<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 MDP08812

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTHPSHQTNGASLEDCHTNFFALTSLCGIKWRKLVWGEVAGGFGGTPLEDPVLSSFSRCLAGDILCVWRRVAATPATSGPAAATAASAPGAGIFDLGIAPSPAPPPLSLTAAKELWIFWYGEEPDLSGLVSPELIACESEQGSWESGLSYECRSLLFKALHNLIERCLLSRDFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCASVDVRQHPAVRHLTKTCLQRTQTSQSGVKVILAPYGLAGTLTGQVSRMDSQLLEEWKHFYPISTGSNPETGLPPLVEVLVGGVRMRYPSCYVLVTDMDDTPPEIPLSPPSSPVTCERPLLTQQELSAATELPERVWAECTLSSPVSASKTESSTEPGTWTFVEPTQKSSCTCSCSKYTTPGGWKSLASSQIQRERVDKGGRRVVPFHRRSTTQWDACPSVPANAPRSILSRTEAPSTPPGGPPSYSRGPPTGGDCLPVPSVGSPGSPAPSPLLTPHSEPASVPPAEPTMPTLSPQPPPSHTNTALPLTPSQGPKSISSACNNQVHSPSVPGPVLKRPILVSREYEGALLEDEQPLSWLYDYSLQEAWLNHPVKRFKSMNISVPPTNRSNVLYPPMNSQTLQSQAPKLEIKQEPVAVGECIGRRTDPYEFDATGEENGTNVDGLRRQRDDPSKPGSLFTSEGLQPSYKDLDQIFDNSDPDTSSDETNLNQLQIQTPPGSNKSGGLHEETRVDGANKNNRGVTVLRPEELSKMFPTPPSLEHNPVASPCQLSDPLMDQTELLMPSRPLRHLPDIYPNMGSPQEEPIDDWSYVFKPAAISKMVGSSKYAPLTNLPSQSLPSITLPSHCVYRPSWQCNSASTNQADKPLPPTRPGSVQQQQQQQQQQQQQQQQQQQQQQQQQQPCPQSPAPPYRSNTLPGRPPPPPYDQPSPATSTTSSYLNKNLNSIEADTPGPARAPESNSLVVNILLGDTALNIFRDHNFDSCSLCVCNAGPKVVGNIKGADAGVYLSNSWVGSALFQDDDQIRCSCGFSAVVNRRLAHRAGLFYEDEMEITGVAEDPAEKKKGSLTAVACPGAKAAPEGLDTIPSNVLELLREQCLIVQSSASSLYRAARICATVKSYPTLTPTVNTLEFNDGNEVCVAALDQGKLDGAHNERAARVNGVHRWVFLRARGPQCSGDIVRMMRSLQPLLQDAVQKKCTTRMWEAPYTVTGPLTWRQFHRLAGRGTDDRCEPQPIPALVVGYDRDWLSLSPYAVCFWEKLSLEPFAGPRDVAYVVVAPDSDCIVSRVKSFFRELSCTYEICRLGRHTPISKQLRDGILRVGKSTVQKLAKQSMDDWFKFLGENHIGELLRLYAQVCNHRLAPYLTQVIQDRSLLDPGDSQQANKQQQQQSTTIPVPDTMPATPDVLSTKPESVEGENPRSETPSSSTATNQTTTNTGNTTPTSQPTSNTTPITTTTGPDEEEIEPPAIVVYFVEPFSLGGTEDPDRRRLAILALLRAYSAAINSMPENMRSNIHVQIISLESIMELGRARERRKIQDEMRALALNVFLQGRRLLNHNSTVKSLTGFGTAAAADIFLKSKDERNRAPYRLYAPAFVLAPLRAKSEAPESFGMPRPEECAVLYLSYCLSEDQSWLLAAATDDRGEIFETATINIDIPNRKRRKRASARRIGLQKLMDFILGVMSQGVQPWRLVVGRVGRIGHGELKGWSWLLSRKALLKASKHLKEICGQCSLLYPSAAPCVLSACLVSLEPDSTLRLMADQFTPDERFSQASVNCQLSTPQDVTCTHILVFPTSATTQSSQTAFQEQHNVPELGDDELFSALNDDMPEGMEGMGDFNDIFNVWPEPGAGGGQSPSGSPHRPEGSPHGGDGGGSGLGNHDGPGSPFPCSNTPRIATTEQAEEVGTLLQQPLALGYLVSTAPTGRMPPWFWAACPHLENVCPVFLKNALHLHSPAIQQNSDDLLQQQNAPTAHPLDSQYTTDVLRYVLEGYNALSWLALDANTKDRLSCLPVHVQALMHLYHATAALV
Length2016
PositionMiddle
OrganismTrachymyrmex septentrionalis
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Arthropoda> Hexapoda> Insecta> Pterygota> Neoptera> Endopterygota> Hymenoptera> Apocrita> Aculeata> Formicoidea> Formicidae> Myrmicinae> Trachymyrmex.
Aromaticity0.07
Grand average of hydropathy-0.419
Instability index61.88
Isoelectric point5.83
Molecular weight220123.63
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

