<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 MDP17480

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKLGGLHQISWFQFLPHEADLSCLPDKSVKVEQKDTAMLSVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVDTAQSAVSRLRVIASGIWLAPGDSEEVASALSQALRNCIERTLAGLSYVRFGDVFSKYCPSQSEEMFRRGQPTVEFVFAATEEAVFVHAIISAKHTRTLSGGDIEGALQRSSNNSGYRLPVIVSPHGIRGRLTGCCPGDLVKQVYLCSGKFKTPNGFIGLPYHVSQDAGCQMRGQSCYVEVTLGCPKSVSDNPLQSNSDAMRNFPTNNVPESADVGRGDKKGSPDQLPVHEKTFIYPAEAVLVPVLHTSFARSSLKRFWLQNWIGPSLPGSCFFMHCGSNMDFVEGSWTEINGIHAKHGYNSSSNSNSSSISTISSSSSDSDHKMTTGASELEGDADSLTCRQSGLSSNHQLENGPILGSKRPRTGMTDSFGQVGTETNALVQEAYKSDFISMEVDNSAITGVASEQIGSDWDWDDDDRGMVMDIQALLSEFGDFGDFFENDGLPFGEPPGTAESQALMFSAPDCGDVGPSPVGMMDVSDQVLLPVGFQSFESFDPPPPLAQEEYLSKSQEVTNNSLSSGLVNHTPASSTGEFDHIIKAEALLTFAPEYGAVETPTSEFSSSIFRSPYFPKSRREESSNSSSNNYIYGATPPSSPCFDGSDEKTSLPINSKPLSGRNDVNAVVHSKKYYTHVERGKERHDKRFLAGNNSVAMSEGVAPTPFSSLNSTNAVKSSLRKVSEGTLELAPFLQSTRTVFATEVECLMFQASMCRIRHTLLSSSTSMPINLSRLTGSNVFNQLPGDQSTLTDNTSSKYEVKKKETIPIRIAGDTDGILDGHLNAPVGVWRSVGVPKVPKLSNSPSMEISPSLPHNSFNEEAILSFGQMQPLQELLDGMALLVQQATSSVDLTLDGDCGDGAYGWLALQEQWKRGFSCGPFMMHAGCGGTLASCHALDIAGVELVDPLSADVHASSVINLLQSDIKTALKSAFSILDGPLSVNDWCKGRNPSVDAGSTGDGFSAESSISECRDSSSTVGEPMSPSQSSAGGSSSLKVSSETDRAKVDETCQRRSNQEICASESEQQQSTRLRPTLLVLPLPAILVGYQDDWLKTSASSLQLWEKAPLEPYALQKPITYNVICPDIDPLTSAAADFFQQLGTVYETCKLGSHSPQSLGNQMEIDSAKWSSSGFVLLDCPQSMKIESSNASLVGSISDYFLSLSNGWDLTSYLKSLSKALKGLKLGPCSSTNPKEGSSGPCMVIYVVCPFPEPTAVLQTVVESSVAVGSVILQSDRERRSILHSQVGKALSCSAAVDEATISNILVLSGFSIPKLVLQIVTVDAIFRVTSPSLNELVILKETAFTVYNKARRISRGSSNDMVQSSSISSRSPSVLTQMSSPMSGMWKDCVGPRITGHSLPREGEIDASLRNNSWDNSWQTRTGGLSCDPIRTGDYTVQDEIRYMFEPLFILAEPGSVENGVSPVFSGNIVSESTKTLSDDSSGGFMQGAGSAGSADAGSCSHLDGSETDGFGSSHQKTPPSLHCCYGWTEDWRWLVSIWTDSRGELLDSHVFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDIGVAKPRDFVIARIGSFFELEYLEWQKAINSVGGSEVKKWPLQLRRSMRDGIPASSNSTSLQQQEMSLIQERTLPTSPSPLYNPHAKATGFIKGGLGQPAARKQLMGGQTLVDNSRGLLQWVQSISFVAISVDHSLHLVFQADSPSPGGAQGGSGMGPSGYLEGFTPVKSLGSTSASYVLIPSPSMHFLPATPLQLPMCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAIPSMRKDYRSNLKEEWPSVLCINLIDYYGGTSIIQDKSVRGINKQGGRSLSSEAKDFEIETHLVLESVAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKELSRQPGKLHV
Length1987
PositionKinase
OrganismJuglans regia (English walnut)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fagales> Juglandaceae> Juglans.
Aromaticity0.07
Grand average of hydropathy-0.239
Instability index53.94
Isoelectric point5.41
Molecular weight214621.83
Publications
PubMed=27145194

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	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

>MDP17480
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     875.93|     261|     538|     565|     832|       1
---------------------------------------------------------------------------
  565-  832 (422.68/208.34)	VGPSPVGMMDVSDQvLLPVGFQSFESFDPPPplaQEEYlSKSQEVTNNSLSSGLVNH...TPASSTGEFDHIIKA..EALLTFAPEYGAV..................ETPTSEFSSSIFRSPYFPKSRREESSNSSSNNYIYGATPPSSPCFDG....................................................................................SDEKTSLPINSKPLSGRNDVNAVVHSKKyyTHVERG..KERHDKRFLAGNNSVAM...SEGVAPTPFSSLNSTNAVKSSLRKVSE.GTLELAPFLQ..S...TRTVFATEV.ECLMFQASM..CRIRHTLLSSSTSMP.INLSRLTGSNVF
  847-  929 (37.35/ 9.08)	.................................................SSKYEVKKketIPIRIAGDTDGILDGhlNAPVGVWRSVGVP..................KVPKLSNSPSMEISPSLPHNSFNEEAILS.....FGQMQPLQELLDG...........................................................................................................................................................................................................................................
 1014- 1127 (92.69/35.66)	...........................................................................................................................................................mallvqqatssvdltldgdcgdgaygwlalqeqwkrgfscgpfmmhagcggtlaschaldiagvelvdplsadvhassvinllqSDIKTALKSAFSILDGPLSVNDWCKGRN..PSVDAG..S.TGDG..FSAESSISEcrdSSSTVGEPMSPSQSSAGGSSSLKVSSEtDRAKVDETCQrrS...NQEICASES.E....QQQS..TRLRPTLL....................
 1128- 1375 (323.21/145.76)	VLPLPAILVGYQDD.WLKTSASSLQLWEKAP...LEPY.ALQKPITYNVICP...............DIDPLTSA..AA..DFFQQLGTVyetcklgshspqslgnqmEIDSAKWSSSGFVLLDCPQSMKIESSNASLVGSISDYFLSLS...NG....................................................................................WDLTSYLKSLSKALKG................LKLGpcSSTNPKEGSSGPCMVIY...V..VCPFPEPTAVLQTVVESS...VAV.GSV....ILQ..SdreRRSILHSQVgKALSCSAAVdeATISNILVLSGFSIPkLVLQIVTVDAIF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.28|      31|      62|       2|      53|       2
---------------------------------------------------------------------------
    2-   43 (45.52/47.77)	WTNVFkLG......GLHqiswfqflPHE.ADLS.CLPDKSVKVeqKDTAM
   62-  101 (43.76/31.20)	WTNSF.VGpwdpsqGLH.......nPDEkIKLWlFLPGRHSSV..VDTAQ
---------------------------------------------------------------------------




































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 MDP17480 with Med13 domain of Kingdom Viridiplantae
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