<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 MDP05511

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHIRSTSPRILTLQTQGMLKWEYVISNPAYRKYATKKILSHGMKRRSKCQGIELVVHNGWSKEKLSVNEELSTTNVMILVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFIRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLIXEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGMKEEEELGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPVSHNAASTGGHINVGQQGLGSVKDPASTCGMPLTPPTSPEQAVMGESGCAQSSISHSAVQEGTVSVHSPKKSGKITPKFHNQMVHRVWKECILNRSQSKRNQITTANMEEEVPNNAVSWDFVDPVQRVSCSCSRHKVFKQRCAAGSNRPPTINQPGFSVGTSSSSSLPPPASSKHKTTERQEKGDKLQKRPMMPFHHRPSVTEELCMEQDTSGQKLGLAGMEPSLEVPNSRKYEKPLSVPARNPSKQMNMNPMDSPHSPTSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSGLELQPLPTLDDRTVLVGQRLPLMAEVSETALYCGVIQNNESLDMWRTYSVPSSDDPEFRPPDLPCERYDAKMEINSDSTALKRLLAQPNKRFKILXEQKPVQPLNYLDPLPLIQQPGEGWGDASDPYTFEDGDIKYSFTGSKKCKLGAEKDPQKKNKSEDGIGTKEIPMTGHSTPVPDGKDAMSIFSSAPKADTRQDNAAGRVGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTTLGMMESPMVNMVPTQLAEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFMGSSVFAPLKILPSQCLLPLKIPDACVFRPSWAVPPKIEQLPLPPAATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPGTVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMICQSNLISQMGEGARRTQEPPMSLLLLLQNQHTQPFTSLSCLDYMSSNNRQXLPCMNWSYDXLQADSNDSWVECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKSVAQKLTDELVSEWFNQPWGTEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPAPASQAPTAPGSTGPVPSNSTCLSAAGAPSTGNSFNSTPSGGTTSLPAGSSSSSGSSVPQLSASSATPGVNQMTTTSTPGFSGNIGSGQNTSSGGNAAERSQGSTGPGGDAESGQNAPQQQQEGQEGVTERERIGIPTEPESADSNAYPPAVVIYMVDPFTYTADEESASANFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKLSARKIGLQKLWEWCVGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISSADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAXNLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2293
PositionMiddle
OrganismAmazona aestiva (Blue-fronted Amazon parrot)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Psittaciformes> Psittacidae> Amazona.
Aromaticity0.07
Grand average of hydropathy-0.389
Instability index58.88
Isoelectric point5.77
Molecular weight251688.42
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
regulated transcription of nearly all RNA polymerase II-dependent
genes. Mediator functions as a bridge to convey information from gene-
specific regulatory proteins to the basal RNA polymerase II
transcription machinery. Mediator is recruited to promoters by direct
interactions with regulatory proteins and serves as a scaffold for the
assembly of a functional preinitiation complex with RNA polymerase II
and the general transcription factors. 


