<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 MDP12055

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHHELSSEEDGEWESGLSYECRTLLFKAVHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGDSNVCTSVEIAQHQPVQRLGEEHLSLVQQNASPLQVILSPYGLNGTVTGQSFKMSDHPTQKLIEEWRQFYPISPSAKDRPEDKMEDADWEDDSLAAVEVLVAGVRMVYPACLVLVPQSDLPALAPQGSANPSPILCEGQGAHRDPAMSSVTLTPPTSPEEAQTDSQAAQRWLKLCSTVDGFSSNSSCIHGSKIPRRLAAQVVESVWQECTTNRAQNKRKFATLTNGTCEEEEGDKTGVWDFVEFSHRAHCNCSRHKNQKQRSGSTSGNPPSVGQPSQPLPKHKLGEKLEKGEKQQKRPQTPFHHRSYVFEEQAMEPQRLCMRTQDEGPYPSLHHVDTAPSKAPMLHTHRPLQDLAGSPQPPPLSPHPCERGEEDPGATKSSSTPIHQHFYPPSSEPCLLPQKTSSDEPHLEPLPLPFPPAYPDSLEPTVYVGSAINPNEDSAHNPWKYFNLPRKKTSDFFTPLLPVDKLQDDSGEGGQENIVSVTELMSGSGRPLKVSEDLVRTYTQRRNSHLAAAMADEDQEEEPDPYAFVEGDEEFIFTDKKDKPGSDRETSKRHKGDDGSGTSADDGQGAAGGKPVPSTSLIHETDLAVSINDLDNLFNSDEDELAQPGSRRAGVHGDKFGSKEHKTSNLDPLSCISSADLHKMFPTPPSLEQHIMGYSPMNTGGKDYGGLEAGVGLTLLDGSQFSSHYKMEVEEGFCSPKPSEIKDFSFVYKSEACKAFTGCSMFAPLKTLPSQCMMPIKLPEDCVYTPSWNMGKLELIPPVPTMGLLTKDGNIPSVEPDYQSYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLNDNGEAQYPCTCGFSAVVNRRYGSSAGLFLEDELDVVGRGSDAGRDSERRFQELRAASLHRTGNPTERPPDELILLLQDQCTNPFSRMAGVEYPKALSSGTSHSSLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHNWPKRKAAEVSRLFSQDVLRVLLSLQPVLQDAIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSHRDVGYVVICPENEALLRGAKSFFKDLMAAYEACRLGQHRPICKTHADGILRVGTAEGRNRAEQPLSDWFLKMASSNGNSDAFSKLKLYAQVCRHDLAPYLAGQSLDSSLLNQRGPTVASPQSSSSQSPSSTTPSSGPQSATSSSTAQPANTNSTPPSSTGPQAMGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSGAQTAGENGPTANQPQASTEPVETTLERDKVGVPTDGESHAVTFPPSIVVYIVDPFSYEDGERDTHSSVWTLGLLRCYVEMLQFLPPHIRNSVSVQIIPCQYLLQPVRIEERHLYGQHLKSLAFSVFTQCRRPLPGNTNIKALTGFGPGLAIDMALRSTERPECLRLYTPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQSGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNNGTTEQNLDIAFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEALNILQQPMALGYFISTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2120
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-0.467
Instability index58.83
Isoelectric point5.66
Molecular weight233296.74
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

