<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 MDP17481

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKLGGLHQISWFQFLPHEADLSCLPDKSVKVEQKDTAMLSVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVDTAQSAVSRLRVIASGIWLAPGDSEEVASALSQALRNCIERTLAGLSYVRFGDVFSKYCPSQSEEMFRRGQPTVEFVFAATEEAVFVHAIISAKHTRTLSGGDIEGALQRSSNNSGYRLPVIVSPHGIRGRLTGCCPGDLVKQVYLCSGKFKTPNGFIGLPYHVSQDAGCQMRGQSCYVEVTLGCPKSVSDNPLQSNSDAMRNFPTNNVPESADVGRGDKKGSPDQLPVHEKTFIYPAEAVLVPVLHTSFARSSLKRFWLQNWIGPSLPGSCFFMHCGSNMDFVEGSWTEINGIHAKHGYNSSSNSNSSSISTISSSSSDSDHKMTTGASELEGDADSLTCRQSGLSSNHQLENGPILGSKRPRTGMTDSFGQVGTETNALVQEAYKSDFISMEVDNSAITGVASEQIGSDWDWDDDDRGMVMDIQALLSEFGDFGDFFENDGLPFGEPPGTAESQALMFSAPDCGDVGPSPVGMMDVSDQVLLPVGFQSFESFDPPPPLAQEEYLSKSQEVTNNSLSSGLVNHTPASSTGEFDHIIKAEALLTFAPEYGAVETPTSEFSSSIFRSPYFPKSRREESSNSSSNNYIYGATPPSSPCFDGSDEKTSLPINSKPLSGRNDVNAVVHSKKYYTHVERGKERHDKRFLAGNNSVAMSEGVAPTPFSSLNSTNAVKSSLRKVSEGTLELAPFLQSTRTVFATEVECLMFQASMCRIRHTLLSSSTSMPINLSRLTGSNVFNQLPGDQSTLTDNTSSKYEVKKKETIPIRIAGDTDGILDGHLNAPVGVWRSVGVPKVPKLSNSPSMEISPSLPHNSFNEEAILSFGQMQPLQELLDGMALLVQQATSSVDLTLDGDCGDGAYGWLALQEQWKRGFSCGPFMMHAGCGGTLASCHALDIAGVELVDPLSADVHASSVINLLQSDIKTALKSAFSILDGPLSVNDWCKGRNPSVDAGSTGDGFSAESSISECRDSSSTVGEPMSPSQSSAGGSSSLKDRAKVDETCQRRSNQEICASESEQQQSTRLRPTLLVLPLPAILVGYQDDWLKTSASSLQLWEKAPLEPYALQKPITYNVICPDIDPLTSAAADFFQQLGTVYETCKLGSHSPQSLGNQMEIDSAKWSSSGFVLLDCPQSMKIESSNASLVGSISDYFLSLSNGWDLTSYLKSLSKALKGLKLGPCSSTNPKEGSSGPCMVIYVVCPFPEPTAVLQTVVESSVAVGSVILQSDRERRSILHSQVGKALSCSAAVDEATISNILVLSGFSIPKLVLQIVTVDAIFRVTSPSLNELVILKETAFTVYNKARRISRGSSNDMVQSSSISSRSPSVLTQMSSPMSGMWKDCVGPRITGHSLPREGEIDASLRNNSWDNSWQTRTGGLSCDPIRTGDYTVQDEIRYMFEPLFILAEPGSVENGVSPVFSGNIVSESTKTLSDDSSGGFMQGAGSAGSADAGSCSHLDGSETDGFGSSHQKTPPSLHCCYGWTEDWRWLVSIWTDSRGELLDSHVFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDIGVAKPRDFVIARIGSFFELEYLEWQKAINSVGGSEVKKWPLQLRRSMRDGIPASSNSTSLQQQEMSLIQERTLPTSPSPLYNPHAKATGFIKGGLGQPAARKQLMGGQTLVDNSRGLLQWVQSISFVAISVDHSLHLVFQADSPSPGGAQGGSGMGPSGYLEGFTPVKSLGSTSASYVLIPSPSMHFLPATPLQLPMCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAIPSMRKDYRSNLKEEWPSVLCINLIDYYGGTSIIQDKSVRGINKQGGRSLSSEAKDFEIETHLVLESVAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKELSRQPGKLHV
Length1982
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 index53.90
Isoelectric point5.43
Molecular weight214118.33
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	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

