<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 MDP28012

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMEGINASKVNTNYYKFGHITGVKYASYQLNTNNDQALLELELAIRYKYPSILITYYNKGLYYFQFEHNSNSIDLSKEYPELVLKTTKSISVELLCASPKPSQNQTQSTPSNNQCNDSASSENGMASAQSISEHSPYISVSLLKSIKKLILYRLSQEGSARIFGNSAVISIDEVTNHVIFIEPMISTNGDLLLCVIQKSALQLYDSSVLSIDAPEDELSPNFIIYLTPSGIRCHLFDNFKVLNSFTYTPPKNHENVLSLLKLATGIDLSIEPNLLWVKLIPNLQHLNNQTSKIAKFIHTVDNKKYIMWPWKLCLLQFGRYERSIDFESDSLANAEYSNQEIKYSDPLGLISEFMDFSIATKQQMQQNHQHLQNTGTIHNISTFNAPSVMSTGMSSAEHKNDLQMENNEIQMIPDLFEGIPHPVGVDFFDEKMMGNITELDDDRDIGMEDTSMISEDKNGLPDEGNDEMDDLFGGYSGSEDTDGKDETKQESDDNNLGLIENESKKDNVEDILKSSIDDLSFSGEDDLFNGRSSKLSFSNESTTFDIPKDQMAISLKDSTPYDDPGAPLPIMPTPMIPPPFDKSKVNPVSAGIDSDVAISQSAFSPILFNPLIKSNVDDKYGKGGKFYYNQNSETPIKKLRATSVIGLDLRSSGTFESPDRKGLGIEYLPESKVFFDSEEDEKIQEGEEDVPQGGTIAHSRRGEVEGNDDEEESVDGGPGEGDDDDIDDDDDDDDEEEESDEDADINLGKDSPLRLNMQSEPLQFQNPTGVPSVREPPGTVKTSHLLNTNTFNSGGFSSPLSTTLFTQSTKLNALPKFDSPFAIHDSPLDEKNKYNSPLTMDNDEFKRQTPISMPSTSVPTMNPTADGSSSNESTANSISESSNCLPLILRGVNIATIPDEFLLNNIMGAIKMSATASDFNMDVDQDEEDTEVSKKNEMVIKVDYLNEFLNWLGPNLIFDLGLNNIRKNLTSNIPQPFKDYQPKDNSRLIECELIPEKFEKVLMDAFPFTYKIKLEELLSDISELKDKEEYSMDNQLSFLDDITNDEILNPKSKLRKLGTIEWDSIYLDNPRNDEGFKEYAQVMKEISEMSLLDVSESIKTLNENKIRVLKNKSDIINLNSISIRFWKYLNFDPIFGPKNFQILMISETLNDNSNNTYNQDFIDSLIYNYNDCNFGNISKVSLQTIEARPDLESINNGLLSINKNDDNYNHIYRQMNKKLNSLAELIQLDLINKTNRFEFDRPLLLMFINFNKNFNSLVEISKICRNFKTFLKRHQLPLVQVFSKIIPSEHIIREINGQRVLKHTSNYMLTKLAMNLYNQCPNPIKTIGPNNIVDTSLNLFTNIVKEPVSKLNFKFFNNNASNKDTSSDDDAFLHLAYERSIDKNWVSAAWSDPLGIVTYTKSWCNSASLLKSTNSQATSNSNGHGDVGINRNVHDLYSISDQILEISNDLFKKLNDEIIKRTSGLGGRKFLVLTRVNSIIPDDELVHWKRLSVKYKDISLIVLSVNGTPKASLTETTITSDGIKNGASNLDQSANNDLVSIDIEDGTRDLITEEGMSRQGIKMDPQESANDFFKNFNNMSSSNNPSPNNSNLMISPSNNFSFGLNNASNFLSPDVQGVLGGQTQNGDSSKIDQIYNGSFDLKDVTLQDPSDSIVGIVPMTSVPSLNTPTRPAMGVGYLLKKVDPLKPDYLIFDINLLSCSNYWNLKSLMKIILNHYKKLITLNDILCTRSILGAFGDEVERENYISSGIVPWHITAVRKSLNYLIHIDVEE
Length1770
PositionKinase
OrganismCandida tenuis (strain ATCC 10573 / BCRC 21748 / CBS 615 / JCM 9827 / NBRC 10315 / NRRL Y-1498 / VKM Y-70) (Yeast) (Yamadazyma tenuis)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Saccharomycotina> Saccharomycetes> Saccharomycetales> Debaryomycetaceae> Yamadazyma.
Aromaticity0.08
Grand average of hydropathy-0.492
Instability index40.33
Isoelectric point4.65
Molecular weight198722.02
Publications
PubMed=21788494

