<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 MDP28339

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSQDTKDTNLALSLFLDAVRDILVDEICAASRANGHLPAVKLQSGFCLLSSRTPIEWTRNWEADNDVGTIYCEMQLHLMATHILIQPVPRRLITLTPLREASLGAAILLLPQGIPAFCIGQQGADDRVVCEFLDSLGQKDNQVMITNDFIRCYIPVRNISHQQDGGITTIWPRDLVLATPLRPPLPTLPHTNVPIQKPPSTPPRFQPNDHLALVLTSLSLHSSVDMSTLSTAMGAYVESIMKERDKPRVDPARLHPPNAQAEGLAANPSNDPLLETARPSHTMALSLSSGPAESYPSPLEMLVDRVQSSILPELDLSSTHTDTDQHLSSSAALETNYEPPRTSEDIPSSTNPFTMPQTLESWDPSGVTAPFDFGGAVTTSYDPFASGTMFTEADFNIFSSQLPETSTTDIVDSVGNIVSSALGEDVLMALSDQPQPEDFAKLDASLIDWNFAQDTVPFAMPAVEEIPSGLATTAQMFQTNLEIEPFGVDLPMITPSKTPGALEAPNSSHSIKFQLSLDSPAPFTGEKDYEVDEDAGFLAVQFSKANNIADEKYSSGKYSLPSPPPDTNDSRSPIPKSTNPHARQKKTLNALDDAGRPWKSSTTREGDLRARYMAATQPKQAMLAKLSGTKRPWSQNPAVELGFETNSTQSPLKKRRLTWGTGNEAWRHPTPPEDYLDSRDDGDSSLDGDEFGADDGQDDPFQTGDPLAPVLDLKSDAHVCTQDPVKLLQASFNCGWLADHNFVLSSDLILPTSKLSIFSNAHTPSFTMPISVPTPVSPDAINSHSEPSSKLTTNIARHFAKEAGNNTLWYSTSIAMAALTLEPSNDRIAICQAETVGLAEVLKAASNLSWGKSIAEIAEADYVTTTTETASQMDVDANAPSVNHVMRLYTPKLLVGHGTGVIEALPAILRFWDHINMVPLNGPKDVNAVAFVSDAGGPGLVSLTDSWLKQLSKIYGARRLGTHAPMSFSKHPNGVIPIQWDDFRTICGRFLAAKLVTPLVVYVVVPNSFANLQHPSALAVLGVMAEVTDSLAHEPRRLLFRLIPEVFVSHQKTLARNLNFSLDKVALAVYDAIPRVIERQHSRISSKLYASRDKLDAYAFTLGARKQIKATLVERWPPPAADVFDRYTFMHVAYASSVDGEWLTASVVTERGDMQENAVWKLDDVDPFTSIARLVLDFTLSTAKQADIDWRVTIGKSDAMSAPELDAWKLEFDSRFGQGGQSMHITLLSVTKDDSPTMLDSPLIVHLPNQVSPPSRDKEGSVFLDISTDAFILFPRPTHLTVSTHSQVTRSDFLTMEHGAEEDTPSFMIPVSTCWLVHILRQPGWTTHPQDSTLSDVGGYRTSSLQIHALHLVRYGNSSYSGEARGHMRDVATNFYDLTILNDARRGDISHGYKQPLHFAVAEAMASTLSGIQI
Length1414
PositionKinase
OrganismSerendipita indica (strain DSM 11827) (Root endophyte fungus) (Piriformospora indica)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Basidiomycota> Agaricomycotina> Agaricomycetes> Sebacinales> Serendipitaceae> Serendipita.
Aromaticity0.07
Grand average of hydropathy-0.240
Instability index44.08
Isoelectric point5.08
Molecular weight154563.35
Publications
PubMed=22022265

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

>MDP28339
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     339.34|      82|      84|     355|     436|       1
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  274-  347 (85.86/42.95)	....LETARPSH.TMALSLSSGPAESY.PSP.LE.ML.VD...RVQSSILPEldlsSTHTDTDQHLS...SSAALEtnyEPPRTSE.DIP..
  355-  436 (140.45/75.33)	MPQTLESWDPSGVTAPFDFGGAVTTSYDPFA.SGTMF.TEADFNIFSSQLPE....TSTTDIVDSVGNIVSSALGE...DVLMALS.DQPQP
  442-  522 (113.03/59.07)	LDASLIDWNFAQDTVPFAM.PAVEEIPSGLAtTAQMFqTNLEIEPFGVDLPM....ITPS...KTPGALEAPNSSH...SIKFQLSlDSPAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     518.50|     190|     552|     563|     771|       2
---------------------------------------------------------------------------
  123-  196 (63.58/27.02)	..........................................................................................................................................GADDRVVCEFldSLGQKDNQVM.ITNDFIRC.YIPVRNISHQQDGGittiWPRD..LVLATPLRPPLPTL........PHTNVPIQ
  201-  271 (51.32/17.19)	TPPrfQPNDHLALVLTSLSLH..SSVDMSTLSTAMGAYVESIMKERD.KPRVdPARLHPPNAQ.....AEGLAA..NPSND...............................................................................................................................................
  563-  771 (300.02/207.97)	PPP..DTNDSRSPIPKSTNPHARQKKTLNALDDAGRPWKSSTTREGDLRARY.MAATQPKQAM.....LAKLSGTKRPWSQNPAVELGfETNSTQSPLK.KRRLTWGTGNEawrhPTPPEDYLDSRDDGDSSLDGDefGADDGQDDPF..QTGDPLAPVLdLKSDAHVCtQDPVKLLQASFNCG....WLADhnFVLSSDLILPTSKLsifsnahtPSFTMPIS
  772-  876 (103.58/48.45)	.....................VPTPVSPDAINSHSEPSSKLTT...NI.ARH.FAKEAGNNTLwystsIAMAALTLEPSNDRIAICQA.ETVGLAEVLKaASNLSWGKSIA....EIAEADYVTTTTETASQMDVD........................................................................................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.41|      30|      41|    1023|    1052|       7
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 1023- 1052 (49.49/34.51)	VMAEVTDSLAHEPRRLLFRLIPEVFVSHQK
 1065- 1094 (47.92/33.16)	VALAVYDAIPRVIERQHSRISSKLYASRDK
---------------------------------------------------------------------------




































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 MDP28339 with Med13 domain of Kingdom Fungi
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