<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 MDP15735

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKCFVWQGPTSSPIVFPVTEEDPILCSFSRCLKADVLSVWRRHQTPGRRELWLFWWGDDPNFAELIHHELSSNEDGVWESGLTYECRTLLFKAIHNLLERCLMNRCFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDNNVCTSVEINQHQPVYLLSEEHLTQAQHSSSPVQVILSPYGLNGTLTGQSFKLSDPPTQKLIEEWKQFYPIGPNTKETPEDKLDDLDWEDDSLAAVEVLVAGVRMVYPACLVLVAQSDIPAPAAASSSGAMITPGGHHSHGAHRESALSSVTLTPPTSPEEAQKVSQPAPRWTKISSAADGFSLDSTSHHGGKVPRKLASHLLEAVWQECNVNRAQNKRKFSAIASGVCEEEMDKAGVWDFVERYQRMQCNCSRHKNLKQRTSNTPGLPLPAGQPSQLPSKYKVAEKPEKAEKQQKRPQTPFHHRSSVGEDLSLEPDERSSHYRALHHGDVETSKTQTLHTSSRDMVGSPQPPPLSPHPCEREEDTPAELKRSSTPLHQQFYPPSSSEACLLPSKSPDRASFDPLTSEYTTAYPDSLEPTVYVGSAISPNEDTSHNPWRYFRLPGKRNMDLHPPQLPLDRLKQDSLDSAVSVTEMMASSATLKVSEERVKMYIQKKNQYLSVSGCDGEQEQDKDPYAFVEGDEEFSFTDKEKRPGAEPAKRNKRDDGSTSSTDDTHGSACSKPLPSTSLIHETDLAVSINDLDNLFNSDEDELTPGARKTGSGAEEKFGGKEPKPAAADTLSCLSAADLHQMFPTPPSLEQHIMGFSPMNMGSKDCGSVETGAGFTLADGPLLIGTFKMEVEEGLCSPKPSEIKDFSFVFKPDPSQVFVGSSLYAPLKTLPSQCLISLKLPEECVYRPSWTVGKLEMLQPVPAMSFLGKDSNIPSVGSAMELQDYTQTYTPQTHTPIQSSSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPASAQGSMKYDNSDLYSPASTPSTLRPLSSVEPATAPSVPEAHSLYVTLILSDSTMNLFKDCNFDSCCVCVCNMNIKGADAGVYISDTGLDSQYSTTETCSCGFSAVVNRRYANGAGLFLEDELDVVGRGTDAGREAEKHLEAQRHTSSVHLQDELLLLLQEQCSNPFPALCMPEPRVGLVPRPPRRLEERDYCSDCYLALEHGRQFMDNMSGGKVDETLVKNSCLHSWANRNAMDVSLLFSQDVLRMLLSLQPVLQDAIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFVLPYWEKLLLDPFGSQRDVGYVVVCPDNETLLTGAKTFFRDLTAVYEACRLGQHKPICKAHADGIVTVSTAGLRPQAEQPLSDWFFKMCNTINNDSITKLKLYAQVCRHDLAPYLAAQSLDSSLLSQRNPSSSSSSTSTVSQPASSSSTSTGPQNTSTVTSTSTASTNSSTAAPTSATSSNSQGLGGLGSNKPSSLPPFGAQGIQHAGAQNTGTIGDGPSAMSQPQAPPEPPESTMERDKVGVPTDGDSHAVSYPPAIVVYIVDPFSYEETSRGCNSSMWSLGLLYCYMEMLQFLPPHIRNAVSVQVVPCQYLLQPVRSEERHMYAQHLKSLAFSVYTQCRRPLPNSTNVKTLTGFGPGLAIDTALQSSERAEFVRLYTPPFVLAPVKDKQTELGETFGEAAQKHNVLFVAYCLSHDQRWLLASCTDQYGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCVSLVQVTSLPWRVVIGRLGRMGHGELQDWSILLSRRNLQSLSRRLKEMCRMCGISSADSPSILSACLVALEPQATFVIMPDSVSTGSVFGRSTALNMQTSQLNTPQDTSCTHILVFPTSAVVQVIDTPFNPIHDAMGGMDVILDLLVSENDVDPDLINILPNSPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHDETPNILQQPMALGYFVSTAKAGPLPEWFWSSCPQAKNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNVL
Length2095
PositionMiddle
OrganismIctalurus punctatus (Channel catfish) (Silurus punctatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Siluriformes> Ictaluridae> Ictalurus.
Aromaticity0.07
Grand average of hydropathy-0.401
Instability index56.19
Isoelectric point5.69
Molecular weight230361.98
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

