<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 MDP07127

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMGTNGASLEDCHTNVFALTELNGLKWKCVTTPLSHRGWISIDQDPVLSAYAKCLQAGILCAWRRQPSQMHSTLAQIPLPDYRIDVVKELWVFWYSQDEPELLAQYTSHLSCFVSFVSGAENGRGNLANAGIPYEIRTLYFKALHNLIERFVVIFTISLIKSGYVRIGRYFVRPYDVPSSDRLQCLPRKKGDESMLSYILGISFNFFVHGENIVCTCVSVQKQPAIFRLSPAHLELKKPQPVILGPWSLRAHLIPKRNADFRTNNASSQLSERTASAEHGGLTPNANAKSEYKTGVAQYDNQQQTRPQGFFEYENSTSFPETNEGIPKVEKLWSDWELYFGLCDEMKSSEPLQNKSQTNNFINDNSTTGKRLPKMVLVDVDGVRMWFPSSLIVVQSEDDLLLKAEEGESSNDEQDSISTNIKREVPDSFFSETATNSENNSLSSASLRPSASFVRKKRRNHHDIGVQHLPKSRRNLMYNSMVNGSRAAQRYLEEACILPPYIRRRDSVETLPSLIGSKSEDDAKWNLTDGLRGVECSVEQHSYCPCHLENSLRTPIPRNTVSSCAKTFSSNDSNTKRSSKWFKVPFHLRSSKSSTSFSSPSATFSNDLKHDRSSPDWTYDHNSRNSSLNATKGRPDPFESSGDCGSVSPIYRRLSKPLPSTNKKSLSLFEDSKIKKIGVPFFGKDMKAAGSTASNSQIILPNSAMYSHCMSFLQKDSELASENTVAVNDCSMNALSFFQLIKKNRTVSGKRKICNNRSLGALDMLFMTTGRKAKLAFTYSEDWKYKEFFEPEDFNFEIDAPEMKEGYSHEELEKMLGEDAVRDLNVAKINMSRTLSSTYETDFDSHLTATAATLGVVSAFSSNCSPSSTAPVIDAEGMAVTDSVHLSPPASNERVEPVSMSSTLSGPVTNNLLARVGGPPSVGDYKIYPTPPSVDAIQSQQFSPQSMVIQSTSCNPVTTGVYTNTVMQCAGLNQLPISGTVIPRSLRSCASIADQFRDNLVDVKDEIIEEIPHEYQGKFLNQMAEKLPLFGKTIVMRVVLCGKYGSNFKDELSFSKGTYFDKRRQAFLSFTARLKRKHISATPFYHPFREEHKARGSRLALCDRIRGQFNNSFSAQAIGVGAQSNAHGPICMTSTANPMSGVIHPLVNSSINSNLIMHPSRSQPHHAQPSIMNQYGTGFVNSKMMSSSNQVGGVAHSNANMPVPPQGLGLSSNQTSMLGSGGHSGIDIVIPRGAVHGNMVPQYSQSRNYSTDSQLSTSLEPPPSFSEAISSQYCPSGPSGVGNNIGMTSVRSPAPPSVYGSSPQMMRQNSFLNTNANPVVLSVSRPLQNLVHSSMNSSLGGTLFNQHNANIPESSVLRSAATVPQHPEGNSLALAILLQDTVLDLHYDSAFDACPLCSCNGNIRTKELGMYITPPEILRQSSSLQSAVVNRPTSGFYINNNATQNCNCGFSAIRHRYLSMKAGLFPEDAIEATDITDTQNQPVIPHTLWFDPISKKDIDFIALLCEHTLVHDLSGFLDHVSLFATQCQRAVKCEQADGDRFKKMEYIVSDVDQRELPLVFQAACEVACMEMNCRRPRPDFQSVLWHDWGVQVSYFALIRKFSIANEMYEPREAECLAVLNEIGPVLEETLRKARSAQMGGSNNIVEGPLTWRHFDRKSLKTGTGIEDDSVPEPIPNILAASEKDAISISPQALRLWEKMLLEPYDQPKDVLYIAVVPDNNMCVEKSKKYFDDLSRLYEQCRFGRHLPFVKDTLRDGFLRVPTRVPVTTPNDFLKQIERHITNGASLIAKLNTYMQYVENELSEVVNKNPYIFSRDSYRALLIEHQAIFCFTVQNASSSSATANCVSIAGSNVGSGNNIVSNSTITGNINDQMPPPTLMVNVPSGNNVPNISTGSSNGVSHGDNSLTEVYLCFVLPYVIRFSGLLSAMPNISGPSPVSSLNCTVDSLTPANAAVDASSQSSAAAPPQIPEQIAEGFAKDEPGSLPHVIVLYLVNPFLVGADESPLVARVVTVALMRAFTALLDHIDLHHRPQLQMEIIGLQTILDYTGTTVDILKDECGQLNGFDQGRMEKTLNERLNSIDAMKTVAFSVYTQSRILLPDVVGSILPTSMTRFGPASAMNDLLEKLRKNENPVFYKVPSKPFILAPPPPVVLRPNNEVMQISTEETVLFVSYCLIGLDFLAAAVTDHQGHLLDNCLINLRVKPDHKRGNLRYKQSTQIRDSLYRLWSYILGTLATGTKNWRLVIGKVGRIGHGEFKFWTQLLSKSYLKQVPSRMKQACRPCHQMPGTAEVPGVLSACLVSLEPEPNLRVFSSSFQHDERFAKNARYRSLNTPDDASCTHILVFPTSPELNLDHQGGAGGNDYDDFSIVMEAEIPEEFSAIIKSEDLNPNAAGQSSGMRLAGNTGIPTEYTDVFENQPLAAGYYISTAPASELPEWFWSACPSAKRRNPVHLKSSLHLNTNNVQQGDDIALSAKGSETCQHQLDSQSTVDVLRYVLEMYNALSWLNVDLVTGERRSCLPVHIQALMRLCSTVDRLIN
Length2534
PositionMiddle
OrganismSyphacia muris
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Spirurina> Oxyuridomorpha> Oxyuroidea> Oxyuridae> Syphacia.
Aromaticity0.08
Grand average of hydropathy-0.316
Instability index52.60
Isoelectric point6.50
Molecular weight280204.93
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

