<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 MDP15736

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKCFVWQGPTSSPIVFPVTEEDPILCSFSRCLKADVLSVWRRHQTPGRRELWLFWWGDDPNFAELIHHELSSNEDGVWESGLTYECRTLLFKAIHNLLERCLMNRCFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDNNVCTSVEINQHQPVYLLSEEHLTQAQHSSSPVQVILSPYGLNGTLTGQSFKLSDPPTQKLIEEWKQFYPIGPNTKETPEDKLDDLDWEDDSLAAVEVLVAGVRMVYPACLVLVAQSDIPAPAAASSSGAMITPGGHHSHGAHRESALSSVTLTPPTSPEEAQKVSQPAPRWTKISSAADGFSLDSTSHHGGKVPRKLASHLLEAVWQECNVNRAQNKRKFSAIASGVCEEEMDKAGVWDFVERYQRMQCNCSRHKNLKQRTSNTPGLPLPAGQPSQLPSKYKVAEKPEKAEKQQKRPQTPFHHRSSVGEDLSLEPDERSSHYRALHHGDVETSKTQTLHTSSRDMVGSPQPPPLSPHPCEREEDTPAELKRSSTPLHQQFYPPSSSEACLLPSKSPDRASFDPLTSEYTTAYPDSLEPTVYVGSAISPNEDTSHNPWRYFRLPGKRNMDLHPPQLPLDRLKQDSLDSAVSVTEMMASSATLKVSEERVKMYIQKKNQYLSVSGCDGEQEQDKDPYAFVEGDEEFSFTDKEKRPGAEPAKRNKRDDGSTSSTDDTHGSACSKPLPSTSLIHETDLAVSINDLDNLFNSDEDELTPGARKTGSGAEEKFGGKEPKPAAADTLSCLSAADLHQMFPTPPSLEQHIMGFSPMNMGSKDCGSVETGAGFTLADGPLLIGTFKMEVEEGLCSPKPSEIKDFSFVFKPDPSQVFVGSSLYAPLKTLPSQCLISLKLPEECVYRPSWTVGKLEMLQPVPAMSFLGKDSNIPSVGSAMELQDYTQTYTPQTHTPIQSSSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPASAQGSMKYDNSDLYSPASTPSTLRPLSSVEPATAPSVPEAHSLYVTLILSDSTMNLFKDCNFDSCCVCVCNMNIKGADAGVYISDTGLDSQYSTTETCSCGFSAVVNRRYANGAGLFLEDELDVVGRGTDAGREAEKHLEAQRHTSSVHLQDELLLLLQEQCSNPFPALCMPEPRVGLVPRPPRRLEERDYCSDCYLALEHGRQFMDNMSGGKVDETLVKNSCLHSWANRNAMDVSLLFSQDVLRMLLSLQPVLQDAIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFVLPYWEKLLLDPFGSQRDVGYVVVCPDNETLLTGAKTFFRDLTAVYEACRLGQHKPICKAHADGIVTVSTAGLRPQAEQPLSDWFFKMCNTINNDSITKLKLYAQVCRHDLAPYLAAQSLDSSLLSQRNPSSSSSSTSTVSQPASSSSTSTGPQNTSTVTSTSTASTNSSTAAPTSATSSNSQGLGGLGSNKPSSLPPFGAQGIQHAGAQNTGTIGDGPSAMSQPQAPPEPPESTMERDKVGVPTDGDSHAVSYPPAIVVYIVDPFSYEETSRGCNSSMWSLGLLYCYMEMLQFLPPHIRNAVSVQVVPCQYLLQPVRSEERHMYAQHLKSLAFSVYTQCRRPLPNSTNVKTLTGFGPGLAIDTALQSSERAEFVRLYTPPFVLAPVKDKQTELGETFGEAAQKHNVLFVAYCLSHDQRWLLASCTDQYGELLETCIISIDVPNRARRKKGSARRLGLQKLWEWCVSLVQVTSLPWRVVIGRLGRMGHGELQDWSILLSRRNLQSLSRRLKEMCRMCGISSADSPSILSACLVALEPQATFVIMPDSVSTGSVFGRSTALNMQTSQLNTPQDTSCTHILVFPTSAVVQVIDTPFNPIHDASDAMGGMDVILDLLVSENDVDPDLINILPNSPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHDETPNILQQPMALGYFVSTAKAGPLPEWFWSSCPQAKNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNVL
Length2098
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 index56.12
Isoelectric point5.67
Molecular weight230635.22
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. 


