<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 MDP33636

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKCFVWQGPTSSPILFPVTEEDPILCSFSRCLKADVLSVWRRHQTPGRRELWLFWWGDDPNFAELIHHELSSTSSRVWESGLTYECRTLLFKAIHNLLERCLMNKRCFGGIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGDSNVCTSVEINQHQPVYLLSEEHLTLAQQSSSPMQVILSPYGLSGTLTGQSFKLSDPPTQKLIEEWKQFYPISPTTKDTSEDKGDDLDWEDDSLAAVEVLVAGVRMVYPACLVLVAQSDIPAPAAVSSSSCTGLGSGGHHNHTTHREPAISSVTLTPPTSPEEAQKVCQPAPRWMKVSAVSDGFSVDSTSHHGGKVPRKLASQLMETVWQECNINRAQNKRKFSAVTNGVCEEDKDKDCVWNFVEHYQRSQCNCSRHKYMKQRTGSTPGLPPSTGQPAQPPSRYKAVDKMEKAEKQQKRPQTPFHHRNPEDLSLDSEGGGQKLGLRGQEDSHYPSLHHVDVAMVKVQTLHASSGDIAGSPQPPPLSPHPCEREEETAGELKRSSTPVNQQFYPSSSTEPCLLPQKNLADSSANPGSLGCPESAFSGPVEPTVYVGSAVNPNEDATLNPWTYFRLPGKKNANLQPPSLPVDKLKLDGSGCGGLDGIISVTDLLVKKKKKNVAEVSEERVKMYIQKKNQYLSAAVCDTDHETDADPYAFVEGDEEFTFSDKEKKPGAEPGKRNKVSPVEAFEFAVFVSYIVLTDGQGSGNNQPLPSTSLMHVTDLIVSINDLDNLFNSDEDELTPGAKRAGTGTQEKFGGKEPKSVAADSLSCIHSADLQSSFPTPPSLEQHIMGFSPMNMGGKDCGSVEAGPGFTLTDGPAFGGTFKMEVEEGFCSPKPSEIKDFSFVFKPESCQAFVGCSLFAPLKMLPSQCLPPIKLPEECVFRPSWTVGKLEMLQPVPSMSFLNKDSAVDQDYNQSYTPQTNTPFLSNSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSDSVMNLFKDCNFDSCCICVCNMNIKGSDVGVYISDPSMDSQYSCMETCSCGFSAVVNRRYGNGAGLFLEDELDIVGRGSDAGRDTEKHYEALRASSLHRAGTLRECLSDELILLLQEQCTNPFSSLIGPKPISLDLRLPLRLEERDCYNDCYLALEHGRQFMDNMSGGKVDETLIKSSSLHPWAKRNAVDISSLFSQDVLRMLLSLQPVLQDAIQKKRSVRSWGVQGPLTWQQFHKMAGRGTYGTDESPEPLPIPPFLVGFEYDFVVLSPFGLPYWEKLLLDPFGSQRDIGYVVVCPDSETLLSGAKNFFRDLTAVYEACRLGQHRPICKSRADGIVTVSSGDLKPLTEQPLSDWFLKMCSSSSEFFTKLKLYAQTCRHDLAPYLAGQTLDSSLLSQRNPPSSSSSPSQPANPSSASNATSTSTPNTSNSNPAPTTTSSNSQGIGGLSSAKPGSVPPFGAPSMQAPHQTAVPGAGAMGDNTSTSSQPQAPADTMEREKVGVPTDGDSHAVTYPPAIVVYIVDPFSYEEKSKASNSNIWTLGLLRCYAEMLQFLPPHIRNAVSVQIIPCQYLLQPVCSEERHMYSQHLKSLAFSVYTQCRRPIPTSTNVKTLTGFGPGLALDTALHSPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYHVLFVAYCLSHDQRWLLATCTDQCGELLETCIISIDVPNRARRRKGSARRLGLQKLWDWCLGLVQMTSLPWRVVIGRLGRIGHGELQDWSILLSRQNLQTLSRRLKEMCRMCGISAADSPSILSACLVAIEPQASFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSAVVQVIDTPFNPIHDAMGGMDGILDLLVSENDVDPDLINILPNSPTTSPVHSPGSHYHHGGDGIKGQSTDPGQLPDWFWSSCPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2082
PositionMiddle
OrganismAstyanax mexicanus (Blind cave fish) (Astyanax fasciatus mexicanus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Characiformes> Characoidei> Characidae> Astyanax.
Aromaticity0.08
Grand average of hydropathy-0.356
Instability index57.47
Isoelectric point5.75
Molecular weight228326.55
Publications
PubMed=25329095

