<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 MDP10506

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTCLGSLEECQTNVLCFTELYGLKWKRFSTPNGYTYSSDIDDDPIIRAFRECVENNLHAAWRRRRPEQEPGNVPLKADCPKELFVFWFAADEPPLLQKFVDDGLVLVSEVDPLDPTIKYETRILFYKAFHYLFERNLWRSGYVKLGKWFVRPLEDGHATNTAAPSHVHAFHANFQCLGETNVCMLVKVQRQDPILRMSKRVLALNRRLAVILGPWSIRASLLPDQPFFDYGNKKPDVGKLEEVQQLAAKQFEQWSKMFPSPEDEEPMDSSKPPKKEANDIPKFLLVEIHNQRLLCPSYLVTILASELDTIQNSSTKENRRVEDDDEEDLGLKSNSVIAQLDRKSKRLATVQATEAYIPNALRHNRKSYAGVRIASKTFEDACINPKPRPPNPSPMMIQTQEDHRWNVTDYVPKNFCYCKFCNQNSGNEANPQPSSAKDRFVFHHCKPSAPRARPSRNPYKKDLAEFAGLKNVIQDLLNEEPSTSEAKPPIHPPKRLTNRLDIDGYQNDRVQVVDQYMSTLFANDVKDVSSQDPVKPFSPVTNLKTQVPAEIEHDKYRTYSYHYHPMKRDMVNKESYHREGAQRPKGPTIKDSTSQTQTSTQIASTSSSTSQDAQKVVEEKENRHEWLGQLGHVLKKRKKTALRQNLTKKEDQAQNTIREMNGDEEIYRPGSAPDLGKVLSYRKRTKRSTSTSPVRNYDPLHVCVHVNSEQTEMFVNDEFVNDTVKEEHQKTGDKRDGPSPTPLIDEFRRTVIEDTDFDDPKTPGSKDGESHLFSSLINPDQIISPPASNERVENIALPGQTQSQISQLPAQSVVQAQNLNESLFLHTSMWNTVNVAANQVNDNLSVIYPTPPTPMQQFSPLNLASAEESAGKKIRPETPKITGKVEILNPYRHKDAVYMDLDHVFEFTHQREAFSTELEAFEGNFSKKKVKSEPSIRRFTKKTVQKRQLRPKIRVSPQFVALQREKLGLNRRIPIVEQDPQKMATLAVDLRSRNGYVKSYGLNVLHTMKMLKAMKKKELEARRPQHQLQPRQPPQPAQRPAYPAQFGPPPMLRPQFPAMPNQMNQMYGQMPPNQIGMQPHMAGQMPNQMVNMGNMPNMPGAAPQYAQNAVGGQYAQMNPNQHPGHAYMMQQQMMRQNQRYPNVNYFTNSPSPAGSMNSNPQSVQNAAQQPNSHLSAGPGPSPFGSPNNIPGSTGISAPPPNAMPGSTQNHMPGSVGPHNGMPGSVGPQNAMPGSVGPPQNTMPGSVGPSQNMPGSAQNLMPNSVGPPSARGPGSVPVGPPIIDRSIMSVEKHPALEMAKDEALGYLNNKRLRTVATGMQDTILDLFYDSVFDACPICSCNVNIRTTDLGIYIQAPAEIAIVDQINSRREQDPSYRPDFWSGLKKSSTWCGCGFSAVRYRILAAGAQCLFPDDLREAFNIHQVSKSIKHPWLAKARLHAMTDILRFMSTTYSLNRMAISTYYVGDLPDTFAKLDGHYSSTDSPYIVSKAEGEEFDLAVKTLLGLDPKGKIPLFHPWGLSIAQGVKEPKDDEYMSIIRDILPVLETSIKQIRGAELNTRGNLVEGPLTWRQFHKKAIKSGQDDETYKAEQIPQVLVAAGQDAIATNPQLVHMWEKLSMAPYDQPKDVLYLAIVPDGNVLADKCKVYLEELSSVYEKCRFGRHLKVNVKEPNCQLKDGIFKIIGTKPPSAEKSQPNLNEAELKHVAKMQTYVENAAQSVKSFLQQNDFIFERKSYFEHLVRDGLQPHYTSLASNPDSQNMPPPPAPQIVQSPSSVLSNTSGPASQGLHNPNTPSYQQSPNLSLGPHSNDPMQDSIRTPENPVTPSQHEQQNPNSEQNIDRSVAELMSEELPHLLPHIIVIYLVDPFSLGSEAVPKTFRYGNMFLVHMMESIMRGIRPERRPQFQIEVVNAQTILDYTGVAANPLREDKQVLEPVEVINREKLTAHDILRRQAFSVYSQTRILVPENARTALCQSMTRFGPAAQMTDIIDGIRNRKEEIYFKLACQPYVLAPKHSIGFQNSANKFCLINPEERVLFVSYCLVGDDILIASCTDQYGHLHDTTLINLHNNPQPGFRLKQRLISLGIQRLWLFIQSVLVMDTKNWRVVICKVGKIGHGEFRAWSHVLSKKSLRNYNSNFRVRGEKDVTMTMPTCRACAVSKDSSEGPVIMSACLISMESEPFLRIFPAFSQLSEQKSRSNSKNNNLLTLLEDTAITHIITFPTSPDISTDPQAGQQQDDNDPFNFGIDGIENDDEGLTEGLIADMEIGEEQELTIDHQPMATGYMVSTAPATELPDWFWNTCPNAKRHLPVHLRTALHINSSNLQEDIMNYGQKSGGNETSHPLDESATDAILRYVMQMHNSLSWLNVDLGSGARISCLPVHIQCLFRLYNNVEQCILN
Length2394
PositionMiddle
OrganismBursaphelenchus xylophilus (Pinewood nematode worm) (Aphelenchoides xylophilus)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Tylenchina> Tylenchomorpha> Aphelenchoidea> Aphelenchoididae> Bursaphelenchus.
Aromaticity0.07
Grand average of hydropathy-0.587
Instability index53.32
Isoelectric point7.17
Molecular weight269241.28
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

