<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 MDP01672

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLPQPFPAPFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNMEREAGKKHKAEDGTSSVTVLAHEGEDAMSLFSPSVKQEAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQPASALPPVTANAGNPNTPSSAPAAPTSSTMTATSNSAMSSAATTANSTLTTTAPSSSSANIGSGIPTSKPSSFPPFSSMNNTTSASLPTQAATVQNGQTGGQQQQPTLQTAGMSGDTTSAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVFFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismEgretta garzetta (Little egret)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Pelecaniformes> Ardeidae> Egretta.
Aromaticity0.07
Grand average of hydropathy-0.410
Instability index51.25
Isoelectric point5.40
Molecular weight239678.78
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

>MDP01672
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     228.39|      36|      40|     979|    1014|       1
---------------------------------------------------------------------------
  531-  566 (41.86/14.69)	.PQ....P....PPLSPHPC....DvVDEGVAKAP.ST.PqsqhfyQMPTP
  567-  589 (36.14/11.64)	DPL.............VP.T....K.TMEDRLDGL.PQ.P.......FPAP
  979- 1014 (74.21/31.97)	TPQT.HTPFGM.PPSSAPPS....N.SGAGILPSP.ST.P......RFPTP
 1016- 1055 (39.34/13.35)	TPRTpRTPRGAgGPASAQGSvkyeN.SD...LYSPaST.P......STCRP
 1485- 1515 (36.85/12.02)	.P.....PSSQ.PASALPPV....T.ANAGNPNTP.SSaP......AAPT.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.53|      33|      40|    1118|    1157|       2
---------------------------------------------------------------------------
 1118- 1143 (43.31/26.71)	...............QEA..QYRCTCGFSAVMNRKFGNSSGLF
 1144- 1180 (36.58/42.17)	LEDELdILgrntecgKEA..EKR....FEALRATSVEHGSGGL
 1186- 1206 (26.65/14.41)	LPDEL.IL..........llQDQCTNLFS.....PFG......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.52|      12|      40|     848|     859|       3
---------------------------------------------------------------------------
  848-  859 (25.08/15.91)	GF.SPMNMNNKEY
  889-  901 (19.44/10.38)	GFcSPKPAEIKDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     553.00|     178|     265|      46|     257|       4
---------------------------------------------------------------------------
   46-  257 (290.37/262.72)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWenglsyecrtllfkavhnllERCLMN.....RNFV.............RIGKW.FVKPYEKDEKPINKSEHLSCSftfflhgdsnvcTSVEISQHQPV...YLLSEEHLTLAQQ..SNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEM
  312-  522 (262.63/177.76)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHHggkiprKLANQvVDRVW....................QECNMNraqnkRKYSatsnglcdeetadKVASWdFVEATQRTNCNCSRHKNLKPR............NSGQQGQAPPVgqqQQAAPKHKTNEKQdkGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.45|      21|      45|    1404|    1430|       5
---------------------------------------------------------------------------
 1404- 1430 (32.38/33.17)	RLGQHRPICKllpdgiMRVGP.TASKKL
 1452- 1473 (33.07/18.92)	KLKLYAQVCR......YELGPyLASQPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     161.58|      38|      76|    1527|    1564|       6
---------------------------------------------------------------------------
 1527- 1564 (65.87/34.07)	MSSAATTANSTLTTTAP....SSSSANIGS.GIPTSKPS...SFPP
 1565- 1599 (53.75/26.35)	FSSMNNTTSASLPTQA......ATVQNGQT.GGQQQQP....TLQT
 1602- 1642 (41.96/18.85)	MSGDTTSAPAQ.....PhpevSESTMDRDKvGVPTDGDShaiTYPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.62|      13|      77|     625|     637|       7
---------------------------------------------------------------------------
  625-  637 (25.87/14.89)	DVEFLPPQLPNDK
  704-  716 (24.76/13.87)	DVEFLFPDSKKDR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.72|      41|    1064|     660|     701|       9
---------------------------------------------------------------------------
  660-  701 (68.81/47.57)	QCRKPLKVSDElVQQYQSKNQYLA.AVATEADQEPE.IDPYA..FV
 1726- 1770 (60.91/37.22)	QCRRPLPTSTN.VKTLTGFGPGLAmETALKSPDRPEcIRLYTppFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.71|      17|     721|     945|     964|      14
---------------------------------------------------------------------------
  941-  958 (28.73/19.37)	YRQSWTVGKLDlLPPGPA
  961-  977 (29.98/ 9.62)	FIKDGDGSTMD.QEYGPA
---------------------------------------------------------------------------




































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 MDP01672 with Med13 domain of Kingdom Metazoa
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