<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 MDP02030

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHMVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFIRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGMKEEEELGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPMSQNAANAGGHINVGQQGLGSMKDPASTCGMPLTPPTSPEQAVMGESGCSQSTISHSAVQEGTVSVHSPKKSGKITPKFHNHMVHRVWKECILNRSQSKRNQITTANLEEEVPNNTVSWDFVDPVQRVSCSCSRHKVFKQRCAAGSSRPPTINQPGFSVGTSASSSLPPPASSKHKTTERQEKGDKLQKRPMMPFHHRPSVTEELCMEQDASGQKLGLAGMEPSLEVPSSRKYEKPLSIPARNPSKQINMNPMDSPRSPTSPLPPTLSPQPRGQEAENLDPPSVPVNPALYGSGLELQPLPSLDDRTVLVGQRVPLMAEVSETALYCGIIQNNESLDMWRTYSVPSSDDPEFRPPDLPCERYDAKMEINSDSTALKRLLAQPNKRFKILEEQKPVQTLNYLDPLPLIQQPGEGFGDASDPYTFEDGDIKYSFTGNKKCKLGSEKDPLKKNKSEDGIGTKEIPTTGHSTPVPDGKDAMSIFSSAPKTDTRQDNAAGRVGSSSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKMPAVGSEERPVGKDGRTAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGINSETVTTLGMMESPMVNMVPTQLAEFKMEVEDGLGSPKPEEIKDFSYVHKVPSFQPFVGSSMFAPLKILPSQCLLPLKIPDACIFRPSWAVPPKIEQLPLPPAATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMICQSNLISQMGEGARRTQEPPMSLLLLLQNQHTQPFTSLSCLDYMSSNNRQPLPCMNWSYDRLQADSNDSWVECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGMYIVLYANNFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWGTEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPAAASQTQTVPGNTGPVPSNSTCLSAAGAPPTGNSFNSTPSGGTTSLPAGSTSSSGSSVPQLSASSATPGVNQMTTTSTPGFSGNIGSGQNTSTAGNTAERSQGSTGPGGDIESGQNLPQQQQEGQEGVTERERIGIPTEPESADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKLSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISSADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2182
PositionMiddle
OrganismCharadrius vociferus (Killdeer) (Aegialitis vocifera)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Charadriiformes> Charadriidae> Charadrius.
Aromaticity0.07
Grand average of hydropathy-0.391
Instability index59.00
Isoelectric point5.66
Molecular weight240364.63
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

>MDP02030
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.53|      24|      27|    1565|    1588|       1
---------------------------------------------------------------------------
 1565- 1588 (45.13/23.29)	TPGVNQMTTTSTPGFSGNIGSGQN
 1591- 1614 (43.39/22.10)	TAGNTAERSQGSTGPGGDIESGQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.25|      25|      27|    1498|    1522|       2
---------------------------------------------------------------------------
 1498- 1522 (46.11/22.32)	PAAASQTQTVPGNTGPVPSNSTCLS
 1528- 1552 (45.14/21.68)	PTGNSFNSTPSGGTTSLPAGSTSSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      91.94|      26|      27|     522|     548|       3
---------------------------------------------------------------------------
  522-  540 (31.04/11.93)	..........M.D...SPRSP..TSPL....PPTLSPQP
  541-  570 (34.45/14.18)	RGQEAEN....lD...PPSVP..VNPAlygsGLELQPLP
 1043- 1080 (26.46/ 8.90)	SGQGSVKydsT.DqgsPASTPstTRPLnsvePATVQPIP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.28|      24|      32|    1101|    1132|       4
---------------------------------------------------------------------------
 1104- 1127 (48.69/33.90)	FDSCCICACNMNIK.GADVGLYIPD
 1134- 1158 (42.60/13.57)	YRCTCGFSAIMNRKlGYNSGLFIED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     130.32|      28|      32|     439|     469|       5
---------------------------------------------------------------------------
  402-  431 (36.73/12.44)	SRHKVfKQRCAAGSSRPPTINQPgFSVGTS
  442-  469 (49.89/27.45)	SKHKT.TERQEKGDKLQKRPMMP.FHHRPS
  471-  498 (43.69/16.77)	TEELC.MEQDASGQKLGLAGMEP.SLEVPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.07|      19|      20|     924|     943|       7
---------------------------------------------------------------------------
  924-  943 (31.31/17.73)	FAPLKILPSQC.LLPLKiPDA
  946-  965 (33.76/15.31)	FRPSWAVPPKIeQLPLP.PAA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     410.88|     135|     501|     161|     317|       8
---------------------------------------------------------------------------
  164-  317 (201.13/149.49)	PIYLINE.EHIHMAQSSPSPFQVLVSPYGL.NGTLtgqSYKMSDPATRKLMEEWQyfyPMVLKKKE...GMKEEEELGYDNDFPVAVEVIvggvrMVYPSAfvliSQSDiPMSQNAANAGGHINVGQ....................QGLGSMKDPASTCGMPLTppTSPEQAVmGESG
  663-  822 (209.75/111.14)	PVQTLNYlDPLPLIQQPGEGFGDASDPYTFeDGDI...KYSFTGNKKCKLGSEKD...PLKKNKSEdgiGTKEIPTTGHSTPVPDGKDAM.....SIFSSA....PKTD.TRQDNAAGRVGSSSLTQvtdlapslhdldnifdnsdeDELGAVSPALRSSKMPAV..GSEERPV.GKDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.31|      22|      31|     991|    1012|       9
---------------------------------------------------------------------------
  991- 1012 (38.80/20.48)	TPQMNTPVTLNSTAPASNSGAG
 1019- 1040 (42.51/23.26)	TPRFSVPTPRTPRTPRTPRGGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     171.63|      72|     501|    1161|    1232|      10
---------------------------------------------------------------------------
 1161- 1204 (61.07/38.31)	....................................................................................................................................................................................................................................................................................................................................................................................................................................................................DIFGKTSDIGQAAER....RLMICQSNLISQMGEGARRT...QEPPMSLLL
 1205- 1232 (28.75/13.11)	LLQNQHTQPFTSLSCLDY.MSSNNRQPLP..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1656- 1706 (56.68/34.88)	.............................cmnwsydrlqadsndswvecfnaleqgrqyvdnptggkvdealvrsatvhswphsnvldismlssqdvvrmllslqpflqdaiqkkrtgrtweniqhvqgpltwqqfhkmagrgtygmyivlyannfltispfslpfwerllldpygghrdvayivvcpenealldgaktffrdlsavyemcrlgqhkpickvlrdgimrvgktvaqkltdelvsewfnqpwgteecdnhsrlklyaqvcrhhlapylatlqldsslllppkyqtpaaasqtqtvpgntgpvpsnstclsaagapptgnsfnstpsggttslpagstsssgssvpqlsassatpgvnqmtttstpgfsgnigsgqntstagntaersqgstgpggdiesgqnlpqqqqegqegvtererigiptepesadsnayppavviymvDPFTYTADEESASTNfwllSLMRCYTEMLDNLPENMRNSfilQIVPCQYML
 1708- 1736 (25.13/10.28)	TMKDEQVFYIQHLKSLAFsVYCQCRRPLP..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.70|      25|      25|      36|      60|      11
---------------------------------------------------------------------------
   36-   60 (48.84/32.68)	FIRCLQANLLCVWRRDVKPDCKELW
   62-   86 (47.86/31.86)	FWWGDEPNLVDVIHRELHMVEEGLW
---------------------------------------------------------------------------




































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 MDP02030 with Med13 domain of Kingdom Metazoa
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