<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 MDP20480

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMKAQGETEESEKLSKMSSLLERLHAKFNQNRPWSETIKLVRQVMEKRVVMSSGGHQHLVSCLETLQKALKVTSLPAMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAVMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYASPSDLLDDKTTSPIILHENNVPRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPLPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILSLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQGGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASNSGKMKSSKSEGSSSSKLSSSVYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPAGSDKLASPMKAVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKEKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSLTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1582
PositionMiddle
OrganismOdobenus rosmarus divergens (Pacific walrus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Caniformia> Odobenidae> Odobenus.
Aromaticity0.04
Grand average of hydropathy-0.680
Instability index54.03
Isoelectric point8.88
Molecular weight168500.21
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. 


ECO:0000256	RuleBase:RU364059

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

>MDP20480
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     219.29|      47|      50|     965|    1011|       1
---------------------------------------------------------------------------
  965- 1011 (77.32/19.37)	KEKTQKRVKEGNGTSNS.SLSGPGLDSKPG.KRSRTPSNDGKSKDKPPK
 1012- 1054 (54.92/11.70)	RKKADT...EGKSPSHS.SSNRPFTPPTST.GGSKSPGSSGRSQ.TPPG
 1219- 1262 (46.52/ 8.82)	SSKAKSPISSGSGGSH...MSGTS..SSTGmKSSSGLGSSGSLSQKTPP
 1263- 1297 (40.54/ 6.77)	SSNS......CTASSSSfSSSGSSMSSSQN.QH.......GSSKGKSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     134.77|      24|      24|    1084|    1107|       2
---------------------------------------------------------------------------
  615-  635 (29.79/ 6.31)	..GSTIGSSPTPPH.HTPPPVSSM
  798-  818 (31.58/ 7.16)	DDCPPIG...TPVRDSSSSGHSQS
 1084- 1107 (40.21/11.26)	SSGSVSSSGSKSHHSHSSSSSSSS
 1149- 1171 (33.19/ 7.93)	QSGGKPGSSPITKHG.LSSGSSST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     305.34|      67|      68|    1364|    1430|       3
---------------------------------------------------------------------------
 1108- 1179 (37.02/ 6.51)	........................SASNSGKMKSSKSEGSSSSKLSSSVYSSQG.SSGSSqsknssqsggkpgsspitkhglssgssstkMKPQ.GKP
 1312- 1362 (80.88/22.56)	KHGVV.TSGPG..GEDPMDGQMGVSTNSSSHPMSSKHNMSG............GEFQGK................................REKSDKE
 1363- 1429 (102.42/30.44)	KSKVS.TSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEG..............................LRPQMASS
 1430- 1489 (85.01/24.07)	KNYGSpLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGS.SIAEKSYQNSP..SSDDG..............................IRP.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.28|      13|      25|     300|     312|       4
---------------------------------------------------------------------------
  300-  312 (27.76/17.40)	PA...............CFFLKFPQPIP
  328-  338 (20.69/10.86)	P.................LFETQPTYVP
  356-  383 (15.83/ 6.37)	PLnhnmrfyaalpgqqhCYFLNKDAPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     486.08|     112|     340|     490|     605|       5
---------------------------------------------------------------------------
  392-  482 (95.70/34.98)	.....LVSKITfQHPGRVPLILSLIRHQ...VAYNT....LIG....SCVKRTILKED..SPGL.LQ.FEVCPLS.ESRF.SVSFQH.PVNdSLVCVVMDVQD.sTHVSckLYKG............................................
  490-  605 (184.42/79.28)	TD..DFIAKVV.QRCMSIPVTMRAIRRKAETIQADTPALSLIAetveDMVKKNLPPAS..SPGYGMT.TGNNPMSGTTTP.TNTFPGGPIT.TLFNMSMSIKD..RHES..VGHGE......DFS..................KV.......SQNPILT
  636-  722 (77.58/27.04)	................................AGNTKNHPMLM....NLLKDN..PAQdfSTLYGSS.PLERQNSSSGSPrMEICPGSNKT.KKKKSSRLPPDkpKHQT.....ED......DFQ..................RElfsmdvdSQNP...
  836-  959 (128.38/49.31)	TDpaDLIADAA.GSPSSDSPTNHFF...PDGVDFN....PDL...........LNSQS..QGGFGEEyFDESSQSGDNDD.FKGFASQALN.TL.GVPMLGGD..NGET..KFKGNsqadtvDFSiisvagkalgpadlmehhSG.......SQSPLLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     132.64|      45|      48|     152|     199|       6
---------------------------------------------------------------------------
  165-  213 (68.11/43.34)	GDNKLKTKMYLALQSLEQDLSKMAVMYWKatNAGP......ldKILHGSVG.YLTP
  216-  269 (64.53/39.94)	GGHLMNLKYYASPSDLLDDKTTSPIILHE..NNVPrslgmnasVTIEGTSAmYKLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.52|      12|      16|    1496|    1507|       8
---------------------------------------------------------------------------
 1496- 1507 (19.60/12.17)	EKHKKHKKEKKK
 1514- 1525 (19.91/12.49)	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 MDP20480 with Med1 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) AGKALGPADLMEHHSGSQSPLLTTGDLGKEKTQKRVKEGNGTSNSSLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSSASNSGKMKSSKSEGSSSSKLSSSVYSSQGSSGSSQSKNSSQSGGKPGSSPITKHGLSSGSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPAGSDKLASPMKAVPGTPPSSKAKSPISSGSGGSHMSGTSSSTGMKSSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNMSGGEFQGKREKSDKEKSKVSTSGGSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSLTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
2) KNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGP
3) LFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICPGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFPDGVDFNPDLLNSQSQGGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADT
937
538
575
1582
571
928










Molecular Recognition Features






MoRF SequenceStartStop




1) FGEEYFD
2) IKAKVTLQ
3) IRPLPEYSTEKHKKHKKEKKKVKDKDRDR
4) KKPSLTAVIDKLKHGV
5) PKITIQIPKG
6) RLSPDFMIGEEDDDLMDV
7) VAKIIISKH
878
1405
1487
1300
1061
1560
1390
884
1412
1515
1315
1070
1577
1398