>MDP15735
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     296.32|      71|      74|     664|     734|       1
---------------------------------------------------------------------------
  596-  656 (67.54/34.25)	..........SAISPNEDTSHNPWRYfrLPGKRNMDL.....HPPQLPLDRLKQDslDSAVSVTEMMASSATLKvS
  664-  734 (121.08/67.84)	IQKKNQYLSVSGCDGEQEQDKDPYAF..VEGDEEFSFTDKEKRPGAEPAKRNKRD..DGSTSSTDDTHGSACSK.P
  741-  808 (107.70/59.45)	IHETDLAVSINDLDNLFNSDED..EL..TPGARKTGSGAEEKFGGKEP.KPAAAD..TLSCLSAADLHQMFPTP.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     504.24|     125|     186|     865|     996|       2
---------------------------------------------------------------------------
  446-  538 (115.90/46.47)	...........................PSQLPSK.......YKVAE....KP....EKAEKQQKRPQTPFHHRS....SVGEDLSL.EpdERSSHYRALHHGDVETSKTQTlHTSSRDMVG...SPQPPPLSPhPCEREEDTP....
  865-  996 (212.28/105.34)	KDFSFvfkpDPSQVFVGSslyAPLKTLPSQCLIS.......LKLPEECVYRPSWTVGKLEMLQPVPAMSFLGKDSNIPSVGSAMEL.Q..DYTQTYTPQTHTPIQSSSAPP.SNSGAGILP...SPATPRFSA.PTPRTPRTPRTPR
 1057- 1183 (176.06/76.40)	KDCNF....DSCCVCVCN...MNIKGADAGVYISdtgldsqYSTTETCSCGFSAVVNR...RYANGAGLFL..EDELDVVGRGTDAgR..EAEKHLEAQRHT....SSVHL.QDELLLLLQeqcSNPFPALCM.PEPRVGLVPRPPR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.23|      14|      17|    1451|    1464|       4
---------------------------------------------------------------------------
 1451- 1464 (22.67/12.06)	TSTVSQPASSSSTS
 1483- 1496 (22.56/11.96)	SSTAAPTSATSSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.36|      18|      21|    1315|    1332|       5
---------------------------------------------------------------------------
 1315- 1332 (34.26/17.42)	VLPYWEKLLLDPFGSQRD
 1338- 1355 (33.10/16.60)	VCPDNETLLTGAKTFFRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.35|      38|    1179|     293|     339|       6
---------------------------------------------------------------------------
  293-  331 (64.93/26.93)	PAAASSSGAM.ITPGGHHSHG..AHRESALSSvTLTPPTSPE
 1507- 1547 (63.42/22.94)	PSSLPPFGAQgIQHAGAQNTGtiGDGPSAMSQ.PQAPPEPPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     163.28|      48|     372|    1393|    1448|       7
---------------------------------------------------------------------------
 1394- 1448 (72.25/66.80)	PLSDWFFKMCNTINNDsiTKLKLYAQVCRHdlapYLAAQSlDSSLLSQRNPSSSS
 1997- 2044 (91.03/55.84)	PLPEWFWSSCPQAKNQ..CPLFLKASLHLH....VSSVQS.DELLHSKHSHPLDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     214.23|      69|    1448|     185|     257|      11
---------------------------------------------------------------------------
  185-  257 (116.65/88.55)	PVYllSEEHLTQAQHSSSPVQVILS......PYGLN.GTLTGQSFKLS.DPPTQKliEEWKQFYPI.GPNTKETP.EDKLDDL
 1630- 1708 (97.58/62.87)	PVR..SEERHMYAQHLKSLAFSVYTqcrrplPNSTNvKTLTGFGPGLAiDTALQS..SERAEFVRLyTPPFVLAPvKDKQTEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.81|      23|    1281|     555|     587|      14
---------------------------------------------------------------------------
  555-  587 (27.16/35.74)	PSSSEACLLpSKSPdRASFdpltseytTAYPDS
 1839- 1861 (42.65/21.56)	PSILSACLV.ALEP.QATF........VIMPDS
---------------------------------------------------------------------------




































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 MDP15735 with Med13 domain of Kingdom Metazoa
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