<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 MDP28606

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLDRQASDIKTNYFKIGHVKNIQYTIYTTANNNEQELLELELSLRHQHPNILLTYYNKCLFYFLVDDAIHDTPSLVESNPIVKTKFQSTVIAEKLANPPKTVDNEEYLAFANISFLRALKKMILYNLSIQQVVKVFGNHCVVSEDNETYRIVCIDPILLATGDMLMSCVERKTPHFYNSSLLFPNETIKSQAFVVYILPSGIRCHLFDPTNLKSNFVSKPQFENEQLLRLLQLNTGIESLQGATWVKLIPNLKHLNNQTSSISKFVHTVENKKYILWPWNLCLLQLGLREKIRDYRDSTPNYSNPMNLLSEFLDFTISHKAESERAEQILYNQHSQQMQQSSQLETQPTNVRQDNERQSPSLKQEQRSPSTGSTNTVNEAPRNLGPLDIGLNTPLGGDIFNLQVNDNFFPKQENSVPEERNADAEDDNDMEIDELFGGHEDASEDAFLEEGNQSGGNIENIKDEADDLFKSGTNSESPFSDGATQRLEPPRPESNSESKSKKVLPYIDILSTGMTVGKSVSPNYSDPGAPPPVNPTPMMYMSKTSADSSSSQSQCQSQGDIVKSDNEVMGKNKQTLFSPLAFHPVIKKDIDTKYGKGGKFYFDKDVDGVEKSGFRATSVSGASPSSLSTFKKQRIQTDDLSGSEESDEDADSEEGSQYSDEHHDTFVKSNQGNIVGANTVLDFGAPSIGPEKSIFTPMLHSGGFSSPFVNNFGKMGAKPESPLPLNDIQSSIMTPAFYDASIGHHSPQMNHLENKKETDPPSKATETSNFLPLILRNVNVSTIPSLYLMNNLISDRVIPTFSMTEDEGDNDLETTNSDELIVKSRHLKELLHFISKSIVFDLGTTSKMYSQLKSEYNEDFSLTESNAIEYQTPKFSFLEQIGSVFPHSYQVCLSELVVDTKHEEGGEEEDLLDGDLNFLEQITHHESPKTRRRIKKELDSLTWNFLDGTTSQADFEKYSNLLQEFNSFPSSTDVSIFKTKEVKVKVNKNGSLIKLNCVGLDFWSYLDFSPVGGQRDFQMLAIGETSGFESSSYLHKLTDRLISNYKSCNFGSISKLNLSTVDTIPDLEPVSDGVMRVTESLSCNCGGYNQVNKKLNSLAELIKLDLINKTNNFEFDRPLLILFINFDQSFNSILQISKVLRNFKVALLNFQVPLVQIFAKIIPASMIANKVGSDITLKLFNNHMLSKISSSLYNECPQDAGAKLSSCQFYAPLVKEAPSRIPFKFINNSYRDISGSDDTFIHVAYERSIDRNWFAAAWTDPLGLVKHTKSWYCSPNGNEQNGAKPSMHSFRDERIDVATIADDIWNISAELFSALSRVNERENSAGGKKFLVLTRINSVIPDDELIHWKRLSMRFKDISLIVLSVNRTPKLTLSVKGENSNSTFNSPDRDRDSFFSFKNPNNINNTSPNTSSGGSVLATSPNGLAFHSPQQFLNMPSNFLSPQEIPTPGTAGSALESQNEPDAILKSADGDIYGVIPQVQLPSFNSPSRMNMKTGFLVKEQPVTSSDNEKGLLVFEVNLLSCSNYWNLDNLMKMMLSQYKNLTTLNDILGMRPIHGTEADTASLGYSQTTCVVPWHINAVGKLLNYVVHIYVEE
Length1594
PositionKinase
OrganismCandida parapsilosis (strain CDC 317 / ATCC MYA-4646) (Yeast) (Monilia parapsilosis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Candida/Lodderomyces clade> Candida.
Aromaticity0.09
Grand average of hydropathy-0.449
Instability index43.55
Isoelectric point5.20
Molecular weight178467.20
Publications
PubMed=19465905
PubMed=22192698

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. 
ECO:0000256	RuleBase:RU364134
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

