<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 MDP17482

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKLGGLHQISWFQFLPHEADLSCLPDKSVKVEQKDTAMLSVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVVDTAQSAVSRLRVIASGIWLAPGDSEEVASALSQALRNCIERTLAGLSYVRFGDVFSKYCPSQSEEMFRRGQPTVEFVFAATEEAVFVHAIISAKHTRTLSGGDIEGALQRSSNNSGYRLPVIVSPHGIRGRLTGCCPGDLVKQVYLCSGKFKTPNGFIGLPYHVSQDAGCQMRGQSCYVEVTLGCPKSVSDNPLQSNSDAMRNFPTNNVPESADVGRGDKKGSPDQLPVHEKTFIYPAEAVLVPVLHTSFARSSLKRFWLQNWIGPSLPGSCFFMHCGSNMDFVEGSWTEINGIHAKHGYNSSSNSNSSSISTISSSSSDSDHKMTTGASELEGDADSLTCRQSGLSSNHQLENGPILGSKRPRTGMTDSFGQVGTETNALVQEAYKSDFISMEVDNSAITGVASEQIGSDWDWDDDDRGMVMDIQALLSEFGDFGDFFENDGLPFGEPPGTAESQALMFSAPDCGDVGPSPVGMMDVSDQVLLPVGFQSFESFDPPPPLAQEEYLSKSQEVTNNSLSSGLVNHTPASSTGEFDHIIKAEALLTFAPEYGAVETPTSEFSSSIFRSPYFPKSRREESSNSSSNNYIYGATPPSSPCFDGSDEKTSLPINSKPLSGRNDVNAVVHSKKYYTHVERGKERHDKRFLAGNNSVAMSEGVAPTPFSSLNSTNAVKSSLRKVSEGTLELAPFLQSTRTVFATEVECLMFQASMCRIRHTLLSSSTSMPINLSRLTGSNVFNQLPGDQSTLTDNTSSKYEVKKKETIPIRIAGDTDGILDGHLNAPVGVWRSVGVPKVPKLSNSPSMEISPSLPHNSFNEEAILSFGQMQPLQELLDGMALLVQQATSSVDLTLDGDCGDGAYGWLALQEQWKRGFSCGPFMMHAGCGGTLASCHALDIAGVELVDPLSADVHASSVINLLQSDIKTALKSAFSILDGPLSVNDWCKGRNPSVDAGSTGDGFSAESSISECRDSSSTVGEPMSPSQSSAGGSSSLKESEQQQSTRLRPTLLVLPLPAILVGYQDDWLKTSASSLQLWEKAPLEPYALQKPITYNVICPDIDPLTSAAADFFQQLGTVYETCKLGSHSPQSLGNQMEIDSAKWSSSGFVLLDCPQSMKIESSNASLVGSISDYFLSLSNGWDLTSYLKSLSKALKGLKLGPCSSTNPKEGSSGPCMVIYVVCPFPEPTAVLQTVVESSVAVGSVILQSDRERRSILHSQVGKALSCSAAVDEATISNILVLSGFSIPKLVLQIVTVDAIFRVTSPSLNELVILKETAFTVYNKARRISRGSSNDMVQSSSISSRSPSVLTQMSSPMSGMWKDCVGPRITGHSLPREGEIDASLRNNSWDNSWQTRTGGLSCDPIRTGDYTVQDEIRYMFEPLFILAEPGSVENGVSPVFSGNIVSESTKTLSDDSSGGFMQGAGSAGSADAGSCSHLDGSETDGFGSSHQKTPPSLHCCYGWTEDWRWLVSIWTDSRGELLDSHVFPFGGISSRQDTKGLQCLFVQVLQQGCQILQACSSPDIGVAKPRDFVIARIGSFFELEYLEWQKAINSVGGSEVKKWPLQLRRSMRDGIPASSNSTSLQQQEMSLIQERTLPTSPSPLYNPHAKATGFIKGGLGQPAARKQLMGGQTLVDNSRGLLQWVQSISFVAISVDHSLHLVFQADSPSPGGAQGGSGMGPSGYLEGFTPVKSLGSTSASYVLIPSPSMHFLPATPLQLPMCLTAESPPLAHLLHSKGSAIPLSTGFVVSKAIPSMRKDYRSNLKEEWPSVLCINLIDYYGGTSIIQDKSVRGINKQGGRSLSSEAKDFEIETHLVLESVAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKELSRQPGKLHV
Length1962
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-0.227
Instability index53.77
Isoelectric point5.43
Molecular weight211826.84
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

>MDP17482
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.55|      30|      62|     602|     631|       1
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  602-  631 (50.30/26.49)	YLSKS.QEVTNNSLSSGLV.NHTPASSTGEF.D
  632-  658 (34.90/15.89)	HIIKA.EALLTFAPEYGAV..ETP...TSEFsS
  665-  695 (43.34/21.70)	YFPKSrREESSNSSSNNYIyGATPPSS.PCF.D
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.28|      31|      62|       2|      53|       2
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    2-   43 (45.52/43.61)	WTNVFkLG......GLHqiswfqflPHE.ADLS.CLPDKSVKVeqKDTAM
   62-  101 (43.76/28.54)	WTNSF.VGpwdpsqGLH.......nPDEkIKLWlFLPGRHSSV..VDTAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.55|      44|     330|    1026|    1074|       3
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 1027- 1072 (74.11/45.09)	LDGPLSVNDWCKGRNPSVDAGStgDGFSAESSISE.CR...DSSSTVGEP
 1138- 1185 (67.45/33.55)	LQKPITYNVICPDIDPLTSAAA..DFFQQLGTVYEtCKlgsHSPQSLGNQ
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     161.67|      39|     438|    1074|    1117|       4
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  399-  423 (28.77/ 8.15)	SSSNSNSSSISTISSSSSD...SDHKMT...................
