<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 MDP24649

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTLEHEILDLNTNYFKFGHLQNVRHRVYTNIKDNEQALLELELKIRHQNPKILLTYYNKSLFHFAIDDGSNFENFVEVYDNLKIQHEAVTAVEVFANVANMAKAGNSSSDKHLVLANLSFLRAVKKLVLYNLCLKSTFRLFGNQCVFSSDGIMYTPVCLDPVLLENGELLVSITERKSLSLYSSIILSPEEFIQAAHNLVLYILPSGIRCHLFDPTNIENNFVTSHNIKNDNLLKLLELSIPGTDFSQERKWVKLIPNLKHLNNQTSLISKFIHSVENTKYILWPWSLCFLQFGLNEETELASNAMDTSFPLSSSSPSSNSPAHNPIDFISDYLDFVIDENEKEQAVLKASIQIKNEQASKGSAATATGAAPVAASVTGDSYESKDATAHTLNDPHARHLDFNLTTSPGFETFDLRAAETFLADSHVVGNGDENKDANATVKSGSDAEMDDLFGDDESENADDKPKDNTIKIDNVNEHTSHSSPLNPEQIGKSKSNDFENEDVDELFGSEFNEDDDAETEKKAETKAEDEAEDEDEAEFSVNDSTSMRQQAVHENELTGESDSRRPVNNKNRSSLSLPYAEFLKNNMTIKQSISPEYSDPGAPAPAPTYLTPFEPVLKRNTPLVKLLDSTPSFETKRSLPQGEVRPSLVNSLFSPLPFNPIIKQDIDQKYGKGGKFYMEGMDVDEPVSPKLPLPASYRQRHSIAATTVSANFNDGVGGATSSGTVAGHVTGSGVGPRSWEKDPNDYSDAESSSEESDEDSTSNYQITPPGFKLESSQGHDSSNMHLQSEIYSQNLQIPQSVNSTAQQLYSGNGQGASPLGTVALRQNSRFDSPFLPTSTLEMTPFLQESFPGQALLMTSPPSGNAINAHHNDNDNDDDDHFHDHHHQNNNNSNNNSNNNSNSNINGNGNNNNTANTRRNFSETSNYAPLILRSINIFSLPDRYLLNNIHKFQNTALPLSMNDDNQNDLETRVSLSELVVQHKHLSVLLQILADNVVFDMGELNNYQLNLCMLKKFKNVDTEKISQSQQQQKQQQQQKQKQRKVQSLEIAKPEDAVLSVFSNCYLLKVQDILAEQIKQTEKSELFIDNNDFIFSDFGTESESDEKVSTWNFLSGDPVGGEHGQKQSETGHQHLQRSLVSNFDEENFFITPAVKVIVGKNEETVNSNILVTKFWKHMSFTPANDLRKNFQLLFLGPEDGRSRISNNSNKKNLKDNTYARLLVDKLVANYQECNFGKITKLSLTTVDTRPDLEPVEEGVSLFEFENDAGANRNSMDYYSQLNSKLMHLVELIKLDMINKTDNFNFNQPLLLFVINFDENYNSTLQLAKVLRNFQVALTTHQMPLVQIFTKIVPSRFLVKRVGSDVRLRILNTQALSRISMNMYNECPSIQQSVNQNYSLAFSRSIFAPLTGDPPQSLQFKYLNSAYKSSGSGNEDSFVHLAYERSLDKAWVAAAWSDPLGLVRHVKAWHIPEQSTASRGNSFFQKRDFEGEITPTDLATVTDEMWSISAELFKQLNSLSRKSSSLSSRKFLVLTRINGSIPDDELVHWKRLSTKFKDISLIVLSTGLHSRILVEESKHDKMKEKDKELEKGKAETEVEEDGQKKRIKNNQDEEEEEEKEKEKEKEKDENEKGVGDKETDGQHPPFNQSPQTALDRVDMINFNNFTADIADPSGMAANSATGALVTSPNALMYHSPQQFLNAPSNFLSPQEFNTPNSGLLSQGNSLTIDANLRLKETDEEIHGVIPRLKLPPSGSSTRGGMKTGYLIKRRKVTKDDGASKKAEFLIFEVNLLSCSNYWDLNVLMKQLLIQYRKLLSLNQILGTVNTEKVKCEEYCPILLDDLVPWHVVAVTKLLGYLVHIYVEE
Length1860
PositionKinase
OrganismLodderomyces elongisporus (strain ATCC 11503 / CBS 2605 / JCM 1781 / NBRC 1676 / NRRL YB-4239) (Yeast) (Saccharomyces elongisporus)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Candida/Lodderomyces clade> Lodderomyces.
Aromaticity0.08
Grand average of hydropathy-0.579
Instability index44.46
Isoelectric point5.14
Molecular weight208715.98
Publications
PubMed=19465905

