<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 MDP29173

Description Mediator of RNA polymerase II transcription subunit 13
SequenceAELTGIKWRCYCFRSGGEYGPVISAPAQDDPVLRSFMRCVQANLLCVWRRKVKPEAKELWIFWWGEEPNLADVIHHELDEQRLLCCQIFDVDVSSSYLFSEAIHNLLERECLMNKRFLRIGKWFFKPQQLKDKSLGSSERLSCSFSFFLHGESNVCTSVEIAQHQPAFHITENHIRLAQTSVTPVQVILSPYGLSGTLTGQSYKMSDPATRKLMEEWSYFYPIVLQQREGSGEKEAEDKSQAYDSSCHVAVEVIVGGVRMTYPAALVLIAQGDLPAEQPPPVPAAQGLSREPNHCSVPLTPPTSPQQPCSADSGFVTSVSSVPTPDSSIGVPSISPKHSGKTLTCQVVHQAWRECYLNQPQYLSFFSSRRSNKPSEATAKKEVPNGLTTWDFNDLGERVSCTCSRYRLKHQKLNLTSTPSTNPQLSANQTLYPSSLPKHKTSEKMEKADKQSKRPALIPFHHRLSVTQEGPLEQDSSGGPQLAGLVVLDPPQEPLAALPSCKYPKPLSNGRKVPESLLQSPVSPLPPTLSPHPQVREPEVLDVPMDLPACPEGPSGLGLTPSETAVYSALLRKKESGAGWWRGFRTPRTDKADFRAPDLPTDILEDLKTDKYMDAPLKSSRLYTQTQRRYKISDARVREHIQTLGLYQQPGMEVLREPGDDPYDFKEGDIEYTFSSSKRLKSQGRESTKKLKGEEITSNGALPDGKDAMSIFNSAPKPEQSDPDDGAAKPNPSLTREKDLVVNISDLDNIFDEDDEELGTVYTNHQSTKIPASIEDRPVGKEGRVAVSYPSTIADLQRMFPTPPSLEQPPAFSPITTYRDTPSQEPPSGAADHLLPLTSAHLLEYKMETEEGVASPRLEDNKPLYMLFFQLQIGSSMFAPLFCLPSQSLPPLKIPDQCYYRPSWSLLPKIEHFPVVLQNTAFTRDGYTNIPSVNTEHEYSLLSATTASVSTTVGILPSPATPRFSVPTPRTPRTPRGINAASSGQGSVKQDGTELSSPASTPSTSLPLSSVEPLARRGPSLPEAHSLYTVLLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTCEDQYRCMCGFSAIVNRLLSHGTGLFLEDELDIFGRTSEVGRAAERRLALCRRDPTMGNPKAKKTQDVSLASPSFMVLLQEQCSQPISSLASLHLPLRCSCHGRKGALLQSWMSEKQWADANDACVDCYNALEQGLLYVDNPTGGKVDSTVVRSTAFHSWHQTNVVEMSTLSSQDMVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYAKGSEESPEPLPIPTVLLGYDRERDFLALSPLALPFWEKLLLEPYGGQRDVAYLVLCPNSPSLLAAAQAFFQELSAVYETCRLGKHRPLAKVSKDGLIRVGEQVESEKLEELDVDQLCTGPWSGQQHTDNLNKLKLYAYACKQQLGPQLSGLHLDSSLLVPPKATPPTTSVQPASSGQPQPPGPDGEQVPGSTTSGNVQTPIGAASAQTGEAPQGAASESKGPPSSAAPASAPAETPELGREVHLNNALLGLCDVTPVRCSLFSTSEQSRIGIPTLGDTIDGHTNPPAVVIYIVDAFLSGSGRNEVEEEGDEVETGSIWLLGLLRCYTEMLQTLPEGIRPALVLQVVSCQHLLQPASGESHLYLQRLRSLAFSCYSQCRRLLPQQTYIKSLTGFGPASTVSSVLSSLTHPHPLQVYSPPFILGPTRPKQPEQGEIWAELPPKCNVLFVGYCLSHDQRWLLVSCTDQQGELLETSIINIDVPNRARRPKFSARKMGLQKLWEWCVGLIQMTSLPWRIVIGRLGRLGHGELKDWSSLLGEHSLHSVCRQLREACRMCEISAAESPTIVSACLVAMEPQGSLVVMPAGADAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAPSSYPTEDNDLPFDLPFPDELENDIGHDMMLITGNLHSSPNTSPVPSPGSPSMMGMGAHFQHAKREGERLLSRDSPPEELKQQPLALGYYVSTAPANGLPHWFWASCPQAESQCPLFLKASLHHHISIAQSDELASEKTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCTPATQDRQSCLPVHLAVLVQMYNAILNML
Length2125
PositionMiddle
OrganismTetraodon nigroviridis (Spotted green pufferfish) (Chelonodon nigroviridis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Tetraodon.
Aromaticity0.07
Grand average of hydropathy-0.357
Instability index58.43
Isoelectric point5.86
Molecular weight233496.24
Publications
PubMed=15496914

