<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 MDP00222

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKLTYFVSPYDLIDEENRTYDTLNPDIIIKRKIGHSVTVCMEGSTGHKLPTSSIITVNRSPTGKSTPSYAPLTSTNSSMLPACFVLKLGKKMPICMELVKRIQKVTELECGDISAPHPMLSLIIQHASDGQLDCHNNRGLYVTLPDQQHCYFMTENKNMEGVLVCSIPFTHPGHVPQILVYLRQQALFNCLIASCVRPMARQDPDTTILEVSALSWQHISVSVEHPYEETMATAELDLTDISALKCRLYGVGMTTTAEQTSELSGRILQRCLSIPLTMRILLKIWEGNSLPVVMNSLTSGAGGNGNYNLNLGASGKDQTGQNGTASSMPDFTNGEPKIKQEPGLNNGNNGTMGSRQAQQQQSSSSSHQLLQQQQQQQSFLDAGTESSIGFPSYSGQSDTTTTVGAVTSNTSASMLNPLQLSALLGQGKNPLAGNSSSNERGKKMRKRKSGTDGLWRSPKRKCDSTDNSGATEILLESSSSDSSTPLGTPTGGRENFTSETRTSTPTSATSLASGIDFSNLDTTDILGTDKSASDYDLDNSERDSEIMEVQHSSTEQQQDVEELMKAREGTSLTRKPKKSRSSSGGDEKKSSPMNIFVEETSTSSSNKALPVPPSVSITPISCGNLDQTSASNYNSVLTGMGLERRPGIEIIPIASSPSQTNLPSSITITPIAGPSPSPKTSSLNAAEERQRSERKSGSKSSGSKSGSEDNKSSGNKLEKRRKRKREDSPMGPPPDKIAPSGKQQQQQDPLSKPVSVSIKPSAAEQSSPSGAGGGLSCSSRPASPAAVRKFSPSPTHPSSLATLVGKSSPTLKAGQSAVACGGKPVQSPKHSPVYGSSPKHNVSNVPIPISVPMSLSVTTVPNTVGNVPSVAVSVPVPVPASASPKHGSTSSPKHGSSAASSGKPSMSALKSAANSPSSKSGSTSDATATPSKVKSSSSSSSSKDSSGRGDKERRVSSVVSSGNSASGHQSPKTKSSSTGKLKQLEIVSPAGGVETAQVPSLQSSSNSGGSTPPSGQIDAASKSAIAAQQAQARNRKSSLNAVIDKLKNAQHCTDSDTCGNGSNNAKSGSSSTVGSTSGLNNSGSGSQKEKNIGSGNSSSSSSGGKNINIESGKSSCIAKNSSVDTKNPASEYMVKHSSDGIKITINKTRTKDSKQSAANLKLSSSASSSSATMVAATSSSSGSSSSVVSGSSSSSSSGAVVAGSNGSPKTHTGLKPGVTSGPASKKPQTLQTAQKLLPGKMTLAAGGIKSAISSSGTANPGSGASATTTAAASVGGGNPLSKSGSSCKSSGSPKTSGSGATDLSRSRDKPRITKSGDKSVFASKGLVDARKSSPSGLREESDSERAFKLLAAHASISSLTPSLPPQLVMEGLMKQLDTNFQIPKLSARANVADAVDKSKSSEKLPMLSDSAKQTLDGLKQEPGKIGGVSAGSASKSLLDDQSRREHAQTKPDNLSIAGSTGAMSLNLSGENAGGLMLPPSVVDSDVPTNLCIQPMMDNESPRDSCKDLGIRQTTSQQFLSKIDDAGGGILSKGNVPDQLTSSTKTYAPMPSSGATTTSSSSSIVAESLNLSTKPADQAALQAKYKVVADEKKQQACIVPSSTSSSSTLFSSLGNVPTASDGNPGVATPDIGGTGGEQEVAAAAAAAEMLLDFSVASKDPMPKSHGLPLAQHHLTAIPERVMTQAALVVRRNTPPPPPPPPPPPPAPFPPAASPSVSVHIVKSPAPSPRVIPPSPHSSASPCITDDELMDEALVGLGK
Length1757
PositionMiddle
OrganismOoceraea biroi (Clonal raider ant) (Cerapachys biroi)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Dorylinae> Ooceraea.
Aromaticity0.02
Grand average of hydropathy-0.511
Instability index59.24
Isoelectric point9.20
Molecular weight181018.61
Publications
PubMed=24508170

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	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

