<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 MDP25717

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMFPTPPSVNPSLSPCNAGNQEYTSPDSVPGITKADGHAATALADYPEVEVDESMGSPVPEQIKDWSYVYRKANTHLHCGSSMYAPLKSLPSHKLPPIRLKDNMLYKPSWQVCLEKVSLCLTALCFLRGFMDLMPLPQDMMSSTCPVTMTTVTASNSVPMASPAFASVKTPRSAGGPGPYDSPPSTVSSFRNVNSVDMNSVGPTMEAHSLTVNMLLSDSAINLFKDRNFDSCVICVCNVNIKGADVEVYLPEFHAQNQEAQYKCTCGFSAVMNRKYARKAGLFPEDLCEIFGFKNVKRLKDNVSEVNRTSREGDSAQSGKTDEKATLNMKLAGNNRISKALLQKTNDCAVHSSMMCYFPDDCDACHWALEQGRSHDGSPVKLEQADKAVCQHTWPPPKAVDQSSLSSRDVVRMLQSLQPLLQDAIQKKRTTRLWEPKPTVQGPLTWSQFHRLVGRGTQPYLNSSEPLPVPSLLVGYEKDWLSLSPFALNHWEKLLLEPFGTSRDVVYVVICPDNDTILSNAKAFFRELSTVYESCRLGRHRPITTVLRDGIRRVGKVAAERLADKPVDEWFNKLEYPCPSDAVPVGKKLKLYAQVCKHDLAAHLATVTLDTSLLKALPTPGKNSVTSNSSNSTTGTSSSGTTDKPPSVPPPPSSGDGKEGESPKDPNNTGGENSEGGQNKENKDGSPDEVDEEAQPLAVVVYIVDPFSMGPENGHLTDVYALGLLKCYTEILQADLPDNVRNNISLQIIPVQQLVQPQKAEERATYLQHLKTLAFSVFTQSHRTLQFTIHAKSVTGFGPSAQNEAILKSKETDVLHLYTPPYILAPQKDKQTELVESFGELTPKSGVLFCAYCLSSDQRWILATVTDLRGELLDTVVISVEAPISPKPRKVSACRMGLQKLWEFVLSVIATTTFPWRIVIGKLGRIGHGELKDWSSLLSRQRILKSSRNLKEVCRMCSMSPQCECPTILSACMVSLEPESALRIFHESVMSGSAPGARPGGLLGSQLSTPRDASCTHLMAFPTSATTQAAAANFSITETMDLGFAGNTGDMLGDDDLLPVLQEDLGDSDLNQFLGLAASPTALTSPVHSPQSPTGGGFSGGGQSNPYSGGGDGSGKPLPDPDEIPMLLQQPLALGYFISTAPIGDMPKSFWSACPHAEGVCPVYLKSALHVHTPAVQQNSEEILQSRHSHPLDSNLTCDVLRYVLESYNALSWLTYDPVRRDRRSCLPVHMVVLTKLYNTMATLLT
Length1245
PositionMiddle
OrganismBranchiostoma floridae (Florida lancelet) (Amphioxus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Cephalochordata> Leptocardii> Amphioxiformes> Branchiostomidae> Branchiostoma.
Aromaticity0.07
Grand average of hydropathy-0.284
Instability index50.98
Isoelectric point6.09
Molecular weight135780.03
Publications
PubMed=18563158

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	IBA:GO_Central
GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central

Interaction

Binary Interactions











Repeat regions





Repeats

>MDP25717
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.52|      19|      94|     988|    1009|       1
---------------------------------------------------------------------------
  154-  170 (29.97/ 8.03)	SNSVPMASPA.....FAS.VKTP
  629-  650 (29.53/ 7.76)	SNSTTGTSSSGTtdkPPS.VPPP
  990- 1009 (29.01/16.30)	SGSAPGARPGGL...LGSqLSTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     188.26|      58|     506|      30|      90|       2
---------------------------------------------------------------------------
   30-   90 (102.76/95.70)	GITKADGHAATALADYPeveVDE..........SMGSPVPEQIKDWSYVYRK.ANTHLHCGSSMYAPLKSLP
  549-  617 (85.50/70.26)	GIRRVGKVAAERLADKP...VDEwfnkleypcpSDAVPVGKKLKLYAQVCKHdLAAHLATVTLDTSLLKALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     346.91|     111|     133|     702|     833|       3
---------------------------------------------------------------------------
  713-  833 (172.32/127.58)	GHLTDVYALG.....LLKCYTEiLQADLPDNVRNNISLQIIPvqqlvQPQKAEERATYLQHLKTLAFSVFTQSHRTLQFTIHAKSVTGFGP....SA..QNEAILKSKET..DVLHLYTppyiLAPQKDKQTEL
  845-  968 (174.59/90.27)	GVLFCAYCLSsdqrwILATVTD.LRGELLDTVVISVEAPISP.....KPRKVSACRMGLQKLWEFVLSVIATTTFPWRIVIGKLGRIGHGElkdwSSllSRQRILKSSRNlkEVCRMCS....MSPQCECPTIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     174.44|      53|     363|      92|     145|       4
---------------------------------------------------------------------------
   92-  145 (97.71/69.15)	HKL.....PPIRLKDNMLYKPSWQVCLEK..VSLCLTALCFLRGFMdLMPL..PQDMMSST.CP
  449-  511 (76.74/48.74)	HRLvgrgtQPYLNSSEPLPVPSLLVGYEKdwLSLSPFALNHWEKLL.LEPFgtSRDVVYVViCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     167.81|      49|     453|     654|     711|       5
---------------------------------------------------------------------------
  661-  711 (87.31/65.84)	SPKDPnnTGGENSEGGQNKENKDGS.........PDEVDE.EAQPLAVVVYI.VDPFSMGPE
 1088- 1147 (80.51/41.67)	SPQSP..TGGGFSGGGQSNPYSGGGdgsgkplpdPDEIPMlLQQPLALGYFIsTAPIGDMPK
---------------------------------------------------------------------------




































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 MDP25717 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) TALTSPVHSPQSPTGGGFSGGGQSNPYSGGGDGSGKPLPDPDEI
2) TSLLKALPTPGKNSVTSNSSNSTTGTSSSGTTDKPPSVPPPPSSGDGKEGESPKDPNNTGGENSEGGQNKENKDGSPDEVDEEAQ
1080
610
1123
694










Molecular Recognition Features






MoRF SequenceStartStop




NANANA