<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 MDP13125

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMSTLLERLHAKYSQNRPWTETMKLVRQVMEKRVVMNSGGHQHLVSCLETLQKALKVSSLPAMTDRLESIARQNGLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVSCPELVQHLREKNFDEFSKHLRGLVNLYKLPGDNKLKTKMYLALQSLELDLSKMAGMYWQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGTGAPVILHENNVPRSLGMNVSVTVEGTMAMYKLPIAPLIMGSHPVDSKGTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFIQKLQGCTGIPLFDTPPTFVPLYELITQFELSKEADPLPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSLSMKERHDSMGHGEDFSKVSQNPILTSLLQITGNVGSTIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGNKQKKKKSRMPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNITADALDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPAATEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYASQALTTLGVQVLGADGGENKFKGSNQSDTVDFSIIAAASKALGSSDIMEHHSGGQSPLLNAGDLGKEKSQKRVKEGNGSGGNMAGPGIDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKMKSSKSEGSSGSKMSSSLYSGQGGSSSGQSKSSAQSVGKSGSSPITKHGLSSGSGSTKMKPQGKPSSLMNPSMSKPNISPSHSRPSGGSDKLASPMKPVPNTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSNSSSHTMSSKHNMSGGDFQGKREKSDKEKSKVSVSGGSGDSSKKTSDSKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDGLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDRDKDRDKKKSHGMKPESWSKSPISAEQPLSMTSSAILAAERPARPSPEFLIGEEDDDLMDVALIGN
Length1567
PositionMiddle
OrganismPatagioenas fasciata monilis
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Columbiformes> Columbidae> Patagioenas.
Aromaticity0.05
Grand average of hydropathy-0.642
Instability index55.15
Isoelectric point8.89
Molecular weight166342.16
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

>MDP13125
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     308.72|      41|      41|    1068|    1108|       1
---------------------------------------------------------------------------
 1069- 1101 (47.26/11.50)	..................GS............VTSS.....SSKSHHSHSSSSSSSSSSSTSG.KMKSS
 1102- 1140 (41.87/ 9.26)	KSE.GSSG............................skmssSLYSGQGGSSSGQSKSSAQSVG.KSGSS
 1144- 1195 (43.33/ 9.86)	KHG.LSSG.........SGStkmkpqgkpsslMNPS.....MSKPNISPSHSRPSGGSDKLAS.PMKP.
 1226- 1267 (54.55/14.53)	SMK.SSSG.........MGS............SGSM.....SQKPPPSSNSSTASSSSFSSSGsSMSSS
 1268- 1316 (41.17/ 8.96)	QNQhGSSK.gkspsrnkKPS............LTAV.....IDKLKHG.VVTSGPGGDDPMDG.QMGPS
 1317- 1365 (35.44/ 6.58)	.SN.SSSHtmsskhnmsGGD............FQGK.....REKSDKEKSKVSVSGGSGDSSK.KTSDS
 1366- 1412 (45.12/10.61)	KNV.GSTG..vakiiisKHD............GGSP.....SIKAKVT.LQKPGEGGGDGLRP.QMASS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     297.09|      41|      41|     948|     988|       2
---------------------------------------------------------------------------
  526-  558 (39.14/10.96)	......PPASSPGyGM..........TT......GS.NP.............MSG..TTTPTNTF.PGGP.............IT
  571-  608 (39.11/10.94)	HDSMGH.....GE.DF..........SK......VSQNP............ILTSllQITGNVGSTIGSS.............PT
  673-  725 (35.25/ 8.99)	KKKKSRMPADKPK.HQ....teddfqRElfsmdvDSQNP............IFDV..NITADALDTPHIT.............PA
  790-  849 (34.10/ 8.41)	P...VRDSSSSGH.SQsalfdpdvfqTN......NSENPytdpadliadaaVSPN..SDSSNHFFPDGVD.............FN
  948-  973 (29.44/ 6.05)	..........................KE......KSQKR............VKEG..NGSGGNMAGPGID.............GK
  974- 1014 (41.86/12.34)	PGKRSRTPSSDGK.SK......eklpKR......KKQ................ET..DGKSPSHSSSNRP.............FT
 1015- 1058 (37.67/10.21)	P......PASTGG.SK..........SP......GSSGR...............S..QTPPG.VATPPIPkitiqipkgtvtvGK
 1197- 1224 (40.53/11.66)	PN...TPPSSKAK.S.......................P............ISSG..SG.GSHMSGTGSS...............
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.79|      25|      35|     860|     886|       3
---------------------------------------------------------------------------
  860-  886 (39.51/29.82)	GfGEEYFDESSQSgDTDDFK..GYASQAL
  898-  924 (41.28/21.62)	G.GENKFKGSNQS.DTVDFSiiAAASKAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     206.18|      54|     102|      85|     186|       4
---------------------------------------------------------------------------
   99-  152 (99.25/64.99)	LDPT..GLLCDVK..VAHHG..ENPVSCPE........LVQHLREKNFD.....EFS...........KHLRGLVNLYKLPGDN
  196-  254 (56.74/64.71)	LTPRsgGLLMNLKyyVSPYDlfEDGTGAP.........VILH..ENNVPrslgmNVS...........VTVEGTMAMYKLP...
  611-  670 (50.19/12.27)	.................HHT..PPPVSSPAsntknhpmLMNLLKENPPQ.....DFStlygssplerqNSSSGSPRMEMGPGGN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     127.96|      40|      43|     269|     308|       5
---------------------------------------------------------------------------
  269-  308 (71.63/48.71)	GTPSFSS.ITSANSVDLPACFFL.KFPRPIPVSRA..FIQKLQG
  311-  354 (56.33/36.43)	GIPLFDTpPTFVPLYELITQFELsKEADPLPLNHNmrFYAALPG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.89|      37|      82|    1427|    1464|       6
---------------------------------------------------------------------------
 1427- 1464 (60.94/32.77)	HER................CSPSHSKSPAYTPQNIdSESESGSSIAEKSYQNSP
 1474- 1495 (32.42/11.74)	PEY................SSEKHKK...........HKKEKKKVKDK.....D
 1496- 1548 (51.53/23.24)	RDRdrdrdkdrdkkkshgmKPESWSKSPISAEQPL.SMTSSAILAAERPARPSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     174.40|      39|      99|     361|     399|       7
---------------------------------------------------------------------------
  361-  399 (65.89/40.72)	LNKDAP..LP.DGRSLQGTLISKIAFQHPGRVPLILNLIRHQ
  415-  453 (51.57/30.15)	LKEDSPgiLQfEVCPLSDSCFS.VSFQHPVNDSLV..CVVMD
  464-  499 (56.94/34.11)	LYKG....LS.DALICTDDFIAKVV.QRCMSIPVTMRAIRRK
---------------------------------------------------------------------------




































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 MDP13125 with Med1 domain of Kingdom Metazoa
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