<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 MDP29292

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMTDGNLIMTANGLIDKSKELQKEILMEKLRSKTPQYKNLTETSKAVRTSMLDKRWGVDNADRMILQKCLDSLQHSIKITSLQNLIERLQCLSRQLGLKLVVGTSGVNLFISSDMFYLEILVESSGSVKDVKIHHEGKVKCKAFTALQSLEDDLCTLRQLQSFIKDPWAQVHKSPIGFLQKRRGGHAMRLTYFVSPYELLDKDAGLQPLTTELLTTGKPTASNGFASHGTPAYTPIGHSATVLLEGSTANKLQLSTIISNAQRSGKSNGPVYAPLVPQNSAMLPACFTLKLSQPTPLCSGLAKLIQATTEVEVSGDWANAKPLLGLVVQQAYDKLVPGKNIELNLSKGLFVNLPKQTQCYFVCERRGLEGCIVNSVPFTHPSHVAALLACLRQQALFNTLLASCVRLQTKLAVELEKVLMFEVSALSWQHISISLEHPLEECMATVELELSDPASPRASVYTLNSPARDHIDDYITRVLQKSHSIPITLRSLVKIWEREAAAKQMNGGYSALDSNFSCGVGGLDPGGEQLKHEPAHPHRALYPHPHHAGAYLSEQQHQLTMMCQDSNESKHQEERKSKKRKSDSDVWSTAQKKGKPGLSDMMDSDSESDNSDNYANEDDNTVNSNSSTEDLEGRESSASQNEFTSDLELSTMDAADALRNQDNRTSSDIDNSNDGDVEEIMRNSFQKSDHKRQKLKSKDSEMRRSSSSLLLDLTEGKSYMPSSVSITPIGSSSANPQPPSGAGISSMLCLDRRPGIEIIPISAAAPAALPSSITITPITSSQIKSMDDRIRSDRKSSKSGEERSKEKKKKRRRDDSMGPPEKVPPKQDPLTKPVSVSIKPTDGSPLRASSPNSLIRKFSPSPTHGRSVSITKSPSPSTVKGIGKPSGTSSHHSSPRHSPVQNSPKHLTGYSSPKNHSISSPKQSSSGSGKPSMSALKSATSGSPSAKSGTTGYDLTKKISKDNYSSSSSTSRDKEKKHSSLSFSSSDRSSPKLKNPMKIKQLEITPVTCDSAVTEPLISPPNIEVNKPNASQARNRKGSLSAVIDKLKSAQHCGGDSDSSSKSSGSSSSVGKFSEQKNSLPASGGKTSESKNQEYMVKPSSDGMKITINKTRSKESSSSSKLNYSSSKQSSPQLTPPSQGSPKTHTGLKPGVISGPASKKTQAMQSSKSSSLNTSSTPPKANMSPSDSSNPNMSKVPYSKSSSSSSSAGINLSKSASKSNSGSPKGSSSDLAKIIRDREREKARTKLMSNSEKSIFSSKSERHSSPSGSRDDVDGDRIKSSKDVNFRVEGLMKPLDTRNFQIPKLKDKNSPAAQYENRSMVNDFSRSLDQNKYPFSHYDNSNKGSESMQKSAYPLNVPKPLMNLGAMSPKTTGKSDQSDRPMEYSKATADSLTKGGSPQRNKDEAKDAYSSSYPLMPLDFKTDMAKGFATPKGAPEDRKGADSCMKPPASASVARSGATTPQEAAEMLLDFSSSSGSKVSGLVAVRPVYPASPALALQLAKSPAPSPLVAPSPHSNSPCITDDELIDEGLVGPGK
Length1534
PositionMiddle
OrganismBombyx mori (Silk moth)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Lepidoptera> Glossata> Ditrysia> Bombycoidea> Bombycidae> Bombycinae> Bombyx.
Aromaticity0.04
Grand average of hydropathy-0.682
Instability index60.74
Isoelectric point9.34
Molecular weight165354.98
Publications
PubMed=19121390

