<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 MDP27723

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSFVPNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPSFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISSCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLANHVVDRVWQECNMNRAQNKRKYSASSGGLSEEEIPDKVASWDFVEATQRTNCSCLRHKNLKPRNPGQQGQAPSLNQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVGMDTDSASQRLVISAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPAQFQEAVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLSAIASDAEQESKIDPYAFVEGDEEFLFPDKKDRQSSEREAVKKHKVEDGPSSITVLSHEEDAMSLFSPSIKQDAPRPASHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSANGTDDKSSSKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMSNKEYGSMDITPGGTILEGNSSSIGTQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKSLPSQCLPPIKLPEECVYRQSWTVGKLELLPSGPAVPFIKEGDGSTIDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPMQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTECGKEAEKRFEALRATSEHVNGGLKESEKFPDELILLLQDQCTNLFSPFGAADQDPFPRIGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAVYESCRLGQHRPISRLLTDGIMRVGSTASKKLSEKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVAPTSQSLITPPQMTSTGNASTPSATLASAASSTMTMTSGVAMSSSVATANSTLTTTSTSSSSSSNLNSGVSSNKLPSFPPFGSMNSSGTGSMPTQASTVQNGQLGGQQSSALQTAGISGESSLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNSRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSSLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2172
PositionMiddle
OrganismAiluropoda melanoleuca (Giant panda)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Ursidae> Ailuropoda.
Aromaticity0.08
Grand average of hydropathy-0.401
Instability index53.64
Isoelectric point5.40
Molecular weight239321.26
Publications
PubMed=20010809

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

>MDP27723
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     501.52|     175|     543|     862|    1052|       1
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  517-  719 (216.57/92.32)	AKTPQMHGT.EMANS.PQPPPLS.....PHPcdvvDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDR.....................................................................................iDSLSQSFPAQFQEAVEPTVYVGTAVNLeedeaniawkyykvpkkkdveflppqlpsdkfKD.....DPVG...PFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLSAIASdaeqeSKIDPYaFVEGDEEFLfpdkkDRQSSE
  720-  801 (62.60/18.34)	REAVKKHKVEDGPSSiTVLSHEEDAMSLFSP....SIKQ.DAPRPASHARPPSTSLIYDSDLAVSYTDLDnLFNSDEdelTPGSKKS........................................................................................................................................................................................................................
  870-  974 (123.68/68.92)	.......................................................................................angtddkssskesktgnldplscistadlhkmyptppsleqhimgfspmnmsnkeygsmditpggtilEGNSSSIGTQFKIEVDEGFCSPKPSEI................................KDfsyvyKPENcqvLVGCSMFAPLKSLPSQCLPPIKLPEECVYRQSWTVGKLELLPS.....GPAVPF.IKEGDGSTI.....DQEYGP
  975- 1052 (98.68/34.99)	AYTPQTHTSFGMPPS.SAPPSNSGAGILPSP....STPRFPTPRTPRTPRTPRAGGPASAQGSVKYENSD.LYSPAS...TPSTCRP........................................................................................................................................................................................................................
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     549.54|     158|     422|    1324|    1547|       2
---------------------------------------------------------------------------
  185-  322 (171.95/86.65)	PVYLLSEEHITLAQqsnSPF......QVILSPFG..........................................lngtLTGQAFKMSDSATK....KLIGEW.....KQFYPISSCLKEMSEEKQEDMDWE......DDSLAAVEVLVAgvrmiypacfvLVPQ.SDIPTPSSV..GSSHCSASCLG..VHQVPAS..TRDPAM.....SS.........................
 1332- 1547 (226.62/209.06)	PTFLLGYDYDFLVL...SPFalpyweRLMLEPYGsqrdiayvvlcpeneallngaksffrdltavyescrlgqhrpisrlLTDGIMRVGSTASKklseKLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPlDSSLLSQPNLVA...........PTSQ.SLITPPQMTSTGNASTPSATLASAASSTMTM..TSGVAM.....SSSVATANSTLTTTSTSSSSSSNlNSG
 1873- 1989 (150.97/61.86)	......................................................................................................DWSSLLSRRNLQSLSK.RL.KDMCRM.CGISAADSP...SILS.ACLVA...........MEPQgSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPqdTSCTHIlvfptSASVQVASATYTTENLDLAFNPN.NDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.33|      26|     711|     832|     868|       3
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  832-  868 (37.63/39.21)	KMYPTPPsleqhimgFSPMNMSNKeyGSMDiTPGGTI
 1552- 1577 (50.70/24.14)	KLPSFPP........FGSMNSSGT..GSMP.TQASTV
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.95|      37|     816|    1262|    1299|      10
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 1262- 1299 (60.41/41.90)	WSKRNDVSMQCSQdILRMLLSLQ.PVLQ.DAIQKKRTVRP
 2080- 2118 (61.54/37.94)	WSACPQAQYQCPL.FLKASLHLHvPSVQsDELLHSKHSHP
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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 MDP27723 with Med13 domain of Kingdom Metazoa
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