<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 MDP04554

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMAAVNVKPVIAPAQGASTSSLLGNLSITVEKNKQWQRELLMERIRSHSSQHKTFQELSKSMRMGMLEKRYPLDAVEKSNLQKCLDNMQHCIKVTSRQGLVERLESLSRQLSLKFSDDTKALFISTDMFFLEILLDSNGSLTDVKVHHESKADQQSCSELVDCLNRGDFADFTAQLEGFSSIYQLNAESKVKIKAYDAMQAMETDLYNIFQMQNFTKDTLQVIQDSIVGVVLKRRGGHPMRLVYFVSPYDLISLESKSLQSLSLDSFKNKQIGFSVTVNLEASSANKLQILPTVTVAKDPQTGIDVPVFAPLNQMNSMLLPATFVLRLNRPLPVCFNTLRSMGLCTGALNETNPLPSSSLEAQHKTPLVTNIMSLIIQTASDQQMKSSQKGLFVCLPDQTHCYFFTENKLLKSTLIHSLPFTEPSQVPKILDFLKKMALFYALLASCVRPQSKMGNDIDSTTILEVNAISFQQISVALQHPYEESMATVEFDLRTGQPQCTIYSISNNYDLLSIKLTSIVQKCLSIPVTIRALLRFWDQERMKMFQRSIGGGSTNTGGIGGGGAVGGGAGNSNLGGGNMSGNMPSTSHAAYGNFNISGGSNDPGGGGMKMSSGSMKMDTTGQQRSAQLQAAAGGFLKYKSVGVELKQEDFHESPKSQTLAAAATEHVASNLMQSTLEVNSLGQTLTQQQQQLHIQQTKHQQQPQQTFEQKIATDHEIADKYKNIWKDKTPNLKNSVSITPINEATNASNCLPTNNNNNNPNNNTSSPLDVKRTGGIEIIPLTGPNTNNTGVSSAGTNTNVTPTTITITPINAGTSSAPLGNKEKKSSSTSLVPTASSTGLSSNKRSLDTTDNQKDKKRKKRRDDSPMGPPEKVFSRQNSPAGSSEAAATAVARKFSSPSSSPKGSSGGLLASSVTGSSLSARPSPKHSPVYSSPKHNTASNSPKSPFGTHSPKHGSSGKPSMSTLKSATTASPKGDKSSATSNTSSTSSVLNTAALVRSLQQSGSTSSSTASTVAAAAAAAMAALKNKDKTSALNSAAVSSAAAAAAAAVKSSMGVTSMQQLKSSVTGLNHMTAAAAAGYGAANNPNPSLDLNSAMRKGVAAAVSLMTSTPTTATVSTASTRSPQRQLQESQDRHKQQPTAVAAATTTTMQQPLGSNELMKLSASSTSLTANDTLNTSGGSSSSSSEYMVKSSQEGLKLTINKTSHKSSSKSSSSSSSSTKSSHAAIQGSGNSYSSSASGSTSLYNKKLHTGLKPGVNSGPASKKSTSSSSTSSSTSSKPSSSSASSSSSSSSSSKHIFQKSNSSGSLSTKLGSSNSSMNTSSTGYGLSKSHSTNSFSDMRRSSKKSHSASTSPALPSSHNSSSTSQPATRLDHHADMMKILQYASPIMAASMEGFMKGLNSKFQIPKLSQRNNNPNANSTTSTNINSSSSSTSMSTAMSSASTSTSYSSGQNHPASLNKIKDQKLTTPTSHDQTSASLHLIKASSSTSSSSSTASTASLLTKSKSSTSSSSTTSSTSASSSSSLSFLNAATKSTNSNSSHVVDDSLLATLAAGK
Length1554
PositionMiddle
OrganismLucilia cuprina (Green bottle fly) (Australian sheep blowfly)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Diptera> Brachycera> Muscomorpha> Oestroidea> Calliphoridae> Luciliinae> Lucilia.
Aromaticity0.04
Grand average of hydropathy-0.457
Instability index53.59
Isoelectric point9.68
Molecular weight163467.56
Publications
PubMed=26108605

