<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 MDP29778

Description Mediator of RNA polymerase II transcription subunit 14
SequenceMGGEGDSYLALRELVEKSRVEAEGKNGQQRSDTEKKIDLLKFIDRTRQRMLRLHVLAKWCQQVPLVHYCQQLASTLSSHETCFTQTADSLFFMHEGLQQARAPIFDVPSAIEVLHSGSYRRLPKCVEEIGTQNTLFQDEQKPTLKKLNTLVRTKLLETSLPKEISEVSVTDGIANVQVDGEFKVLITLGYRGHFSLWRILHMELLVGEKTGPIKLEETRRYALGDDIERRMAVADNPFMILYTILHELCISLVMDTVIRQTNALRQGRWKDAIKSELISDIHSGGGQGGNSALMQLGQEGELDSSGSRIPGLKINYWLEEKTNASAELDSSPFIKIEAGQDMQIKCQHSSFVLDPFTDKEADLSIDLSCIDVEAVILKAIACNRHTRLLEIQRELIKNVQMSQSRTEVILKQEVHGVGFQKKAHRSDSDDCCTNEMLQVRAYGQSYIHLGINIRNGRFLLQSPGNILPPSAVLESEEALNKGSTTATDVFVSLRTRSILHLFAATGSSLGLKVYSQSQVTLKIPKSILYGSDFMVMGFPQCANAYYLLMQLNNSFQPVFHLLEIQSNEGDKNNADASTDAKEVIRFIRIDINKLKVDEDLQIGSLFDKDKLLALPNVEDRPQRLSGPDELLPARPSFSSVVDEVFGFDTGSPKTENQRLPSYNLPSSHSSYQVGLHGANGGAGSPVKDYGSLQSNINSAKVTSSISLNNYLLNNSKHAQSTTALFGSVPAGSGNISSSRPEGASIKRSLSEFLRNIPPLKQSDGPSKRRNMPESMLDGLPLKAHSPNMQPGTTLTYGKLLEEVNSCITANIYSSVLLHVIKHCSICIKYAQLTAQMDSLNIPHVEEAGLRTPSSNLWLRLPFAHDASWKHICLRLGKAGSMSWDVRINDPHYGALWKLHGGSTSTEWGSGVRVANTSEVDSHISFDDDGVLLTYNTVEADSVQRLVSDLQRLSNARAFSCGMRRLIGVKLDDELVENQAAAEKKLQSRRNACRDRLSEQMRKTFRIEAVGLMSLWFSYGVVPMVYFVVEWEAGKSGCTMRVSPDQLWPHTKFFEDFVNGDEVASFLDCIRLTAGPLLALGGAIRPAKMPVTVPAVYSVVPKQNNILSTVGSANSSLPSSVHNMSVPQGAAVAHANSHLQTSSMLSAAGRTAPGLVPSSLLPFDVSVVLRGPYWIRIIYRKKFSVDMRCFAGDQVWLQPATPPKGGPSVGGSLPCPQFRPFIMEHVAQGLNALEPNLLSARHTGPQLNASASTVSGSQQLTPTPNRFGGAPGVARPTSSVGNQVATSLSRAGNAMMASGFPSGIAGSPAHLSPANNIPAYMKGELNTAFIGLGDDGGYGGGWVPLAALKKVLRGILKYLGVLWLFAQLPDLLKEILGSILKDNEGALLNLDHEQPALRFFVGGYVFAVSVHRVQLLLQVLNVKRFHHQQQQQQQQQQAPQSNNGQEELTASEISEICDYFSRRVASEPYDASRVASFITLLTLPISVLREFIKLIAWKKNLSQAHGDNATAQRARIELCLEKHPRLVSDDYTSSSSSKSNIHHDRANNSVDFALTFVLDHALVPQMSISGGAAWLPYCVSVRVRYTFGDNSHIAFLAMDGSHSGRACWLQHEDWERCKQRVSRAVETMNGSAAVGDMSQGRLRMVAEMVQKQLQLSLVQLRDGPGSAAS
Length1668
PositionTail
OrganismOryza brachyantha
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Poales> Poaceae> BOP clade> Oryzoideae> Oryzeae> Oryzinae> Oryza.
Aromaticity0.07
Grand average of hydropathy-0.219
Instability index51.08
Isoelectric point7.89
Molecular weight183295.68
Publications
PubMed=23481403

