<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 MDP01359

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAQFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREAGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQPASALPPVTANAGNPNTPSSAPAAPTSSTMTATSNSAMSSAATTANSTLTTTAPSSSSANIGSGIPTSKPSSFPPFSSMNNTTSASLPAQAATVQNGQTGGQQQQPTLQTAVMSGDTTSTPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismAptenodytes forsteri (Emperor penguin)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Sphenisciformes> Spheniscidae> Aptenodytes.
Aromaticity0.07
Grand average of hydropathy-0.408
Instability index51.43
Isoelectric point5.40
Molecular weight239691.76
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

>MDP01359
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.70|      41|      62|     466|     506|       1
---------------------------------------------------------------------------
  466-  493 (40.38/17.10)	....................................DK.....PQKRP..LTPFHHRVSISDDVAMEADSA
  494-  554 (57.48/27.77)	SQRLV.MTAPDSQVrfsnirtndvaktpqmhnaemaNS.....PQPPP..LSP..HPCDVVDEGVAKAPST
  557-  611 (45.85/20.51)	SQHFYqMPTPDPLV.............ptktmedrlDGlsqpfPAQFPevIEPTMY...VGTAVNLEEDEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.86|      32|      32|     954|     985|       2
---------------------------------------------------------------------------
  954-  973 (27.73/ 9.68)	.................PPGPAMPFIKDGDGSTMDQE
  974- 1006 (54.64/27.68)	YGPAY.TPQT.HTPfgmPPSSAPP.SNSGAG.ILPSP
 1007- 1042 (40.49/18.21)	STPRFpTPRTpRTP.rtPRGAGGPASAQGSVKYENSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     203.25|      63|     265|      46|     115|       3
---------------------------------------------------------------------------
   46-  115 (110.01/84.28)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWEnglsyEC
  312-  383 (93.24/56.16)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHHggkiprKLANQvVDRVWQ.....EC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      25.99|      10|      64|    1174|    1203|       4
---------------------------------------------------------------------------
 1174- 1189 (11.45/10.41)	EHG.......SGGlkepeKLpDE
 1239- 1255 (14.54/ 7.21)	EHGrqfmdnmSGG.....KV.DE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.81|      33|     265|     625|     677|       5
---------------------------------------------------------------------------
  625-  657 (58.54/44.76)	DVEFLPPQLPNDKL...RDDPVIPAGQENVTSVTEL
  704-  739 (51.27/12.87)	DVEFLFPDSKKDRQnieREAGKKHKAEDGTSSVTVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.71|      12|      40|     848|     859|       6
---------------------------------------------------------------------------
  848-  859 (25.24/15.70)	GF.SPMNMNNKEY
  889-  901 (19.46/10.11)	GFcSPKPAEIKDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     132.67|      23|     487|    1046|    1068|       7
---------------------------------------------------------------------------
 1046- 1068 (40.81/20.72)	PASTPSTCRPLNSVEPATVPSIP
 1492- 1507 (21.20/ 6.62)	.....SALPPVTA..NAGNPNTP
 1508- 1527 (27.80/11.37)	.SSAPAA..PTSSTMTATSNSAM
 1555- 1577 (42.86/22.19)	PTSKPSSFPPFSSMNNTTSASLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.20|      17|     487|     801|     839|       8
---------------------------------------------------------------------------
  418-  434 (32.85/ 8.61)	ATQRTNCNCSRHKNLKP
  807-  823 (30.35/42.01)	ADDKSNCKEAKAGNLDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.81|      17|      17|    1586|    1602|      10
---------------------------------------------------------------------------
 1586- 1602 (30.34/17.20)	GQTGG..QQQQPTLQTAVM
 1604- 1622 (25.48/13.10)	GDTTStpAQPHPEVSESTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.22|       9|      17|    1463|    1472|      11
---------------------------------------------------------------------------
 1463- 1472 (13.91/ 9.23)	ELGPYlASQP
 1482- 1490 (18.31/ 7.89)	NLVPP.SSQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.51|      11|      18|    1326|    1336|      13
---------------------------------------------------------------------------
 1326- 1336 (22.98/13.35)	YGTD...ESPEPLP
 1344- 1357 (17.52/ 7.93)	YDYDflvLSPFALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.72|      41|    1064|     660|     701|      15
---------------------------------------------------------------------------
  660-  701 (68.81/46.66)	QCRKPLKVSDElVQQYQSKNQYLA.AVATEADQEPE.IDPYA..FV
 1726- 1770 (60.91/36.52)	QCRRPLPTSTN.VKTLTGFGPGLAmETALKSPDRPEcIRLYTppFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.34|      44|     646|    1401|    1459|      16
---------------------------------------------------------------------------
  192-  245 (60.10/29.17)	EHLTLAQqsNSPFQVILsPFGLNGTLTGQSFKLSDsstkKLIGEWkqfYPVTSN
 1401- 1444 (81.24/72.00)	ESCRLGQ..HRPICKLL.PDGIMRVGPTASKKLSE....KLVTEW...FSQTAN
---------------------------------------------------------------------------




































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 MDP01359 with Med13 domain of Kingdom Metazoa
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