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

>MDP04554
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.63|      23|      24|     922|     945|       2
---------------------------------------------------------------------------
  922-  945 (32.07/ 8.36)	PSPKHSPvYSSPKHNTASNSPKSP
  949-  971 (34.57/ 7.34)	HSPKHGS.SGKPSMSTLKSATTAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     451.71|      71|      72|    1162|    1232|       3
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 1029- 1096 (65.31/16.85)	K..........TSALNSAAVSSAAAAAAAAVK......................................S.SMGV.TSM..QQLKSSVTGL..........NHMTAAAAAGY......GaannpnpsLDLNS..AMR
 1097- 1205 (78.25/21.80)	KgvaaavslmtSTPTTATVSTASTRSPQRQLQES...qdrhkqqptavaaattttmqqplgsnelmklSAS.STSL.TAN..DTLNTSGGSSS..S....SSEYMVKSSQEGL......K........LTINK..TSH
 1206- 1263 (69.81/18.57)	K..........SSSKSSSSSSSSTKSSHAAIQGSGNS............................yssSASgSTSL.Y.N..KKL........................HTGL......K........PGVNSgpASK
 1264- 1334 (85.76/24.67)	K..........STSSSSTSSSTSSKPS....SSSASS.............................ssSSS.SSSK.HIF..QKSNSSGSLSTklG....SSNSSMNTSSTGY......G........LSKSH..STN
 1335- 1410 (83.60/23.84)	S..........FSDMRRSSKKSHSASTSPALPSSHNS.................................S.STSQ.PATrlDHHADMMKILQ..Y....ASPIM.AASMEGFmkglnsK........FQIPK..LSQ
 1411- 1471 (68.98/18.26)	R..........NNN....PNANSTTSTN..I....NS...............................SSS.STSMsTAM..SSASTSTSYSS..GqnhpASLNKIKDQ..........K........LT.TP..TSH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.50|      20|      21|    1476|    1496|       4
---------------------------------------------------------------------------
  993- 1012 (25.88/ 8.39)	AAL..VRSlQQSGSTSSSTAST
 1476- 1496 (31.43/16.93)	ASLhLIKA.SSSTSSSSSTAST
 1497- 1516 (34.18/14.20)	ASL.LTKS.KSSTSSSSTTSST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      99.71|      20|      62|     547|     569|       5
---------------------------------------------------------------------------
  547-  566 (36.74/12.86)	SIGGGSTNTGGI..GGGGAVGG
  572-  592 (29.33/12.37)	NLGGGNM.SGNMpsTSHAAYGN
  594-  611 (33.64/10.88)	NISGGSNDPG....GGGMKMSS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     232.56|      80|     303|      46|     136|       6
---------------------------------------------------------------------------
   46-  136 (107.78/95.92)	SHSSQHKTfqELSKSMrMGMLEKRYPlDAVEKSNlQK....CLDNMQHCIKVTSRQGLVerlESLSRqlSLKFSDDT...KAL.FIStDMFFLEILLDS
  358-  445 (124.78/73.53)	SLEAQHKT..PLVTNI.MSLIIQTAS.DQQMKSS.QKglfvCLPDQTHCYFFTENKLLK...STLIH..SLPFTEPSqvpKILdFLK.KMALFYALLAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      96.50|      22|      66|     735|     756|       9
---------------------------------------------------------------------------
  735-  756 (38.09/20.18)	VSITPINEATNASNCLPTNNNN
  804-  822 (32.69/16.19)	ITITPINAGTSSA...PLGNKE
 1139- 1157 (25.71/11.03)	...TAVAAATTTTMQQPLGSNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.87|      20|      21|     312|     332|      10
---------------------------------------------------------------------------
  312-  332 (30.51/21.80)	NQMNSMLLpATFVLRLNRPLP
  336-  355 (35.36/19.88)	NTLRSMGL.CTGALNETNPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.88|      25|      29|     251|     277|      11
---------------------------------------------------------------------------
  253-  277 (41.53/24.86)	LESKS...LQSL.SLDSFKNKQIGFSVTV
  279-  307 (32.35/12.45)	LEASSankLQILpTVTVAKDPQTGIDVPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.11|      23|      30|     654|     676|      12
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  627-  650 (18.18/ 7.31)	....LQAAAGgflkyKSVGVELKQEDFH
  654-  676 (36.01/22.28)	KSQTLAAAAT.....EHVASNLMQSTLE
  687-  707 (36.91/23.03)	QQQQLHIQQT.....KH..QQQPQQTFE
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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 MDP04554 with Med1 domain of Kingdom Metazoa
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