<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 MDP00227

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMDSQLLEEWKHFYPINTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDTPPETPLSPPSSPVTCERPLLTQQEISAATELPERVWAECTLSSPVSASKTESSTEPGTWTFVEPTQKSSCTCSCSKYTTLGGWKSLASSQVQRERVDKGGRRVVPFHRRSTTQWDTCPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPIPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPSSHTNTAPPLTPSQGPKSISSACNNQVHSPSVPGPVLKRPILTSREYEGALLEDEQSLSWLYDYSTQEAWLNHPVKRFKVVNTIGPPTNRSNTLYPPIINSQTHQSQAPKLEIKQEPVAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRIEGASKNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELVMPVRPLRHLPDIYPNMGSPQEEPIDDWSYVFKPAAICKMVGSSKYAPLTNLPSQSLPSITLPSHCVYRPSWQCNSASTNQADKPVQPTRPGSVQQQQQQQQQQQQQQQQQQQQQQQQQPACPPSPAPPYRTATLTGRPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLVVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLTNSWAGSALFQDDDPIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLAAVACPGTKAVPDGLDAIPPNVLELLREQCLIVQSAASSLYRAARICATTKSYPTLTPTVNTLEFTDGNEVCVAALDQGKLDGAHERGARVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVAGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAVCFWEKLSLEPFAGPRDVAYVVVAPDSDCIVNRVKSFFRELSCTYEICRLGRHAPISKQLRDGILRVGKSTAQKPAVKQSTDDWFKLLGENHIGELLRLYAQVCNHRLAPYLTQVIQDRSLLDSNESQPPNKQQQQSTIPVSDTMPATPDVLTTKPESVEAENPRSETPSSSTTTSQTTTNTSGNTTPTSQTTSTTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILGLLRIYSSAINNMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADLFLKSKDERNKAPYQLYAPAFVLAPLRAKSEAPESFGMARPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILGVMSQGVQPWRLVVGRVGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEAMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRTAIAEQAEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENACPVFLKNALHLHSPAIQQNSDDLLQQQSAPTAHPLDSQYTTDVLRYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length1756
PositionMiddle
OrganismOoceraea biroi (Clonal raider ant) (Cerapachys biroi)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Dorylinae> Ooceraea.
Aromaticity0.06
Grand average of hydropathy-0.475
Instability index63.52
Isoelectric point5.64
Molecular weight191660.40
Publications
PubMed=24508170

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

>MDP00227
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     757.17|     244|     313|     209|     520|       2
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   18-  133 (88.53/17.96)	...GSNPE.......TGLPPlvEVLVGGVRMRYPSCYVL....VTDMDDTPPETPLSPPSSPVTCERPLLTQqeisaaTEL..PERVWaectLS..SPVSASktESSTEP.GTWTFV.EPtqkSSCTC..SCSKYTTL..................................................................................................................................................................................................................
  190-  403 (301.59/132.62)	TPPGGPPSysrgpptGG.........................................................................dcLP..IPSVGS..PGSPAPSPLLTPHSEP...ASVPP..AEPTMPTLSPQPpsshTNTAPPLT.PSQGPKSISSACN....NQVH......................................SPSVPGPVLKRPILTSREYEGALleDEQSLSwlydYSTQEAWLNHPVKRFKvVNTIGPP.TNRSNTLYPPIINSQT.......HQSQAPKLEI.KQEPVAVGECIGRRTDPYefdATGEENGTNVdglrRQRDD
  448-  754 (367.05/179.28)	TPPGSNKS.......GGLHE..ETRIEGASKNNRGVTVLrpeeLSKMFPTPPSLEHNPVASPCQLSDPLMDQ......TELvmPVRPL..rhLPdiYPNMGS..P.QEEPIDDWSYVFKP...AAICKmvGSSKYAPLTNLP....SQSLPSITlPSHCVYRPSWQCNsastNQADkpvqptrpgsvqqqqqqqqqqqqqqqqqqqqqqqqqpaCPPSPAPPYRTATLTGRPPPPPY..DQPSPA....TSTTSSYLNKNLNSIE.ADTPGPArAPESNSLVVNILLGDTalnifrdHNFDSCSLCVcNAGPKVVGNIKGADAGVY...LTNSWAGSAL....FQDDD
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.39|      10|      15|    1410|    1419|       3
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 1410- 1419 (20.45/11.62)	GVMSQG.VQPW
 1427- 1437 (15.93/ 7.35)	GRIGHGeLKGW
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.33|      16|      17|    1031|    1046|       4
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 1031- 1046 (30.10/19.95)	ICRLGRHA...PISKQLRD
 1048- 1066 (22.23/12.53)	ILRVGKSTaqkPAVKQSTD
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     453.48|     135|     622|     825|     965|       6
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  825-  965 (224.62/152.87)	LREQClivqSAASSLYRAARICATTKSYPTLTPTvNTLEFTDGNEVCVAALDQGKLDGAHERGARVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEApYTVAGPL.....TWRQFHRLAGR...GTDDRCEPQP
 1453- 1595 (228.86/139.40)	LKEIC....GQCSLLYPSAAPCVLSACLVSLEPD.STLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEG.MEAMGDFndifnVWPEPGAGGGQspsGSPHRPEGSP
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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 MDP00227 with Med13 domain of Kingdom Metazoa
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