<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 MDP01640

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPMNKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEDKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIQTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAPFPEVIEPTMYVGTAVNLEEDEADTTWRYYKVPKKKDVEFLPPQLPNDKLREDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREVGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSAMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRVTSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTSNANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQPASALPAASASAGNPNTPSSAPAAPTSSTMTATSNSAMSSAATTANSTLTTTAPSSSSANIGSGIPTSKPSSFPPFSSMNSTTSASLPTQAAAVQNGQTGGQQQQPTLQTAGMSGENTAAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismCuculus canorus (common cuckoo)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Cuculiformes> Cuculidae> Cuculus.
Aromaticity0.07
Grand average of hydropathy-0.403
Instability index51.34
Isoelectric point5.38
Molecular weight239521.57
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. 


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

>MDP01640
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     168.19|      38|      77|    1527|    1564|       1
---------------------------------------------------------------------------
  987- 1022 (43.53/16.02)	....GMP...PSSAPP.SNSGAGILPSPSTPRFP....TPRTprtprT
 1503- 1522 (27.16/ 7.10)	NPNT......PSSAPA.APTS.....STMTAT................
 1549- 1582 (57.54/23.65)	NIGSGIPTSKPSSFPP.....FSSMNSTTSASLP....TQAA.....A
 1585- 1622 (39.96/14.07)	NGQTGGQQQQP.....tLQTAGMSGENTAAPAQPhpevSEST.....M
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.65|      33|      78|     603|     637|       2
---------------------------------------------------------------------------
  603-  637 (55.62/37.41)	AVNLEEDEADTTWRYYKVpkKKDVEFLPPQLPNDK
  684-  716 (59.03/33.50)	AVATEADQEPEIDPYAFV..DGDVEFLFPDSKKDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.84|      20|      20|     556|     575|       3
---------------------------------------------------------------------------
  556-  575 (40.46/22.27)	QSQHFYQ.MPTPDPLVPTKTM
  578-  598 (29.38/13.74)	RLDGLSQpFPAPFPEVIEPTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.17|      33|      71|     954|     986|       4
---------------------------------------------------------------------------
  896-  913 (21.68/ 6.74)	...............AEIKD.YSYVYKPENCQAL
  954-  986 (64.32/36.25)	PPGPAMPFIKDGDGSAMDQE.YGPAYTPQTHTPF
 1023- 1056 (57.17/31.30)	PRGAGGPASAQGSVKYENSDlYSPASTPSTCRPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.82|      18|      40|    1139|    1157|       6
---------------------------------------------------------------------------
 1139- 1157 (28.90/20.07)	SSGL....FLEDELdILGRNTEC
 1177- 1198 (27.92/14.37)	SGGLkepeKLPDEL.ILLLQDQC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.71|      25|      40|    1413|    1437|       7
---------------------------------------------------------------------------
 1413- 1437 (41.32/22.93)	KL.LPDGIMR..VGP.TASKKLSEKLVTE
 1452- 1480 (28.38/13.11)	KLkLYAQVCRyeLGPyLASQPLDNSLLSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     476.14|     154|     263|      46|     233|       8
---------------------------------------------------------------------------
   46-  233 (248.55/213.81)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWenglsyecrtllfkavhnllERCLMNRNFVR..................IGKW.FVKPYEKDEkpmnksehlsCSFTffLHGDSNVCTSVEISQHQPV...YLLSEEHLTLAQQ..SNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLI
  312-  498 (227.59/139.17)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHHggkiprKLANQvVDRVW....................QECNMNRAQNKrkysatsnglcdeetadkVASWdFVEATQRTN..........CNCS..RHKNLKPRNSGQQGQAPPVgqqQQAAPKHKTNEKQdkGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.21|      19|      20|    1317|    1336|       9
---------------------------------------------------------------------------
 1317- 1330 (13.01/ 7.19)	.........FHKMAGRgSYGTDE
 1331- 1348 (25.39/11.67)	SPEPLPiptF..LLG...YDYDF
 1352- 1370 (25.81/12.01)	SPFALP..yWERLMLE.PYGSQ.
---------------------------------------------------------------------------




































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 MDP01640 with Med13 domain of Kingdom Metazoa
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