<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 MDP09487

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMAALSSNGASLENCHTNVFALTELHGLQWKRFGDQRGGDAIKETDLLPDAHLRDSVLVSYGKCLNANLLAAWNRVPSNNPANLPVCKKLWIFWYGEEPDLSQLLSPDLSEEENGGWDVGLAYECRLLLFRALHTLIERCLLTHKFVRLGKWFVQPHDVGSSGRNNDELSLRYSYAFDFFLHGESTVCAMVNIKIHPQLVRLTKGHLATAANPPTSGAKFPVILCPYGLAGTLTGKFVSPEKSRELLQQWKLFFPLDLPEVQGGLHHSPGSDPINPNTPGPSSNDPSLGASPAPATPNPGQDRATNLPCFVEVIVSDMRMLYPASFVLLVDDDKTQTTSADDGKKGAAPPLVPEAEEKSGAIKSNTGLTGLDKLRKEFKKKRRNTMIASASKRTGLNGVPDMEADQSRSEMGCAVHSVLRDSSVLKSSKEHPPRIEKSQSMEDITVLKLSGANPSKQFSVQSVVDSSERRSCDCDISKKESSSSDGLSTSQRSFSPTSSPINYSIGGLNQMAMKAKAAAHQDAQSKRDYQSLFELSRPQSSGSFHRRRNAFGDNRSHNQPELHKQNSTRQGIGNSTGGPSDVGLRPPTTPARGRHFASTSVLSPGFYGPNSQPPVTPHSQLGSVLQMSPVSSPGSGVPSPVTPVTPFNPRTPKTPRSVQPRSVNVEREFVVPSPALPGPSQLLTQPPSVKSIDNIPIVLEKGDEEVRVEIGLKRPTLGGMVNDESMDVDENSDVFAIAPSPPTKTDDSDWICLEKRKKKKLEVTRSEQHTVGLREPDKTPKETAQPVQSTASHTIAPKEQDTSRRKLENIMAAGPHIAKAKHAMEAVPGTISAAELSKMFPTPPSIEANQHEEVLIFPSSTAIEPVTTLQVLPANFALPSSSKYAPVHLQEDPESSIHFARIASAALYRPPWVMSLKFQHSVFRRLASPYERSSIRSPNKNSINSLGHRSPRGHHGSPGFASSSSSNLQGGLSEFGAPMRPPVMMRSNSGLNLREMTPGNAMVPQSPLPVAQQMVAGAAGGGRDGLMECQALLVNVMMGDSLMNFFADKNFDECIMCVCGGNVRSVDAGGFFAANPYMMQQDMTYRCQCGFSAVVNRRYGFRAGLFFEDEVDITGIQNFPPEALHPPLHKLLELNNLTVDQEQLVNQIPESLIGLMKDAISNPFLSSSSFHQNELAYKTNRAAIRAVEEASCIHPRWDLVFEDMNRICSGVVELCRLDPQPQNRCLDILPLQGHFQHRPTLHIWHQEGSSIRNTAEAVSVRRMIQPMLQEAVQLRRQTRLWDKVFTVEGPLTWKDFLRFADKEVMEEQKVPLGIPSLVVGYEKEWLRLAPTAYAFWEKMAFEPYGAKRDATYIVLAPEHDFVVQSARTFFRDLSKAYEMCGLGRHIPFPKLIDGLLVVKQSRADNSQSDEVDEWFHTIGDSPLAARLRLYGFTCRSYLGPLITMSEDNGNIAQVFAPPPIVPVKILTESGAAASSPSEVNPASYAGMPASVLTQQLPNYPLDTGYPEKDDTHPLIVVYVMDPFSVSVGPGWEAVHRLASIGLLRSYQEMLKVLPESLRESVVLQIIPLPTILDHKQETEPRGGRSDVLRSLALSVYAQNQRRLPAREPPKMLTGFGPATAFKQWLEERKARDSFAYTPPYVLSLKKDSRKGNDFLDMENRDKSTTLLFAYCLSEDQKFLFVSCTDDVGEILETQLISVAVPNRMRKKGVGVLRYGLKKMWDFILSVVTKLVGPCRLIIGRVGRLGHGELKVWSSILSKKALARAGQTLKQLCLQCNLNGALDMPSILSACLVSLQLESSFTVAVDTFTHDERLPSAAALNPLSSPEDISCTHIYVFPTSARAVAHGLPELHTEGIGGVEDVDLLFGQDDVGAVDAFGAEFDFLGSDFVFDTAQIPSPVEAPKEDLNRPLSPKMNENHGGNKGVEGITDEPGQLLQQPLALGYFVSTAKLGAMPRWFFSSTDQDELACPVVLKAALHIHNANVLQGDDPYHTSNNKATHPLDSSLTADVLKHVLECYNALSWLIMNPGTHDRRSCLPHHIQVLMQLYFTAAALL
Length2052
PositionMiddle
OrganismRamazzottius varieornatus (Water bear) (Tardigrade)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Tardigrada> Eutardigrada> Parachela> Hypsibioidea> Ramazzottiidae> Ramazzottius.
Aromaticity0.07
Grand average of hydropathy-0.313
Instability index57.67
Isoelectric point6.48
Molecular weight225424.95
Publications
PubMed=27649274