>MDP17481
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.55|      30|      62|     602|     631|       1
---------------------------------------------------------------------------
  602-  631 (50.30/25.99)	YLSKS.QEVTNNSLSSGLV.NHTPASSTGEF.D
  632-  658 (34.90/15.59)	HIIKA.EALLTFAPEYGAV..ETP...TSEFsS
  665-  695 (43.34/21.29)	YFPKSrREESSNSSSNNYIyGATPPSS.PCF.D
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     515.28|     166|     536|    1136|    1341|       2
---------------------------------------------------------------------------
 1140- 1320 (262.08/221.33)	TSASSLQLWEKAPLEPYALQ...KPITYNVICPDIDPLTSAAADFFqqlgTVYETCKLGSHSPqslGNQMEIDSAKWSSSGFVL..LDCPQS.MKIESSNASLVG.SI...SDYFLSL.SNGWDLTSYLKSLSKALKGLKLGPCSSTNPKEGSSGPCMVIyvvcpfPEPTAVLQTVveSSVAVGSVILQSDR
 1343- 1519 (253.20/141.59)	ATISNILVLSGFSIPKLVLQivtVDAIFRVTSPSLNELVILKETAF....TVYNKARRISRGS...SNDMVQSSSISSRSPSVLtqMSSPMSgMWKDCVGPRITGhSLpreGEIDASLrNNSWDNSWQTRTGGLSCDPIRTGDYTVQDEIRYMFEPLFIL......AEPGSVENGV..SPVFSGNIVSESTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.28|      31|      62|       2|      53|       3
---------------------------------------------------------------------------
    2-   43 (45.52/45.03)	WTNVFkLG......GLHqiswfqflPHE.ADLS.CLPDKSVKVeqKDTAM
   62-  101 (43.76/29.42)	WTNSF.VGpwdpsqGLH.......nPDEkIKLWlFLPGRHSSV..VDTAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     707.40|     251|     599|     193|     537|       4
---------------------------------------------------------------------------
  193-  465 (417.56/331.52)	TRTLSGGDIEGALQRSSN........NSGYRLPVIVSphgirgRLTGC.....CPGDLVKQVYLCSGKFKTPNGFIgLPYHVSQDAGCQMRGQ.SCYVEV..TLGCPKSvsdnPLQSNSDAMR...NFPTNNVPESADVGRGDKKgsPDQ.LPVHEKTFIYPAEAVLVPVLHTSFARSSLKRFWLQ.NWigpSLPGSC..FFMHCG......................................................SNMDFVEGSWTEINGIHAKHGYnsssnSNSSSISTISSSSSDSDHKMTTGASElEGDADSLTCRQSGLSSNHQLENGPILGSKRPRTGMT
  788-  977 (215.01/98.45)	TRTVFATEVECLMFQASMcrirhtllSSSTSMPINLS......RLTGSnvfnqLPGDQSTLTDNTSSKYEVKKKET.IPIRIAGDTDGILDGHlNAPVGVwrSVGVPKV....PKLSNSPSMEispSLPHNSFNEEAILSFGQMQ..PLQeLLDGMALLVQQATSSVDLTLDGDCGDGAYGWLALQeQW...KRGFSCgpFMMHAG................................................................................................................................................
 1032- 1115 (74.82/11.12)	..............................................................................................................................................................................................................cggtlaschaldiagvelvdplsadvhassvinllqsdiktalksafsildgplSVNDWCKGRNPSVDAGSTGDGF.....SAESSISECRDSSSTVGEPMSPSQSS.AGGSSSLKDRAKVDETCQRRSNQEICASESEQQQST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.19|      19|      53|     517|     535|       5
---------------------------------------------------------------------------
  517-  535 (36.77/21.74)	GM.......VMDI..QALLS.EFGDFGDF
  540-  565 (22.24/ 9.82)	GLpfgeppgTAES..QALMF.SAPDCGDV
  571-  591 (22.18/ 9.77)	GM........MDVsdQVLLPvGFQSFESF
---------------------------------------------------------------------------




































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 MDP17481 with Med13 domain of Kingdom Viridiplantae
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