<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 MDP12056

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHHELSSEEDGEWESGLSYECRTLLFKAVHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGDSNVCTSVEIAQHQPVQRLGEEHLSLVQQNASPLQVILSPYGLNGTVTGQSFKMSDHPTQKLIEEWRQFYPISPSAKDRPEDKMEDADWEDDSLAAVEVLVAGVRMVYPACLVLVPQSDLPALAPQGSANPSPILCEGQGAHRDPAMSSVTLTPPTSPEEAQTDSQAAQRWLKLCSTVDGFSSNSSCIHGSKIPRRLAAQVVESVWQECTTNRAQNKRKFATLTNGTCEEEEGDKTGVWDFVEFSHRAHCNCSRHKNQKQRSGSTSGNPPSVGQPSQPLPKHKLGEKLEKGEKQQKRPQTPFHHRSYVFEEQAMEPQRLCMRTQDEGPYPSLHHVDTAPSKAPMLHTHRPLQDLAGSPQPPPLSPHPCERGEEDPGATKSSSTPIHQHFYPPSSEPCLLPQKTSSDEPHLEPLPLPFPPAYPDSLEPTVYVGSAINPNEDSAHNPWKYFNLPRKKTSDFFTPLLPVDKLQDDSGEGGQENIVSVTELMSGSGRPLKVSEDLVRTYTQRRNSHLAAAMADEDQEEEPDPYAFVEGDEEFIFTDKKDKPGSDRETSKRHKGDDGSGTSADDGQGAAGGKPVPSTSLIHETDLAVSINDLDNLFNSDEDELAPGSRRAGVHGDKFGSKEHKTSNLDPLSCISSADLHKMFPTPPSLEQHIMGYSPMNTGGKDYGGLEAGVGLTLLDGSQFSSHYKMEVEEGFCSPKPSEIKDFSFVYKSEACKAFTGCSMFAPLKTLPSQCMMPIKLPEDCVYTPSWNMGKLELIPPVPTMGLLTKDGNIPSVEPDYQSYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLNDNGEAQYPCTCGFSAVVNRRYGSSAGLFLEDELDVVGRGSDAGRDSERRFQELRAASLHRTGNPTERPPDELILLLQDQCTNPFSRMAGVEYPKALSSGTSHSSLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHNWPKRKAAEVSRLFSQDVLRVLLSLQPVLQDAIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSHRDVGYVVICPENEALLRGAKSFFKDLMAAYEACRLGQHRPICKTHADGILRVGTAEGRNRAEQPLSDWFLKMASSNGNSDAFSKLKLYAQVCRHDLAPYLAGQSLDSSLLNQRGPTVASPQSSSSQSPSSTTPSSGPQSATSSSTAQPANTNSTPPSSTGPQAMGGIGGVGMPSAKPSSYTPYGTSGLQGSVSQNGPQSGAQTAGENGPTANQPQASTEPVETTLERDKVGVPTDGESHAVTFPPSIVVYIVDPFSYEDGERDTHSSVWTLGLLRCYVEMLQFLPPHIRNSVSVQIIPCQYLLQPVRIEERHLYGQHLKSLAFSVFTQCRRPLPGNTNIKALTGFGPGLAIDMALRSTERPECLRLYTPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQSGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCLGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNNGTTEQNLDIAFNPINPDGSDGMGIFDLFDNDMVDPDLINILPNSPTTSPVHSPGGHYHQGGDGSKGQSTDRMESHEEALNILQQPMALGYFISTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2119
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-0.466
Instability index58.86
Isoelectric point5.66
Molecular weight233168.61
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

