<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 MDP32946

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMPSSNRDKAKDWQLEIIMEKLRSKASQLKSLPEIAKNVRMTLLEKRYALDSVEKTQHQKCLDTLQHVIKVTGLQSMIERLESLTRQLGLRFEIEKTGVFIFSDMFYLEIILEATGVVKDVKIHHEGKVEQQSCIELVNCLSRGDFTDFTTQLEGFVSIYQLNAEKKVKGKAFTALESLEIDLCTLAQLQTFMKEPFNILHKSPVGVLEKRRGGHSMKLTYFISPYDLLNVDKHEIDAISIDSIISKGLGYWVTVSIEGSVAHKLQTTPLITINRSMNGKSTPSYTPLTIQNSAVVPACFSLKLNKPMPVCVSLVRKMQQIQQWVEVETRAPQPLLNMIVNQCSGGKMSCNNNKGLFVSLPDQTHCYCMTENRNMNGIFVSSIPFSHPAHVSKILMILREQALFNNIIESCVRPNSRQNFDNMTMFEVSALSSTKISISLEHPLQECMATADIDLSDISNLICKVQNPGTPPPPNVPDLVSELATKVLNKSFSIPVTLRAVIQMWERQPAEHKFYPGQENFSLPLGSVDPGGHLGPGAGPGLSEFGGLQDQIKQEPGVNGSQGHNHHRIHLQEQQGVWNESLMASNFQSIPPSVRVLSTIEITNILSDSTDKSISGRKHKRKATDDLWNSGKRKVGLEDLEFVETSSCDSTSQSTPISQETEVATPISGSQSDLEFSNIDSSDFLVNIDKVPGEFPSNPPETVDMEEILSTLHRDPIRKTAPEPSSGSSCSVVSDLSDKMPPNVSITPITTLPSPTCAAGGLEKRTGIEIIPITQATSNLMPTSITITPITSSSKQYDDKKERKSSRGSREEKEKKRKKKRDESPMGPPEKVPLKQDSLLKPVSINMKLSESPPLCATSTPTSPSLMRKFSPSPTSNRPMTMSGKLSPNLMKPKSSSSCGTSHHNSSPKNSPAHVPSSPKHGFQGLPSPKHHGTSPKHLSASGSGKPSMSTLKNVANSPSSKGMGEKSKSKERDKERNRGLFPSGALKSKSSSSIKVKPLDLNISSLDGGSQESLPSPSADSKGNPNTLRNRKGSLSAIVDKLNIKVNAQHSDVPTDLSSKSSSKPVSKDGKGGAKMIGDTKNSEYMVKTSSDGMKLTINKPRTKENKSSSVSVSGSNTSSSAQSNFSKSSQIATTGSPKVHTGLKPGVNSGPASKKPQQIQKSSSSSSIPNSTTYIPNMKTSSTSGGSSKQPGGSSSKVSSGVLKSASKPTTPKLSFSNATDLSRSKDRLKPSKSSSEKSVFASLKERTKGSPTPNDSESIYKMQPYTSALMMEGMMKTLDKNFQIPKLSDKKKNEVNNVNRSTVDTKIFDMMVKNDSKYPLNIPAMNSLEQKIRNNMSILSASKADELDDKRKDGPHNLSGTDDLFLTTDPLNPYPSASEALHSLTLASKYAPTTTIDTEALDFSKTPTFPHSPSVSVHIVNSRASSRSSSCLGDDDLLDEGIVTLGK
Length1449
PositionMiddle
OrganismDendroctonus ponderosae (Mountain pine beetle)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Coleoptera> Polyphaga> Cucujiformia> Curculionidae> Scolytinae> Dendroctonus.
Aromaticity0.04
Grand average of hydropathy-0.550
Instability index56.61
Isoelectric point9.22
Molecular weight157602.18
Publications
PubMed=23537049

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

>MDP32946
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.48|      16|      18|     903|     920|       1
---------------------------------------------------------------------------
  849-  864 (26.26/ 6.05)	SESPPLCATSTPTSPS
  904-  919 (30.22/ 9.34)	NSSPKNSPAHVPSSPK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     219.94|      37|      53|    1136|    1172|       5
---------------------------------------------------------------------------
  927-  957 (41.84/14.69)	.S.PK.HHGTSP.KHLSA...SGSGKPSM.....STLKNVANS
  996- 1025 (27.55/ 6.97)	.........VKPlDLNIS...SLDGGSQESLPS.PSADSKGNP
 1033- 1067 (42.26/14.91)	GSlSAIVDKLNI.KVNA....QHSDVPTDL..S.SKSSSKPVS
 1136- 1172 (66.91/28.23)	GS.PKVHTGLKP.GVNSG...PASKKPQQIQKS.SSSSSIPNS
 1187- 1226 (41.37/14.43)	GS.SKQPGGSSS.KVSSGvlkSASK.PTTPKLSfSNATDLSRS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     221.46|      51|      53|    1311|    1361|       6
---------------------------------------------------------------------------
  682-  725 (64.75/34.53)	DFLVNIDkvpGEFPSNPPETVDMEE.......ILSTLHRDPI....RKTAPEPSS
 1311- 1361 (86.28/48.57)	DMMVKND...SKYPLNIPAMNSLEQKIRNNMSILSASKADELD.DKRKDGPHNLS
 1365- 1416 (70.42/38.22)	DLFLTTD.plNPYPSASEALHSL..TLASKYAPTTTIDTEALDfSKTPTFPHSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.17|      14|      53|     562|     578|       7
---------------------------------------------------------------------------
  562-  578 (24.18/23.56)	GHNHHRihlQEQQGVWN
  615-  628 (25.99/16.02)	GRKHKR...KATDDLWN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     176.28|      53|      56|      47|     101|       8
---------------------------------------------------------------------------
   14-   43 (21.42/ 9.59)	...........................LEIIMEKLRSKASQLKSLPEIAKnVR.MTLL
   47-  101 (78.56/73.08)	YALDSV.EKTQHQKCLdTLQHVIKVTgLQSMIERLESLTRQLGLRFEIEK.TG.VFIF
  105-  159 (76.30/59.40)	FYLEIIlEATGVVKDV.KIHHEGKVE.QQSCIELVNCLSRGDFTDFTTQL.EGfVSIY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.93|      17|      53|     824|     843|      11
---------------------------------------------------------------------------
  824-  843 (25.74/21.65)	PMGPPEKVplkQDSLLKPVS
  878-  894 (33.19/18.92)	PMTMSGKL...SPNLMKPKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.54|      12|      19|     347|     358|      12
---------------------------------------------------------------------------
  347-  358 (24.37/15.20)	MSCNNN.KGLFVS
  368-  380 (19.16/10.31)	MTENRNmNGIFVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.14|      10|      19|     457|     466|      21
---------------------------------------------------------------------------
  457-  466 (18.22/10.97)	ISNLICKVQN
  479-  488 (15.92/ 8.70)	VSELATKVLN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.40|      11|      15|     238|     248|      25
---------------------------------------------------------------------------
  238-  248 (17.05/10.77)	ISIDSIISKGL
  254-  264 (17.35/11.12)	VSIEGSVAHKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.97|       9|      18|     507|     516|      28
---------------------------------------------------------------------------
  507-  516 (15.34/14.65)	QPAEHkFYPG
  528-  536 (19.63/12.74)	DPGGH.LGPG
---------------------------------------------------------------------------




































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 MDP32946 with Med1 domain of Kingdom Metazoa
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