<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 MDP31593

Description Mediator of RNA polymerase II transcription subunit 23
SequenceMTEKDKAPNPEDVIEMDDSFSPQFVQEVNRVKSQIKSLIENNTTLRFFKPLTSNLGDVTAILRISFNNMMSKMEEKEKQSLVKELIKLVHHVAEKNTQDKVFIAASYERVVDELLRYANQKEVISTTLCVEGLIMTSDFRMCSRIDQEKWKFIKECIPKIDYKGIRTIIRYILESQLRRLPYQLSPEKVNELRRVEDVLLKIVDRDLNLMPPLITLSEVMRGTPKQAHMFPRLTEKLANLSSHFRPIADLTHVCGRPFIYPIPFHPAFHPPTSYWEDFGMNAQSPYTQSHHMLPYRPQHKAASCLYTFYMILRQPLGKDSLNPTNRNKTKSHWEPLLSVMIVEAMAETEALPEGKQIPRYQWDNITNLVMYGMSHLLVNPKNFFHYLKGLINQCKYTRARDEVMWIVFQVVSSLHKMIKIEDAVQEIVDLYNELFDGEFSWHGASDHPARMARFLAAASTWMLLEKNKAHKQNTDTIKSHIKVIHEAALNFDPKNMGMLAVLANAFKSDTRIGAQIVPAMSEALNTPPDPSQPTFDLSYQRKAVNQFDAFPKEFLDALTSRAKRSLLGQILSVFRSFGTDKLPSPAAFETLARICQSEDYEMAVKDLESLASRSLHISTQERAADIATNNQAKDQCHFLFDFLAYRLPHVHSYGKYTSTTGSLLLYFTASVAPNTPQNHQVYRLLEQALLRRMYWRTFHESVINHSQLFGSSYKENSNNVMLRHLKNPKTFSTPVDQWQFPLNPEIFKMTIYAFMRALKITGQEIPLDGTMHPIHVAGYGWPEKSTTFFPKWALEEIKKTDVKKLAPNYAEILSTTDEAFRMNTLLTGGQYVIRYADDPNPITYHCMLAVIFKQLCSKPEQDLTSEYYQVMEKKSPKDIVVMGNYLVDFIIADVKNNQDCNEQTFKTIAKTAALMCFHFNIHRADRFLLSLIMHPSTDEDAQICIQIANEFLLTPKFQERIKWFYENDVPRKEKDPYEYIKAIVKYHDAFPEFEACQLVPKNDDTGTNVHMPTYYGCLIERLLPILDQYVYVALEQQGYKMSNALLQLVSMFYRYHPMPIHFMYSVLFVSHGKMAGPDAKSFVSAFASQIEECHLTEEFEKYNHQKSSCEELIMELLDRMAASLDFVLTPPTFVAKDWRTAEMSPGAQALYLACIELMASPHSPEKLVNAMINVMQMRPHLRPFNVFNLIALLLTALPSTYADALHEEFIGVFKNGETANLKFEEIVFDNYDSSLLLHLPNRARSINMIAQIYWTQCNMALLNPFANDQVPKLLEHVKTEKDLWYTLRLVMPIIRRFWDSWDFAKTMRALRERFGPLVIMKLIIEKLGSMAESGVEIVHEAPFCDLFYNCKYVFVGDFLRETAITEFAKLPEAMRERLKYYVSQNEPAPPETPEREKTPERKDQQKEQQEQQHQQHHQNPQLHHEAQHHPHHPHQQPSMPPPQLIPQHHLQHHQQQLHHQQQQQQHLSQMMPPPQQPLQHLPHHQMDMAPPTPAPMHHQQHQMAMHQQMYPGQMFHHPQGGHMGYGMQHHMQQPHPHHPQMQGQMPSQMQHMVRMHNMTPQQQQQYAYMMQQQQHHYMQQQQHQQHHHM
Length1589
PositionTail
OrganismCaenorhabditis briggsae
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.10
Grand average of hydropathy-0.461
Instability index50.49
Isoelectric point6.81
Molecular weight184981.64
Publications
PubMed=14624247

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 (By similarity). 
GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central
transcription regulator complex	GO:0005667	IBA:GO_Central

GO - Biological Function
GO - Biological Process
positive regulation of gene expression	GO:0010628	IBA:GO_Central
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31593
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     252.15|      45|     168|    1374|    1418|       1
---------------------------------------------------------------------------
 1374- 1418 (86.21/37.76)	MRERLKYYVSQNEPAPP....ETPEREK........TPERKDQQKEQQEQ.....QHQQHHQ
 1422- 1460 (79.32/34.14)	LHHE.....AQHHPHHP....HQQPSMP........PPQLIPQHHLQHHQ.....Q.QLHHQ
 1461- 1485 (46.09/16.64)	..QQQQQHLSQMMP.PP.........................QQ.P...L.....QHLPHHQ
 1531- 1576 (40.54/13.72)	MQ........QPHPHHPqmqgQMPSQMQhmvrmhnmTP....QQQQQ...yaymmQQQQHH.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     194.22|      65|     161|      20|      90|       2
---------------------------------------------------------------------------
   20-   90 (93.12/85.74)	FSPQFVQEVNRVKSQIKSLIENNttLRFFKPLTSnLGDVtaiLRISFN..NMMSKMEEK..EKQSLVKELIKLVH
  184-  252 (101.10/72.47)	LSPEKVNELRRVEDVLLKIVDRD..LNLMPPLIT.LSEV...MRGTPKqaHMFPRLTEKlaNLSSHFRPIADLTH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.10|      21|     161|     743|     773|       3
---------------------------------------------------------------------------
  743-  763 (38.61/41.50)	NPEIFKMTIYAF.MRALKITGQ
  809-  830 (32.50/12.57)	YAEILSTTDEAFrMNTLLTGGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     303.10|      97|     347|     277|     383|       7
---------------------------------------------------------------------------
  277-  383 (146.38/112.42)	DFGMNAQSPyTQSHHM...LPYRPQH.....KAASCLYTFYMILRQPLGKDSlnPTNRNKTKSHWEPLLSVMIVEAMAETeaLPEGKQI..PRYQwDNiTNLVMygMSHlLVNPKNF
  625-  731 (156.72/86.79)	DIATNNQAK.DQCHFLfdfLAYRLPHvhsygKYTSTTGSLLLYFTASVAPNT..PQNHQVYRLLEQALLRRMYWRTFHES..VINHSQLfgSSYK.EN.SNNVM..LRH.LKNPKTF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.56|      42|      51|     515|     565|       8
---------------------------------------------------------------------------
  515-  561 (57.91/59.00)	QIVPAMsEALNTPPDPSQPTFDlSYQRkaVNQFDAFP...KEfLDALTSR
  569-  613 (63.64/34.65)	QILSVF.RSFGTDKLPSPAAFE.TLAR..ICQSEDYEmavKD.LESLASR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.32|      33|      62|    1259|    1291|       9
---------------------------------------------------------------------------
 1259- 1291 (58.45/36.92)	MALLNPFANDQVPKL.LE.............HVKTEKDLWYTLRLVM
 1308- 1354 (47.87/28.83)	RALRERFGPLVIMKLiIEklgsmaesgveivHEAPFCDLFYNCKYVF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.48|      11|      63|    1513|    1523|      10
---------------------------------------------------------------------------
 1513- 1523 (25.96/13.44)	QMFHHPQGGHM
 1579- 1589 (24.52/12.23)	QQQQHQQHHHM
---------------------------------------------------------------------------




































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 MDP31593 with Med23 domain of Kingdom Metazoa
Unable to open file!