>MDP08812
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.39|      21|      23|     351|     372|       1
---------------------------------------------------------------------------
  351-  372 (34.65/23.47)	ECTLSSPVSASKTESSTePGTW
  376-  396 (43.74/25.89)	EPTQKSSCTCSCSKYTT.PGGW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     355.57|      93|     572|    1294|    1411|       2
---------------------------------------------------------------------------
  794-  894 (70.29/20.93)	................................EEPIDDWSYVFKPAAISKMVgsSKYAPLTNlpS..QSLPSITlpshcvyrpswqcnsastnqadkplpptrpgSVQQQQQQQQQQQQQQQQQ....QQQQQQQQQPC
 1294- 1386 (155.90/59.82)	LGRHT.PISKQLRDGILRVGKS....TVQKLAKQSMDDWFKFLGENHIGELL..RLYAQVCN..H..RLAPYLT...............................QVIQDRSLLDPGDSQQANK....QQQQQSTTIPV
 1865- 1962 (129.38/62.16)	LGNHDgPGSPFPCSNTPRIATTeqaeEVGTLLQQPLALGY.LVSTAPTGRMP..PWFWAACP..HleNVCP...................................VFLKNALHLHSPAIQQNSddllQQQNAPTAHP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     764.14|     246|     401|      46|     345|       3
---------------------------------------------------------------------------
   63-  338 (402.49/199.08)	DILCVWRRVAAtPAT..SGPAAATAASAPGAGIF...DLGIAPSPAPPPLsLTAAKELWIFWYGEE..PDLSGLVSP....ELIACESEQGswESGLSYECrsllfkalHNLIER...........CLLSR.................DFVRLGKWFVQPYNGYEKHRCSSSHLSFSFAFFVHGESTVCAS....VDVRQHPAVrhlTKTCL.QRTqtsqsgvkvilAPYGLAGtlTGQVSRMDSQLLEE....................WKHFYPISTGSNPET......................GLPPlvEVLVGGVRMRYPSCYVL....VTDMDDTPPEIPLSPPSSPVTCERPLLTQQEL
  437-  772 (361.66/135.94)	APRSILSRTEA.PSTppGGPPSYSRGPPTGGDCLpvpSVGSPGSPAPSPL.LTPHSEPASVPPAEPtmPTLSPQPPPshtnTALPLTPSQG..PKSISSAC........NNQVHSpsvpgpvlkrpILVSReyegalledeqplswlyDYSLQEAWLNHPVKRFKSMNISVPPTNRSNVLYPPMNSQTLQSqapkLEIKQEPVA...VGECIgRRT...........DPYEFDA..TGEENGTNVDGLRRqrddpskpgslftseglqpsYKDLDQIFDNSDPDTssdetnlnqlqiqtppgsnksgGLHE..ETRVDGANKNNRGVTVLrpeeLSKMFPTPPSLEHNPVASPCQLSDPLMDQTEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.80|      31|     574|     943|     977|       4
---------------------------------------------------------------------------
  943-  977 (51.10/50.80)	GPAR.....APESNSLVVNILL.GDTALNifrdHNFDSCSL
 1518- 1554 (43.70/31.45)	GRARerrkiQDEMRALALNVFLqGRRLLN....HNSTVKSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.06|      24|      39|    1057|    1082|       7
---------------------------------------------------------------------------
 1057- 1082 (36.89/26.49)	SL..TAVACPGAKAAPEGLDTIpsNVLE
 1097- 1122 (37.17/19.84)	SLyrAARICATVKSYPTLTPTV..NTLE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     103.70|      22|     487|     917|     942|      12
---------------------------------------------------------------------------
  895-  912 (34.74/13.06)	P.QSPAPPYRS....NTLPGRPP
  921-  942 (35.95/23.56)	PATSTTSSYLNKNL.NSIEADTP
 1414- 1436 (33.00/11.72)	PSSSTATNQTTTNTgNTTPTSQP
---------------------------------------------------------------------------




































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 MDP08812 with Med13 domain of Kingdom Metazoa
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