>MDP00222
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            12|     779.01|      92|      92|    1144|    1235|       1
---------------------------------------------------------------------------
  461-  524 (42.32/ 6.62)	.......................KC...............DS.........T......DNSGATEILLES..SS..........SDSST...........................PL..............................GTPTGGrE.NFTSETRTSTP..T....S....AT....SLAS.G..I.DFSNLDTTD.
  527-  614 (56.35/11.93)	......GTDK......SASDYDLDN...............SE.........R.....DSEIMEVQHSSTE..QQqdveelmkarEGTSL...........................T.RK..PKKSR.................SS.SG.........GDEKKSSPMN..I....F....VE....ETST.S..S.SNKALPVPPS
  619-  688 (60.70/13.57)	PI................SCGNLD...........................................QTS..AS............NYN...........................SVLT..GMGLE.................RR.PGIEIIP.I.ASSP.SQTNLP..S....S....ITitpiAGPSpS..P.KTSSLNAAEE
  757-  863 (78.51/20.30)	SIKPSAAEQS......SPSGAGGGL...............SC.........S.....SRPASPAAVRKFS..PS..........PTHPS...........................SLATlvGKSSPtlkagqsavacggkpvqSP.KHSPVYG.S...SPKHNVSNV..P....I....PI....SVPM.S..L.SVTTVPNT..
  866-  913 (42.90/ 6.84)	.......................NV...............PS.........V.....AVSVPVPVPASAS..PK..........HGSTS...........................SPKH..GSSAA.................SS...................G.K..P...............SMSA..........LKSAA.
 1033- 1128 (53.23/10.75)	.....RNRKS......SLNAVIDKLknaqhctdsdtcgngSN.........N.....AKSGSSSTVGSTSglNN..........SGSGS.......................qkekNIGS..GNSSS.................SS.SG....G.K.NIN....................IE....SGKS.SciA.KNSSVDTKNP
 1144- 1235 (145.88/45.76)	TINKTRTKDS......KQSAANLKL...............SS.........S.....ASSSSATMVAATS..SS..........SGSSS...........................SVVS..GSSSS.................SS.SGAVVAG.S.NGSPKTHTGLK..P....G....VT....SGPA.S..K.KPQTLQTAQK
 1242- 1318 (78.96/20.47)	TLAAGGIK..........SA....I...............SS.........SgtanpGSGASATTTAAAS..VG..........GGNPL...........................S.KS..GSSCK.................SS............GSPKT.SG....S....G....AT....DLSR.S..RdKPRITKSGDK
 1321- 1437 (45.14/ 7.69)	FASKGLVDAR......KSSPSGLRE...............ES.........D.....SERAFKLLAAHAS..IS..........SLTPSlppqlvmeglmkqldtnfqipklsaraNVAD..AVDKS.................KS.SEKLPML.S.DSAKQTLDGLKqeP....GkiggVS....AGSA.S..K....SL.....
 1438- 1494 (58.52/12.74)	LDDQSRREHA......QTKPDNL.................................................SI..........AGS............................................................TGAMSLN.L.SGENAGGLMLP..P....S....VV....D....S..D.VPTNL.CIQP
 1495- 1585 (60.45/13.47)	MMDNESPRDSckdlgiRQTTSQQFL...............SKiddagggilS.....KGNVPDQL...TS..ST..........KTYAP...........................MPSS..GATTT.................SS.SSSIVAE.SlNLSTK..........................PA.D..Q...AALQAKYK
 1596- 1677 (56.05/11.81)	CIVPSSTSSS......STLFSSLGN...............VP.........T.....ASDGNPGVATPDI..GG..........TGGEQ...........................EVAA..AAAAA.................EMlLDFSVAS.K.DPMPKSH.GL...PlaqhH....LT....AIP.................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      81.95|      19|      19|     715|     733|       3
---------------------------------------------------------------------------
  348-  366 (21.56/ 7.82)	NNgtMGSRQAQQQQSS..SSS
  715-  733 (28.74/13.06)	NK..LEKRRKRKREDSPMGPP
  735-  753 (31.65/15.18)	DK..IAPSGKQQQQQDPLSKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.40|      46|     565|     394|     441|       4
---------------------------------------------------------------------------
  394-  441 (68.48/41.33)	SGQSdTTTTVGAVTSNTSASMLNPLQLSALLG...QGKNPlAGNSSSNERG
  961- 1009 (71.91/35.64)	SGNS.ASGHQSPKTKSSSTGKLKQLEIVSPAGgveTAQVP.SLQSSSNSGG
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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 MDP00222 with Med1 domain of Kingdom Metazoa
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