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

>MDP29292
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     173.13|      41|      41|     885|     925|       1
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  769-  821 (38.18/ 9.28)	PSSI..TIT.......PITSSQiksmDDRIRSDRKSSK..........SGeerSKEK...KKKRRrddsmGPPEK
  901-  945 (58.61/18.49)	NSPK..HLT.......GYSSPK....NHSISSPKQSSS.........gSG...KPSMsalKSATS.....GSPSA
  946-  992 (41.67/10.86)	KSGT....T.......GYDLTK....K..ISKDNYSSSsstsrdkekkHS...SLSF...SSSDR.....SSPKL
 1098- 1138 (34.67/ 7.70)	PSSDgmKITinktrskESSSSS....KLNYSSSKQSSP..........QL...TP.................PSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     185.79|      38|      38|    1155|    1192|       2
---------------------------------------------------------------------------
  699-  736 (39.21/11.37)	SEMRRSSSSL....lldlTEGK.SY..M.PS.SVSITPIGSSS..ANPQ
  843-  882 (34.77/ 9.22)	SPLRASSPNS..lirkfsPSPT.HGR......SVSITKSPSPStvKGIG
 1155- 1182 (35.95/ 9.79)	..................PASK.KTQAMQSSKSSSLNTSSTPP..KANM
 1183- 1220 (46.29/14.81)	SPSDSSNPNM.....skvPYSK.SS...SSSSSAGINLSKSAS..KSNS
 1292- 1334 (29.57/ 6.69)	KPLDTRNFQIpklkdknsPAAQyENRSMVNDFSRSLD....QN..KYPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     184.77|      30|      30|    1352|    1381|       3
---------------------------------------------------------------------------
 1352- 1381 (53.84/31.18)	YPLNVP...KPLMNLGAMS.PKTT...GKSDQ.SDRPM
 1383- 1403 (28.81/12.04)	YSKATA...DSL..........TK...GGSPQ.RNKDE
 1412- 1444 (36.42/17.86)	YPL.MPldfKTDMAKGFAT.PKGA...PEDRKgADSCM
 1459- 1487 (32.05/14.52)	TPQEAA...EMLLDFSSSSgSKVS...GLV...AVRPV
 1488- 1517 (33.64/15.73)	YPAS.P...ALALQL.AKS.PAPSplvAPSPH.SNSP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     219.92|      74|     261|      28|     107|       4
---------------------------------------------------------------------------
   28-  107 (113.52/89.58)	KLRSKTPQYKNLTETSKAVRTSMLDKRWGvdNAD...RMILQKCLDSL..QHSIKITSLQ....NLIERLQC..LSRQLGLKLVVgtsgVN
  289-  373 (106.40/68.81)	KLSQPTPLCSGLAKLIQATTEVEVSGDWA..NAKpllGLVVQQAYDKLvpGKNIELNLSKglfvNLPKQTQCyfVCERRGLEGCI....VN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|      89.67|      17|     261|    1073|    1089|       5
---------------------------------------------------------------------------
  552-  568 (26.23/12.97)	SEQQH..QLTMMCQDSNES
  572-  588 (20.35/ 8.14)	EERKS..KKRKSDSDVWST
  589-  607 (17.75/ 6.01)	AQKKGkpGLSDMMDSDSES
 1073- 1089 (25.34/12.24)	SEQKN..SLPASGGKTSES
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.45|      34|      43|     608|     645|       6
---------------------------------------------------------------------------
  608-  645 (53.39/36.59)	DNSDNYANEDDNTVN..SNSSTEDLEgresSASQNEF.TSD
  652-  688 (50.05/25.76)	DAADALRNQDNRTSSdiDNSNDGDVE....EIMRNSFqKSD
---------------------------------------------------------------------------




































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 MDP29292 with Med1 domain of Kingdom Metazoa
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