>MDP07127
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     422.70|     109|     118|    1183|    1300|       1
---------------------------------------------------------------------------
  808-  888 (86.87/42.29)	.................................HEELEKMLG............EDAV..RDLNVAKINMSRTLSstyetdFDSHLTATAAT.LGVVSAFSSNCSPSSTAPVID....AEGMAVTDSVhlSPP..
 1183- 1297 (178.84/120.55)	MMSSSNqvggVAHSNANmPV......PPQGLgLSSNQTSMLGSGGHSGIDIVIPRGAV..HGNMVPQYSQSRNYS......TDSQLSTSLEPPPSFSEAISSQYCPSGPSGVGN....NIGMTSVRSP..APPSV
 1304- 1416 (156.99/84.04)	MMRQNS....FLNTNAN.PVvlsvsrPLQNL.VHSSMNSSLGGTLFNQHNANIPESSVlrSAATVPQHPEGNSLA......LAILLQDTVL.DLHYDSAFDA..CPLC.SCNGNirtkELGM....YI..TPPEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      92.36|      29|      33|     561|     593|       2
---------------------------------------------------------------------------
  544-  580 (45.81/34.62)	PCHLENSLRTpiprntvSSCAKTFSsNDSNTKRSS.KW
  584-  616 (46.56/22.59)	PFHLRSSKSS....tsfSSPSATFS.NDLKHDRSSpDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     567.64|     161|    1730|      81|     253|       3
---------------------------------------------------------------------------
   81-  253 (256.81/199.54)	YRIDVVKELWVFWYSQDEpellAQYTSHLSCFVSfVSGAENGRGN..LANAGIPYEIR.TLYFKALHNLIE..RF..VVIFTISLIKSGYVRIGR......Y..FVRPYDVPSSDRLQCLPRKKGDESMLSYILGiSFNFFVHGENIVCTCVSVQKQPAIFrLSPAHLelkkPQPVILG.....PWSLrAHLI
 1728- 1811 (80.15/42.41)	.............................................................YFDDLSRLYEqcRFgrHLPFVKDTLRDGFLRVPT......R..V..PVTTP.NDFLKQIERHITNGASLIAKLN.TYMQYVENE...LSEV.VNKNPYIF................................
 1816- 1986 (230.68/147.70)	YRALLIEHQAIFCFTVQN....ASSSSATANCVS.IAGSNVGSGNniVSNSTITGNINdQMPPPTLMVNVP..SG..NNVPNISTGSSNGVSHGDnsltevYlcFVLPYVIRFSGLLSAMPNISG.PSPVS.....SLNCTVDSLTPANAAVDASSQSSA..AAPPQI....PEQIAEGfakdePGSL.PHVI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.20|      13|      29|     692|     704|       4
---------------------------------------------------------------------------
  692-  704 (21.26/11.50)	ASNSQIILPNSAM
  719-  731 (21.94/12.11)	ASENTVAVNDCSM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.44|      17|     580|    1574|    1593|      10
---------------------------------------------------------------------------
  447-  466 (27.68/14.82)	RPSASFvrkKRRNHHDIGVQ
 1574- 1590 (36.76/37.68)	RPRPDF...QSVLWHDWGVQ
---------------------------------------------------------------------------




































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 MDP07127 with Med13 domain of Kingdom Metazoa
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