<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 MDP28990

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGETEESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYVSPSDLLDDKTASPIILHENNVSRSLGMNASVTIEGTSAVYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYAPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICSGSNKTKKKKSSRLPPEKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPAIGTPLRDSSSSGHSQSTLFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFHDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNNQADTVDFSIISVAGKALAPADLMEHHSGSQGPLLTTGDLGKEKTQKRVKEGNGTSNSTLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSAGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSASTSGKMKSSKSEGSSSSKLSSSMYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPLDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKVSTSGSSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQTLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1581
PositionMiddle
OrganismPan troglodytes (Chimpanzee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Catarrhini> Hominidae> Pan.
Aromaticity0.04
Grand average of hydropathy-0.677
Instability index53.27
Isoelectric point8.88
Molecular weight168490.17
Publications
PubMed=16136131

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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	IBA:GO_Central
nucleolus	GO:0005730	IEA:Ensembl
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
DNA binding	GO:0003677	IEA:Ensembl
estrogen receptor binding	GO:0030331	IEA:Ensembl
LBD domain binding	GO:0050693	IEA:Ensembl
nuclear receptor coactivator activity	GO:0030374	IEA:Ensembl
peroxisome proliferator activated receptor binding	GO:0042975	IEA:Ensembl
promoter-specific chromatin binding	GO:1990841	IEA:Ensembl
protein-containing complex binding	GO:0044877	IEA:Ensembl
retinoic acid receptor binding	GO:0042974	IBA:GO_Central
thyroid hormone receptor binding	GO:0046966	IBA:GO_Central
transcription coregulator activity	GO:0003712	IBA:GO_Central
transcription corepressor activity	GO:0003714	IEA:Ensembl
vitamin D receptor binding	GO:0042809	IBA:GO_Central

