<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 MDP28918

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNIFCLADLTGIKWRRFVWQGPTSSPILFPFTEEDPILYSFSRCLAADVLSVWRRHHTQGRRELWLFWWGDDPSFAELIHNELSSEEDGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKIINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLSEEHLSLAQQSSNPLQVILSPYGLNGTLTGQAFKMSDHPTQKLIEEWRQFYPISPNPKEVQEDKMEDSDWEDDSLAAVEVLVAGVRMVYPSCLVLLPLLDLPTVVSQGSSNTPGSQCVAPQGQAAHKDPAMSSVTLTPPTSPEEAHTDYRPAQRWLKLSSASDCYNSNNSLHGGKIPRGLASQMVESVWQEYNTNRTGNKRKFTTLTNGAVEEESDKTAVWNFVEPAHRPPCNCSRHKNLKQRCSSTSGHPSSSGQPAQPPTKHKLSEKMEKGEKQQRRPQTPFHHRNSVSEELSLEPQTPRLCSRPQEESSYPSLHHVDTVPKAPMLHTHSLLTDLGSPPPPPLSPHPCDHVESDMTPGGMKTCSTPIHQPLYPPSVEPCLVPQKGSSGESPLESMPMPLPFPPAYNESMEPTVFVGSAVNPSEDSSHNPWRYFNLPRRKDSNFVTPQLPVDKIREDCWGGTESLVSVTETMCDSTQPLKVSQELVRTYAQRRNSHLVSISGDDEHGEEPDPYAFVEGDEEFSFIEKRDKAAAEKEGGKKHKVGEGGQGSSKPAGPSGSKPLSSTSLIHENDLAVSYSDLDKIFNSDEDELPGSKRAGIVTEGKFGSKETKPASIDQLSGSVDLHVMFPTPPSAENQGYSPMNSGSKDGLETGTGLTLLDGSQLNSHFKMEVEEGFCSPKPSEIKDFSFVYKPETCQSFIGCSMYAPLKTLPSRCLLPVKLPGDCVYTPSWTMGKMDLMPQVSNVNLLIKDGNLPSVEPDYSQTYTPQTHTPFLAGSAPPSNSGTGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGDAQYTCTCGFSAVTNRRFGQSAGLFLEDELDVVGRGSDAGRDTERCFDELRLSTTHKGGGLKEKYPDELILLLQDQCTNPLAQIAGVDSSKPRSTLSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTCLHQWPKSKSADISKLFSQEVLRVLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPVPTFLVGYEHDFVVLSPFALPYWEKLLLDPYGSQRDVGYVVICPDVEALLRGARSFFKDLSAMYEACQLGQHRPISKSHPEGIVTVGSTEGSNVAEQPLSDWFLNLAAREGNNEAFNRLKLFAQVFRCDLAPYLSEQSLDSSLLSQRNSTPASSSSSSSSPQTSNTSSGLQSTNTTSTGSAQPSQVNSTTPSSASLGSQTIGAMASSKPSMYSPFGSAGTQGNATQNGPQINSQGGAGHTENGSSQPQVSAETPESTMERDKVGKPTDGDSHAVSYPPAIVVYIVDPFSYEDADREVHSSTFTLGLLRCYMEMLPFLPAHIRNVVSVQIVPCQYLLQPVHSGERHLYSQHLKSLAFSVYTQCRRPLPTSTNFKTLTGFGPGLAIDTALKNPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRYLLASCTDQHGELLETCIISIDVPNRARRKKGSARRVGLQKLWEWCVGLVQLTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKEMCKMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTSEPIDINFNPINPDLINILPNSPTTSPVHSPSGHYHQGGDGGKGPSADRMESHEEALNILQQPMALGYFISTAKAGPLPDWFWSACPEAQNQCPLFLKASLHLHVSSVQSDEFLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLTQMYNFIINMI
Length2094
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.07
Grand average of hydropathy-0.445
Instability index54.51
Isoelectric point5.79
Molecular weight230602.92
Publications
PubMed=17554307