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

>MDP09487
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.74|      17|      23|     857|     879|       1
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  632-  648 (35.45/16.94)	PGSGVPSPVT..PVTPFN...P
  857-  878 (22.29/26.47)	PSSTAIEPVTtlQVLPANfalP
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.98|      15|      21|     925|     943|       2
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  925-  941 (22.44/21.79)	LA..SPyeRSSIRSPNKNS
  945-  961 (25.53/ 9.24)	LGhrSP..RGHHGSPGFAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     210.88|      63|      68|     454|     520|       3
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  454-  518 (94.50/45.95)	SKQfSVQSVVDSSERRSCDcDISKKESSSSDGLSTSQRSF...SPTSSPINYSIGGLNQMAMKAKAAA
  524-  577 (73.81/30.52)	SKR.DYQSLFELSRPQSSG.SFHRRRNAFGDNRSHNQPELhkqNSTRQGIGNSTGG............
 1809- 1843 (42.56/14.30)	..............................DERLPSAAAL...NPLSSPEDISCTHIYVFPTSARAVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.58|      20|      22|     756|     776|       4
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  756-  776 (29.76/21.24)	KKKKlE....VTRSEQHTVGLREPD
  777-  800 (28.83/15.76)	KTPK.EtaqpVQSTASHTIAPKEQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.99|      20|      23|     350|     371|       5
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  350-  369 (34.00/24.47)	LVPEAEEK..SGAIKS...NTGLTG
  373-  397 (24.99/ 9.55)	LRKEFKKKrrNTMIASaskRTGLNG
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.78|      21|      68|     584|     608|       6
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  590-  613 (32.09/21.86)	ARGRHFASTSV.lSPGFYGP...nsQPP
  659-  686 (28.69/ 7.57)	PRSVNVEREFVvpSPALPGPsqlltQPP
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.74|      21|      68|    1489|    1512|       7
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 1489- 1512 (34.26/29.27)	SVLTQQLpnyPLDTGYPEKDDTHP
 1559- 1579 (37.47/21.88)	SVVLQII...PLPTILDHKQETEP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.38|      14|      15|     987|    1000|       8
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  987- 1000 (25.25/12.74)	NSGLNL.REMTPGNA
 1004- 1018 (19.13/ 7.76)	QSPLPVaQQMVAGAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     195.82|      60|     331|    1039|    1154|       9
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 1072- 1142 (93.45/192.72)	AANPYMMQQDMTYrcqcgfsAVVNRRYGF...RAGLFFEdevDITGIQNFPPEALHPPLHKLLElNNLTVDQEQ
 1339- 1401 (102.38/59.17)	AFEPYGAKRDATY.......IVLAPEHDFvvqSARTFFR...DLSKAYEMCGLGRHIPFPKLID.GLLVVKQSR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.59|      25|     326|    1272|    1296|      10
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 1272- 1296 (47.43/26.98)	QLRRQTRLWDKVFTVEGPLT.WKDFL
 1599- 1624 (44.16/24.61)	QRRLPAREPPKMLTGFGPATaFKQWL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.25|      15|      16|     268|     283|      13
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  268-  283 (26.56/17.86)	P..GSDPiNPNTPGPSSN
  285-  301 (24.68/11.36)	PslGASP.APATPNPGQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     187.52|      66|    1627|      61|     140|      14
---------------------------------------------------------------------------
   61-  132 (115.05/104.02)	GKCLNANLL..AAWNRVPSNNPANLPV.CKKLWIF...............................................................................................................................................................................wygeepDLSQLLSPDLSEEENGGWDV.GLAYECRLLLFRAL
 1687- 1721 (30.41/ 9.41)	GEILETQLIsvAVPNRMRKKGVGVLRYgLKKMWDF........................................................................................................................................................................................................................
 1903- 1937 (42.07/15.13)	...................................ilsvvtklvgpcrliigrvgrlghgelkvwssilskkalaragqtlkqlclqcnlngaldmpsilsaclvslqlessftvavdtfthderlpsaaalnplsspediscthiyvfptsaravahglpelhtegiggvedvdllfgqddvgavdafgaefdflgsdfvfdtaqipspveapkeDLNRPLSPKMNENHGGNKGVeGITDEPGQLLQQPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.44|      14|      21|     418|     431|      15
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  418-  431 (24.12/15.99)	LRDSSVLKSSKEHP
  440-  453 (24.32/16.20)	MEDITVLKLSGANP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.15|      10|     725|     907|     916|      17
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  907-  916 (23.16/14.25)	YRPPWVMSLK
 1635- 1644 (20.99/12.07)	YTPPYVLSLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.07|      18|      24|    1027|    1045|      18
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 1027- 1045 (29.88/21.91)	ECQALLV..NVMMGDSlMNFF
 1052- 1071 (31.19/18.18)	ECIMCVCggNVRSVDA.GGFF
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.28|      16|     808|    1158|    1175|      19
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 1158- 1175 (23.37/19.93)	AISNPFLSSSSfhQNELA
 1950- 1965 (31.91/18.98)	AMPRWFFSSTD..QDELA
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.81|      18|     680|     721|     740|      21
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  721-  740 (28.38/19.83)	NDESMDVDENsdVFAIAPSP
 1404- 1421 (35.44/18.82)	NSQSDEVDEW..FHTIGDSP
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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 MDP09487 with Med13 domain of Kingdom Metazoa
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