<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 MDP27373

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCLVPNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLAEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHITLAQQSNNPFQVILSPFGLNGTLTGQAFKMSDSSTKKLIGEWKQFYPISSCLKEVSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAHKWVKFPSVSDGFNSDSTSHHGGKIPRKLADQVVDRVWQECNMNRAQNKRKYSASSSGMCEEETADKVASWDFVETTQRTSCSCSRHKNFKPRHSGQQGQAPPVGQQQQAAPKHKANEKQEKSEKPQKRPLTPFHHRASISDDTMETDTASQRLVISAPDSQFPEVLEPTVYVGTAVNLEEDEDHITWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPAGQESVVTSVTELMVQCKKPLKVSDELVQQYQSKNQYLSAVVSDMEQEPEIDPYAFVDGDVEFLFPDNKKDKQNSEREPGKKHKAEDGTSNVTVLSHEEDAMSLFSPSVKQDAQRSAGHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKILNGADEKSNSKESKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSIDTTPGGTILDGSSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKLENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLPPGPTMPFIKEGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLYKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDIIGRNTECGKEAEKRFEALRATSVEHVNGVLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIPKIGVISSSVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDETLVKTTCLHPWAKRNAIDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKTFFRDLTAIYESCRLGQHRPISRLLADGIMRVGSTASKKLSEKLVTEWFSQAADVNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLIVPTSQSLTTPPQLINTGNSNTPSATPATTTSSTMTSGSSVSSAVTTTNSTLTTTSSSSSSTTNISSGMSANKQPSFPPFGSMNNAAAGSMATQAATVQSAQLGGQQPPTLQTAGVSAEASSGPTQPHPEVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESSNSNVWTLGLLRCFLEMVQTLPPHLKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSVFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFVLAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRHNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNTNNDGADGIGIFDLLDTADDLDPDIINILPASPTTSPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQHQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2090
PositionMiddle
OrganismMonodelphis domestica (Gray short-tailed opossum)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Metatheria> Didelphimorphia> Didelphidae> Monodelphis.
Aromaticity0.07
Grand average of hydropathy-0.386
Instability index51.75
Isoelectric point5.39
Molecular weight230224.25
Publications
PubMed=17495919

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

>MDP27373
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     216.82|      52|     335|    1487|    1597|       1
---------------------------------------------------------------------------
  871-  913 (73.45/17.07)	GPTMPFiKEGDGSTMDQE..............YGPAY...........TPQTHTPFGMpPSSAPPSNS
 1380- 1433 (55.77/ 8.94)	GPYLAS.QPLDSSLLSQPNLIVPT...SQSLTTPPQLintgnsntpsaTPATTTSSTM..........
 1521- 1575 (87.60/112.84)	GPTQPH.PEVSESTMDRDKVGIPTdgdSHAITYPPAI...........VVYIIDPFTY.ENKDESSNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.00|      31|     206|    1642|    1672|       2
---------------------------------------------------------------------------
 1642- 1672 (55.33/28.99)	LPTSTNVKTLTGFGPGLAMETA.LKSPDRPEC
 1842- 1873 (50.67/25.93)	MPDSVSTGSVFGRSTTLNMQTSqLSTPQDTSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     252.18|      79|     206|     332|     417|       3
---------------------------------------------------------------------------
  332-  417 (123.80/93.13)	EEVQTVDAQ.SAHKWVKFPSVSDGFNSDSTSHHGGKIPRKLADQVVDRVwqecnMNRAQNKRKYsaSSSGMCEEETADKVASWDFVE
  539-  618 (128.37/78.48)	KDVEFLPPQlPSDKFKDDPVGPAGQESVVTSVTELMVQCKKPLKVSDEL.....VQQYQSKNQY..LSAVVSDMEQEPEIDPYAFVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.78|      13|      15|     944|     956|       5
---------------------------------------------------------------------------
  944-  956 (23.30/ 9.83)	PASAQGSVKYENS
  961-  973 (25.48/11.40)	PASTPSTCRPLNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     284.64|      69|     662|     779|     847|       6
---------------------------------------------------------------------------
  712-  779 (78.14/41.26)	TPGSkKILNGADeKSNSKESKAgNLDPLSCISTADLHKMYPTPPSLE..QHIMG...FSPM.NMNNK........eygsidT
  780-  849 (117.66/66.22)	TPGG.TILDGSS.SSIGAQFKI.EVDEGFCSPKPSEIKDFSYVYKLENCQALVGCSMFAPLKTLPSQCL....PP.....iK
 1445- 1508 (88.85/48.02)	TTNS.TLTTTSS.SSSST...T.NISSGMSANKQPS...FPPFGSMNNAAA...GSMATQAATVQSAQLggqqPP......T
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.30|      11|      18|    1241|    1251|       7
---------------------------------------------------------------------------
 1241- 1251 (23.04/12.46)	YGTDE...SPEPLP
 1259- 1272 (18.27/ 8.11)	YDYDFlvlSPFALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     233.75|      72|     908|     132|     212|       8
---------------------------------------------------------------------------
  132-  212 (117.50/95.49)	MNRNFVRIGKWFVkpyeKDEKPInKSEHLSCSFTFFLHGDSNVCTSVE.IN..QHQPVYLLSEEHITLAQQSNNPFqvilSPFG
 1047- 1121 (116.25/72.24)	MNRKFGNSSGLFL....EDELDI.IGRNTECGKEAEKRFEALRATSVEhVNgvLKEPEKLPDELILLLQDQCTNLF....SPFG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.59|      21|    1012|     917|     942|      11
---------------------------------------------------------------------------
  917-  942 (32.99/26.36)	ILP.SPSTPRFPTPRTprtpRTPRGaG
 1930- 1951 (39.60/17.45)	ILPaSPTTSPVHSPGS....HYPHG.G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.83|      11|    1012|     214|     224|      13
---------------------------------------------------------------------------
  214-  224 (21.69/10.39)	NGTLTGQAF.KM
 1224- 1235 (20.14/ 9.18)	QGPLTWQQFhKM
---------------------------------------------------------------------------




































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 MDP27373 with Med13 domain of Kingdom Metazoa
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