<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 MDP19146

Description Mediator of RNA polymerase II transcription subunit 13
SequenceHSVSFVSTGVHICFLISDMADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLAEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILCPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSTHCSSSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQKKRKYSASSGGLCEEETAAKVASWDFVEATQRTNCSCLRHKNLKPRNAGQQGQAPTLGQQQQILPKHKTNEKQEKSEKPQKRPLTPFHHRVSISDDVAMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPVEDRIDSLSQSFPPQFPEAVEPTVYVGTAVNLEEDEASIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPASHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGSDDKVSCKESKTGNLDPLSSPHSLYLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSGVGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQILVGCSMFAPLKTLPSQFLPPIKLPEECIYRQSWTVGKLELLPSGPAMPFIKEGDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEVQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSTEHINGGLRESEKLPDDLILLLQDQCTNLFSPFGAADQDPFPKSGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDYLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPVSRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASLPLDSSLLSQPNLVASTSQSLITPSQMANTGNANTPSATLASAASTTMTMTSGVAISTSVATANSTLTTASTSSSSSSNLNSGVSSNKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQPSALQTAGISGESSSLPIQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIIPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYAPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARKFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDVGKGQGTDRLLSTEAHEEVPNILQQPLALGYFVSTAKAGPLPNWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2171
PositionMiddle
OrganismSaimiri boliviensis boliviensis (Bolivian squirrel monkey)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Platyrrhini> Cebidae> Saimiriinae> Saimiri.
Aromaticity0.08
Grand average of hydropathy-0.386
Instability index52.47
Isoelectric point5.52
Molecular weight239236.56
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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

>MDP19146
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     186.86|      39|      40|     971|    1009|       1
---------------------------------------------------------------------------
  514-  552 (43.58/15.20)	.AKTPQMH.GTEMANSPQPPPLSphpcdvvDEGVTKTP.STP.....
  971- 1009 (77.86/32.83)	PAYTPQTHTSFGMPPSSAPPSNS.......GAGILPSP.STPRFPTP
 1012- 1050 (65.42/26.44)	P.RTPRTPRGAGGPASAQGSVKY.......ENSDLYSPaSTPSTCRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.60|      27|      39|      20|      58|       2
---------------------------------------------------------------------------
   20-   49 (42.27/45.81)	ADLTGIkWKRYvwQGPTSAPILFPVTEEDP
   60-   86 (56.33/26.83)	ADVLGV.WRRD..QRPGRRELWIFWWGEDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.60|      36|      40|     865|     903|       3
---------------------------------------------------------------------------
  865-  903 (57.59/43.36)	VLEGNSsgVGAQFKiEVDEGFCSP.K.PSE.IKDFSY.VYKPE
  907-  946 (51.01/28.13)	ILVGCS..MFAPLK.TLPSQFLPPiKlPEEcIYRQSWtVGKLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.91|      26|      37|     701|     737|       4
---------------------------------------------------------------------------
  701-  730 (36.84/37.41)	DEEFLF.PDKKdrQNSEREAgkKHKVEDGTS
  740-  766 (44.07/17.85)	DAMSLFsPSIK..QDAPRPA..SHARPPSTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.17|      26|      43|     332|     357|       5
---------------------------------------------------------------------------
  332-  357 (46.31/28.60)	QTVDPQSAQKWVKFSSVSDGFNSDST
  378-  403 (46.86/29.04)	QECNMNRAQKKRKYSASSGGLCEEET
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.95|      22|      37|    1249|    1270|       6
---------------------------------------------------------------------------
 1249- 1270 (39.20/19.19)	DEALVKSSCLHPWSKRNDVSMQ
 1287- 1308 (40.75/20.21)	QDAIQKKRTVRPWGVQGPLTWQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.76|      50|      56|    1492|    1541|       7
---------------------------------------------------------------------------
 1492- 1541 (77.06/44.50)	NTGNANTPSATLASAASTTMTMTSGVAISTSVATAN.STLTTASTSSSSSS
 1550- 1600 (78.69/45.62)	NKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQpSALQTAGISGESSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.96|      33|      39|    1110|    1146|       8
---------------------------------------------------------------------------
 1110- 1146 (52.19/46.90)	DPTQEVQYRctcgFSAVMNRKFGN.NSGLFLEDEL..DII
 1151- 1186 (46.78/29.68)	DCGKEAEKR....FEALRATSTEHiNGGLRESEKLpdDLI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.67|      16|      40|     225|     241|      10
---------------------------------------------------------------------------
  225-  241 (26.59/24.55)	ATKKLIGEWKQFYPiSC
  263-  278 (28.08/19.90)	AVEVLVAGVRMIYP.AC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.35|      32|      40|    1399|    1430|      11
---------------------------------------------------------------------------
 1399- 1430 (52.84/37.02)	GQHRPVSRL.LTDGIMR..VGS.TASKKLSEKLVAE
 1438- 1473 (40.51/26.36)	GNNEAFSKLkLYAQVCRydLGPyLASLPLDSSLLSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.65|      24|      40|     792|     822|      12
---------------------------------------------------------------------------
  792-  817 (38.85/36.67)	TPGS.KKSANG.SDDKVSCKEskTGNLD
  833-  858 (38.80/17.26)	TPPSlEQHIMGfSPMNMNNKE..YGSMD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.35|      20|     850|    1074|    1109|      16
---------------------------------------------------------------------------
 1088- 1109 (36.82/19.40)	DSCCI...CVCNMNIKGAdvGVYIP
 1902- 1924 (33.53/23.45)	DSPSIlsaCLVAMEPQGS..FVIMP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.25|      15|      43|    1631|    1646|      17
---------------------------------------------------------------------------
 1631- 1646 (26.21/20.53)	TYPP....AIVVYIIdPFTY
 1673- 1691 (25.03/13.85)	TLPPhiksTVSVQII.PCQY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.06|      30|      41|     134|     165|      18
---------------------------------------------------------------------------
  134-  165 (49.51/38.77)	VRIGKWfvKP.YEKDEKPINKSEHLSCSFTFFL
  175-  205 (46.56/29.35)	VEINQH..QPvYLLSEEHITLAQQSNSPFQVIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.60|      16|     251|     949|     964|      19
---------------------------------------------------------------------------
  949-  964 (33.14/24.64)	PSGPA..MPFIKEGDGSN
 1199- 1216 (27.46/18.60)	PFGAAdqDPFPKSGVISN
---------------------------------------------------------------------------




































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 MDP19146 with Med13 domain of Kingdom Metazoa
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