Function

Annotated function Component of the SRB8-11 complex. The SRB8-11 complex is a regulatory module of the Mediator complex which is itself involved in regulation of basal and activated RNA polymerase II-dependent transcription. The SRB8-11 complex may be involved in the transcriptional repression of a subset of genes regulated by Mediator. It may inhibit the association of the Mediator complex with RNA polymerase II to form the holoenzyme complex. 
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

>MDP24649
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.86|      15|      15|    1606|    1620|       1
---------------------------------------------------------------------------
 1606- 1620 (25.19/12.23)	NQDEEEEEEKEKEKE
 1622- 1636 (23.67/11.07)	EKDENEKGVGDKETD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|    1100.28|     324|     343|     521|     863|       3
---------------------------------------------------------------------------
  333-  676 (425.90/299.92)	YLDFV.ID.ENEK...EQAVLKASIQIKNEQASKGSAA.......TATGAAPV..AASVTGD.....SYEsK.....DATA..HTLNDPHARHLDF.NLTTSPGFET..FDLRAAETFlaDSHVVGNGDENKDANATVKSGSDAEMDDLFgddeSENADDKPKDNTIKIdnvNEHTS.HSSPLNPE......QIGKS..KSNDFENEDVdeLFGSEfNEDddaeteKKAETKAEDEAEDEDEAEFSVNDSTSMRQQAVHENeLTGESDSRRPVNNKNRSSLSLPYAEFlknnmtIKQSISPeYSDPgapapaPTYLtpFEPVLK.RNT..PLVKLLDSTPSFETKRSLPQGEVRPSLVNSLFSPLPFNPIIKQDIDQKYGKGGKF
  677- 1011 (520.07/335.28)	YMEGMDVD.EPVS...PKLPLPASYRQRHSIAATTVSANFNDGVGGATSSGTV..AGHVTGSGVgpRSWE.K.....DPND..YSDAESSSEESDE.DSTSNYQITPPgFKLESSQGH..DSSNMHLQSEIYSQNLQIPQSVNSTAQQLY....SGNGQGASPLGTVAL...RQNSR.FDSPFLPT...STLEMTPF..LQESFPGQAL..LMTSP.PSG.nainaHHNDNDNDDDDHFHDHHHQNNNNSNNNSNNNSNSN.INGNGNNNNTANTRRNFSETSNYAPL......ILRSINI.FSLP......DRYL..LNNIHKfQNTalPLSMNDDNQNDLETRVSLSELVVQHKHLSVLLQILADNVVFDMGELNNYQLNLCM
 1012- 1197 (154.31/85.41)	LKKFKNVDtEKISqsqQQQKQQQQQKQKQRKVQSLEIAKPEDAVLSVFSNCYLlkVQDILAEQI..KQTE.KselfiDNNDfiFSDFGTES.ESDEkVSTWNFLSGDP...VGGEHGQ..K......QSETGHQHLQRSLVSNFDEENFF..........ITPAVKVIV...GKNEEtVNSNILVTkfwKHMSFTPAndLRKNF...QL..LFLGP.EDG.....................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.00|      29|      34|    1657|    1687|       4
---------------------------------------------------------------------------
 1648- 1684 (38.23/23.48)	TALdrvdmiNFNNFTADIADPSGMaaNSATGALVTSP
 1685- 1719 (43.77/21.96)	NALmyhspqQFLNAPSNFLSPQEF..NTPNSGLLSQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     142.75|      37|      40|    1465|    1502|       5
---------------------------------------------------------------------------
 1424- 1452 (41.14/23.96)	.....KSSGSGNEDSFVHLAY......ERSLDKAWVAAA......W
 1465- 1502 (61.81/45.04)	WHIPEQSTASRGNSFFQKRDF......EGEITPTDLATVtDEM..W
 1507- 1545 (39.81/22.91)	ELFKQLNSLSRKSSSLSSRKFlvltriNGSIPD.......DELvhW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.26|      14|      29|    1371|    1384|       7
---------------------------------------------------------------------------
 1371- 1384 (27.17/14.13)	ALSR.ISMNMYNECP
 1397- 1411 (22.09/10.26)	AFSRsIFAPLTGDPP
---------------------------------------------------------------------------




































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 MDP24649 with Med13 domain of Kingdom Fungi
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