<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 MDP22211

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRPTKDPKSPKNVKSEHLSCSFSFFLHGDSNVCTSVEINQHQPVYHLSEEHLTLAQQASSPFQVILSPFGLNGTLTGQSFKLSDPPTQKLIEEWKQFYPISTSSKESTEDKMEDIDWEDDSLAAAEVLVGGVRMVYPACMVLVPQADIPTITPVGSSHCTAVYSGGHQVPASNRDPAISSVTLTPPTSPEEAQTVDSLTAQKWMRLPSAVDGFSVDSASHHGGKIPRRMASQVVERVWQECNMNRSLNKRKFSATGSGTSEEEVMEKMGSWDFVESVQRTTCNCSRHKTLKQRVGGAQGQPVSTGQVQQQPIKHKAGEKLDKGDKQQKRPQTPFHHRSSVSDDISMEADASASQRLALRGQECGRFTGLHPAEVCTVPKPPLLHTGGGAAGGAGVPSELVGSPQPPPLSPHPCDRVEEGSETLKNLSTPHSQHFYPTPSEPCLLPQKGPDDPCADSLAHPFHPAYSEATEPTVYIGTAVCLENDGNHMPWRFFNLPRRKDLDLPTPSLPTDKLKEEGLMGVNGNVSITEVMAISKHTLKVSGERVQTYLQRRNQHLAAAIADSDLEPEVDPYAFVDGDVKFTFSDKKDKAGIEREQGRKHKGDDGGAGTLDDAQRGAAHKTASSTSLIHDSDLTVSFKDLDNLFNSDEDEQTPGARRAVNGTDDKFGSKEPKTAMLDPVSCISSADLNQIFPTPPSLEPHIMGYSPMNMGGKEYGNMEPGPGMTSLDGSSALVSQFKIEVEESFCSPKPSEIKDFSFVYKPELCQAFVGCSMFAPLKTLPSQCLPPIRLLEECVYRPSWSVGKLELLNPIPAMNFLNRDSNIPSVGSAMEQDYNQSYTPQTHTPFISNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLFVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYINDPNMEAQYPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSREAEKRFEALRSTSLEKSPGGLQDRNPDELILLLQDQCTNPFPPLVAAEPEGTASGAPGSSVVPPCVRVEERDFHNDCYLALEHGRQFMDNMSGGKVDEVLVKSTCLHHWAKCNAVDVSALCSQDVLRVLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGFEYDFVVLSPFGLPYWEKLLLEPFGSQRDMGYLVLCPENEALINGAKSFFRELTAVYESCKLGQHRPISKVHADGIVRVGGAAAKKLSEQPISDWFLKGVCSTTEAFAKLKLFAQFCRHDLAPYLATQPLDSSLLTQPSPASYTTQTLPAQSSGSASSNPQSSLASGVSSLTSNTGTGNVGQGLQGSTSSMPSSGPQNGSVQPSKPSSFPPFGGMGVQSNSSQSGALGQQAGSQSSNLSGDNSSSSSQTQGSSEPPESTMEREKVGVPTDGESHAIVYPPAIMIYIVDTFSYEDAETGVAHSSVWTLGLLRCYLEMVQFLPPHIRNSISVQIIPCQYLLQPVKSEERQLYAQHLKSLAFSVFSQCRRPLPASTNVKSLTGFGPGLALDTALRSPERPECLRMYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDMYGELLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMTSVPWRVVIGRLGRIGHGELRDWSILLSRRNLQSLSRRLKDMCRMCGISSADTPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQVNSSSYTPEDIAFNPINDGSDPIGGIFDLLEQESDLVDPDIISILPASPTTSPVHSPGSQYHHGGDGSKGQSTDRMESHDEAPNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHIHVSSVQSDELLHGKHSHPLDSSQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2015
PositionMiddle
OrganismAstyanax mexicanus (Blind cave fish) (Astyanax fasciatus mexicanus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Characiformes> Characoidei> Characidae> Astyanax.
Aromaticity0.07
Grand average of hydropathy-0.370
Instability index54.18
Isoelectric point5.61
Molecular weight219350.71
Publications
PubMed=25329095

