<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 MDP01703

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceETEKLNKMSTLLERLHAKYNQNRPWTETMKLVRQVMEKRVVMNSGGHQHLVSCLETLQKALKVSSLPAMTDRLESIARQNGLGSHLSANGTECYITSDMFYVEVQLDPTGLLCDVKVAHHGENPVSCPELVQHLREKNFDEFSKHLRGLVNLYKLPGDNKLKTKMYLALQSLELDLSKMAGMYWQATNANPLDKILHGSVGYLTPRSGGLLMNLKYYVSPYDLFEDGTGAPVILHENNVPRSLGMNVSVTVEGTMAMYKLPIAPLIMGSHPVDSKGTPSFSSITSANSVDLPACFFLKFPRPIPVSRAFIQKLQGCTGIPLFDTPPTFVPLYELITQFELSKEADPLPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLISKIAFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTVLKEDSPGILQFEVCPLSDSCFSVSFQHPVNDSLVCVVMDVQDSTHVNCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGSNPMSGTTTPTNTFPGGPITTLFNMSISMKERHDSVGHGEDFSKVSQNPILTSLLQITGNVGSTIGSSPTPPHHTPPPVSSPASNTKNHPMLMNLLKENPPQDFSTLYGSSPLERQNSSSGSPRMEMGPGGNKQKKKKSRMPADKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPIPHSQPSIQRMVRLSSSDSIGADVTDILSDIAEEASKLPTSNEDCPPIGTPVRDSSSSGHSQSALFDPDVFQTNNSENPYTDPADLIADAAVSPNSDSSNHFFPDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDTDDFKGYASQALTTLGVQVLGGDGGENKFKGSNQSDTVDFSIIAAASKALGSSDIMEHHSGGQSPLLNTGDLGKEKSQKRVKEGNGSGSNMAGPGMDGKPGKRSRTPSSDGKSKEKLPKRKKQETDGKSPSHSSSNRPFTPPASTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVTVGKPSSHGQYTSSGSVTSSSSKSHHSHSSSSSSSSSSSTSGKIKSSKSEGSSGSKMSSSLYSSQGGSSSGQSKSSAQSVGKPGSSPITKHGLSSGSGSTKVKPQGKPSSLMNPSMSKPNISPSHSRPSGSSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTGSSSSMKSSSGMGSSGSMSQKPPPSSNSSTASSSSFSSSGSSISSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGDDPMDGQMGPSSNSSSHTMSSKHNMSGGEFQGKREKSDKEKSKVSVSGGSVDSSKKTSDSKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGEGGGDSLRPQMASSKSYGSPLISGSTPKHERCSPSHSKSPAYTPQNIDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSSEKHKKHKKEKKKVKDKDRDRDRDRDKERDKKKSHSMKPESWSKSPISADQSLSMASSAILSAERPSRASPEFLIGEEDDDLMDVALIGN
Length1574
PositionMiddle
OrganismNipponia nippon (Crested ibis) (Ibis nippon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Pelecaniformes> Threskiornithidae> Nipponia.
Aromaticity0.05
Grand average of hydropathy-0.653
Instability index54.08
Isoelectric point8.88
Molecular weight167378.16
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

>MDP01703
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     300.90|      50|      50|     972|    1021|       1
---------------------------------------------------------------------------
  536-  597 (37.41/ 6.84)	..SSPGygmttgsnpMSGTTTPT..NTFP.........................GGPITtlfNMSISMKER..HDsvGHGEDFSkvSQNPI.LT
  972- 1021 (90.23/27.52)	M.AGPG.........MDGKPGKR..SRTP..............SSD........GKSKE...KLPKRKKQE..TD..GKSPSHS..SSNRP.FT
 1099- 1150 (45.41/ 9.97)	S.STSG...kiksskSEGSSGSKmsSSLY..............SSQ........GGSSS...GQSKSSAQS..V...GK.PGSS......P.IT
 1196- 1232 (48.65/11.24)	L.ASP..........MKPVPG......TP..............PS...........SKA...KSPI.......SS..GSGGSHM..SGTGS.SS
 1234- 1295 (41.82/ 8.57)	MkSSSG.........M.GSSGSM..SQKPppssnsstassssfSSS........GSS......ISSSQNQHgsSK..GKSPSR....NKKPsLT
 1404- 1448 (37.37/ 6.82)	....PG.........EGGGDSLR..PQMA..............SSKsygsplisGST.......PKH...E..R....CSPSHS..KS..PaYT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     148.40|      40|      99|    1059|    1098|       2
---------------------------------------------------------------------------
  911-  958 (38.54/11.21)	KGSNQSDTVDFSIIAAASKALGSS............dimehhsG...........GqSPllntGDLGKEKS
 1032- 1074 (29.41/ 6.51)	PG....SSGRSQ............tppgvatppipkitiqipkGTVTV.......G.KP....SSHGQYTS
 1317- 1354 (45.69/14.90)	DGQMGPSSN....SSSHT..MSSK...............hnmsGGEFQ.......G.KR....EKSDKEKS
 1355- 1394 (34.76/ 9.27)	KVSVSGGSVDSSKKTSDSKNVGST...................GVAKIiiskhdgG.SP....S.......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     322.89|      83|      97|     645|     732|       3
---------------------------------------------------------------------------
  617-  695 (79.71/34.50)	...............................PHHTPPpvsspasntknhpmlmnllkenPPQDF.STLYGSSP.LER..QNSSSGSPRMEMGPGGNKQKKKKSRMPA...DKPKHQT
  696-  796 (107.53/61.80)	EDDFQRELFSMDVDSQnpiFDVNMTadTLDTPHITPA................psqcstPPTTYpQPIPHSQPsIQRmvRLSSSDSIGADVTDILSDIAEEASKLPTsneDCPPIGT
  804-  864 (80.43/36.01)	SGHSQSALFDPDV......FQTNNS....ENPYTDPA.............dliadaavsPNSD...................SSNH....FFPDG.......VDFNP...DLLNSQS
  865-  906 (55.23/22.02)	QSGFGEEYF..DESSQ...........SGDTDDFKGY......................ASQAL.TTL.GVQV.LG...............GDGG......................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.41|      24|      98|    1075|    1098|       4
---------------------------------------------------------------------------
 1075- 1098 (42.12/15.94)	SGSVTSSSSKSHHSHSSSSSSSSS
 1170- 1193 (44.29/17.22)	SSLMNPSMSKPNISPSHSRPSGSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.80|      13|      39|     182|     197|       5
---------------------------------------------------------------------------
  182-  197 (17.40/20.62)	MYWQATNAnPLdkILH
  223-  235 (24.40/13.87)	LFEDGTGA.PV..ILH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     143.53|      29|      98|     323|     351|       6
---------------------------------------------------------------------------
  273-  307 (36.53/16.84)	DSK.GT..PSF.SS.ITsansvdlpaCFF...L.KFPR.PIPVS...R
  323-  351 (53.75/28.43)	DTP.PTFVPLY.EL.IT.........QFE...LSKEAD.PLPLN...H
  371-  405 (29.12/11.86)	DAPlPDGRSLQgTL.IS.........KIA...FQHPGRvPLILNlirH
  425-  448 (24.13/ 8.51)	DSP...........gIL.........QFEvcpLSDSCF.SVSFQ...H
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.65|      12|     185|     309|     320|       9
---------------------------------------------------------------------------
  309-  320 (24.76/16.02)	FIQK.LQGCTGIP
  485-  497 (19.89/11.37)	FIAKvVQRCMSIP
---------------------------------------------------------------------------




































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 MDP01703 with Med1 domain of Kingdom Metazoa
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