<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 MDP29632

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHNELLSEEDGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKTINKSEHLSCAFNFFVHGDSNVCTSVEIAQHQPLQRLSEEHLSLAQQSSSPLQVILSPYGLNGTLTGQAFKMSDHPTQKLIEEWRQFYPISPNPKEVQEEKLEDADWEDDSLAAVEVLVAGVRMVYPSCLVLLPLSDLPTVVPQGSANASGSLCGAQQGQAANRDPAMSSVTLTPPTSPEEAQTEYQPAQKWLKLSSASDGYSSNNTLHGGKIPRRMASQMVESVWQEYNLNHTGNKNKFTSLTNGTCEEETEKTGLWDFVEPAHRLHCNCSRHKNSKQRSSSTSGHPPSSGQPVLPAPKHKLGEKLEKGEKQQKRPQTPFHHRNSVSEEQSLEPQTQRLCLRSQEEGSYPSLHHVDTVQSKAPTLHAHGPPADLVGSPPPPPLSPHPCDHVEVDMTPGGMKSSSTPIHQPFYPPSVEPCQMPPKGSSEESQMENMPMPLPFPSTYNETLEPTIFVGSAISPSDDSTHNPWKYFLLPQKKPSNFLTPQLPLDKMREDSAGGGGSESGVVSVTELMSGSSHPLKVSQELVKTYTQRRNSHLASTSGDEEPSEEPDPYAFVEGDEEFSFTEKKDKSGAEKDGNKKHKVDEGTGTSADALIQKMSLNLFCGVDGQCPTGSKPSASTSLIHENDLAVSYSDLDKIFNSDEDELAPGSKRAGVGTDDKFGSKDTKPTALDPLSCISSVDLHTMFPTPPSLEQQGYSPMNSGSKDSLEAGAGLTLLDGSQLNNHFKMEVEEGFCSPKPSEIKDFSFVYKPEMCQSFIGCSMYAPLKTLPSQCLLPVKLPEDCVYTASWTLGKMDLIPPVSNTSLLTKDSNVPSVEPDYSQTYTPQTHPPFMSSSAPPSNSGAGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYDSSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGEAQYICTCGFSAVTNRRFGQSAGLFLEDELDVVGRGSDAARDTERCFEELRASTSHKASSLKEKPPDELILLLQDQCTNPFAAMAGVEYPKPTSAPSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTCLHQWPKRKSDMSKLYSVDVLRVLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYVVICPDNESLLRGAKTFFKDLSAMYEACQLGQHRPICKSHPEGILKVGTKEGRNMTEQPLSDWFVKMAAREGNNEAFNKLKLFAQVCCYDLAPYLSEQSLDSSLLTQRNPTTAATPSFQTSSSSSTSSGLQSTNTTGSNTSSAQPAQPAQVNSTPPSSSSGSQTIGGMTSAKPSSFSPFGTAGLQGGVSQNGPQPNSQGTGGLAENGSSAYPSQGPTESPERSPTCTHVIICLIFNSTMERDKVGKPTDGESHAVSYPPAIVVYIVDPFSYEDADREVHSSTYTMGLLRCYMEMLHILPACIRNSVSVQIVPCQYLLQPVHSAGRHVYSQHLKSLAFSVFTQCRRPLPNSTNFKALTGFGPGLAIDMALKNPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCLGLVQLTSLPWRVVIGRLGRMGHGEVSDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTSEPIDIDTFNQINPDGSEGMNIFELFEQDMDPDFINILPNSPTTSPVHSPGPQGGDGSKGQSTDRMESHEEALNILQQPMALGYFVSTAKAGPLPDWFWSACPQAKNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLTQMYNFIMNML
Length2152
PositionMiddle
OrganismOreochromis niloticus (Nile tilapia) (Tilapia nilotica)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Cichlomorphae> Cichliformes> Cichlidae> African cichlids> Pseudocrenilabrinae> Oreochromini> Oreochromis.
Aromaticity0.07
Grand average of hydropathy-0.436
Instability index57.78
Isoelectric point5.58
Molecular weight236513.81
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. 


