<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 MDP12012

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHHDLSSEEEGEWESGLSYECRTLLFKAVHNLLERCLMNRSFVRIGKWFVKPYEKDEKPISKSEHLSCAFTFFLHGDSNVCTSVEIAQHQSVQRLSEEHLSLALQNASPLQVILSPYGLNGTVTGQSFKMSDHPTQKLIEEWRQFYPISPSAKDRSEDKMKDADWEDDSLAAVEVLVAGVRMVYPACLVLVPQSDLPALAPQGSANPSAILCEGQGAHRDPAMSSVTLTPPTSPEEAQTDHQAAQRWLKLCLTVDGFSSNSSGIHGSKIPRRLAAQVVESVWQECTTNRAQSKRKFATLTNGTCEEEEEEGDKTGVWDFVESSHRAHCNCSRHKNQKQRSGSTSGNPPSVGKPPQPPPKHKLGEKLEKGEKQQKRPQTPFHHRSYVFEEQAMEPRRLCMRTQDEGPYPSLHHIDTAPSKAPMLHTHGTPQDLAGSPQPPPLSPHPCEHGEEDPGAMKSSSTPIHQHFYPPSSEPCLLPQKTSSDLPLPFPPAYPESLEPTAYVGSAINPNEDSAHNPWKYFNLPRKKASDFLTPLLPVDKLQDDSGGGGGQENIVSVTELMSGSGRPLKVSDDLVRTYTQRRNSHLAAAMADEDQEEEPDPYAFVEGDEEFTFTDKKDKPGSERETSKRHKGDDGSGTSADDGQGAAGKPIPSTSLIHETDLAVSINDLDNLFNSDEDELAPGSRRAGVHGDKFGSKEHKTSNLDPLSCISSADLHKMFPTPPSLEQHIMGYSPMNTGGKDYGGLEGGLGLTLLDGSQFSSHYKMEVEEGFCSPKPSEIKDFSFVYKSEACKAFTGCSMFAPLKMLPSQCMMPIKLPEDCVYTPSWTMGKLELIPPVPSMGLLTKDGNIPSVEPDYQSYTPQTHTPFMSNSAPPSNSGMGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLNDNGEAQYPCTCGFSAVVNRRYGSSAGLFLEDELDVVGRDSDAGRDSERRFQERHAASLHRTGNPKERPPDELILLLQDQCTNPFSPMAGVEYPRALSSGPSRSSLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHNWPKRKAAEVSRLFSQDVLRVLLSLQPVLQDAIQKKRSIRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSHRDVGYVVVCPENEALLRGAKSFFKDLTAVYEACRLGQHRPICKTHADGILRVGTAEGRNLAEQPLSDWFLKMASSNGNSEAFSKLKLYAQVCRHDLAPYLAEQSLDSSLLNQRSPTVASPQSSSSQSPCSTTPSSGPQNSTSSSTGQPTNSTPPSSTIGTQAVGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSGAQTTGENGPTANQPQATTEPVETTLEREKVGVPTDGESHAVTFPPAIVVYIVDPFSYEDGERDTHSSVWTLGLLRCYVEMLQFLPSHIRNSVSVQIIPCQYLLQPVRIDERHLYGQHLKSLAFSVFTQCRRPLPSNTNIKALTGFGPGLAIDMALRSSERPECLRLYTPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQSGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNNATTEQNLDIAFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEALNILQQPMALGYLISTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2114
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.07
Grand average of hydropathy-0.460
Instability index59.75
Isoelectric point5.69
Molecular weight232538.07
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