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

>MDP05511
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     901.48|     292|     426|     388|     742|       1
---------------------------------------------------------------------------
  388-  730 (450.97/320.06)	LGSVKDPAST......CGMPLTPPTSPEQAVmgESGCAQSSISHSAVQEGTVSVHSPKK..SGKIT......PKFH..NQMVHrvwkecilNRSQSKRNQITTANMEEEVPnnAVSWDfVDPVQRvscsCSRHKVFKQRCAAGSNR....PPTINQ.PGFSVGTSSSSSLpppaSSKHKTTerqeKGdkLQKRPMMpfHHRPSVTEELCME.QDTSG.......QKLGLAGMEPSLEVPNSRKYEKPLSVparNPSKqmNMNPMDSPHS....PTSPLPPTLSPQprgqeaenldppsvPVNPA..LYGSGLELQP.LPTLDDRTVLvGQRLPLMAevSETALYCGVIQNNESLDMWRTYSVPSSDDPEFRPPDLP.CER
  809- 1137 (450.51/224.80)	LGAEKDPQKKnksedgIGTKEIPMTGHSTPV..PDGKDAMSIFSSAPKADTRQDNAAGRvgSGSLTqvtdlaPSLHdlDNIFD........NSDEDELGAVSPALRSSKMP..AVGSE.ERPVGK....DGRTAVPYPPTVADLQRmfptPPSLEQhPAFSPVMSYKDGI....SSETVTT....LG..MMESPMV..NMVPTQLAEFKMEvEDGLGspkpeeiKDFSYVHKVPSFQPFMGSSVFAPLKI...LPSQ..CLLPLKIPDAcvfrPSWAVPPKIEQL..............PLPPAatFIRDGYNNVPsVGSLADQDYL.QMNTPQMN..TPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPrTPR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.05|      18|      18|    1691|    1708|       2
---------------------------------------------------------------------------
 1654- 1669 (20.74/ 6.43)	...SLPAGSSSSSGSSVPQ
 1691- 1708 (30.61/13.27)	S.GNIGSGQNTSSGGNAAE
 1710- 1728 (29.70/12.65)	SqGSTGPGGDAESGQNAPQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.14|      19|      19|    1612|    1630|       3
---------------------------------------------------------------------------
 1138- 1153 (21.09/ 6.71)	..GGGTASGQ.GSVKYDST
 1612- 1630 (35.32/17.00)	ASQAPTAPGSTGPVPSNST
 1634- 1652 (32.73/15.13)	AAGAPSTGNSFNSTPSGGT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.35|      25|      27|    1196|    1222|       4
---------------------------------------------------------------------------
 1193- 1217 (49.35/36.26)	DSVLNIFKDRNFDSC.CICACN..MNIK
 1220- 1247 (40.00/21.21)	DVGLYIPDSSNEDQYrCTCGFSaiMNRK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     111.60|      32|    1267|     232|     265|       6
---------------------------------------------------------------------------
  232-  265 (52.27/52.59)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPI
 1502- 1533 (59.33/47.87)	PENEA.LLDGAKTFF.RDLSAVYEMCRLGQHKPI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.31|      11|     427|    1796|    1822|       7
---------------------------------------------------------------------------
 1784- 1795 (15.28/21.94)	LLSLMRCyTEML
 1807- 1817 (21.03/ 9.87)	ILQIVPC.QYML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.96|      23|    1725|     190|     212|      12
---------------------------------------------------------------------------
  190-  212 (42.65/28.30)	LSYECRTLLFKA..IH.NLLERCLMD
 1916- 1941 (34.31/21.23)	LSHDQRWLLASCtdLHgELLETCIVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.37|      11|      19|    1453|    1463|      14
---------------------------------------------------------------------------
 1453- 1463 (21.66/12.69)	SPEPLPI.PTLL
 1474- 1485 (16.71/ 7.54)	SPFSLPFwERLL
---------------------------------------------------------------------------




































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 MDP05511 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPGTVQ
2) KLGAEKDPQKKNKSEDGIGTKEIPMTGHSTPVPDGKDAMSIFSSAPKADTRQDNAAGRVGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPV
3) PPKYQTPAPASQAPTAPGSTGPVPSNSTCLSAAGAPSTGNSFNSTPSGGTTSLPAGSSSSSGSSVPQLSASSATPGVNQMTTTSTPGFSGNIGSGQNTSSGGNAAERSQGSTGPGGDAESGQNAPQQQQEGQEGVTERERIGIPTEPESA
4) RCAAGSNRPPTINQPGFSVGTSSSSSLPPPASSKHKTTERQEKGDKLQKRPMMPFHHRPSVTEELCMEQDTSGQKLGLAGMEPSLEVPNSRKYEKPLSVPARNPSKQMNMNPMDSPHSPTSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSGLELQ
1079
808
1603
510
1177
954
1752
667










Molecular Recognition Features






MoRF SequenceStartStop




1) MSIPYACK
2) RLILLY
3) YYLEPLPL
1
32
935
8
37
942