPLANQLALVTAASGPSPASSTSQSSPCIIDDDLMDEALVGLGK
Length1316
PositionMiddle
OrganismDaphnia pulex (Water flea)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Crustacea> Branchiopoda> Diplostraca> Cladocera> Anomopoda> Daphniidae> Daphnia.
Aromaticity0.05
Grand average of hydropathy-0.603
Instability index57.22
Isoelectric point6.10
Molecular weight143593.90
Publications
PubMed=21292972

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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:RU364146
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats
>MDP26804
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     111.65|      16|      16|     944|     959|       1
---------------------------------------------------------------------------
  793-  808 (19.04/ 8.43)	LKEGlTLDSE.TKDRDR
  809-  823 (25.31/13.78)	EKER.ER.KERKRRREG
  944-  959 (33.19/20.51)	DKER.DRDKDRDRDRDR
  962-  977 (34.11/21.30)	DKER.DRDKERDRDRDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.39|      20|      23|     875|     896|       2
---------------------------------------------------------------------------
  875-  895 (30.46/15.10)	STPPS.NASLSPLTSpSKSSSK
 1092- 1112 (28.93/ 6.43)	SCPSSgNPNKSPLRS.RKSSLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     258.90|      50|     157|     824|     873|       3
---------------------------------------------------------------------------
  824-  867 (70.61/33.30)	....................................EKSPS...SGGS..GGKPTKMMNLSATLMG...PPGALLK...MDSSPKLNHKNS
  868-  935 (50.31/21.38)	SS....GSNSistppsnaslspltspsksssksstpSSSPK...HPSS..GGKPS....MSALSM.......SALK...CTTSPSSKSKKS
  978- 1023 (43.00/17.08)	....................................DKERS...RDREkkSRTPTPTSNHHHS.RG...PP..LLKtksLDFSLAVEDKSE
 1024- 1070 (45.88/18.77)	ESkednSFNS..........................ILALA...TANS..EMLPSQ.MDLQSSIHT...VTQELLS...F.SPPIL.....
 1182- 1228 (49.10/20.67)	HS....GSNS.............................PSdpfSQDD..SGINETTDAHEGELNGeslPDKEFVK...PFPPPS......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.90|      21|      22|     517|     537|       4
---------------------------------------------------------------------------
  517-  537 (42.77/24.82)	FQPHINGDSDS.HPGSNGQYGN
  540-  561 (35.13/18.96)	FTGGVGGGFDAgHSPRTHNMGN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.82|      13|     432|     710|     722|       5
---------------------------------------------------------------------------
  710-  722 (22.69/10.18)	KSKESSSPKNKSA
 1160- 1172 (24.13/11.36)	ESDSSSSPKPNDA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.71|      44|     432|      32|      76|       6
---------------------------------------------------------------------------
   32-   76 (68.89/48.50)	EKRYNNDSVEKLQYQKCLDlLQTNMK..VTSLQSMLERLESISRQAG
  466-  511 (71.82/46.25)	EERSSSDEYATKVLQRCLS.IPVTMRaiLRQMQSSSSRWTNGSDHQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     181.58|      62|     242|     123|     194|       8
---------------------------------------------------------------------------
  123-  194 (85.31/92.93)	CI.EIAVClNSGNFSKFTSHL..QGLCAIYQVSADK.KLKAKAFAALSaLEMDLVSVSKLQayrqdiVTLVHksPL
  374-  439 (96.27/70.88)	CItSIPFC.HPSHVPQILAILrrQGLLNVLLSSCIRpKSQTDSGAALT.FEISAISLDHMS......VTFEH..PL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.69|      19|      19|     618|     636|       9
---------------------------------------------------------------------------
  618-  636 (31.83/20.22)	SESRIPTTLGNADSKYSAI
  640-  658 (30.86/19.37)	SDSVLGVTLNNTTAHLNAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.57|      12|      22|    1263|    1274|      10
---------------------------------------------------------------------------
 1263- 1274 (22.41/ 9.69)	PSPLALQQTRSP
 1288- 1299 (22.16/ 9.50)	PSPASSTSQSSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.49|      12|      43|     724|     736|      11
---------------------------------------------------------------------------
  725-  736 (20.39/12.81)	SVSITPVNSLHT
  771-  782 (21.10/ 6.92)	SLTITPVGGKPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.04|      33|     552|     569|     603|      12
---------------------------------------------------------------------------
  569-  603 (52.39/36.35)	QSNP...ILHASTPKETDNEcfGVEMEKSEDVVSLVED
 1121- 1156 (56.65/32.13)	QHNPesdIFQNSGPKYTGDS..ALRMEQSEGRSSYMDE
---------------------------------------------------------------------------




































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 MDP26804 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) MQSSSSRWTNGSDHQGSFERRFQPHINGDSDSHPGSNGQYGNPSFTGGVGGGFDAGHSPRTHNMGNSDVVMTHQSNPILHASTPKETDNECFGVEMEKSEDVVSLVEDTTSTNRSKTLFPPASESRIPTTLGNADS
2) SSSIPSSLTITPVGGKPTKDKSKYKDFRLKEGLTLDSETKDRDREKERERKERKRRREGEKSPSSGGSGGKPTKMMNLSATLMGPPGALLKMDSSPKLNHKNSSSGSNSISTPPSNASLSPLTSPSKSSSKSSTPSSSPKHPSSGGKPSMSALSMSALKCTTSPSSKSKKSKDRDRERSDKERDRDKDRDRDRDRDKDKERDRDKERDRDRDRDKERSRDREKKSRTPTPTSNHHHSRGPPLLKTKSLDFSLAVEDKSEESKEDNSFNSILALATANSEMLPSQMDLQSSIHTVTQELLSFSPPILSDSENCKLSGNTGGISADGLMSCPSSGNPNKSPLRSRKSSLSAVIDKLRSQHNPESDIFQNSGPKYTGDSALRMEQSEGRSSYMDEFMEESDSSSSPKPNDAEDNMHFNRIHSGSNSPSDPFSQDDSGINETTDAHEGELNGESLPDKEFVKPFPPPSARGTYGIRPHGFLSNSEADLNPNSPSVSVHIVNVPSPLALQQTRSPLANQLALVTAASGPSPASSTSQSSPCII
496
765
631
1302










Molecular Recognition Features






MoRF SequenceStartStop




1) ERDRDKDRDRDRDRDKDKERDRDKER
2) GTYGIRPHGFL
3) KEFVKP
4) KMMNL
5) KRRREGEKS
6) KSKYKDFRLKEGLTL
7) YMDEFME
946
1231
1218
838
818
785
1153
971
1241
1223
842
826
799
1159