>MDP12012
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     498.41|     138|     148|     773|     914|       1
---------------------------------------------------------------------------
  444-  568 (131.13/58.77)	VGKPPQPPPKHKLGeKLEKGEKQQKRPQTPF.HHRSYVFEEQ.AMEP..R..........................................................rlcmrtqdegpypslhhidtapskAPMLHTHGTPQDLAGSP..QPPPLSPHPCehgeedpgamkSSSTPIHQHF....YPPSSEP..
  773-  823 (49.46/16.12)	..........................................................................................................EL........................APGSRRAGVHGDKFGSKEHKTSNLDPLSC...........ISSADLHKMF...PTPPSLEQHI
  824-  972 (204.66/105.65)	MGYSPMNTGGKDYG.GLEGGLGLTLLDGSQFSSHYKMEVEEG.FCSP..KPSEIKDFSFVYKSEACKAFTGCSMFAPLKMlpSQCMMpiKLPEDCvytpswtmgklEL........................IPPVPSMGLL.....TKDGNIPSVEPDYQ...........SYTPQTHTPFmsnSAPPS..NSG
  973- 1062 (113.16/49.56)	MGILPSPATPRFSA.PTPRTPRTPRTPRGPASVQGSLKYENSdLYSPasTPSTCRPLSSVEPATVPSIPEAHSLYVTLIL..SESVM..NLFKDC....................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     348.04|     107|     149|      72|     188|       2
---------------------------------------------------------------------------
   72-  188 (172.01/138.12)	HHTPGRRELWLFWWGDDPSfAELIHHDlsSEEEGEWESGlSYECRTLLFKAVHNLLERCLMnrsFVRIGKWFVKPYEKDEKPIS.....KSEHLSCAFTFFLHGDSnvcTSVEIAQ..HQSVQR
  227-  340 (176.03/111.39)	HPTQKLIEEWRQFYPISPS.AKDRSED..KMKDADWEDD.SLAAVEVLVAGVRMVYPACLV...LVPQSDLPALAPQGSANPSAilcegQGAHRDPAMSSVTLTPP...TSPEEAQtdHQAAQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.81|      18|      22|    1378|    1399|       6
---------------------------------------------------------------------------
 1378- 1399 (25.06/26.85)	PIckthADGILRVGTAEGRNLA
 1402- 1419 (30.75/18.99)	PL....SDWFLKMASSNGNSEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     117.47|      27|     409|     698|     724|       7
---------------------------------------------------------------------------
  698-  724 (47.03/29.27)	FVEGDEEFTFTDKKDKPGSERE....TSKRH
  726-  752 (26.69/13.02)	...GDDG.SGTSADDGQGAAGKpipsTSLIH
 1114- 1140 (43.74/26.64)	FLEDELDVVGRDSDAGRDSERR....FQERH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.81|      21|     146|    1150|    1189|       8
---------------------------------------------------------------------------
 1092- 1112 (41.26/19.37)	QYPCTCGFSAVVNRRY......GSSAG
 1163- 1189 (35.56/17.55)	QDQCTNPFSPMAGVEYpralssGPSRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.40|       9|      21|    1484|    1494|       9
---------------------------------------------------------------------------
 1484- 1494 (14.68/11.23)	GQPtnSTPPSS
 1508- 1516 (18.71/ 7.48)	GMP..SAKPSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     269.95|      84|     154|    1636|    1725|      15
---------------------------------------------------------------------------
 1636- 1725 (132.14/88.93)	CQYLLQPVRIDERHLYGQ.....HLKSLAFSVFTQcRRPLPSNTniKALTGFGPGLAIDMALRSSERPECLRLYTP..PFILAPikDkQTELGETFG
 1791- 1881 (137.81/74.50)	CLGLVQVTSLPWRVVIGRlgrmgHGELRDWSILLS.RRNLQSLS..KRLKETCRMCGISAADTPSILSACLVAMEPqgSFVIMP..D.SVSTGSVFG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.69|      38|     996|     572|     612|      16
---------------------------------------------------------------------------
  572-  612 (61.58/39.77)	PQKTSSDLPLPFPPAypESLEPTAYvGSAINPNEDSAHNPW
  618-  655 (64.11/31.58)	PRKKASDFLTPLLPV..DKLQDDSG.GGGGQENIVSVTELM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.08|      11|      22|    1547|    1557|      19
---------------------------------------------------------------------------
 1547- 1557 (19.95/12.85)	TANQPQATTEP
 1571- 1581 (20.14/13.06)	TDGESHAVTFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.58|      11|      37|      21|      32|      20
---------------------------------------------------------------------------
   21-   32 (19.18/17.75)	CLA.DLTGIkWRR
   60-   71 (18.40/10.77)	CLAaDVLSV.WRR
---------------------------------------------------------------------------




































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 MDP12012 with Med13 domain of Kingdom Metazoa
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