<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. 
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
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     111.65|      16|      16|     944|     959|       1
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  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
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  875-  895 (30.46/15.10)	STPPS.NASLSPLTSpSKSSSK
 1092- 1112 (28.93/ 6.43)	SCPSSgNPNKSPLRS.RKSSLS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     258.90|      50|     157|     824|     873|       3
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  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
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.82|      13|     432|     710|     722|       5
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  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
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   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
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  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
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 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
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  569-  603 (52.39/36.35)	QSNP...ILHASTPKETDNEcfGVEMEKSEDVVSLVED
 1121- 1156 (56.65/32.13)	QHNPesdIFQNSGPKYTGDS..ALRMEQSEGRSSYMDE
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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
Unable to open file!