<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 MDP08751

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHPSHQTNGASLEDCHTNFFALSAPNFRATRRTRDNLAWRTGARDPPKVATAAAAVVVVVVVVVVVVVVVVVVAVVVVVVVVVVVVVVVVVVVVAAAGGIPRPRTSLCGIKWRKLVWGEVAGGFGGTPLEDPVLSSFSRCLAGDILCVWRRVAATPATSGPAAAATATSAPGAGIFDLGIAPSPAPPPLSLTAAKELWIFWYGEEPDLSGLVSPELIACESEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRMDSQLLEEWKHFYPISTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDMPSETPLSPPSSPVTCERPLLTQQELSAATELPERVWAECTLSSPVSTSKTESSTEPGTWTFVEPTQKSSCTCSCSKYTTPGGWKSLASSQVQRERVDKGGRRVVPFHRRSTTQWDACPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPSVPGPVLKRPILISREYEGALLEDEQPLSWLYDYSLQEAWLNHPVKRFKSMNISAPPTNRSNVLYPPMNSQTLQSQAPKLEIKQEPVAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLVVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLSNSWVGSALFQDDDQIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLTAVACPGAKAAPEGLDTIPPNVLELLREQCLIVQSSASSLYRAARICATVKSYPTLTPTVNTLEFNDGNEVCVAALDQGKLDGAHNERAARVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVTGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAVCFWEKLSLEPFAGHRDVAYVVVAPDSDCIVSRVKSFFRELSCTYEICRLGRHTPISKQLRDGILRVGKSTVQKLAKQPMDDWFKFLGENHIGELLRLYAQVCNHRLAPYLTQVIQDRSLLDPGDSQQANKQQQQQSTIIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNITGNTTPTSQPTSNTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILALLRAYSSAINSMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADIFLKSKDERNRAPYRLYAPAFVLAPLRAKSEAPESFGMPRPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILSVMSQGVQPWRLVVGRIGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLRYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length1994
PositionMiddle
OrganismAtta colombica
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Atta.
Aromaticity0.06
Grand average of hydropathy-0.293
Instability index58.25
Isoelectric point5.83
Molecular weight216969.11
Publications









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
integral component of membrane	GO:0016021	IEA:UniProtKB-KW
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

>MDP08751
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.27|      18|      18|     539|     556|       1
---------------------------------------------------------------------------
  501-  518 (29.55/12.26)	PFHRRSTTQWDACPSVPA
  539-  556 (36.59/17.44)	PSYSRGPPTGGDCLPVPS
  560-  572 (23.12/ 7.53)	P....GSPAPSPLL.TPH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.88|      18|      18|      57|      74|       2
---------------------------------------------------------------------------
   57-   74 (31.44/23.01)	VVVVVVVVVVVVVVVVVV
   76-   93 (31.44/23.01)	VVVVVVVVVVVVVVVVVV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.34|      22|      23|     440|     462|       3
---------------------------------------------------------------------------
  440-  462 (37.19/24.03)	PVSTSkTESSTEPGTWTFVEPTQ
  465-  486 (41.16/22.67)	SCTCS.CSKYTTPGGWKSLASSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|    1055.47|     344|     370|    1036|    1404|       4
---------------------------------------------------------------------------
 1036- 1404 (535.09/324.70)	TAVACPGAKAAP....EGLD..TI.PPNVLELLREQCLIVQSSASSLYRAArICATVKSYPTltpTVNTLEFN..DGNEVCVAALDQ.GKLDGAHNERaaRVNGVHRW....VFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVTGPLTWRQFHRLAGRGTDDRCEPQPIPALVVgydrdWLSlspYavCFWEKLS..LEPFAGHRDVAYVVVAPDSDcIVSRvKSFFRELSCTYEICRLGRH..TPISKQLRDGILRVGKstVQKLAKQPMDDWFKFLGENHIGELLRLYAQVCNH..RLAPYLTQVIQDRSL..LDPgDSQQanKQQQQQSTiiPVPDTMPATPDVLSTKPESVEGEN....PRSETPSSSTATNQTTTNI
 1409- 1778 (520.38/263.01)	TPTSQPTSNTTPitttTGPDeeEIePPAIVVYFVEPFSLGGTEDPDRRRLA.ILALLRAYSS...AINSMPENmrSNIHVQIISLESiMELGRARERR..KIQDEMRAlalnVFLQGRRLLNHNSTVKSLTGFGTAAAADIFLKSKDERNRAPYRLYAPAFVLAPLRAKSEAPESFGMPRPEECAVL.....YLS...Y..CLSEDQSwlLAAATDDRGEIFETATINID.IPNR.KRRKRASARRIGLQKLMDFilSVMSQGVQPWRLVVGR..IGRIGHGELKGWSWLLSRKALLKASKHLKEICGQcsLLYPSAAPCVLSACLvsLEP.DSTL..RLMADQFT..PDERFSQASVNCQLSTPQDVTCTHilvfPTSATTQSSQTAFQEQHNV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.25|      15|      18|     581|     598|       5
---------------------------------------------------------------------------
  585-  603 (21.25/16.45)	MPTlspQPPPSHTNtALPL
  604-  618 (26.00/11.01)	TPS...QGPKSISS.ACNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     222.59|      62|     109|     625|     688|       6
---------------------------------------------------------------------------
  625-  688 (103.56/64.26)	VPGPVL..KRPILISREYEGALLEDE..QP....LSWLYDYSLQEAwlNH.PVKRFKSMNISAPP.TNRSNVLY
  750-  801 (50.22/23.95)	...................GSLFTSEglQPsykdLDQIFDNSDPDT..SS.DETNLNQLQIQTPPgSNKSGGLH
  806-  857 (68.81/35.77)	VDGANKnnNRGVTVLRPEELSKMFPT..PP...........SL.....EHnPVA..SPCQLSDPL.MDQTELL.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.33|      15|      18|     197|     212|       7
---------------------------------------------------------------------------
  197-  212 (25.32/22.08)	ELwIFWYGEEPDL.SGL
  216-  231 (22.01/11.12)	EL.IACESEQGSWeSGL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.31|      11|      18|     711|     721|       8
---------------------------------------------------------------------------
  711-  721 (20.68/12.84)	AVGECIGRRTD
  727-  737 (19.63/11.78)	ATGEENGTNVD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.12|      18|      26|     894|     911|       9
---------------------------------------------------------------------------
  894-  911 (31.99/18.24)	DQPSPATSTTSSYLNKNL
  917-  934 (32.13/18.37)	DTPGPARAPESNSLVVNI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.94|      13|      18|     309|     321|      10
---------------------------------------------------------------------------
  309-  321 (23.03/14.46)	LTKTCLQRTQTSQ
  328-  340 (22.92/14.36)	LAPYGLAGTLTGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.63|      14|      25|     153|     168|      11
---------------------------------------------------------------------------
  153-  168 (19.04/12.54)	VAATPAtsGPAAAATA
  181-  194 (26.59/12.08)	IAPSPA..PPPLSLTA
---------------------------------------------------------------------------




































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 MDP08751 with Med13 domain of Kingdom Metazoa
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