>MDP12055
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     168.15|      32|      33|     946|     977|       1
---------------------------------------------------------------------------
  946-  977 (60.44/26.20)	GNIPS.VEPDYQS..YT.PQT.HTPFMS......NSAPPSNSG
  979- 1008 (34.84/11.87)	GILPSpATPRFSA..PT.PRTpRTP.RT......PRGPAS...
 1011- 1049 (33.69/11.22)	GSLKY.DNSDLYSpaST.PST.CRPLSSvepatvPSIPEAHS.
 1476- 1503 (39.18/14.30)	...PS.SGP..QS..ATsSST.AQPANT......NSTPPSSTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     153.37|      32|      33|     535|     566|       2
---------------------------------------------------------------------------
  486-  513 (47.21/25.20)	PQRlCMR.TQDEGPYPS....LHHVD...TAPSKAP
  535-  566 (64.42/37.92)	PHP.CERGEEDPGATKSSSTPIHQHF...YPPSSEP
  570-  597 (41.74/21.16)	PQK.TSSDE..P.....HLEPLPLPFppaYPDSLEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.34|      21|      33|    1067|    1093|       3
---------------------------------------------------------------------------
 1067- 1093 (31.31/44.35)	CNFDSccvcVCNMniR.GADVGVYLNDN
 1102- 1123 (34.04/23.25)	CGFSA....VVNR..RyGSSAGLFLEDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.28|      12|      33|     150|     161|       4
---------------------------------------------------------------------------
  150-  161 (21.41/13.51)	DEKPINK..SEHLS
  182-  195 (17.87/ 9.88)	QHQPVQRlgEEHLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     111.15|      27|      33|    1170|    1196|       5
---------------------------------------------------------------------------
 1170- 1196 (46.26/29.60)	QCTNPFSRMA...GVEYPKALSSGTSHSSL
 1202- 1230 (41.75/25.87)	DCYND.CYMAlehGRQFMDNMSGGKVDEAL
 1234- 1252 (23.14/10.48)	TCLHNWPKRK...AAEVSRLFS........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.24|      28|      38|      21|      52|       6
---------------------------------------------------------------------------
   21-   52 (41.09/33.48)	CLA.DLTGIkWRRFvwQGPTSSPI.LFpVTEEDP
   60-   89 (50.14/24.55)	CLAaDVLSV.WRRH..HTPGRRELwLF.WWGDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.66|      25|      38|     372|     396|       7
---------------------------------------------------------------------------
  372-  396 (44.52/28.65)	VE.SVWQECTTNRAQNKRKFATLTNG
  412-  437 (42.14/26.69)	VEfSHRAHCNCSRHKNQKQRSGSTSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.35|      25|      35|    1504|    1528|       8
---------------------------------------------------------------------------
 1504- 1528 (46.57/21.86)	PQAMGGIGGVGMPSA.K..PSSYT.PYGT
 1540- 1566 (32.58/13.07)	PQSGAQTAGENGPTAnQ..PQASTePVET
 1569- 1593 (26.20/ 9.07)	ERDKVGVPTDGESHA.VtfPPSIV.VY..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      59.42|      12|      37|     830|     841|       9
---------------------------------------------------------------------------
  830-  841 (22.62/12.14)	GY.SPMNTGGKDY
  869-  881 (18.30/ 8.23)	GFcSPKPSEIKDF
  882-  893 (18.51/ 8.42)	SF.VYKSEACKAF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      28.41|       9|      32|    1351|    1361|      11
---------------------------------------------------------------------------
 1351- 1361 (11.98/11.82)	ICPENEAllRG
 1375- 1383 (16.43/ 8.39)	ACRLGQH..RP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.52|      28|     506|    1259|    1287|      13
---------------------------------------------------------------------------
 1259- 1287 (45.07/29.11)	LLSLQpVLQDAIQKKRSVRSWGVQGPLTW
 1769- 1796 (49.45/27.27)	IISID.VPNRARRKKGSARRLGLQKLWEW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     154.76|      49|     412|    1391|    1470|      14
---------------------------------------------------------------------------
 1391- 1440 (80.76/41.48)	GILRVGTAE.....GR..NRAEQPLSDWFLKMASSNGNSDAfSKLKLYAQVCRHDLA
 1799- 1854 (74.00/11.14)	GLVQVTSLPwrvviGRlgRMGHGELRDWSILLSRRNLQSLS.KRLKETCRMCGISAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.55|      18|      39|     232|     250|      15
---------------------------------------------------------------------------
  232-  250 (31.16/22.72)	LIEEWRQFYP....ISPSAkDRP
  270-  291 (27.39/14.57)	LVAGVRMVYPaclvLVPQS.DLP
---------------------------------------------------------------------------




































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 MDP12055 with Med13 domain of Kingdom Metazoa
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