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

>MDP28012
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      92.24|      16|      17|     537|     552|       1
---------------------------------------------------------------------------
  516-  531 (22.98/ 8.06)	DDLSFS.GE...DDLFNGRS
  532-  547 (27.32/10.93)	SKLSFS.NE...STTFDIPK
  548-  564 (21.15/ 6.85)	DQMAISlKD...STPYDDPG
  565-  583 (20.79/ 6.61)	APLPIM.PTpmiPPPFDKSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.50|      17|      17|     714|     730|       2
---------------------------------------------------------------------------
  714-  730 (32.91/17.67)	DGGPGEGDDD.DIDDDDD
  732-  749 (25.58/11.94)	DDEEEESDEDaDINLGKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.77|      13|      16|    1034|    1046|       4
---------------------------------------------------------------------------
 1034- 1046 (22.85/ 9.53)	QLSFLDDITNDEI
 1052- 1064 (21.92/ 8.88)	KLRKLGTIEWDSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.72|      25|      29|     346|     371|       6
---------------------------------------------------------------------------
  346-  371 (39.57/30.72)	LGLISEF.........MDfSIATKQQMQQNHQHLQ
  376-  409 (36.15/22.25)	IHNISTFnapsvmstgMS.SAEHKNDLQMENNEIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.69|      44|    1056|     252|     345|       7
---------------------------------------------------------------------------
  254-  297 (74.72/101.53)	NV..LSLLKLATGIDL.SIEPNLLWV.KLIPNLQH....LNNQTSKIAKFIH
 1175- 1226 (54.98/ 9.24)	NIskVSLQTIEARPDLeSINNGLLSInKNDDNYNHiyrqMNKKLNSLAELIQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.15|      18|      19|     448|     466|       9
---------------------------------------------------------------------------
  428-  445 (25.21/11.23)	DEKMMG.NITELDDDRDIG
  448-  466 (27.93/17.98)	DTSMISeDKNGLPDEGNDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.80|      21|      28|     838|     858|      10
---------------------------------------------------------------------------
  838-  858 (38.64/25.35)	TMDNDEFKRQT..PISMPSTSVP
  863-  885 (31.16/18.71)	TADGSSSNESTanSISESSNCLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.23|      27|      30|     652|     680|      14
---------------------------------------------------------------------------
  652-  680 (41.73/32.15)	GTFESPdrKGLGIEYLPESKVFFDSEEDE
  685-  711 (46.50/29.04)	GEEDVP..QGGTIAHSRRGEVEGNDDEEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.61|      16|      17|    1640|    1655|      16
---------------------------------------------------------------------------
 1640- 1655 (26.80/13.93)	LKDV.TLQDPSDSIVGI
 1658- 1674 (21.82/ 9.98)	MTSVpSLNTPTRPAMGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.33|      12|      17|     944|     955|      17
---------------------------------------------------------------------------
  944-  955 (22.64/14.43)	LNEFLNWLGPNL
  961-  972 (19.69/11.36)	LNNIRKNLTSNI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.89|      12|      46|     171|     182|      19
---------------------------------------------------------------------------
  171-  182 (22.28/15.14)	DEVT.NHVIFIEP
  215-  227 (17.61/10.15)	DELSpNFIIYLTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.07|      17|      19|    1246|    1262|      22
---------------------------------------------------------------------------
 1246- 1262 (30.13/16.59)	FINFNKNFN.SLVEI.SKI
 1266- 1284 (21.93/10.21)	FKTFLKRHQlPLVQVfSKI
---------------------------------------------------------------------------




































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 MDP28012 with Med13 domain of Kingdom Fungi
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