<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 MDP32290

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMMSSCFVPNGASLEDCHSNLFCLADLTGIKWKCFVWQGPTSSPILFPVTEEDPILCSFSRCLKADVLSVWRRHQTPGRRELWIFWWGDDPNFAELVHHDLSCNEDGSWESGLTYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFVHGDSNVCTSVEINQHQPVYLLSEEHLTLAQQSSSSVQVILSPYGLSGTLTGQSFKLSDPPTQKLIEEWKQFYPIGPNTKEVTDDKMDDLDWEDDSLAAVEVVVAGVRMVYPASLVLVAQSDIPLVATVSSSSSSGSYAGAPHNQLVHGDTGISSVTLTPPTSPEEAQAVSQPAQKWVKLSAMSGVFSVDSSSHHGGKIPRRLASQMVERVWQECNINRAQNKRKFSTMSNGVCEEETDKASVWDFVESSQRSQCSCSRLKNQKQRACSTPGHPPSAGQPPQPSTKHKMAEKLEKGDKQQKRPLTPFHHRSSLCEEQPSLEQGESVHRLCLQGHEDSRYPSLHHADVTSSKTPMLHSSADEMAGSPQPPPLSPHPCERMEEPADGMKSSSSPLHQHFYPPSSEPCLEPQKPPDESTLDPLPLPCPPPYPETLEATIYVGSAINPNEDTTHNPWKYFRVPGGRNSDFHTPHLPVVAHFEDGNRTGGQDGIVSITEMMSSSKRPLKVSEELVKMYEHKKNQYLSSAVCDEDPEQESDPYAFEEGDEEFNFSDKDKKSGSEREAGKKAKREDGSSSSDDAQGSGGSKPLPTTSLIHETDLVVSINDLDNLFNSDEDDLTQPGSRRAAGGAEEKFGGKEPKPAAPDPLPCCADLHQMFPTPPSLDQGYSPINMGNTESAAGLSLLDGAMSGNFKMEVEEGFCSPKPSEIKDFSYVFKPESCQVLIGCSLYAPLKTLPSQCLLPVKLPEECVYRPSWTVGKLEMLQPMAAMTFLNKDSNIPSVGSAVEQEQSCTPQTHNTFMSNSAPPSNSGAGILPSPATPRISAPTPRTPRTPRTPRGPASVQGSLKYENSDLNSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNITGADVGVYISDPNMDSQYSSMDPCSCGFSAVMNRRYGNGAGLFLEDELDIMGRGSDAAREIEKHFEAVRAASLKRGTVLKEQVPDDLMLLLQDLCTNPFSPIIRPDLLGTVIKSPIRLEERDYYSDCYMALEHGRQFMDNMSGGKVDETLVKSSSLHHWAKRNAFDMSMLFSQDVLRMLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTLLVGYEYDYVVLSPFALPYWEKLLLDPYSSQRDVGYMVVCPDNEALLNGAKTFFRDLTAVYESCRLGQHRPIAKSHADGIVTVSDAGSKALTDQTLIDWLPKTINSSSSSEALNKLKLYAHVCRHDLASCLASQSLDGSLLTQRNPASSSQTSSSSSPVTTAQNVTPTTNSNSNTNTNTTPTSTSTSSSSSSCPQGVGNMPSSKPNTIPPFGAQGLQSSQQSGGQSAGTLGDATSATSQPQVPSEPAESTMEREKVGVPTDGDSHAVTYPPAIVIYIVNPFSYEENCQGSSSSVWTIALLRCYLEMLQLLPPHIRNAVYVQIIPSQYLLQPVWSEERHIYAQHLKSLAFSVYTQCRRRLPTSTNVKTLTGFGPGLAIDTALQSKERPQCLHLYAPPFVLAPVKDKQTELGETFGEAAQKYNVLFVAYCLSHDQRWLLASCTDQYGELLETCVISIDVPNRARRKKGSARRQGLQKLWEWCLDLVQMTSLPWRIVIGRLGRIGHGELRDWSILLSRRNLQSLGRRLKEMCRMCGISAADSPSILSTCLVAMEPQASFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSAGLQAFSDVTDGMGGMDGILDLFAENDLVDPDLINIIPNSPTTSPVHSPGSHYHHGGDGSKGQGTDRMESHDESPNILQQPMALGYFVSTAKAGPLPDWFWSSCPQAKNQCPLFLKASLHLNVSSVQSDELLHSKHSHPLDSSHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2103
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.417
Instability index59.87
Isoelectric point5.51
Molecular weight231167.79
Publications
PubMed=23594743