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

>MDP29173
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1081.22|     371|     475|     807|    1281|       1
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  217-  572 (368.75/132.87)	...............................................................................................................................WSYF.....YPIVLQQ....REGSGEKEAEDKSQAY...................D..SSCHVAVEVIVGgvRMTYPAAlvliAQGDLP.....................AEQPPPVP....AA...QG.LSREPNHCSVPLTPPtSPQQPCSADSGFVTSVSSVPTPDSSIGV....PSISPKHSGKTL.TCQVVhqawrECYLN..QPQ...YL...SFFSSRRSNKPSEATAKKEVPNGLTTWdFNDLGERVSCTCSRYRLKHQKLNLTSTPST..NPQLSANQTLypsSL..PKHktsekmekadkqskrpalipfhhrlsvtqegpleqdssggpqlagLVVLDPP.QEPLAALPSCKYPKPLS.NGRKvpESLLQSPVSplpptlsphpqvrEPEVLDVpmdlPACPEGPSGL..GL....TPSETAVYSALLR
  807- 1224 (563.97/348.29)	EQPPAFSPITTYRDTPSQEPPSGAADHL.LPLTSAHLLEyKMETEEGVASPRLEDNKPLYM....LFFQ.........................LQIGSSmfaplfcLPSQSLPPLKIPDQCyyRPSWSLLpkiehFPVVLQNtaftRDGYTNIPSVNTEHEY...................SLLSATTASVSTTVG..ILPSPAT....PRFSVP.....................TPRTPRTPRGinAASSGQGSVKQDGTELSSPASTP.STSLPLSSVEPLARRGPSLPEAHSLYTVlllsDSVLNVFKDRNFdSCCIC.....ACNMNvkGADvgvYIpdsTCEDQYRCMCGFSAIVNRLLSHGTGLF.LEDELDIFGRTSEVGRAAERRLALCRRDPTmgNPKAKKTQDV...SLasPSF.............................................MVLLQEQcSQPISSLASLHLPLRCScHGRK..GALLQSWMS.............EKQWADA...nDACVDCYNALeqGLlyvdNPTGGKVDSTVVR
 1300- 1532 (148.49/40.45)	EESPEPLPIPTVLLGYDRERDFLALSPLaLPFWEKLLLE.PYGGQRDVAYLVLCPNSPSLLaaaqAFFQelsavyetcrlgkhrplakvskdglIRVGEQ.......VESEKLEELDVDQLC..TGPWS....................GQQHTDNLNKLKLYayackqqlgpqlsglhldsSLLVPPKATPPTTSV..QPASSGQ....PQPPGPdgeqvpgsttsgnvqtpigaaSAQTGEAPQG..AASESKGP.PSSAAPASAPAETP.......................................................................................................................................................................................................................................................................................................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     191.24|      62|    1481|     127|     195|       3
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  127-  195 (96.60/63.04)	PQQLKDKSL...GSSERLSCSFSFFLHGEsnvctSVEIaqHQPAFHITENHIRLAQ.....TSVTP.VQVILSPYGLS
 1678- 1748 (94.64/47.65)	PQQTYIKSLtgfGPASTVSSVLSSLTHPH.....PLQV..YSPPFILGPTRPKQPEqgeiwAELPPkCNVLFVGYCLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.77|      34|     472|    1534|    1568|       4
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 1534- 1568 (56.62/32.65)	LGREVHLNNAlLGL.......CDVTPVRCSLF.STSEQSRIGI
 2013- 2054 (53.15/26.64)	LGYYVSTAPA.NGLphwfwasCPQAESQCPLFlKASLHHHISI
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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 MDP29173 with Med13 domain of Kingdom Metazoa
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