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	IEA:UniProtKB-UniRule

GO - Biological Function
transcription coregulator activity	GO:0003712	IEA:UniProtKB-UniRule

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP29778
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.84|      14|     231|     675|     696|       1
---------------------------------------------------------------------------
  650-  664 (21.29/15.40)	GSPKTENQRLPSyNL
  683-  696 (25.55/ 7.02)	GSPVKDYGSLQS.NI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.57|      19|     231|    1309|    1343|       2
---------------------------------------------------------------------------
 1287- 1305 (33.45/13.37)	LSRAGN..AMMASGFPSGIAG
 1310- 1330 (29.12/34.03)	LSPANNipAYMKGELNTAFIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     201.13|      62|      68|    1022|    1089|       3
---------------------------------------------------------------------------
 1022- 1089 (101.55/94.13)	PMVYFVVEweagKSGCTMRV..SPDQLWPHTKFFEDFVNGDEVASflDCIRLTAGPLLALGGAIRPAKMP
 1093- 1156 (99.57/73.13)	PAVYSVVP....KQNNILSTvgSANSSLPSSVHNMSVPQGAAVAH..ANSHLQTSSMLSAAGRTAPGLVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.54|      32|      37|     318|     354|       4
---------------------------------------------------------------------------
  322-  354 (50.67/54.49)	TNASAEL..DSSpFIKIEAGQDMQIKCQHSSFVLD
  357-  390 (48.87/33.88)	TDKEADLsiDLS.CIDVEAVILKAIACNRHTRLLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.98|      25|      35|     122|     150|       5
---------------------------------------------------------------------------
  122-  150 (38.54/46.20)	LPKCVEEI....GTQNTLFQDEqkptLKKLNTL
  160-  188 (36.44/29.66)	LPKEISEVsvtdGIANVQVDGE....FKVLITL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.95|      21|      23|     739|     760|       6
---------------------------------------------------------------------------
  734-  754 (33.24/17.24)	NISS.SRPEGASIKRSLSEFLR
  755-  776 (34.71/22.83)	NIPPlKQSDGPSKRRNMPESML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.50|      10|      23|    1347|    1356|       7
---------------------------------------------------------------------------
 1347- 1356 (16.81/ 9.54)	LKKVLRGILK
 1371- 1380 (16.69/ 9.42)	LKEILGSILK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     284.56|      86|     672|     488|     578|       9
---------------------------------------------------------------------------
  488-  578 (131.23/100.97)	DVFVSLRTRSILHLFAATGSSLGLKVYSQSQVTLKiPKSILYGSDFmVMGFPQCANAYYLLM....QLNNSFQPvfHLLEIQsNEGDKNNADAST
 1163- 1252 (153.33/97.33)	DVSVVLRGPYWIRIIYRKKFSVDMRCFAGDQVWLQ.PATPPKGGPS.VGGSLPCPQFRPFIMehvaQGLNALEP..NLLSAR.HTGPQLNASAST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.13|      20|      25|     864|     887|      10
---------------------------------------------------------------------------
  864-  887 (29.23/26.23)	H.DASWKhicLRlGKAGSMSW..DVRI
  891-  913 (29.90/13.78)	HyGALWK...LH.GGSTSTEWgsGVRV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.69|      28|     225|     697|     724|      11
---------------------------------------------------------------------------
  697-  724 (45.72/33.36)	NSAKVTSSISLNN...YLLNNSKHAQSTTAL
  915-  945 (41.97/29.94)	NTSEVDSHISFDDdgvLLTYNTVEADSVQRL
---------------------------------------------------------------------------




































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 MDP29778 with Med14 domain of Kingdom Viridiplantae
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