<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 MDP33041

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMENVEYGVTMSHPNPSGNGCSLEDCYTNLFALTDLCGIRWRKLIPDPDSHSIDPLGDPVLVAYSKCIRSDILCVWRRVPVAPRMSDGHPGHPGHHHGIDHMSYGKELWIFWYGDEPKVLAEFLKHGLHERDIGSWDKDKDKDSGLSYECRTLLFKALHNLIERCLLSKNFIRLGHWFVRPYDQFTSTERSAHLSFRFHFFLHGESQVCASIEVKQHPPVWRLTPQYLSLIQENQANFQVILAPYGLNGQLTGNSYRESDVASRRMYEEWRQFYPVDCNEYKSDHTTDTNNKLPNMVEVIVAGVRMKYPSCYVMICDNDDSPVRLQPLSVTTGASQNPHYNSITPPTSPCDPSLMTDVNVKMVPNTMVDTQFTTSATSDALSHHILERVSHHACINSGMAKRNNEGNEEPYAGLWNYGDSTCKMPCNCVRHRKMKAGQGKTSSGKHAKSEKQEKLERQLSRHGRNVTPFHRRSLVTDDMLQFDMNIMLTQPQNNSNNNFCGSGGNNNMPSGQSNLNDSNIDDPSSPPSPLDEPQPLVNSNMEPPMPTLSPHPPPKINGEKDYGVKSSNVSDISNGVCGPNGEFFPKQEEPPLSGLKVESCDNSFNWTQSEAKRESVNVWLQSQQKQVEILGLKRPPLLPTFEGDKSQEDLVTDSLYNLDPLNAWIELPIKKSRIDCSSSPCHHPDLKSPTSHSDVFKVPTPSPPVPDPYEFSDEASFNPNTLKSTRKSRDEMIPRQSPFNKMEDDSGQTDISPFGSPPTPNSNLMRTADLAVKSSDLDHMFDSDDSSDRDDAGMCDTNTAKRLEEDIKSRTCPGNIAPSELARMFPTPPSQEPNKALSPEADVQHDSHITLPSDIVFYRSKVSTVFTVPEDISRQDVFKPPKTAKFVSAPKYSPIELPSRQLSPINILSHPGYKPSWQYPMSVLPIEKQQPVISSYINLPSIENVSSCLSRTIPSPATFTNINSNQQRTPMSYELQSPASNASSYLNKTLNSVDNQPTNHQIPEVHSLLVNVLLSDSLLNLYKDHNFDSCNICVCNFDIKGADVGPYLPDMGNSESGYNCMCGFSAVVNRKYGYHSGLFYEDEVDITGIRESRFDKRKHSLLDIDYDNGVAISDKEEEDIPPSILKLLIEQFTVPFLTNVAEQRLAKLNMITSTTALNNSVDVLQLKDGNEVSYNALEQGRQAMENTSPTKLDDPSMRMTCLHKWPFLRGANRIPVSSQDIVNLHKSLQPILQDAIQNKRVTRMWEHSYKLQGPLTWKDFHQLAGRGSDENCEPQPIPYFLVGNDADWLTVSPYSLRYWDKQVVEPFAKARDVAYLVVAPENDYILTNVRDFFKELSTVYKLCRLGKHNPISSKIRDGIMRVGKSNAQKLAEESVDDWFKNIGDSQVAEKLRLYARVCRHLLGPYLKQLPVDGSLFEGSSGPKSQFKTPEPASTHPPTPENPGSNNPDDKESGNSENSSNEKAERCDTETDENNLPAIVIYMIEPFSYANDWEDLNRLTMIGLLRCFQQMIQILPENIQNNISLQIVPLKTITGHKENRNQFQALKSMAFSVFTTCRWNLSHTIMGRSLTGFGPAAAAQLLQKRKETENKCQQLYTPPFILAPLKDKQAQLAESCGGKTEKGNVLFCGYCLSEDQRWLLAVVTDERGELMETCVVNIEIPNRNRRKKASARRIGLRKLWDFLVGIVSMSRMAARIVIGRFGRIGHGELKGWSGLLSKKNLLHVSHKLKDMCGQCEVLNSGAVPSILSACLVSLEPHSSFQIMADAMKAEEKMSSNCPLQTPRDASATHILVFPISATAQANSMPLQPEGQILDFNNTQLDINDDALFGGLKDEDLGTMDQGMDLFDVFNMDNMDYNGVPGTSPPGSPSGGEHGRQNSRSNGPCAGNSGGQQADAQEDINLLQQPLAMGYYVSTARPGPMPKWFWSSRPENAHVCPNTFKAALHVHCSSSHDDFYNHSHTVDRNTHPLDSHLTCDVLRFVLENYNALSWLTYDVSKNDRRSCLPIHLDMLMQMYHAMSAFI
Length2019
PositionMiddle
OrganismLottia gigantea (Giant owl limpet)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Mollusca> Gastropoda> Patellogastropoda> Lottioidea> Lottiidae> Lottia.
Aromaticity0.08
Grand average of hydropathy-0.561
Instability index54.68
Isoelectric point5.87
Molecular weight226347.53
Publications
PubMed=23254933

