<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 MDP27240

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGEAEEAEKLTKMSSLLERLHAKFNQNRPWSETFKLIRQVTEKRVVMSTSGHQYLVSCLETLQKALKVTSLPAMTDRLESIARQNALGSHLSANGTECYITSDMFYVEVQLDPTGHLSDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYKLPGDNKLKTKMYLALQSLEQDLSKMALMYWKATNASPLDKILHGSVGYLTPRSGGHLMNLKYYASPYDLLEDKTATPILLHENNVPRTLGMNASVTIEGTPSAMYKLPIAPLIMGSHPIDNKWTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFVQKLQSCTGIPLFDTQPHYVPLYELITQFELSKDPDPVPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLIDKVTFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGILQFEVCPLSDTCFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSMNMKERHESVGHGEDFSKVSQNPILTSLLQITGNVGSTIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEMGSGANKTKKKKSSRILPEKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPATYPQPIPHPQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPSTSDDCPPIDTPVRDSSSSAHSQSALFDPDVFQNNSNENPYTDPADLIADATGSPNSDSPTNHFFPDGVDFNPELLNPQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPVLTGDSGENKFKGNSQADTVDFSIIAVASKALGPADIMEHHSGSQSPLLSTGDLGKDKSQKRVKDGNGTGSSSLSGPALDSKPGKRSRTPSSDGKSKDKPPKRKKADTDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVAKPSSHSQYTSSGSGSSSGSKSHHGHSSSSSSSSTSASGKMKSSKSEGSSGSKMSSSMYSSQGCSGSSQSKSSSQSVGKPGSSPITKHGLSSSSGSNKVKPQGKPSSLMNPSLSKPNISPSHSRPSGSSDKLASPMKPVPGTPPSSKAKSPISSGSSGSHMSGTSSSSGIKSSGLSSSGSLSQKTPPSSNSCTASSSSFSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMEGQMGVSANSSHPMSSKHSMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRERDRDKDRDKKKSHSIKPESWSKSPISSDQSMSMSSNTILQDRPSRLSPPDFMIGEEDDDLMDVALIGN
Length1582
PositionMiddle
OrganismMonodelphis domestica (Gray short-tailed opossum)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Metatheria> Didelphimorphia> Didelphidae> Monodelphis.
Aromaticity0.05
Grand average of hydropathy-0.670
Instability index55.26
Isoelectric point8.84
Molecular weight168932.87
Publications
PubMed=17495919

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	ISS:UniProtKB
nucleolus	GO:0005730	ISS:UniProtKB
nucleoplasm	GO:0005654	IEA:Ensembl
nucleus	GO:0005634	ISS:UniProtKB

GO - Biological Function
chromatin binding	GO:0003682	ISS:UniProtKB
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	ISS:UniProtKB
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	ISS:UniProtKB
transcription coactivator activity	GO:0003713	ISS:UniProtKB
transcription coregulator activity	GO:0003712	ISS:UniProtKB
transcription corepressor activity	GO:0003714	ISS:UniProtKB
vitamin D receptor binding	GO:0042809	IBA:GO_Central

GO - Biological Process
androgen biosynthetic process	GO:0006702	ISS:UniProtKB
angiogenesis	GO:0001525	ISS:UniProtKB
animal organ regeneration	GO:0031100	IEA:Ensembl
brain development	GO:0007420	IEA:Ensembl
cell morphogenesis	GO:0000902	ISS:UniProtKB
cellular response to epidermal growth factor stimulus	GO:0071364	ISS:UniProtKB
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
erythrocyte development	GO:0048821	ISS:UniProtKB
fat cell differentiation	GO:0045444	IEA:Ensembl
intracellular steroid hormone receptor signaling pathway	GO:0030518	ISS:UniProtKB
keratinocyte differentiation	GO:0030216	ISS:UniProtKB
lactation	GO:0007595	IEA:Ensembl
lens development in camera-type eye	GO:0002088	ISS:UniProtKB
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	ISS:UniProtKB
monocyte differentiation	GO:0030224	IEA:Ensembl
mRNA transcription by RNA polymerase II	GO:0042789	ISS:UniProtKB
negative regulation of apoptotic process	GO:0043066	ISS:UniProtKB
negative regulation of keratinocyte proliferation	GO:0010839	ISS:UniProtKB
negative regulation of neuron differentiation	GO:0045665	ISS:UniProtKB
negative regulation of transcription by RNA polymerase II	GO:0000122	ISS:UniProtKB
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	ISS:UniProtKB
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	ISS:UniProtKB
positive regulation of transcription by RNA polymerase II	GO:0045944	ISS:UniProtKB
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	ISS:UniProtKB
protein import into nucleus	GO:0006606	IEA:Ensembl
regulation of RNA biosynthetic process	GO:2001141	ISS:UniProtKB
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	ISS:UniProtKB
ventricular trabecula myocardium morphogenesis	GO:0003222	IEA:Ensembl