 1074- 1117 (61.00/36.27)	SPSQSSAGGSSSLKESEQQ...QSTRLRPtllvlPLPAILVGYQDDW
 1515- 1556 (71.90/34.59)	SAGSADAGSCSHLDGSETDgfgSSHQKTP.....PSLHCCYGWTEDW
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     347.17|     134|     576|    1196|    1362|       5
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 1216- 1362 (192.93/162.21)	LVGSISDYFLSLSNGWDLTSYLKSLSKAlKGLKLGPCSSTNPKEGSSGpcmviYVVCPFPEPTA...VL..QTVVESS............................................................................................................................................vavGSVILQsDRERRSIlHSQVGKALScSAAVDeATISNILVLSGFSIPKLVLQIVTVDAIF...RVTSPSLNELVI
 1656- 1727 (74.09/26.89)	LRRSMRDGIPASSNSTSLQQQEMSLIQE.RTLPTSPSPLYNPHAKATG.....FIKGGLGQPAArkqLMggQTLVDNS.........................................................................................................................................................................................................................
 1871- 1940 (80.15/32.37)	..............................................................................rgllqwvqsisfvaisvdhslhlvfqadspspggaqggsgmgpsgylegftpvkslgstsasyvlipspsmhflpatplqlpmcltaespplahllhskgsaiplstgfvvskaipsmrkdyrsnlkeewpsvlcinlidyygGTSIIQ.DKSVRGI.NKQGGRSLS.SEAKD.FEIETHLVLESVAAELHALSWMTVSPAYlerRTALPFHCDMVL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.19|      19|      53|     517|     535|       6
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  517-  535 (36.77/22.88)	GM.......VMDI..QALLS.EFGDFGDF
  540-  565 (22.24/10.35)	GLpfgeppgTAES..QALMF.SAPDCGDV
  571-  591 (22.18/10.30)	GM........MDVsdQVLLPvGFQSFESF
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---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.76|      14|      29|     431|     446|       8
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  431-  446 (19.50/15.92)	GDADSLTcrQSGLSSN
  463-  476 (26.26/13.46)	GMTDSFG..QVGTETN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.79|      10|     536|     361|     370|       9
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  361-  370 (21.91/11.63)	IGPSLPGSCF
  900-  909 (20.88/10.64)	ISPSLPHNSF
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.11|      42|     636|     933|     993|      10
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  229-  275 (69.00/26.48)	LTGCCpGDLVKQVYLCSGKFKtpNGFIGLPYHVsqDAGCQMRGQSCY
  945-  986 (86.11/68.10)	LDGDC.GDGAYGWLALQEQWK..RGFSCGPFMM..HAGCGGTLASCH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     146.08|      44|     591|     800|     865|      11
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  701-  744 (76.97/43.84)	TSLPINSKPLSGRNDVNAVVHSKKYYTHVERGKERHDKR.....FLAGN
  817-  865 (69.11/49.66)	TSMPINLSRLTGSNVFNQLPGDQSTLTDNTSSKYEVKKKetipiRIAGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.58|      28|     636|     113|     140|      12
---------------------------------------------------------------------------
  113-  140 (48.35/33.11)	GIWLAPGDSEEVASALSQALRNCIERTL
  752-  779 (46.23/31.27)	GVAPTPFSSLNSTNAVKSSLRKVSEGTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     180.65|      58|    1307|     142|     204|      13
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  142-  204 (95.42/80.18)	GLS..YVRFGD.VFSKYCPSQSEEMFRRGQP.TVEfvfaATEEAVFVHAIISaKHTRTL....SGGDIEGA
 1448- 1513 (85.23/57.42)	GLScdPIRTGDyTVQDEIRYMFEPLFILAEPgSVE....NGVSPVFSGNIVS.ESTKTLsddsSGGFMQGA
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      83.13|      26|     899|     868|     898|      16
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  868-  898 (38.88/35.75)	GILDGHlnAPVgvwRSVGVPKVPK.LSNSPSM
 1772- 1798 (44.24/24.27)	GYLEGF..TPV...KSLGSTSASYvLIPSPSM
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.62|      37|     446|    1378|    1414|      19
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 1378- 1414 (65.65/30.33)	SRGSSNDMVQSSSISSRSPSVLTQMSSPMSGMWKD..CV
 1825- 1863 (59.97/27.12)	SKGSAIPLSTGFVVSKAIPSMRKDYRSNLKEEWPSvlCI
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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 MDP17482 with Med13 domain of Kingdom Viridiplantae
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