<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 MDP00887

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLTDSSLTNIFLVSGVSHIRYRVYSQQCERSQLARLLKSEAVPESISLSNHHWPKDHHQPESILIQAFRNLVQLNIPCVWRPAPTTTQLEEEKASNKDDDHVVLLELWVFWFDDRHTGLVDNNEMLKQLEEIKMGSFTWENTIAKNISPTASPITGNQSSSSSSASVATVINRVSNEYILFVKAVKRLIRCSILQKGGVLPLGEFFIFSHKSDMTNDILPYTTEPAINDSMLSCTYNVYLSNTNLVVQPDVRRLEIRPLSLSDLDKKEGTTTVITSPLGERAAILPMQQDFPEQLEEKILREWSLLFDIPLRCLNSCRQQRPCAAPKLPALTPIRSLRGDVVLYPTALLFISTASSTLSSASSDMNGVLRYHQGYTEDLVQQWNHWWWSDQVTNIATRNKTQHHHHHHHHASPSILNYWDYGSPKLHTASAMFDTLSMTAENISANGVLKRALDEVVGSSPIMASKTVATPASLGCKNETMSPPSTKEGDESRRVEEESELSVADFARIHFADPIEKQQQPMLTSPDVKPEPVTTTTTTTMPVQEDPITASATVPPTMNISNNNTMGYMDSTALLLSGGTTTDQMAAAAGTGNTTTTTDDAFDFRFGMDALGGSAYDMSNRWGDVMEDLDNLDLHVTEEDFDFFESEPTSNKAPASQQQQQQQQHADFNNDLLKVTTQDFQQQLQQQQPSGTTVNENDRLMLMEGMPLSGIGEVPEADGEIDLDALLGGTNGVLDDQLLGNTSQVQPQATTVTTATSGGTQPSPMMTNGNLTAIETSADDSAVSFREKSISLKGMTTSPMLMEPHTLENHFVPPDFAPVQFSEGVDNAKYLEGGKFMYAPKKDASARDPITTKRKRRLRRSLYRPDYVPRLRKRIKNKDDNNNSIVHTYPNYTPPSIRPLLMYRPKDSTSAAVNKYHKRPQQTTLDLAEEEGSSCSSSSSSSSDDDDDSSSCSEEGDEDEIKSYSGHEKEKSDSHDPQWWMSGLQSVHDSVVDQLLVASPSMRRTGSDAEAKSDTRTIQSQEDFKVLDYLCQQVVMGGYPFDNGLSAVSSNLGQVHIGESTTALVAQRRKLLQGAHGAFNHVPSLSNDFHRVSQDFKDVLMNIFDRTRTSTVTTPDANSSNTTNADGMLPMTVGTVGVKGPLSVQQYYDLSETSQAQSKYGKYQVRKRRPAEPNLDTLTPPDILAGRHEEEYIEGSPQMITMWEKLRLEPYSSRKNVLYFVVYPANEQLESTCSHFFKALSTVYESCHLGIHHSGTISTYRRGLVPVPLLPPSSANETWEERQLRSYNAECQNLGSALGNAMVERMHIVIYIVNPSNTMSSHFDLSRCYHKLMVAYHAASMGISTHSLQERRARLVMQLVPIEHIIRSSSAFGGYTKFGLKDIAFSVYSKCLPVMSRKHPKPDVEDAGPIASTMYAPPFILAKSSPDTIQFSLKGSANLFPTILESNATLHMAYSFTLDRRWIILVWTDNQGELLEYAVRYIDNDKSMAQVIEDAWKQTLQVSARTGFEWTFVIAKVGLMFLEELQMWADCIPNDAKVAITCVDMESALRVNADQLHGSSVNIASVMDYPQTPGSSSANTPTPEAFNTTSIPSSVGGIKNNVSDTGSAVAQAQAAANSDITGATKTLLLNHRVAYSEQRAQVSEAFVGGLNDEADGNWMLPLATGYLIHIYAKPENPCREQINNEPLIMDVHLLLNQTGHSAYSTLRNIIKRYHALAYVYTTPSAGGSLPIHVVLVSRLEHVLSIISKT
Length1749
PositionKinase
OrganismLichtheimia corymbifera JMRC:FSU:9682
KingdomFungi
LineageEukaryota> Fungi> Fungi incertae sedis> Mucoromycota> Mucoromycotina> Mucoromycetes> Mucorales> Lichtheimiaceae> Lichtheimia.
Aromaticity0.07
Grand average of hydropathy-0.416
Instability index52.74
Isoelectric point5.44
Molecular weight193916.41
Publications









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

>MDP00887
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     135.84|      46|     457|    1091|    1157|       1
---------------------------------------------------------------------------
 1105- 1157 (71.39/63.69)	DRTRTSTVT.........TPDANSSNTTNADGM....LPMTVGtvGVKGPLSvqqyyDL.SETSQAQ
 1554- 1613 (64.46/24.87)	DQLHGSSVNiasvmdypqTPGSSSANTPTPEAFnttsIPSSVG..GIKNNVS.....DTgSAVAQAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.68|      32|     388|    1329|    1366|       2
---------------------------------------------------------------------------
 1329- 1366 (51.55/50.37)	YHKLMVAYHAASMGIS..THSLqerrarLVMQLVPIEHII
 1713- 1746 (51.13/35.46)	YHALAYVYTTPSAGGSlpIHVV......LVSRLEHVLSII
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.58|      14|     453|     210|     223|       3
---------------------------------------------------------------------------
  210-  223 (26.58/15.46)	HKSDMTNDILPYTT
  664-  677 (25.00/14.12)	QHADFNNDLLKVTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.61|      10|     389|     289|     298|       4
---------------------------------------------------------------------------
  289-  298 (18.59/ 9.97)	QDFPEQLEEK
  678-  687 (19.03/10.38)	QDFQQQLQQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.78|      31|     383|     971|    1010|       7
---------------------------------------------------------------------------
  971- 1004 (54.14/32.85)	KSDSHDPQWWMSGLQSVHDSVVDQLLvasPSMRR
 1367- 1397 (53.63/25.60)	RSSSAFGGYTKFGLKDIAFSVYSKCL...PVMSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.16|      33|      36|     731|     766|       9
---------------------------------------------------------------------------
  731-  766 (49.23/38.63)	NGVLDD.QLLGNTSQVQPQATTVttATSGGTqPSPMM
  768-  801 (50.93/29.47)	NGNLTAiETSADDSAVSFREKSI..SLKGMT.TSPML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      68.75|      15|      15|     569|     583|      10
---------------------------------------------------------------------------
  569-  583 (26.69/16.58)	MDSTALLLSGGTTTD
  585-  599 (23.93/14.02)	MAAAAGTGNTTTTTD
  608-  617 (18.14/ 8.63)	MD..AL...GGSAYD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.53|      13|      81|     805|     818|      11
---------------------------------------------------------------------------
  805-  818 (22.24/17.28)	HTLENhFVPPDFAP
  887-  899 (28.29/16.54)	HTYPN.YTPPSIRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.12|      16|      82|     457|     474|      13
---------------------------------------------------------------------------
  457-  474 (22.76/16.61)	VGSSPIMASKTVatPASL
  543-  558 (30.36/16.28)	VQEDPITASATV..PPTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.39|      21|     274|     104|     124|      16
---------------------------------------------------------------------------
  104-  124 (39.67/23.07)	LLELWV.FWFDDRHTGLVDNNE
  379-  400 (37.72/21.59)	LVQQWNhWWWSDQVTNIATRNK
---------------------------------------------------------------------------




































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 MDP00887 with Med13 domain of Kingdom Fungi
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