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

>MDP22211
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     118.14|      31|      42|    1386|    1416|       1
---------------------------------------------------------------------------
 1386- 1406 (28.48/ 9.65)	............QGSTSSMPSSGPQNGSVQPSK
 1407- 1438 (47.16/21.16)	PSSFPPFGGMgvQSNSSQSGALGQQAGS.QSSN
 1452- 1480 (42.50/18.29)	GSSEPPESTM..EREKVGVPTDGESHAIVYP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     162.49|      49|     123|     378|     449|       2
---------------------------------------------------------------------------
  378-  439 (78.39/78.13)	PKPPLLHT.GGGAAGGAgvPselvGSPQPPPlsphpCDRVEEgsETLKN...LSTPHSQHFYPTPS
 1055- 1107 (84.10/37.28)	PFPPLVAAePEGTASGA..P....GSSVVPP.....CVRVEE..RDFHNdcyLALEHGRQFMDNMS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     393.30|     117|     124|     687|     810|       3
---------------------------------------------------------------------------
  687-  766 (108.49/72.48)	..........................................................................LNQIFPTPPS.LE...PHIMGYSPMNMgGKEYGNMEPGPGM...TSLD..GSSALVSQfkiEVEESFCSPKPSEIKDFSFVYKPELCQA
  767-  890 (171.46/115.16)	FVGCSMFAPLKTlPSQClPPIRLLEECVYrPSWSVGKLELLNPI.......................pamnflnRDSNIPSVGSaME..qDYNQSYTPQTH.TPFISNSAP.P......SNS..GTGILPS....PATPRFSAPTPRTPRTPRTPRGPSSVQG
  894- 1021 (113.35/65.02)	YENSDLYSPAST.PSTC.RPLNSVEPATV.PSIPEAHSLFVTLIlsesvmnlfkdcnfdsccicvcnmnikgadVG.VYINDPN.MEaqyPCSCGFSAVV..NRRYGN...GSGLfleDELDiiGRGSDVSR...EAEKRF......................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.06|      15|     124|      28|      43|       4
---------------------------------------------------------------------------
   28-   43 (26.06/19.82)	GDSNvCTSVEINQHQ.P
  155-  170 (27.00/15.51)	GSSH.CTAVYSGGHQvP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.75|      40|     620|    1292|    1334|       5
---------------------------------------------------------------------------
 1292- 1334 (66.38/48.05)	PISDWFLkGVCSttEAFAKLKLFAQFCRH.........DLAPYLATQPLDSS
 1917- 1965 (70.37/40.98)	PLPDWFW.SACP..QAQNQCPLFLKASLHihvssvqsdELLHGKHSHPLDSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     186.38|      57|    1345|     449|     508|       7
---------------------------------------------------------------------------
  449-  508 (94.63/66.38)	PDD.PCADSLAHPfHPAYSEATEPTvYIGTAVCLE..NDGNHMPWRFFNLpRRKDLDLPTPSL
 1796- 1855 (91.75/51.69)	PQDtSCTHILVFP.TSAFVQVNSSS.YTPEDIAFNpiNDGSDPIGGIFDL.LEQESDLVDPDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     180.45|      57|     420|    1161|    1264|       8
---------------------------------------------------------------------------
 1203- 1264 (91.93/137.66)	EYDfVVLSPFGLPYWEKLLLepfGSQRDM.GYLV.LCPENEALINGA...KSFFRE..LTAVYESCkLG
 1630- 1693 (88.53/39.94)	KYN.VLFVGYCLSHDQRWLL...ATCTDMyGELLeTCIINIDVPNRArrkKGSARRlgLQKLWEWC.LG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     155.50|      50|     620|     526|     577|       9
---------------------------------------------------------------------------
  526-  577 (81.33/53.55)	SITEVM..AI.SKHTLKVSGerVQTYLQRRNQHLAAAIA..DSDLEPEVDPY.AFVDG
 1146- 1201 (74.18/42.99)	SLQPVLqdAIqKKRTVRSWG..VQGPLTWQQFHKMAGRGsyGTDESPEPLPIpTFLVG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.60|      11|     984|     293|     303|      10
---------------------------------------------------------------------------
  293-  303 (21.58/12.33)	RVGGAQGQPVS
 1279- 1289 (18.02/ 8.95)	RVGGAAAKKLS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.61|      21|     849|     222|     242|      14
---------------------------------------------------------------------------
  222-  242 (39.14/25.38)	GGKIPRRMASQVVERVWQECN
 1108- 1128 (39.47/25.66)	GGKVDEVLVKSTCLHHWAKCN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.24|      43|     516|    1341|    1385|      18
---------------------------------------------------------------------------
 1341- 1385 (69.07/41.69)	PASYTTQtlPAQSSGSA.SSNPQSSLASGVSSLTSNTGTGNV.GQGL
 1860- 1904 (72.17/38.49)	PASPTTS..PVHSPGSQyHHGGDGSKGQSTDRMESHDEAPNIlQQPL
---------------------------------------------------------------------------




































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 MDP22211 with Med13 domain of Kingdom Metazoa
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