<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 MDP08796

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHPSHQTNGASLEDCHTNFFALTSLCGIKWRKLVWGEVAGGFGGTPLEDPVLSSFSRCLAGDILCVWRRVAATPALWIFWYGEEPDLSGLVSPELIACESEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRMDSQLLEEWKHFYPISTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDTPPETPLSPPSSPVTCERPLLTQQELSAATELPERVWAECTLSSPVSASKTESSTEPGTWTFVEPTQKSSCTCSCSNKHLIFDYILRQLNNVSNICHHIGFCHYCIDAFARKRDVKCIGCRYTTPGGWKSLASSQVQRERVDKGGRRVVPFHRRSTTQWDACPSVPANAPRSVLSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPSVPGPVLKRPILVSREYEGALLEDEQPLSWLYDYSLQEAWLNHPVKRFKSMNISAPPTNRSNVLYPPMNSQTLQSQAPKLEIKQEPVAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLVVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLSNSWVGSALFQDDDQIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLTAIACPGAKAAPEGLDTIPPNVLELLREQCLIVQSSASSLYRAARICATVKSYPTLTPTVNTLEFNDGNEVCVAALDQGKLDGVHNERAARVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVTGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAVCFWEKLSLEPFAGPRDVAYVVVAPDSDCIVSRVKSFFRELSCTYEICRLGRHTPISKQLRDGILRVGKSTVQKLAKQPMDDWFKFLGENHIGELLRLYAQVCNHRLAPYLTQVIQDRSLLDPGDSQQANKQQQQQSTTIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNTTGNTTPTSQPTSNTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILALLRAYSSAINSMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSMVKSLTGFGTAAAADIFLKSKDERNRAPYRLYAPAFVLAPLRAKSEAPESFGMPRPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILGVMSQGVQPWRLVVGRVGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCILSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLRYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length1917
PositionMiddle
OrganismTrachymyrmex cornetzi
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Trachymyrmex.
Aromaticity0.07
Grand average of hydropathy-0.382
Instability index60.09
Isoelectric point5.80
Molecular weight210224.06
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
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

>MDP08796
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     307.40|      97|     568|    1194|    1311|       1
---------------------------------------------------------------------------
 1194- 1311 (153.22/139.37)	LGRHT.PISKQLRDGILRVGKS....TVQKLAKQP..............MDDWFkflgenhigellrlyAQVCNH..RLAP.YLTQVIQdrsLLDPGDSQQANKQQQQQSTTIPVPDTMPATPDVLStkpESVEGENPRS
 1766- 1884 (154.17/98.26)	LGNHDgPGSPFPCSNTPRIATTeqaeEVGTLLQQPlalgylvstaptgrMPPWF...............WAACPHleNVCPvFLKNALH...LHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLR...YVLEGYNALS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     242.27|      49|     569|     736|     784|       3
---------------------------------------------------------------------------
  272-  300 (37.49/10.26)	................MDD..TPPETPLSPPSSPVTCERPLLTQQEL......
  481-  530 (75.24/28.58)	GSPGSPAPSP.LLTPHSEPasVPPAEPTMPTLSP.Q.PPPSHTNTALpLTPSQ
  736-  784 (86.56/34.07)	NNRGVTVLRP.EELSKMFP..TPPSLEHNPVASPCQLSDPLMDQTEL.LMPSR
  794-  824 (42.98/12.93)	PNMGSPQEEPiDDWSYVPP..PPPYDQPSPATS....................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.91|      35|     568|     332|     401|       4
---------------------------------------------------------------------------
  139-  174 (64.75/20.24)	GKW.FVQPyNGYEKHRCSSS..HLSFSFAFF.VHGESTVC
  332-  370 (55.16/74.13)	GTWtFVEP.TQKSSCTCSCSnkHLIFDYILRqLNNVSNIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.73|      10|      15|     437|     446|       5
---------------------------------------------------------------------------
  437-  446 (20.91/ 7.99)	PSVPANAPRS
  454-  463 (22.83/ 9.54)	PSTPPGGPPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.24|      31|     568|     863|     899|       6
---------------------------------------------------------------------------
  863-  898 (47.59/46.85)	ALN..IFRDhnfDSCSLCVCnaGPKVVGNIKGAD.AGVY
  903-  936 (49.64/27.69)	WVGsaLFQD...DDQIRCSC..GFSAVVNRRLAHrAGLF
---------------------------------------------------------------------------




































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 MDP08796 with Med13 domain of Kingdom Metazoa
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