<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 MDP01820

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceAELTGIKWRRYNFEGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVDVIHRELHMVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFIRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIQMAQSSPSPFQVLVSPYGLNGTLTGQSYKMSDPATRKLMEEWQYFYPMVLKKKEGIKEEEELGYDNDFPVAVEVIVGGVRMVYPSAFVLISQSDIPMSQNAASTGGHINVGQQGLGSVKDPASTCGMPLTPPTSPEQALMGESGCSQSSVSHSAVQEGTVSVHSPKKSGKIAPKFHNHMVHRVWKECILNRSQSKRNQITTANLEEEVPNNTVSWDFVDPVQRVSCSCSRHKVFKQRCAAGSSRPPTINQPGFSVGTSSSSALPPPASSKHKTTERQEKGDKLQKRPLMPFHHRPSVTEELCMEQDTSGQKLGLAGMEPSLEVPSSRKYEKPLSIPARNPSKQMNMNPMDSPHSPTSPLPPTLSPQPRGQEAENLDPPAVPVNPALYGSGLELQPLPSLDDRTVLVGQRLPLMAEVSETALYCGVIQNNESLDMWRTYSVPSSDNLEFRPPDLPCERYDAKMEVSSDSTALKRLLAQPNKRFKILEEQKPVQTLNYLDPLPLLQQPGEGLGDASDPYTFEDGDIKYSFTGNKKCKLGAEKDPLKKSKSEDGIGTKEIPPTGHSTPVPEGKDAMSIFSSAPKADTRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDEDELGAVSPALRSSKLPAAGSEERPLGKDGRTTVPYPPTVADLQRMFPTPPSLEQHPAFSPVMSYKDGISSETVTTLGMMESPMVNMVPTQLAEFKMEVEDGLGSPKPEELKDFSYVHKVPSFQPFVGSSVFAPLKILPSQCLLPLKIPDACIFRPSWAVPPKIEQLPLPPAATFIRDGYNNVPSVGSLADQDYLQMNTPQMNTPVTLNSTAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATVQPIPEAHSLYVTLILSDSVLNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFIEDELDIFGKTSDIGQAAERRLMVCQSNLISQMGEGARRTQEPPMSLLLLLQNQHTQPFTSLSCLDYMASNNRQTLPCMNWSYDRLQADSNDSWVECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLDGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKSVAQKLTDELVSEWFSQPWGSEECDNHSRLKLYAQVCRHHLAPYLATLQLDSSLLLPPKYQTPPPASQTQTAPGNTGPVASNSACLSAAGAAPTGNSFNSTPGGGTSSLPAGSSSSSGSSVPQLSASSATPGVNQMAATSTPGFSGNIGSGQNTSTGANTAERSQGSTAPGGDAESGQNLPQQPQEGQEGVTERERIGIPTEPESADSNAYPPAVVIYMVDPFTYTADEESASTNFWLLSLMRCYTEMLDNLPENMRNSFILQIVPCQYMLQTMKDEQVFYIQHLKSLAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIDLPNRSRRSKLSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKEVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNLQSSQLNTPQDASCTHILVFPTSATIQVAPANYPNEDGFSPTNDDMFDLPFPDDMDNDIRILITGNLHSSPNSSPVPSPGSPSGIGVGSHYQHSRNQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRSSCLPVHFVVLTQLYNAIMNIL
Length2193
PositionMiddle
OrganismDryobates pubescens (Downy woodpecker) (Picoides pubescens)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Piciformes> Picidae> Picoides.
Aromaticity0.07
Grand average of hydropathy-0.385
Instability index58.89
Isoelectric point5.58
Molecular weight240826.97
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