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

>MDP29632
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.66|      31|      36|     504|     539|       1
---------------------------------------------------------------------------
  473-  503 (35.62/10.87)	FHHRNSVseeQSLEPQTQRLCLRSQEEGSYP...
  505-  535 (59.41/37.77)	LHHVDTV...QSKAPTLHAHGPPADLVGSPPPPP
  545-  567 (33.63/ 9.53)	.....EV...DMTPGGMKSSSTP...IHQPFYPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.13|      28|      36|      36|      69|       2
---------------------------------------------------------------------------
   21-   54 (43.67/18.35)	CLA.DLTGIkWrrfvwQGPTSSPI.LFPVTEEDPIL
   60-   89 (29.96/24.68)	CLAaDVLSV.W..rrhHTPGRRELwLF.WWGDDP..
 1579- 1596 (25.50/ 7.96)	................QGPTESPE.RSP.TCTHVII
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.23|      31|      36|    1506|    1539|       3
---------------------------------------------------------------------------
 1509- 1539 (58.43/36.58)	QPAQPA..QVNSTPPSSSSGSQTIGGM....TSAKPS
 1542- 1578 (42.80/17.78)	SPFGTAglQGGVSQNGPQPNSQGTGGLaengSSAYPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.28|      13|      14|     574|     586|       5
---------------------------------------------------------------------------
  574-  586 (24.10/12.38)	MP.PKGSSEESQME
  590-  603 (20.18/ 8.84)	MPlPFPSTYNETLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.57|      34|      40|    1017|    1050|       6
---------------------------------------------------------------------------
 1017- 1050 (62.49/34.04)	PRT.PRTPRGPS.SVQGSLKYDSSDLYSPASTPSTC
 1058- 1093 (54.08/28.39)	PATvPSIPEAHSlYVTLILSESVMNLFKDCNFDSCC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.68|      13|      35|     849|     861|       7
---------------------------------------------------------------------------
  849-  861 (25.59/13.36)	QQGY.SPMNSGSKD
  886-  899 (20.09/ 8.69)	EEGFcSPKPSEIKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     370.09|     111|     263|    1678|    1793|       8
---------------------------------------------------------------------------
 1678- 1793 (188.56/117.37)	CQYLLQPVHSAGRHVYSQHLKSLAFSVFTQCrRPlPNSTNFKALTGFGPGLAIDMALKNPERPECLRLYTP.PFILAPVKDKQTELGETFGEAsqkYNVL....FVGYCLSHDQ.....RWLLASC
 1943- 2063 (181.53/99.61)	CTHILVFPTSAMVQVNTNTSEPIDIDTFNQI.NP.DGSEGMNIFELFEQDMDPDFINILPNSPTTSPVHSPgPQGGDGSKGQSTDRMESHEEA...LNILqqpmALGYFVSTAKagplpDWFWSAC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.17|      18|      35|     415|     432|       9
---------------------------------------------------------------------------
  415-  432 (34.25/24.27)	PAHRLHCNCSRHKNSKQR
  451-  468 (29.91/20.06)	PKHKLGEKLEKGEKQQKR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.83|      31|      33|     295|     325|      12
---------------------------------------------------------------------------
  295-  325 (53.06/26.41)	PQGSANASGSLCGAQQ..GQAANRDPAMSSVTL
  328-  360 (47.77/23.07)	PTSPEEAQTEYQPAQKwlKLSSASDGYSSNNTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.27|      23|      38|     684|     706|      14
---------------------------------------------------------------------------
  684-  706 (40.36/20.10)	YTQRRNSHLASTSG......DEEPSEEPD
  719-  747 (31.92/14.44)	FTEKKDKSGAEKDGnkkhkvDEGTGTSAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.10|      19|      38|    1163|    1181|      17
---------------------------------------------------------------------------
 1163- 1181 (31.68/16.50)	ELRASTSHKASSLKEKPPD
 1202- 1220 (33.42/17.85)	EYPKPTSAPSSFLRVEERD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     251.86|      82|     429|    1417|    1506|      20
---------------------------------------------------------------------------
 1417- 1506 (126.41/101.42)	GR..NMTEQPLSDWFVKMAARegNNEAFNK.LKLFAQVCCYDLApylSEQSLDSSLLTQRNP..TTAATPSfqtSSSSSTSSGLQST.NTTGSNTS
 1849- 1936 (125.45/78.65)	GRlgRMGHGEVSDWSILLSRR..NLQSLSKrLKETCRMCGISAA...DTPSILSACLVAMEPqgSFVIMPD...SVSTGSVFGRSTTlNMQTSQLS
---------------------------------------------------------------------------




































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 MDP29632 with Med13 domain of Kingdom Metazoa
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