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. 
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

>MDP33041
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     217.10|      74|     179|     690|     766|       1
---------------------------------------------------------------------------
  690-  724 (32.39/18.32)	...................................................SHSDvfkVPTPSPPVPDPYEFSDEASFNPNTLKST
  725-  766 (57.52/25.73)	RKSRDEMIPR.QSPFNKMEDDSGQTDISPFGSPPT...PNSNLMRT........................................
  908-  988 (98.11/51.17)	..SHPGYKPSwQYPMSVLPIEKQQPVISSYINLPSienVSSCLSRTipspaTFTN...INSNQQRTPMSYELQSPASNASSYLNKT
 1265- 1293 (29.08/ 8.42)	RGSDENCEPQ.PIPYFLVGNDADWLTVSPY........................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.44|      29|      41|     330|     358|       2
---------------------------------------------------------------------------
  330-  358 (54.92/39.09)	TTGASQNPHYNSITPPTS..PCDPSLMTDVN
  372-  402 (44.52/29.88)	TTSATSDALSHHILERVShhACINSGMAKRN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.33|      38|      43|     589|     628|       3
---------------------------------------------------------------------------
  589-  628 (62.92/39.91)	PPLsgLKVESCDNSFN..WTQSEAKRESVNVWLQSQQKQVEI
  634-  673 (62.40/33.87)	PPL..LPTFEGDKSQEdlVTDSLYNLDPLNAWIELPIKKSRI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.23|      48|     207|     271|     327|       4
---------------------------------------------------------------------------
  271-  327 (80.78/58.22)	QFypvDCNEYKSDHTTDTNNKLPNmvevivAGVRMKYPSCYVMICDN..DD.....SPV.RLQPL
  480-  535 (76.46/38.54)	QF...DMNIMLTQPQNNSNNNFCG......SGGNNNMPSGQSNLNDSniDDpssppSPLdEPQPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.70|      21|      43|     771|     791|       6
---------------------------------------------------------------------------
  771-  791 (36.45/16.03)	VKSSDLDHMFDSDDSSDRDDA
  815-  835 (38.25/17.17)	IAPSELARMFPTPPSQEPNKA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.31|      26|     537|       9|      37|       8
---------------------------------------------------------------------------
    9-   37 (47.82/35.63)	TMS.HPNPSGNGcslEDCY....TNLFALTD.LCG
  546-  577 (36.49/18.71)	TLSpHPPPKING...EKDYgvksSNVSDISNgVCG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.17|      26|    1217|     129|     160|       9
---------------------------------------------------------------------------
  129-  158 (38.00/42.51)	ERD...IGSW.....DK..DKDKDSGLSYecRTLLFkaLH
  167-  202 (34.17/16.76)	SKNfirLGHWfvrpyDQftSTERSAHLSF..RFHFF..LH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.39|      12|      24|    1025|    1036|      11
---------------------------------------------------------------------------
 1025- 1036 (26.30/14.66)	NFDSCNICVCNF
 1052- 1063 (26.09/14.48)	NSESGYNCMCGF
---------------------------------------------------------------------------




































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 MDP33041 with Med13 domain of Kingdom Metazoa
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