>MDP01820
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.72|      26|      27|    1010|    1035|       1
---------------------------------------------------------------------------
 1010- 1035 (47.54/21.49)	GAGVLPSPATPRFSVPTPRTP.RTPRT
 1038- 1064 (41.17/17.60)	GGGTASGQGSVKYDSTDQGSPaSTPST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     135.82|      25|      28|    1575|    1599|       2
---------------------------------------------------------------------------
 1524- 1545 (28.19/12.25)	..PVASNSACLSAA.G.AAPTGNS..FN
 1546- 1570 (27.54/11.77)	STPG...GGTSSLPaGSSSSSGSSvpQL
 1575- 1599 (45.36/25.04)	ATPGVNQMAATSTP.GFSGNIGSG..QN
 1604- 1625 (34.72/17.12)	ANTAERSQGSTA.P.G..GDAESG..QN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.80|      25|      28|    1103|    1127|       3
---------------------------------------------------------------------------
 1103- 1127 (52.19/29.69)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1130- 1158 (37.60/19.45)	NEDQYrCTCGFSaiMNRKlGYNSGLFIED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.04|      18|      18|    1218|    1235|       4
---------------------------------------------------------------------------
 1218- 1235 (35.02/21.65)	SCLDYMASNNRQTLPCMN
 1237- 1254 (31.03/18.25)	SYDRLQADSNDSWVECFN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     144.92|      26|      27|     515|     540|       5
---------------------------------------------------------------------------
  507-  532 (40.78/18.97)	SIPARNPSKQMNMNPMDSPHSPTSPL
  533-  558 (45.07/21.92)	PPTLSPQPRGQEAENLDPPAVPVNPA
  809-  828 (22.15/ 6.20)	......PAAGSEERPLGKDGRTTVPY
  829-  850 (36.92/16.33)	PPTVADLQRMFPT....PPSLEQHPA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.59|      19|      23|     924|     946|       6
---------------------------------------------------------------------------
  926-  946 (32.25/20.59)	PLKILPSQC.LLPLkiPDACIF
  948-  967 (35.35/11.88)	PSWAVPPKIeQLPL..PPAATF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      53.53|      19|      23|    1674|    1696|       7
---------------------------------------------------------------------------
 1674- 1695 (25.74/25.41)	DE..ESASTNFwLLSLMRC.YteML
 1696- 1717 (27.79/18.24)	DNlpENMRNSF.ILQIVPCqY..ML
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.63|      25|      27|    1842|    1868|       8
---------------------------------------------------------------------------
 1842- 1868 (41.50/36.08)	ID...LPNRSRRSKLSarKIGLQKLWEWCI
 1871- 1898 (41.14/28.38)	VQmtsLPWRVVIGRLG..RLGHGELKDWSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.38|      26|      28|    2051|    2078|       9
---------------------------------------------------------------------------
 2051- 2078 (41.55/34.72)	GshYQHSRNQGERL...LSREAPEELKQQPL
 2081- 2109 (44.82/29.80)	G..YFVSTAKAENLpqwFWSSCPQAQNQCPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.27|      20|      23|      41|      60|      10
---------------------------------------------------------------------------
   41-   60 (39.17/22.05)	QANLLCVWRRDVKPDCKELW
   67-   86 (35.10/19.01)	EPNLVDVIHRELHMVEEGLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     102.72|      25|      28|    1960|    1984|      11
---------------------------------------------------------------------------
 1936- 1960 (38.63/19.89)	AMEPQGSFVVMP.DAV.TMGS....VFGRST
 1961- 1985 (42.25/22.51)	ALNLQSSQLNTP.QDA.SCTH....ILVFPT
 1986- 2015 (21.85/ 7.77)	SATIQVAPANYPnEDGfSPTNddmfDLPFP.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.09|      17|      22|    1353|    1369|      12
---------------------------------------------------------------------------
 1353- 1369 (32.92/20.37)	SPEPLPI.PTLLV...GYDKD
 1374- 1394 (23.18/11.65)	SPFSLPFwERLLLdpyGGHRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.25|      17|      17|     263|     279|      13
---------------------------------------------------------------------------
  263-  279 (29.57/15.53)	ISQSDIPMSQNAASTGG
  283-  299 (30.68/16.41)	VGQQGLGSVKDPASTCG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.00|      27|      27|     443|     469|      14
---------------------------------------------------------------------------
  443-  469 (48.74/25.62)	KHKTTERQEKGDKLQKRPLMPFHHRPS
  472-  498 (46.26/23.96)	EELCMEQDTSGQKLGLAGMEPSLEVPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      29.40|       9|      17|    1167|    1176|      15
---------------------------------------------------------------------------
 1167- 1176 (11.99/10.67)	SDIGQAAeRR
 1186- 1194 (17.41/10.03)	SQMGEGA.RR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     188.57|      58|    1267|     132|     191|      16
---------------------------------------------------------------------------
  132-  191 (98.89/75.42)	PVNKSeHLSCAFTFFlHGESNVCTSVEIAQHQPIYLINEEHI.QMAQSSPSPF.QVLVS.....PYG
 1402- 1466 (89.67/59.40)	PENEA.LLDGAKTFF.RDLSAVYEMCRLGQHKPICKVLRDGImRVGKSVAQKLtDELVSewfsqPWG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.33|      20|      40|     671|     691|      18
---------------------------------------------------------------------------
  671-  691 (33.64/20.25)	DPLPlLQQPGEGLGDASDPYT
  714-  733 (35.69/17.53)	DPLK.KSKSEDGIGTKEIPPT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.14|      25|      94|    2018|    2042|      20
---------------------------------------------------------------------------
 2018- 2042 (45.47/27.09)	MDNDIRILITGNLHSSPNSSPVPSP
 2115- 2139 (45.66/27.23)	LHHHISVAQTDELLPARNSQRVPHP
---------------------------------------------------------------------------




































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 MDP01820 with Med13 domain of Kingdom Metazoa
Unable to open file!