GO - Biological Process
androgen biosynthetic process	GO:0006702	IEA:Ensembl
angiogenesis	GO:0001525	IEA:Ensembl
animal organ regeneration	GO:0031100	IEA:Ensembl
brain development	GO:0007420	IEA:Ensembl
cell morphogenesis	GO:0000902	IEA:Ensembl
cellular response to epidermal growth factor stimulus	GO:0071364	IEA:Ensembl
cellular response to hepatocyte growth factor stimulus	GO:0035729	IEA:Ensembl
cellular response to thyroid hormone stimulus	GO:0097067	IBA:GO_Central
embryonic heart tube development	GO:0035050	IEA:Ensembl
embryonic hemopoiesis	GO:0035162	IEA:Ensembl
embryonic hindlimb morphogenesis	GO:0035116	IEA:Ensembl
embryonic placenta development	GO:0001892	IEA:Ensembl
enucleate erythrocyte development	GO:0048822	IEA:Ensembl
epithelial cell proliferation involved in mammary gland duct elongation	GO:0060750	IEA:Ensembl
fat cell differentiation	GO:0045444	IEA:Ensembl
intracellular steroid hormone receptor signaling pathway	GO:0030518	IEA:Ensembl
keratinocyte differentiation	GO:0030216	IEA:Ensembl
lactation	GO:0007595	IEA:Ensembl
lens development in camera-type eye	GO:0002088	IEA:Ensembl
liver development	GO:0001889	IEA:Ensembl
mammary gland branching involved in pregnancy	GO:0060745	IEA:Ensembl
mammary gland branching involved in thelarche	GO:0060744	IEA:Ensembl
megakaryocyte development	GO:0035855	IEA:Ensembl
monocyte differentiation	GO:0030224	IEA:Ensembl
mRNA transcription by RNA polymerase II	GO:0042789	IEA:Ensembl
negative regulation of apoptotic process	GO:0043066	IEA:Ensembl
negative regulation of keratinocyte proliferation	GO:0010839	IEA:Ensembl
negative regulation of neuron differentiation	GO:0045665	IEA:Ensembl
negative regulation of transcription by RNA polymerase II	GO:0000122	IEA:Ensembl
peroxisome proliferator activated receptor signaling pathway	GO:0035357	IEA:Ensembl
positive regulation of erythrocyte differentiation	GO:0045648	IEA:Ensembl
positive regulation of G0 to G1 transition	GO:0070318	IEA:Ensembl
positive regulation of gene expression	GO:0010628	IEA:Ensembl
positive regulation of hepatocyte proliferation	GO:2000347	IEA:Ensembl
positive regulation of interferon-gamma-mediated signaling pathway	GO:0060335	IEA:Ensembl
positive regulation of intracellular estrogen receptor signaling pathway	GO:0033148	IEA:Ensembl
positive regulation of keratinocyte differentiation	GO:0045618	IEA:Ensembl
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	IEA:Ensembl
protein import into nucleus	GO:0006606	IEA:Ensembl
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central
regulation of vitamin D receptor signaling pathway	GO:0070562	IEA:Ensembl
retinal pigment epithelium development	GO:0003406	IEA:Ensembl
thyroid hormone generation	GO:0006590	IEA:Ensembl
thyroid hormone mediated signaling pathway	GO:0002154	IEA:Ensembl
ventricular trabecula myocardium morphogenesis	GO:0003222	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP28990
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     238.39|      49|      50|     965|    1013|       2
---------------------------------------------------------------------------
  871-  912 (38.12/ 7.53)	NSQSQ....SGFGEeyfDESSQSGDNDDFK.GFASQALNTLG.....V....PMLG
  965- 1013 (80.51/25.27)	KEKTQKRVKEGNGT...SNSTLSGPGLDSKPGKRSRTPSNDGKSKDKP....PKRK
 1018- 1061 (40.05/ 8.34)	.........EGKSP...SHSSSNRPFTPPTSTGGSKSPGSAGRSQTPPgvatPPIP
 1188- 1224 (43.95/ 9.97)	KPNISPSHSRPPGG...SDK.LASP.MKPVPG....TPPS...SKAKS....P...
 1450- 1490 (35.75/ 6.54)	HSKSPAYTPQ.NLD...SESE.SGSSIAEKSYQNS..PSSDDGIRPLP........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     310.16|      50|     111|    1128|    1177|       4
---------------------------------------------------------------------------
 1128- 1177 (93.38/31.37)	SSSMYSS.........................................QGSSGSSQSKN...........SSQSGGKPG.SSPIT..KHGL.SSGSSSTKMK.......PQGK
 1179- 1264 (47.59/12.04)	SSLMNPSlskpnispshsrppggsdklaspmkpvpgtppsskakspisSGSGGSHMSGT...........SSSSGMK.S.SS.......GLgSSGSLSQKTP.......PSSN
 1269- 1322 (64.66/19.24)	SSSSFS............................................SSGSSMSSS...........QNQHGSSKG.KSPSR..NKKP.SLTAVIDKLKhgvvtsgPGGE
 1326- 1360 (52.28/14.01)	DGQMGVS.........................................TNSSS.......................HPM.SS.....KHNM.SGGEFQGKRE.......KSDK
 1366- 1426 (52.25/14.00)	STSGSSV.........................................DSSKKTSESKNvgstgvakiiiSKHDGGSPSiKAKVTlqKPGE.SSGEG...LR.......PQMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.38|      15|     104|     838|     854|       5
---------------------------------------------------------------------------
  795-  811 (21.63/ 8.65)	STsdD..CPAIGTPLRDSS
  838-  854 (23.75/16.07)	PA..DliADAAGSPSSDSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     173.31|      46|     340|     101|     150|       6
---------------------------------------------------------------------------
  101-  147 (77.59/40.47)	CYITSDMFY..VEVQlDPAGQ..LC...DVKVAHH.GENPVSC...PELVQQLREK..NF
  443-  490 (59.84/25.88)	CPLSESRFS..VSFQ.HPVNDslVCvvmDVQDSTH.....VSC....KLYKGLSDAliCT
  709-  754 (35.88/22.07)	...QRELFSmdVDSQ.NPIFD..VNmtaDTLDTPHiTPAPSQCstpPTTYPQ........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.31|      13|      26|     327|     339|       7
---------------------------------------------------------------------------
  327-  339 (25.19/15.08)	IPLFETQPTYAPL
  355-  367 (25.12/15.01)	IPLNHNMRFYAAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     201.45|      47|      48|     154|     200|       8
---------------------------------------------------------------------------
  154-  200 (78.55/47.30)	LKGLVNLYNL..........P..GDNKLKTKMYLALQSLEQ.DLSKMAIMYWKATNAGPL
  204-  251 (67.38/39.42)	LHGSVG.YLT..........PrsGGHLMNLKYYVSPSDLLD.DKTASPIILHENNVSRSL
  259-  312 (55.52/31.04)	IEGTSAVYKLpiaplimgshP..VDNKW.TPSFSSITSANSvDLP..ACFFLKFPQPIP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     218.22|      53|      65|     547|     603|       9
---------------------------------------------------------------------------
  530-  586 (82.30/39.34)	ETV...EDMVKKNLPPA.......sspGYGMTTGNNPMsgtTTPTNTFPGGPITTLFNMSMSIKDRH
  587-  641 (63.91/27.93)	ESVgHGEDFSKVSQNPIltsllqitgnG.GSTIGSSP....TPPHHTPP..PVSS...MAGNTKN..
  642-  691 (72.01/28.48)	....HPMLMNLLKDNPA.........qDFSTLYGSSPL....ERQNSSSGSPRMEICSGSNKTKKKK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.52|      12|      15|    1495|    1506|      11
---------------------------------------------------------------------------
 1495- 1506 (19.60/10.11)	EKHKKHKKEKKK
 1513- 1524 (19.91/10.38)	DRDRDKDRDKKK
---------------------------------------------------------------------------




































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 MDP28990 with Med1 domain of Kingdom Metazoa
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