<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 MDP26519

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceTSLCGIKWRKLVWGEVAGGFGGTPLEDPVLSSFSRCLAGDILMATETTKTAAAAAAAASAPGAGIFDLGIAPSPAPPPLSLNAAKELWIFWYGEEPDLSGLVSPELIACERLEMLTKCRIRGRGISTNVTSLYLERERVPSISLKLLPLLNADIETDTLAVFYQGIQIEYPDRNLSGRYVVETGRVKRLRKCPLEDNRMVYYDITGQKEQRHRDVGKRNTIKKSEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYDGFEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTRTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRVDGQLLEEWKHFYPINSSNTEAGLPPLVEVLVGGVRMRYPSCYVLVTDMDDTPPEIPLSPPSSPITCERPLLTQQELRAATELPERVWAECTLSSPISASKTESSTEPGTWTFVEPTQKSSCTCSKTLQGEATEKMRAKKRDVKYVGCRYTTPGGWKSLASSQVQRERVDKGGRRVVPFHRRSTTQWDTCPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLPTPHSEPASVPPAEPTMPTLSPQPPPSHTNTAPPLTPSQGPKSISSACNNQVHSPAPGPILKRPTLMSKDYEGALLEDDRPLSILYDYSTQEAWLNHPVKRFKSADMEPIDVRSNSLYPPMNLQTHQPQAPKLEITQEPVAVGECLGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRIDGTNKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLNDPLMDQTELVMPARPLRHLPDIYPNMGSPQEEPIDDWSPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPTRAPESNSLVVNILLGDTALNIFRDHNFDSGSLCVCNAGPKVVGNIKGADAGVYLSNSWMGTALFQDDDQIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGIAEDPAEKKKGSLAAVACPGGKPPDGLDTIPPNVLELLREQCLIVQSSASSLYRAARICATAKSYPTLTPTVNTLEFNDGNEVSLAALDQAKIDGTHNERTNRVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVAGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYALSYWEKLLLEPYAGPRDVAYVVVAPDSDCVVNKVKSFFRELSTTYEICRLGRHTPISKTLRDGILRVGKSTVQKLTKLPIDDWFKLLGENHIGELLRLYAQVCNNRLAPYLTQIIQDRSLLDPSDSQPANSKQQQQQSTIPVPDTMPATPDVLTTKPESVEGENPRSETPSSNTATNQTNTNAGNTTPTSQTTTTTPVTTTAGPDEEEIEPPAIVVYLVDPFSLGGTEDPDRRRLAIVALLRAYSSAINSMPENIRSNINVQLISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADLFLKSKDSFSNTLATIHQERNKAPYRLYAPAYVLAPLRAKSEAPESFGMPGPEECSVLYLSYCLSEDQSWLLATATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILGVMSQGVQPWRLVVGRVGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLMYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATSQSSQTAFQEQHINVLGDELFEFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGSGQSPSGSPHRPEGSPLGGDGGGSGLGNHDGPGSPFPCSNTPRVAIAEQTEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQSAPTAHPLDSQYTTDVLRYVLEGYNALSWLAMDANTKDRLSCLPVHIQALMQLYHTAAALV
Length2020
PositionMiddle
OrganismHarpegnathos saltator (Jerdon's jumping ant)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Ponerinae> Ponerini> Harpegnathos.
Aromaticity0.06
Grand average of hydropathy-0.414
Instability index56.66
Isoelectric point5.85
Molecular weight221320.61
Publications
PubMed=20798317

Function

Annotated function Component of the Mediator complex, a coactivator involved in 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