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

>MDP28918
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     116.18|      32|      36|     942|     974|       1
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  469-  502 (29.84/10.96)	PQ...TPFhHRNSVSEELS....LEP.QTPR.LcSRpqeeSSY
  957-  990 (50.59/26.83)	PQT.HTPF.LAGSAPPSNSgtGILPSpATPR.F.S.....VPT
  991- 1023 (35.74/15.08)	PRTpRTP..RTPRGPSS..vqGSLKY.DNSDlY.SP....AST
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     148.15|      34|      36|     503|     537|       2
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  503-  537 (62.77/33.97)	PSlHHV..DTVPKAPMLHTHSLLTDLGSPPPPPLSPH
  538-  568 (53.53/24.56)	PC.DHVesDMTPGG..MKTCS..TPIHQPLYPP.SVE
  572-  594 (31.84/10.84)	..........VPQKGS.SGESPLESM..PMPLPFPP.
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     412.29|     125|     709|     318|     449|       3
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   59-  146 (97.40/60.41)	....................................................RCLAAD.VLSVWR..RHHTqGRRelwlfwwGDD.PSFAELIHNELSSEED..GEW...ESGLSYECRTLLFKaihNLLERCLMNRGFVRIGKWFVKP
  162-  253 (110.24/69.48)	CAFTFFVHGDSnvcTSVEIAQ..HQPLQR.LSEEHLSLAQQSSNPLQVILSPYGLNGTLTGQAFKmsDHPT.QKL.......IEEwRQFYPISPNPKEVQEDK..............................................
  318-  449 (204.66/164.09)	PAMSSVTLTPP...TSPEEAHtdYRPAQRwLKLSSASDCYNSNNSLHGGKIPRGLASQMVESVWQ..EYNT.NRT.......GNK.RKFTTLTNGAVEEESDKtAVWnfvEPAHRPPCNCSRHK...NLKQRCSSTSGHPSSSGQPAQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.14|      23|      27|    1063|    1089|       4
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 1063- 1089 (40.38/35.28)	DCNFDsccvCVCNM....NIR.GADVGVYLKD
 1092- 1119 (34.76/19.21)	DAQYT....CTCGFsavtNRRfGQSAGLFLED
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     199.38|      50|     200|    1670|    1719|       5
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 1281- 1321 (39.43/19.85)	..TWQQFHKMAGRG.SYGTD.......ESPE..P.LPVPTFlvgyehdfvVLSP.......
 1670- 1719 (87.53/55.67)	LPTSTNFKTLTGFGPGLAIDTA.LKNPERPECLR.LYTPPF.........ILAPVKDKQTE
 1870- 1921 (72.42/44.42)	MPDSVSTGSVFGRSTTLNMQTSqLSTPQDTSCTHiLVFPTS.........AMVQVNTNTSE
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.57|      15|      17|    1492|    1506|       6
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 1492- 1506 (27.21/16.16)	STTPSSAS.LGSQ.TIG
 1510- 1526 (20.37/ 9.81)	SSKPSMYSpFGSAgTQG
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.13|      13|      17|    1131|    1143|       8
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 1131- 1143 (24.64/14.15)	GRDTERCFDELRL
 1150- 1162 (23.49/13.13)	GGLKEKYPDELIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     268.56|     114|     382|    1361|    1485|       9
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  820-  943 (91.91/54.06)	TPPSAENQGYSPMNSGSKDGLE....TGTGLTlldgsqlnshFKmeveegfcspkpseikDFSFVYkpETCQsfIGcsMYAPL.KTLPSRCLLPVKLPGDCV.YT..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................P..SWTMgkmdlmpqvsnvNLLIKDGN.....................................
 1361- 1448 (131.04/94.31)	..........................................FK................DLSAMY..EACQ..LG..QHRPIsKSHPEGIVTVGSTEGSNVaEQ..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................PLSDWFL............NLAAREGNNEA..FNRLKLFAQVFRCDLAPYL.SEQS..LDSSLL
 1454- 1485 ( 4.28/ 8.47)	TPASSSSSSSSPQTSNTSSGLQstntTSTGSA.......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1996- 2046 (41.33/17.19)	.........................................................................................................qpsqvnsttpssaslgsqtigamasskpsmyspfgsagtqgnatqngpqinsqggaghtengssqpqvsaetpestmerdkvgkptdgdshavsyppaivvyivdpfsyedadrevhsstftlgllrcymemlpflpahirnvvsvqivpcqyllqpvhsgerhlysqhlkslafsvytqcrrplptstnfktltgfgpglaidtalknperpeclrlytppfilapvkdkqtelgetfgeasqkynvlfvgyclshdqryllasctdqhgelletciisidvpnrarrkkgsarrvglqklwewcvglvqltslpwrvvigrlgrmghgelrdwsillsrrnlqslskrlkemckmcgisaadtpsilsaclvamepqgsfvimpdsvstgsvfgrsttlnmqtsqlstpqdtscthilvfptsamvqvntntsepidinfnpinpdlinilpnspttspvhspsghyhqggdggkgpsadrmesheealnilqqpmalgyfistakagPLPDWFW............S.ACPEAQNQCplFLKASLHLHVSSVQSDEFLhSKHShpLDSNHT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.61|      18|      27|    1777|    1794|      10
---------------------------------------------------------------------------
 1777- 1794 (34.80/20.42)	GSARRVGLQKLWEWCVGL
 1807- 1824 (33.81/19.62)	GRLGRMGHGELRDWSILL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.53|      21|     380|    1240|    1260|      11
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 1240- 1260 (32.62/16.95)	ADISKLFSQEVLRVLLSLQPV
 1603- 1620 (23.87/10.49)	...SSTFTLGLLRCYMEMLPF
 1623- 1643 (34.04/17.99)	AHIRNVVSVQIVPCQYLLQPV
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.78|      12|      27|    1542|    1554|      13
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 1542- 1554 (17.49/14.69)	GHTENGSSQpQVS
 1568- 1579 (22.29/12.50)	GKPTDGDSH.AVS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.55|      16|      27|     605|     621|      14
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  605-  621 (25.67/17.24)	FVGSAVnPSEDSSHNPW
  634-  649 (30.88/16.37)	FVTPQL.PVDKIREDCW
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.10|      24|     425|     744|     769|      16
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  744-  767 (42.41/25.96)	AG..PSG......SKPLSSTSLIHENDLAVSY
  787-  818 (31.69/11.87)	AGivTEGkfgskeTKPASIDQLSGSVDLHVMF
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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 MDP28918 with Med13 domain of Kingdom Metazoa
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