<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 MDP27360

Description Mediator of RNA polymerase II transcription subunit 1
SequencePGQQESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYVSPSDLLDDKTASPIILHENNVSRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDADPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMDICSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPAIGTPLRDSSSSGHSQSTLFDSDVFQTNNNENPYTDPADLIADAAGSPNSDSPTNHFFHDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNNQADTVDFSIISVAGKALGPADLMEHHSGSQGPLLATGDLGKEKTQKRVKEGNGTSNSTLSGPGLDSKPGKRSRTPSNDGKNKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSASTSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSGQTKNSSQSGGKPGSSPITKHGLSSSSSSTKMKPQGKPSSLMNPLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGSEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKDKSKVSTSGSSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTILSADRPSRLSPDFMIGEEDDDLMDVALIGN
Length1576
PositionMiddle
OrganismCallithrix jacchus (White-tufted-ear marmoset)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Platyrrhini> Cebidae> Callitrichinae> Callithrix> Callithrix.
Aromaticity0.04
Grand average of hydropathy-0.680
Instability index52.76
Isoelectric point8.92
Molecular weight168000.61
Publications









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

>MDP27360
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
            10|     481.85|      50|      50|    1065|    1114|       1
---------------------------------------------------------------------------
  973- 1029 (44.56/ 9.45)	GTSNSTLSGPGLDSKPGKRSrtpsndGKNKDKPPKRKKADTE..GK..SPShS.........S..SNRP..FT.P
 1030- 1072 (44.25/ 9.32)	P......TSTG.....GSKS......PGSSGRSQTPPGVATPpiPKitIQI.P.........K..GTVM..VG.K
 1073- 1123 (72.93/21.32)	PSSHSQYTSSGSVSSSGSKS......HHSHSSSSSSSSASTS..GK..MKS.S.........KseGSSS...S.K
 1124- 1174 (52.86/12.92)	LSS.SIYSSQGS.SGSGQTK......NSSQSGGKPGSSPITK.hGL..SSS.S.........S..STKMkpQG.K
 1175- 1212 (41.30/ 8.08)	PSSLMNPLSKPNISPSHSRP.......PGGSDKLASPMKPVP..G............................tP
 1213- 1254 (45.39/ 9.80)	PSSKAK....SPISSGSGGS......HMSGTSSS.......S..G...MKS.S....sglgsS..GS.L..SQ.K
 1257- 1314 (53.04/13.00)	PSSNSCTASSSSFSSSGSSM......SSSQNQHGSSKGKSPS..RN..KKP.SltavidklkH..GVVT..SG..
 1315- 1354 (41.22/ 8.05)	PGSEDPM..DGQMGVSTNSS......SHPMSSKHNMSGGEFQ..GK..REK.S......................
 1453- 1500 (49.67/11.59)	PQNLDSESESG..SSIAEKS......YQNSPSSDDGIRPLPE..YS..TEK.H.........K..KHKK..EK.K
 1501- 1551 (36.63/ 6.13)	KVKDKDRDRDRDKDRDKKKS......HSIKPESWSKSPISSD..QS..LSM.T.........S..NTIL.sAD.R
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     208.08|      48|      50|     142|     189|       2
---------------------------------------------------------------------------
  142-  189 (81.59/53.55)	NFD.EFSKHLKGLVNLYNL..........P..GDNKLKTKMYLALQSLEQ.DLSKMAIMYWK
  192-  240 (70.55/45.09)	NAG.PLDKILHGSVG.YLT..........PrsGGHLMNLKYYVSPSDLLD.DKTASPIILHE
  246-  302 (55.94/33.90)	SLGmNASVTIEGTSAMYKLpiaplimgshP..VDNKW.TPSFSSITSANSvDLP..ACFFLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     479.34|     105|     117|     531|     647|       3
---------------------------------------------------------------------------
  536-  629 (161.69/81.67)	...........LP..PAS..SPGYGMT.TGNNPMSGTTTPTNTFPGGP.....ITTLFNMSMSI...KDRHESVGHGE......D..F.SK......V.SQ.....NPILTSLLQITGNGGST..IGSSP....TPPH..H.....TPPPVS
  636-  753 (123.31/65.02)	KNHPMLMNLLK..dnPAQdfSTLYGSS.PLERQNSSSGSPRMDICSGS.....NKTKKKKSSRLppdKPKHQT...ED......D..F.QRelfsmdVdSQ.....NPIFDV..NMTADTLDTphITPAPsqcsTPPT..T.....YPQPVP
  754-  864 (107.75/45.78)	HPQPSIQRMVRLS..SSD..SIGPDVT....DILSDIAEEASKLPSTSddcpaIGT......PL...RDSSSS.GHSQ......StlFdSD......V.FQtnnneNPYTDPADLIADAAGSP..NSDSP....T.NHffHdgvdfNPD...
  866-  946 (86.59/35.20)	...........LN..SQS..QSGFGEEyFDESSQSGDNDDFKGFASQA.....LNTL.GVPMLG...GDNGETKFKGNnqadtvD..F.SI......I.S...............V...AGKA..LGPAD....LMEH..H...........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.03|      20|      50|     324|     354|       4
---------------------------------------------------------------------------
  332-  352 (32.34/40.38)	YVPLYELITQFELSKDAdPIP
  360-  379 (39.70/14.96)	YAALPGQQHCYFLNKDA.PLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      33.42|      15|      18|    1386|    1403|       5
---------------------------------------------------------------------------
 1356- 1370 (21.76/ 7.32)	KDK............SKVSTS...GSSVDS
 1371- 1400 (11.65/ 8.01)	SKKtsesknvgstgvAKIIISkhdGGSPSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     121.30|      39|      53|     392|     434|       6
---------------------------------------------------------------------------
  392-  420 (37.02/25.89)	........................ITF.....QHPGRVPLILNLIRHQVAYNTLIgSC
  424-  473 (53.82/38.96)	TILKEDSPGLLqfevcplsesrfsVSF.....QHPVNDSLV..CVVMDVQDSTHV.SC
  474-  510 (30.46/11.85)	KLYKGLSDALI...........ctDDFiakvvQRCMSIPVTMRAIRRK..........
---------------------------------------------------------------------------




































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 MDP27360 with Med1 domain of Kingdom Metazoa
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