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

>MDP33636
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.87|      31|     198|     631|     661|       1
---------------------------------------------------------------------------
  631-  661 (56.25/32.45)	ANLQ.....PPSL.....PVDKLKLDGSGCGGLD.GI.ISVTD
  826-  868 (38.62/19.45)	ADLQssfptPPSLeqhimGFSPMNMGGKDCGSVEaGPgFTLTD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     194.47|      59|     199|     313|     372|       2
---------------------------------------------------------------------------
  313-  372 (101.57/57.08)	HTTHREPA.ISSVTLTPPTSPEEAQKVCQPAPRWMKVSA.VSDGFsVDSTSHHGGKVPRK.LA
  518-  579 (92.89/48.11)	QTLHASSGdIAGSPQPPPLSPHPCEREEETAGELKRSSTpVNQQF.YPSSSTEPCLLPQKnLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     103.40|      23|      39|     993|    1015|       3
---------------------------------------------------------------------------
  993- 1015 (45.40/19.67)	LPSPA.TPRFSAPTPRT.PRT.PRTP
 1032- 1057 (28.17/ 9.25)	LYSPAsTPSTCRPLNSVePATvPSIP
 1490- 1510 (29.84/10.26)	..STS.TPNTSNSNPAP.TTT.SSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.88|      23|      39|    1701|    1724|       4
---------------------------------------------------------------------------
 1701- 1724 (38.21/29.32)	CLRlYTPPFILAPVKDKQTELGET
 1740- 1762 (44.67/29.77)	CLS.HDQRWLLATCTDQCGELLET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     427.54|     143|     206|    1099|    1266|       5
---------------------------------------------------------------------------
 1099- 1266 (200.72/179.99)	GVYISDPSMDSQYscMETCSCGF..SAVVNRRYgngaGLFLEDE..LDIVGRGSDAGR.....DTEKHYEAlrASSLHR..AGTLREClsdeliLLLQEQ..CTNPFSSLIGPKpiSLDLRlPlrLEERDcYNDCYLAL.EHGRQFMDNMsggKVDETLIKsSSLHPWAKRNAVDiSSLFSQ
 1310- 1466 (226.82/132.86)	GTYGTDESPEPLP..IPPFLVGFeyDFVVLSPF....GLPYWEKllLDPFGSQRDIGYvvvcpDSETLLSG..AKNFFRdlTAVYEAC......RLGQHRpiCKSRADGIVTVS..SGDLK.P..LTEQP.LSDWFLKMcSSSSEFFTKL...KLYAQTCR.HDLAPYLAGQTLD.SSLLSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.01|      31|     205|      29|     110|       7
---------------------------------------------------------------------------
   29-   64 (45.97/44.18)	KWkcFVwqGPTSSPiLFPVTEEDPILCSFSRCLKAD
  142-  172 (59.04/36.90)	KW..FV..KPYEKD.EKPINKSEHLSCAFTFFLHGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.83|      48|     320|    1530|    1593|       8
---------------------------------------------------------------------------
 1546- 1593 (86.87/73.36)	MGDNTSTSSQ.PQAPADTMEREKVGVPTDGD.SHAVTYPPAIVVYIVD.PF
 1871- 1921 (70.96/33.29)	MPDSVSTGSVfGRSTTLNMQTSQLNTPQDTScTHILVFPTSAVVQVIDtPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.03|      21|     947|     581|     603|       9
---------------------------------------------------------------------------
  581-  603 (36.72/21.81)	SSANPGS...LGCPesAFSGPVEPTV
 1517- 1540 (35.30/15.56)	SSAKPGSvppFGAP..SMQAPHQTAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.52|      29|      39|     869|     901|      23
---------------------------------------------------------------------------
  869-  901 (40.97/38.54)	GPAFGGTFKMEVEEgfCSPkPSEIKDfSFVFKP
  909-  937 (56.55/33.61)	GCSLFAPLKMLPSQ..CLP.PIKLPE.ECVFRP
---------------------------------------------------------------------------




































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 MDP33636 with Med13 domain of Kingdom Metazoa
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