ECO:0000256	RuleBase:RU364134

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

>MDP15736
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     296.32|      71|      74|     664|     734|       1
---------------------------------------------------------------------------
  596-  656 (67.54/32.56)	..........SAISPNEDTSHNPWRYfrLPGKRNMDL.....HPPQLPLDRLKQDslDSAVSVTEMMASSATLKvS
  664-  734 (121.08/64.44)	IQKKNQYLSVSGCDGEQEQDKDPYAF..VEGDEEFSFTDKEKRPGAEPAKRNKRD..DGSTSSTDDTHGSACSK.P
  741-  808 (107.70/56.47)	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 (115.90/50.28)	...........................PSQLPSK.......YKVAE....KP....EKAEKQQKRPQTPFHHRS....SVGEDLSL.EpdERSSHYRALHHGDVETSKTQTlHTSSRDMVG...SPQPPPLSPhPCEREEDTP....
  865-  996 (212.28/114.07)	KDFSFvfkpDPSQVFVGSslyAPLKTLPSQCLIS.......LKLPEECVYRPSWTVGKLEMLQPVPAMSFLGKDSNIPSVGSAMEL.Q..DYTQTYTPQTHTPIQSSSAPP.SNSGAGILP...SPATPRFSA.PTPRTPRTPRTPR
 1057- 1183 (176.06/82.72)	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 (22.67/10.81)	TSTVSQPASSSSTS
 1483- 1496 (22.56/10.71)	SSTAAPTSATSSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.36|      18|      21|    1315|    1332|       5
---------------------------------------------------------------------------
 1315- 1332 (34.26/23.99)	VLPYWEKLLLDPFGSQRD
 1338- 1355 (33.10/22.87)	VCPDNETLLTGAKTFFRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.35|      38|    1179|     293|     339|       6
---------------------------------------------------------------------------
  293-  331 (64.93/31.08)	PAAASSSGAM.ITPGGHHSHG..AHRESALSSvTLTPPTSPE
 1507- 1547 (63.42/26.51)	PSSLPPFGAQgIQHAGAQNTGtiGDGPSAMSQ.PQAPPEPPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     163.28|      48|     372|    1393|    1448|       7
---------------------------------------------------------------------------
 1394- 1448 (72.25/66.25)	PLSDWFFKMCNTINNDsiTKLKLYAQVCRHdlapYLAAQSlDSSLLSQRNPSSSS
 2000- 2047 (91.03/55.38)	PLPEWFWSSCPQAKNQ..CPLFLKASLHLH....VSSVQS.DELLHSKHSHPLDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.42|      21|     379|    1294|    1314|      11
---------------------------------------------------------------------------
 1294- 1314 (41.80/23.85)	P.LPIPTFLVGYEY.DFVVL..SPF
 1672- 1696 (25.62/11.77)	PgLAIDTALQSSERaEFVRLytPPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.70|      30|    1448|     190|     219|      13
---------------------------------------------------------------------------
  190-  219 (53.99/35.35)	SEEHLTQAQHSSSPVQVILS......PYGLN.GTLTG
 1633- 1669 (43.71/27.00)	SEERHMYAQHLKSLAFSVYTqcrrplPNSTNvKTLTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.43|      26|    1654|      60|      85|      14
---------------------------------------------------------------------------
   60-   85 (53.97/44.84)	C.LKADVLSVWRRHQTPGRR.ELWLFW.W
 1750- 1778 (36.46/27.09)	CiISIDVPNRARRKKGSARRlGLQKLWeW
---------------------------------------------------------------------------




































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 MDP15736 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AASSSGAMITPGGHHSHGAHRESALSSVTLTPPTSPEEAQKVSQPAPRW
2) CSRHKNLKQRTSNTPGLPLPAGQPSQLPSKYKVAEKPEKAEKQQKRPQTPFHHRSSVGEDLSLEPDERSSHYRALHHGDVETSKTQTLHTSSRDMVGSPQPPPLSPHPCEREEDTPAELKRSSTPLHQQFYPPSSSEACLLPSKSPDRASFDPLTSEYTT
3) GSAMELQDYTQTYTPQTHTPIQSSSAPPSNSGAGILPSPATPRFSAPTPRTPRTPRTPRGPASAQGSMKYDNSDLYSPA
4) LINILPNSPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHDETP
5) LSQRNPSSSSSSTSTVSQPASSSSTSTGPQNTSTVTSTSTASTNSSTAAPTSATSSNSQGLGGLGSNKPSSLPPFGAQGIQHAGAQNTGTIGDGPSAMSQPQAPPEPPESTMERDKVGVPTDGDS
6) LSVSGCDGEQEQDKDPYAFVEGDEEFSFTDKEKRPGAEPAKRNKRDDGSTSSTDDTHGSACSKPLPST
7) NDLDNLFNSDEDELTPGARKTGSGAEEKFGGKEPKPA
8) TSHNPWRYFRLPGKRNMDLHPPQLPLDRLKQDSLDSAVSVTEMMASSA
295
423
938
1938
1439
671
751
604
343
582
1016
1980
1563
738
787
651










Molecular Recognition Features






MoRF SequenceStartStop




1) HNPWRYFRLPGKRNM
2) KYKVAEK
606
452
620
458