<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 MDP27476

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSASFVPNGASLEDCHCNLFCLADLTGIKWKKYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILCPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSPVGSTHCSSSCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLCEEVTAAKVASWDFVEATQRTNCSCLRHKNLKSRNAGQQGQAPSLGQQQQILPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDTDSASQRLVISAPDSQVRFSSIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPPQYQEAVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKISDELVQQYQIKNQYLSAIASDAEQEPKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPASHARPPSTSLIYDSDLAVSFTDLDNLFNSDEDELTPGSKKSANGSDDKTSCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQILVGCSMFAPLKTLPSQYLPPIKLPEECIYRQSWTVGKLELLSSGSTMPFIKEGDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAIMNRKFGNSSGLFLEDELDIIGRNTDCGKEAEKRFEALRGTSAEHVNGGLKESEKLSDDLILLLQDQCTNLFSPFGAADQDPFPKSGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDYLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPVSRLLTDGIMRVGSTASNKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASLPLDSSLLSQPNLVAPTSQSLITPPQMTNTGNANTPSATLASAASSTMTMTSGVAISTSVATANSTLTTASTSSSSSSNLNSGVSSNKLPSFPPFGSMNSNAAGSMSTQANTVQSGQLGGQQTSTLQTAGISGESSSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENTDESANSSSVWTLGLLRCFLEMVQTLPPHIKSTVSVQIIPCQYLLQPVKHEDREIYPQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYAPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKSSARKFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDVGKGQSTDRLLSTEPHEEVPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2174
PositionMiddle
OrganismMacaca mulatta (Rhesus macaque)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Cercopithecidae> Cercopithecinae> Macaca.
Aromaticity0.08
Grand average of hydropathy-0.393
Instability index52.95
Isoelectric point5.38
Molecular weight239379.43
Publications
PubMed=17431167

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	IBA:GO_Central

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27476
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.51|      30|     205|     308|     338|       1
---------------------------------------------------------------------------
  308-  338 (46.01/22.62)	VHQVPaSTRDP.AMSSVTLTPPTS.....PEEVQTVD
  516-  545 (59.37/27.01)	VAKTP.QMHGT.EMANSPQPPPLS.....PHPCDVVD
  975- 1004 (26.13/ 7.41)	.AYTP.QTHTSfGMPPSSAPPSNSgagilPSP.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.13|      22|      26|    1328|    1349|       2
---------------------------------------------------------------------------
 1328- 1349 (42.16/23.59)	P..EPLPIPTFLLGYDYDYLVLSP
 1353- 1376 (36.97/19.73)	PywERLMLEPYGSQRDIAYVVLCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.99|      15|      26|    1596|    1612|       3
---------------------------------------------------------------------------
 1596- 1612 (19.21/18.00)	GI..SGESSSLpTQPhPDV
 1623- 1639 (24.78/11.40)	GIptDGDSHAI.TYP.PAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.25|      21|     426|    1022|    1059|       4
---------------------------------------------------------------------------
  339-  360 (35.80/11.16)	PQSAQKWVKFSSvSDGFNSDST
 1027- 1047 (38.45/38.75)	PASAQGSVKYEN.SDLYSPAST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     128.13|      38|     426|    1668|    1727|       6
---------------------------------------------------------------------------
  626-  665 (63.20/28.20)	VEFLPPQ..LPSDKFKDDPVGPfgQESVTSVTELMVQCKKPL
 1687- 1726 (64.93/38.02)	VQIIPCQylLQPVKHEDREIYP..QHLKSLAFSAFTQCRRPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     157.61|      51|     421|    1511|    1572|       7
---------------------------------------------------------------------------
  794-  860 (79.62/41.21)	LTPG.....SKKSANGSDDKTSCKESKTGNLDplSCISTADLHkmyptppsleqhimGFSPM.NMNNKEYGSM
 1516- 1572 (77.99/54.00)	MTSGvaistSVATANSTLTTASTSSSSSSNLN..SGVSSNKLP..............SFPPFgSMNSNAAGSM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.91|      13|      35|    1252|    1264|       8
---------------------------------------------------------------------------
 1252- 1264 (24.87/13.88)	DEALVKSSCLHPW
 1290- 1302 (24.03/13.16)	QDAIQKKRTVRPW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     138.79|      40|     714|     383|     431|       9
---------------------------------------------------------------------------
  383-  431 (59.80/65.30)	CNMNRaqnkrKYSASSGGLCEE........VTAAKVASWDFvEATQRTNCsclRHKN
 1098- 1125 (22.10/ 8.05)	CNMNI.....K.GADVGVYIPDptqeaqyrCTCG.......................
 1130- 1175 (56.89/37.21)	..MNR.....KFGNSSGLFLEDeldiigrnTDCGKEAEKRF.EALRGTSA...EHVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     209.62|      60|     865|      20|      80|      10
---------------------------------------------------------------------------
   20-   80 (106.81/70.78)	FCLADLTGIKWKKYVWQgPTSAPILFPVTEEDPILSSFSRCLKADVLG...VWRRDQRPGRREL
  888-  950 (102.81/63.58)	FCSPKPSEIKDFSYVYK.PENCQILVGCSMFAPLKTLPSQYLPPIKLPeecIYRQSWTVGKLEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.44|      19|     714|     746|     766|      16
---------------------------------------------------------------------------
  746-  766 (32.19/21.20)	SLFS.PSIKqdAPRPASHARPP
 1472- 1491 (30.25/13.71)	SLLSqPNLV..APTSQSLITPP
---------------------------------------------------------------------------




































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 MDP27476 with Med13 domain of Kingdom Metazoa
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