>MDP12056
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     147.98|      32|      33|     945|     976|       1
---------------------------------------------------------------------------
  525-  551 (26.96/ 7.30)	...AGSPQPPPLSPH.pcerG..........EED.PGATKSS
  962-  995 (49.42/20.12)	HTPFMSNSAPPSNSG....tG....ILPSpATPRFSAPTPRT
  997- 1024 (36.71/12.86)	RTP.RTPRGPAS......vqG....SLKY.DNSDL..YSPAS
 1488- 1524 (34.89/11.82)	AQPANTNSTPPSSTGpqamgGiggvGMPS.AKPSS..YTP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.34|      21|      33|    1066|    1092|       2
---------------------------------------------------------------------------
 1066- 1092 (31.31/34.40)	CNFDSccvcVCNMniR.GADVGVYLNDN
 1101- 1122 (34.04/17.97)	CGFSA....VVNR..RyGSSAGLFLEDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.04|      27|      34|     560|     593|       3
---------------------------------------------------------------------------
  565-  592 (49.46/30.04)	EPCLL......PQKTSSDEPhLEPLPLP.......FPPAYP
  596-  635 (41.58/ 9.65)	EPTVYvgsainPNEDSAHNP.WKYFNLPrkktsdfFTPLLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     169.86|      53|     507|    1140|    1286|       4
---------------------------------------------------------------------------
  811-  870 (86.97/20.13)	ADLHKM.FPT..PPslEQHIMGYSPMNTGG.KDYGGLEAGVGLTllDGsqfSSHYKMEVEEGFC
 1146- 1202 (82.88/174.84)	ASLHRTgNPTerPP..DELILLLQDQCTNPfSRMAGVEYPKALS..SG...TSHSSLRVEERDC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.97|      26|      34|     897|     922|       5
---------------------------------------------------------------------------
  897-  922 (50.81/30.05)	MFAPLKT...LPSQCMMPIKLPEDCVYTP
  931-  959 (43.16/24.26)	LIPPVPTmglLTKDGNIPSVEPDYQSYTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.28|      12|      33|     150|     161|       6
---------------------------------------------------------------------------
  150-  161 (21.41/11.97)	DEKPINK..SEHLS
  182-  195 (17.87/ 8.71)	QHQPVQRlgEEHLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.24|      28|      38|      21|      52|       7
---------------------------------------------------------------------------
   21-   52 (41.09/39.27)	CLA.DLTGIkWRRFvwQGPTSSPI.LFpVTEEDP
   60-   89 (50.14/28.88)	CLAaDVLSV.WRRH..HTPGRRELwLF.WWGDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.15|      11|      33|     464|     474|       8
---------------------------------------------------------------------------
  464-  474 (22.03/11.31)	QQKRPQTPFHH
  494-  504 (21.12/10.47)	QDEGPYPSLHH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.37|      21|      33|    1542|    1574|       9
---------------------------------------------------------------------------
  435-  455 (41.18/13.01)	TSG.NPPSVGQP...SQP....LPKHKLG
 1545- 1573 (24.19/32.58)	TAGeNGPTANQPqasTEPvettLERDKVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.86|      18|      38|     372|     389|      10
---------------------------------------------------------------------------
  372-  389 (32.61/21.29)	VE.SVWQECTTNRAQNKRK
  412-  430 (30.24/19.14)	VEfSHRAHCNCSRHKNQKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.24|      12|      18|    1457|    1469|      11
---------------------------------------------------------------------------
 1457- 1469 (17.86/12.29)	PTvASPQSSSSQS
 1475- 1486 (22.37/11.03)	PS.SGPQSATSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.57|      28|     409|    1374|    1434|      13
---------------------------------------------------------------------------
 1406- 1433 (50.07/67.66)	PLSDWFLKMASSNGNS.DAFSKLKLYAQV
 2021- 2049 (51.51/11.99)	PLPDWFWSACPQAQNQcPLFLKASLHLHV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      27.20|       9|      32|    1350|    1360|      15
---------------------------------------------------------------------------
 1350- 1360 (11.97/11.32)	ICPENEAllRG
 1374- 1382 (15.23/ 6.47)	ACRLGQH..RP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.55|      18|      40|     232|     250|      16
---------------------------------------------------------------------------
  232-  250 (31.16/22.39)	LIEEWRQFYP....ISPSAkDRP
  270-  291 (27.39/14.37)	LVAGVRMVYPaclvLVPQS.DLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.46|      18|      20|    1277|    1294|      17
---------------------------------------------------------------------------
 1277- 1294 (35.65/18.20)	SWGVQ...GPLTWQQFHKMAG
 1297- 1315 (23.94/ 9.65)	SYGTDespEPLPIPTF..LVG
 1319- 1334 (22.88/ 8.88)	DFVVL...SPFGLPYWEKL..
---------------------------------------------------------------------------




































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 MDP12056 with Med13 domain of Kingdom Metazoa
Unable to open file!