<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 MDP00220

Description Mediator of RNA polymerase II transcription subunit
SequenceMRDSPMQRNCSELAEKLLKSLDKEYNVLDMRAVVDVITALEKTTITKEVLEITRLGKHINELRRKTSNDALAKRAKDLVRRWRDMVLPSVHSTPQPTLADTAPPALNGAKEVALRNLKPQSPALRGLKPHSPLLKDATQLKVLSPALSVHSDHSRSPNASSNKQSIQQQSLTSNHRLSSCSRNASPVLSSSSQNHTLEAVPRTHSSNKRLRKEENSKELQGGCQHYQSPLRSSEPMVEENLAKKQRLNGENISGNLNSQVPSPTLKERISSERLAETSPPATDDTTNPKKRGRKKGSKSTKRQPFPEDSVKEKLASISRNPKLKTTQELLADLQARGSNCSPVGTNALASQSVAEPPSIDDMVLRGSSNEQVSKYTRCSQKNSSLPRGGLVSTDGKAQVARSRSVDNCHEPSPEACRDRLHDQDRPVGTAGPTRRSPSSHRDLTVEEILAKLPPLDPSSIDWGDYDPAGLSTEEERNGAECSPPPREVTAEDLERLHTRHVEGLNGNFQPRLPSPSSSTVPECCDGDRVSSGLSNVNSAKSVYSGQTDSAEFREWHQILARPSYQGETLHIMPYVIID
Length578
PositionUnknown
OrganismOoceraea biroi (Clonal raider ant) (Cerapachys biroi)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Dorylinae> Ooceraea.
Aromaticity0.02
Grand average of hydropathy-0.851
Instability index69.74
Isoelectric point9.07
Molecular weight63531.30
Publications
PubMed=24508170

Function

Annotated function 
GO - Cellular Component
mediator complex	GO:0016592	IEA:InterPro

GO - Biological Function
GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IEA:InterPro









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP00220
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     279.65|      39|      40|     272|     310|       1
---------------------------------------------------------------------------
   98-  138 (25.43/ 7.36)	..LADTA.PPALNGAKEvalrnlkpqsPALR..GLK.PHS.............PLL.KD.AT
  141-  171 (23.55/ 6.25)	KVLSPAL.SVHSDHSRS..........PNAS..SNK....Q....S.I..QQQSL.......
  181-  217 (37.76/14.67)	SRNA..S.PVLSSSSQN..........HTLE..AVP.RTHS....S.N..KRLRKE.EN.SK
  272-  310 (61.62/28.79)	ERLAETS.PPATDDTTN..........PKKR..GRK.KGSK....S.T..KRQPFP.ED.SV
  312-  348 (33.82/12.33)	EKLASISrNPKLKTTQE..........LLAD..LQA.RGSN....C.S.....PVG.TN.AL
  351-  390 (38.30/14.98)	QSVAE...PPSIDDMV...........LRGS..SNE.QVSKytrcS.Q..KNSSLP.RG.GL
  406-  445 (32.90/11.78)	DNCHEPS.PEACRDRLH..........DQ....DRP.VGTA....GpT..RRSPSShRDlTV
  479-  518 (26.27/ 7.86)	...AECS.PPPREVTAE..........DLERlhTRHvEGLN....G.NfqPRLPSP.SS.S.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.17|      32|     165|      62|      97|       3
---------------------------------------------------------------------------
   62-   97 (50.84/40.19)	LRRKTS..NDALAKRAkdlvRRWRDMVLPSVHS.TPQPT
  230-  264 (43.34/25.24)	LRSSEPmvEENLAKKQ....RLNGENISGNLNSqVPSPT
---------------------------------------------------------------------------




































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 MDP00220 with Med26 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) SVHSTPQPTLADTAPPALNGAKEVALRNLKPQSPALRGLKPHSPLLKDATQLKVLSPALSVHSDHSRSPNASSNKQSIQQQSLTSNHRLSSCSRNASPVLSSSSQNHTLEAVPRTHSSNKRLRKEENSKELQGGCQHYQSPLRSSEPMVEENLAKKQRLNGENISGNLNSQVPSPTLKERISSERLAETSPPATDDTTNPKKRGRKKGSKSTKRQPFPEDSVKEKLASISRNPKLKTTQELLADLQARGSNCSPVGTNALASQSVAEPPSIDDMVLRGSSNEQVSKYTRCSQKNSSLPRGGLVSTDGKAQVARSRSVDNCHEPSPEACRDRLHDQDRPVGTAGPTRRSPSSHRDLTVEEILAKLPPLDPSSIDWGDYDPAGLSTEEERNGAECSPPPREVTAEDLERLHTRHVEGLNGNFQPRLPSPSSSTVPECCDGDRVSS
89
531










Molecular Recognition Features






MoRF SequenceStartStop




1) IDWGDY
460
465