>MDP10506
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     381.91|      40|      40|    1199|    1238|       1
---------------------------------------------------------------------------
 1034- 1063 (45.82/13.83)	.....P.............P.....Q.PAQRPA..............YPAQF.GP.....PPMLRPQfPAMPNQ
 1064- 1102 (56.12/18.48)	MN...Q.........mygqM.....P.PNQI..GM.........QPHMAGQM..P.N.QMV.NMGNM.PNMPGA
 1103- 1163 (44.42/13.20)	.A...PqyaqnavggqyaqM.....N.PNQHPGHAymmqqqmmrQNQRYPNV.NYFT.NSPSPAGSM.NSNPQS
 1164- 1193 (42.71/12.43)	V...................qnaaqQ.PNS................HL..SA.GP...G.PSPFGSP.NNIPGS
 1194- 1235 (70.78/25.08)	TGisaP....................pPNAMPGST.........QNHMPGSV.GPHN.GMPGSVGPQ.NAMPGS
 1251- 1275 (42.88/12.50)	............................QNMPGSA.........QNLMPNSV.GP.....PSARG......PGS
 1761- 1800 (35.08/ 8.99)	.....P...........paP.....Q.IVQSPSSV.......lsNTSGPASQ.GLHNpNTPSYQQSP.NL...S
 1801- 1832 (44.11/13.06)	LG...P.............H........SNDP...............MQDSIrTPEN.PVTPSQHEQ.QN.PNS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.95|      26|      49|     431|     463|       2
---------------------------------------------------------------------------
  431-  463 (43.07/34.91)	NPQPSSAKdrfvfhhCKP..SAPRARPSR...NPYKKD
  479-  509 (38.88/17.72)	NEEPSTSE.......AKPpiHPPKRLTNRldiDGYQND
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     108.16|      33|      49|    1619|    1667|       3
---------------------------------------------------------------------------
 1619- 1652 (53.56/51.80)	PYDQPKDVLYlAIVPDGNVLADKCKVYLE..ELSSV
 1669- 1703 (54.59/22.35)	PNCQLKDGIF.KIIGTKPPSAEKSQPNLNeaELKHV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.71|      20|     645|     860|     892|       4
---------------------------------------------------------------------------
  869-  890 (30.00/39.48)	ESAGKKIRPE.TPKItgKVEILN
 1887- 1907 (32.71/ 7.97)	ESIMRGIRPErRPQF..QIEVVN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      26.76|       9|      16|     928|     938|       5
---------------------------------------------------------------------------
  928-  938 (10.62/12.17)	KKKVKsePSIR
  947-  955 (16.14/ 9.27)	KRQLR..PKIR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.13|      26|     177|     553|     609|       6
---------------------------------------------------------------------------
  584-  609 (43.49/73.51)	RPKGPTIKDSTSQTQTS....TQIASTSSS
  760-  789 (40.64/ 9.41)	DPKTPGSKDGESHLFSSlinpDQIISPPAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     240.10|      75|     500|    1434|    1510|      14
---------------------------------------------------------------------------
 1434- 1510 (119.01/82.38)	KARLHAMtDILRFMS.TTYSLNRMAISTYYVGDLPDTFAKLDGHYSSTD.SPYIVSKAEGEEFDLAVKTLLgLDPKGKI
 1937- 2013 (121.09/75.09)	REKLTAH.DILRRQAfSVYSQTRILVPENARTALCQSMTRFGPAAQMTDiIDGIRNRKEEIYFKLACQPYV.LAPKHSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.91|      22|      44|     619|     640|      17
---------------------------------------------------------------------------
  619-  640 (39.88/26.45)	EEKENRHEWLGQLGHVL..KKRKK
  664-  687 (34.03/21.34)	DEEIYRPGSAPDLGKVLsyRKRTK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.23|      15|      16|    1567|    1581|      18
---------------------------------------------------------------------------
 1567- 1581 (28.16/18.44)	TWR..QFHKKAIKSGQD
 1584- 1600 (21.07/11.82)	TYKaeQIPQVLVAAGQD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.81|      23|     133|     246|     268|      23
---------------------------------------------------------------------------
  246-  268 (44.02/23.22)	QLAAKQFEQWS.KMFPSPEDEEPM
  373-  396 (40.79/20.90)	RIASKTFEDACiNPKPRPPNPSPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.58|      13|      15|     894|     907|      29
---------------------------------------------------------------------------
  894-  907 (19.38/17.06)	H.KDAVYMDLDhVFE
  910-  923 (18.20/ 9.56)	HqREAFSTELE.AFE
---------------------------------------------------------------------------




































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 MDP10506 with Med13 domain of Kingdom Metazoa
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