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP27240
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     276.67|      50|      50|    1084|    1133|       2
---------------------------------------------------------------------------
 1084- 1133 (92.76/28.14)	YTSSGSGS.SSGSKSHHGHSSSSS...SSSTSAS.....GK.MKSSKSEGS....SGSKMSSSM
 1134- 1158 (37.22/ 6.59)	YSSQGCSG.SSQSKS.............................SSQSVGK....PGSS.....
 1191- 1237 (59.42/15.21)	PNISPSHSrPSGS.SDKLASPMKP...VPGTPPS.....SK.AKSPISSGS....SGSHMS...
 1238- 1281 (45.77/ 9.91)	....GTSS.SSGIKSS.GLSSSGS..lSQKTPPS.....SNsCTASSSSFS....SGSSMS...
 1316- 1375 (41.49/ 8.25)	..TSGPGG.EDPMEGQMGVSANSShpmSSKHSMSggefqGK.REKSDKEKSkvsvSGGSVDSSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     770.66|     311|     426|     213|     570|       3
---------------------------------------------------------------------------
  213-  384 (198.47/109.43)	.........................................................................................................................................................................................................................................PRSG..GH..LMNLKYYASPYDLLEDKTATPiLLHENN...VPR.TLGMNASVTIEGTPSAMykLPIAPLIMGSHPI.DNKWTPSFS.SITSAN...SVDLPACfFLKFPRPIPVSrafvqklQSCTGIPLFDTQ..PHYVPLYELITQFElSKD...PDPVPLNHNMRFYAA.LPG.QQHCYFLnkDAPLP
  385-  570 (180.26/121.57)	DGRS...LQGTLIDKVTFQ.....HPGRVPliLNLIRHQVAYNTLIGSCVKRTILKEDSPGILQFE...VCPLSDTCFSVSFQHPVNDSlvcvvMDVqdsthvscklykglsdalictDDF..IAKVVQRCMSIPV.TMRAIRRKAE.TIQADTPALSLIAetvedMVKKNLPPA.......SS....................PGYGMTTGSNPMSGTTTPTNTFPG.....................................................................................................................................................................................................
  616-  809 (192.87/79.62)	...............................................................................................................................................................................................................GSTIGSSP....TPPHHTPP..pvssPASNtkNHpmLMNLLKDNPAQDFSTLYGSSP.LERQNSssgSPRmEMGSGANKTKKKKSSRI..LPEKP....KHQTeDDFQRELFSmDVDSQNpifDVNMTAD.TLDTPHITPAP.......SQCSTPPATYPQpiPHPQPSIQRMVRLS.SSDsigADVTDILSDIAEEASkLPStSDDCPPI..DTPVR
  810- 1005 (141.97/58.31)	DSSSsahSQSALFDPDVFQnnsneNPYTDP..ADLI....ADAT..GSPNSDSPTNHFFPDGVDFNpelLNPQSQSGFGEEYFDESSQS.....GDN.....................DDFkgFASQALNTLGVPVlTGDSGENKFKgNSQADTVDFSIIA.....VASKALGPAdimehhsGSqspllstgdlgkdksqkrvkDGNG..TGSSSLSGPALDSK..PGkrsrtPSSD..GK........................................................................................................................................................................................
 1397- 1450 (57.07/17.11)	DGGS.....PSIKAKVTLQ.....KPGEGS..GEGLRPQMASSKNYGS.............................................................................................................................................................................................................................................................PLISGSTPK.HERGSPSHS.........................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.09|      23|      82|    1451|    1480|       4
---------------------------------------------------------------------------
 1451- 1480 (29.37/24.00)	KSPAYTPQNLdseSESGSSIaeksYQNSPS
 1536- 1558 (39.72/16.94)	KSPISSDQSM...SMSSNTI....LQDRPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.68|      14|      22|    1494|    1507|       9
---------------------------------------------------------------------------
 1494- 1507 (21.99/14.34)	EKHKKHKKEKKKVK
 1512- 1525 (22.69/15.05)	DRERDRDKDRDKKK
---------------------------------------------------------------------------




































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 MDP27240 with Med1 domain of Kingdom Metazoa
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