>MDP28606
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.48|      39|      39|     693|     731|       1
---------------------------------------------------------------------------
  393-  433 (35.99/13.06)	...TPL...GGdiFNLQV...NDNF...FPKQENSVPEernadaeddNDMEID
  446-  479 (37.50/13.88)	AFLEEGNQSGG..NIENIkdeADDLFKSGTNSESPF.................
  693-  731 (70.98/32.14)	SIFTPMLHSGG..FSSPF...VNNFGKMGAKPESPLPL.........NDIQSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.88|      37|      44|     578|     614|       2
---------------------------------------------------------------------------
  577-  613 (63.47/46.30)	F........SPLAFHPVIKKDIDTKYGKGGKFYFDKDVDGVEKSG
  614-  657 (52.59/36.76)	FratsvsgaSPSSLSTFKKQRIQTDDLSGSE.ESDEDADSEEGSQ
 1443- 1467 (27.82/15.04)	...................QEIPTPGTAGSALESQNEPDAILKS.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.86|      18|      44|    1173|    1191|       3
---------------------------------------------------------------------------
 1173- 1191 (27.34/19.31)	SDITLKLFNNHMlSKISSS
 1219- 1236 (33.52/19.52)	SRIPFKFINNSY.RDISGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.37|      32|      39|    1355|    1389|       5
---------------------------------------------------------------------------
 1355- 1389 (50.14/41.01)	FKDISLIvlsVNRTPKLTL..SVKGENSNS.TFNSPDR
 1397- 1431 (48.23/31.16)	FKNPNNI...NNTSPNTSSggSVLATSPNGlAFHSPQQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     160.40|      43|      58|     990|    1033|       7
---------------------------------------------------------------------------
  943- 1001 (56.96/30.33)	WNFLDGTT..SQADFEKYSnlLQEFNSFPSSTD.vsifktkevkvkvnknGSLIKLNCVGLD
 1003- 1062 (64.35/40.63)	WSYLDFSPVGGQRDFQMLA..IGETSGFESSSYlhkltdrlisnykscnfGSISKLNLSTVD
 1063- 1107 (39.09/20.23)	.TIPDLEPVS...D.GVMR..VTESLSCNCGGY.......nqvnkklnslAELIKLDLI...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     148.54|      48|     208|      97|     147|       8
---------------------------------------------------------------------------
   97-  147 (74.09/66.23)	NPPKTVDneEYLAFAnISFLRALKK..MILYN...LSIQQVVKVFGNHCVVSEDNE
  304-  356 (74.44/54.13)	NPMNLLS..EFLDFT.ISHKAESERaeQILYNqhsQQMQQSSQLETQPTNVRQDNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.25|      14|      15|    1495|    1508|       9
---------------------------------------------------------------------------
 1495- 1508 (24.81/16.51)	GFLVKEQPVTSSDN
 1511- 1524 (24.44/16.13)	GLLVFEVNLLSCSN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.98|      42|      50|     188|     237|      13
---------------------------------------------------------------------------
  190-  237 (56.30/56.40)	S.Q.AFVVYILPSgIRcHLFDPTNLKSNFVSkpQFENEQL......LRLLQLntGI
  239-  288 (60.68/31.65)	SlQgATWVKLIPN.LK.HLNNQTSSISKFVH..TVENKKYilwpwnLCLLQL..GL
---------------------------------------------------------------------------




































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 MDP28606 with Med13 domain of Kingdom Fungi


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AEQILYNQHSQQMQQSSQLETQPTNVRQDNERQSPSLKQEQRSPSTGSTNTVNEAPRNLGPLDIGLNTPLGG
2) IFNLQVNDNFFPKQENSVPEERNADAEDDNDMEIDELFGGHEDASEDAFLEEGNQSGGNIENIKDEADDLFKSGTNSESPFSDGATQRLEPPRPESNSESKSKKVL
3) SSLSTFKKQRIQTDDLSGSEESDEDADSEEGSQYSDEHHDTFVKSNQ
4) TVGKSVSPNYSDPGAPPPVNPTPMMYMSKTSADSSSSQSQCQSQGDIVKSDNEVMG
326
399
625
515
397
504
671
570










Molecular Recognition Features






MoRF SequenceStartStop




1) DELFGGHEDASEDAF
2) FKKQRI
3) KFYFDK
4) VLPYIDILSTG
433
630
599
503
447
635
604
513