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

>MDP32290
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.08|      30|      32|    1453|    1483|       1
---------------------------------------------------------------------------
 1453- 1483 (48.32/24.77)	TQRNPASSSQTSSSSSPVTTAQNVtPTTNSN
 1488- 1517 (55.76/25.57)	TNTTPTSTSTSSSSSSCPQGVGNM.PSSKPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     140.42|      31|      32|     536|     567|       2
---------------------------------------------------------------------------
  523-  540 (27.12/ 7.93)	......LHSS.ADEMAGSPQP........PPLS
  541-  569 (62.11/27.63)	PHPCERMEEP.ADGMKSSSSPLHQHF.YPP..S
  570-  588 (26.63/ 7.65)	SEPCLEPQKP.PD..ESTLDPL...........
  811-  828 (24.55/ 6.48)	PLPC......cAD........LHQMFpTPPSL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.69|      24|      33|     429|     452|       3
---------------------------------------------------------------------------
  429-  452 (48.23/21.80)	KNQKQRACS.TPGHPPSAGQPPQPS
  463-  487 (42.46/18.31)	KGDKQQKRPlTPFHHRSSLCEEQPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     107.58|      31|      33|     943|     975|       4
---------------------------------------------------------------------------
  943-  975 (53.12/29.93)	I.PSvgSAVEQEQSCTPQTHNTFMSNSAPPSNSG
  978- 1009 (54.46/25.53)	IlPS..PATPRISAPTPRTPRTPRTPRGPASVQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.28|      38|     208|    1670|    1707|       5
---------------------------------------------------------------------------
 1670- 1707 (66.71/34.60)	LPTSTNVKTLTGFGPGLAIDTA.LQSKERPQCLHLYAPP
 1870- 1908 (62.56/32.01)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     168.72|      58|     645|     703|     770|      14
---------------------------------------------------------------------------
  703-  770 (81.18/71.77)	DPYAFEEGDEEFnFSD.....KDKKSGSEREAGKkaKREDGSSSSDDAqgsgGSKPLPTTSLIhetD.LVVSIN
 1353- 1416 (87.54/50.39)	DNEALLNGAKTF.FRDltavyESCRLGQHRPIAK..SHADGIVTVSDA....GSKALTDQTLI...DwLPKTIN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.93|      26|     555|     672|     697|      15
---------------------------------------------------------------------------
  672-  697 (46.18/26.25)	KVSEELVK..MYEH..KKNQYLSSAVCDED
 1224- 1253 (36.75/19.56)	KVDETLVKssSLHHwaKRNAFDMSMLFSQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.97|      31|      32|    1063|    1094|      16
---------------------------------------------------------------------------
 1063- 1094 (56.06/35.58)	KDCNFDSC.CICVCNMNIT.GADVGVYISDpNMD
 1096- 1128 (46.91/24.78)	QYSSMDPCsCGFSAVMNRRyGNGAGLFLED.ELD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.15|      27|      31|    1524|    1553|      17
---------------------------------------------------------------------------
 1524- 1553 (39.30/30.40)	AQGLQSSQQSGgqsAGTLGDATSATSQPQV
 1558- 1584 (46.85/27.82)	AESTMEREKVG...VPTDGDSHAVTYPPAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.44|      18|     828|    1016|    1036|      22
---------------------------------------------------------------------------
 1016- 1036 (25.68/19.14)	SDLNSPaSTPSTCrpLSSVEP
 1846- 1863 (33.76/14.55)	SAADSP.SILSTC..LVAMEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     110.54|      33|    1170|     771|     803|      23
---------------------------------------------------------------------------
  771-  803 (58.84/35.99)	DLDNLF.NS.DEDDLTQPGSRRAAGGAEEKFGGKE
 1942- 1976 (51.70/30.56)	DLINIIpNSpTTSPVHSPGSHYHHGGDGSKGQGTD
---------------------------------------------------------------------------




































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 MDP32290 with Med13 domain of Kingdom Metazoa
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