>MDP26519
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     380.99|     145|     710|     879|    1065|       1
---------------------------------------------------------------------------
  607-  678 (63.81/15.22)	MPTLSPQPPPSHtntapplTPSQGPKSISSACN...NQVHSPAPGPiLKRPTlmSKDYEGALLEDDRPLSILYDY...................................................................................................................................................................................
  744-  842 (89.44/46.80)	...........................................................................stqeawlnhpvkrfksadmepidvrsnslyppmnlqthqpqapkleitqepvavgeclgrrtdpyEFDaTGE....ENGTNVDGLRRQRDdpskPGSLFTSEGLQPS.YKDLDQIfdnsdpDTSSDETNLNQLQIqtppgSNKSGGLHE.ETRIDGTNKN...NNRGVTVL......RP
  901- 1063 (227.73/130.73)	IDDWSPPPPPYD.......QPSPATSTTSSYLNknlNSIEADTPGP.TRAPE..SNSLVVNILLGDTALNIFRDH.................................................................NFD.SGSlcvcNAGPKVVGNIKGAD....AGVYLSNSWMGTAlFQDDDQI......RCSCGFSAVVNRRL.....AHRAGLFYEdEMEITGIAEDpaeKKKGSLAAvacpggKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     249.77|      74|     218|    1674|    1759|       2
---------------------------------------------------------------------------
 1674- 1759 (120.60/111.09)	GVMSQgvQPwrLVVGR.VGRIGHGELKGWSWllsrkallKASKHLKEICG...QCSLMYPSAAPCVLSACLVSLEPDSTLRLMADQFTPD
 1897- 1974 (129.16/88.08)	GTLLQ..QP..LALGYlVSTAPTGRMPPWFW........AACPHLENVCPvflKNALHLHSPAIQQNSDDLLQQQSAPTAHPLDSQYTTD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.75|      39|     190|     363|     409|       3
---------------------------------------------------------------------------
  363-  396 (32.03/27.44)	.....................SNTEA.GLP..PLvevlvGGvrmRY.PSCYVL..VTDMDD
  534-  573 (57.97/28.34)	TCPSVPANAPRSV.......lSRTEApSTP..P......GG......PPSYSRgpPTGGDC
  851-  890 (33.76/12.89)	TPPSLEHNPVASPcqlndplmDQTEL.VMParPL..........RHlPDIY..........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     627.15|     201|     219|    1173|    1389|       4
---------------------------------------------------------------------------
 1179- 1389 (331.83/183.40)	VQKKCTTRMWEAPY..TVAGPLTWRQFHRLAGRGTDDRCEPQPIP.ALVVGYDRDwlSLSPYALSYW..EKLLLEPYAGP..RDVAYVVVAPDSDCVVNKVKSFFR.....ELSTTYEICRLGR...HTPISKTLRDGILRVgksTVQKLTKLPIDDWFKLL...GENHIGELLRLYAQVCNNRLApyltQIIQDRSLLDPSDSQPANS.KQQQQQSTIPVPDTMPAtPD
 1391- 1610 (295.33/136.28)	LTTKPESVEGENPRseTPSSNTATNQTNTNAGNTTPTSQTTTTTPvTTTAGPDEE..EIEPPAIVVYlvDPFSLGGTEDPdrRRLAIVALLRAYSSAINSMPENIRsninvQLISLESIMELGRareRRKIQDEMRALALNV...FLQGRRLLNHNSTVKSLtgfGTAAAADLFLKSKDSFSNTLA....TIHQERNKAPYRLYAPAYVlAPLRAKSEAPESFGMPG.PE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     182.30|      60|     190|     262|     333|       6
---------------------------------------------------------------------------
  262-  333 (94.46/91.80)	GKW.FVQPydgFEKHRCSSSHLsfsfaffVHGEST...VCASVDVR......QHP.AVRHLTRTCLQRTQTSQSGVKVIlaPY
  454-  524 (87.84/56.58)	GTWtFVEP...TQKSSCTCSKT.......LQGEATekmRAKKRDVKyvgcryTTPgGWKSLASSQVQRERVDKGGRRVV..PF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.47|      11|     508|      69|      79|       8
---------------------------------------------------------------------------
   69-   79 (23.26/ 9.12)	GIAPSPAPPPL
  580-  590 (24.20/ 9.86)	GSPGSPAPSPL
---------------------------------------------------------------------------




































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 MDP26519 with Med13 domain of Kingdom Metazoa
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