<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 MDP22266

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCSVPNGASLEDCHSNLFYLADLTGIKWKMFVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRPGRRELWLFWWGDDPNFTELIHHELTAGDDGLWENGLPYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEINQHQPIYHLTEEHLTLAQQASTPFQVILSPFGLNGTLTGQSFKMSDPPTQKLIEEWNQFYPISPSAKQTVSEDKPEDMDWEDDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVTPVGSSQCTAVYSGGYQVPAMQREPAMSLVTLTPPTSPEEVHTVDSHSAQKWLKMPSSSDVFSVDRTNHHGGKVPRRLASQVVERVWQECNINRAQNKRKFSATTNCTGEEEVPEKVGAWDFVEPSQRSYCVCSRHKSVKQRAGGAQGLTQSMGQPSQPPTKHKTGGEKVDKGEKQQKRPQTPFHHRNLTSDETSMETEAAVGQRLNLRGQDGGRFRSANVTTIPKAPQLQSGRISTGPSEQVNSPQPPPLSPHPCDRGEESGEGMRNPSTPNNQHFYQPPLEPCLIGVKGGGEDAGGLVCLNQHFHSTHPHPHSGTSALTEPPEPTVYVSAAVNLEDDSSLTPWRLYNLPRRKEAEVPTPVLPIDRLRDEILPQELVSVTELMSTSKYTLKVSEERVQRYRARRNQYLSAAITDGEHEHEVDPYAFEEGDDKFVFSSKKDKSGGEREPGNKHKSEDGGAGPSDDAQGAVGHNRMASTSLIHETDLVVSINDLDNLFNSDEDDLAPGSKRLERTDEKGTKGLTSKEPKASTLDHVSCISSAELHQMYPTPPSLEQHIMGYSPMNMCSKEYGSMEPNTGMTMLDGISTLGGHFKIEVEESFCSPKPSEVKDFSFVYKPEQCQPFVGCSMFAPLKTLPSQCLPPIKTPEDCTYRPSWTMGREMLNPVPVMTFLHKDSNIPSVGSTMDQDYSQTYTPQTQAPFVSNSAPPSNSGAGILPSPATPRFAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNLKGADVGVYLSDPISEAQEPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGTDVSREVEKRFEQLRLSGVGRGDRVPDELILLLQDQCTNPFSAIVTLEHDGVKRGPSGVPVPPCVRVEERDYCSDCYMALKHGREFMDSMSGDKVDEVLVKSTCLHQWAKENTVDMSALCSQDVLRVLMSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLRDIGYLVVCPDNEALLSGAKSFFRDLTSVYESCRLGQHRPISRGYPDGIVLVGGSEAQSLADKPVSDWFLKAASGNSDAFTKLKLYAQVCRHNLAPYLASQPLDSSLLTQPCPPPTSNQPSSTQQPSSASSAASHQGSSSIPTSSSGAGSANASASLHSHSASSGQPASTLSSAKPSSFPPFGSMGSQGSQNGQLGQQAGAQNTGSSGDTSNTQTQGSTEPLESTLEREKVGVPTDGESHAVTYPPAIVLYIVDPFSYEEADGCSGQLDSSVWTLSLLRCYLEMLQSLPPHIQNSISVQIVPCQYLLQPVRGEHCHIYAQHLKSLAFSAFTQCRRPLPFSTNVKSLTGFGPGLAIDTALRSPERPERLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVAYCLSHDQRWLLATCTDLYGELLETCIINIDVPNRARRKKGSGRLLGLQKLWEWCLGLVQMTSLPWRVVIGRLGRIGHGELKDWSILLSRRSLQSLSRRLKEMCRMCGISASDTPSILSVCLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQITSSSYTNIDTNIDILNGTNDAIGIFDLLDPENELVDPDIINISPPTSPVHSPGSHYHHGGDGSKGPNTNHMPSLEEVPNLLQQPLALGYFVSTAKAGPLPDWFWSACPHAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRYVLEQYNALSWLTCDPATQDRRSCLPLHFVVLNQMYNFIKNML
Length2119
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.07
Grand average of hydropathy-0.429
Instability index53.98
Isoelectric point5.74
Molecular weight232947.74
Publications
PubMed=17554307

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

>MDP22266
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.19|      27|      28|     526|     553|       1
---------------------------------------------------------------------------
  527-  553 (52.67/18.77)	GRISTGPSEQVNS..P.QPPPLSPHPCDRG
  557-  579 (34.17/10.54)	GEGMRNPSTPNNQ..HfYQPPL..EPC...
 1983- 2011 (42.35/12.69)	GDGSKGPNTNHMPslE.EVPNLLQQPLALG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.84|      20|      22|    1461|    1480|       2
---------------------------------------------------------------------------
 1461- 1480 (36.17/17.22)	PSSTQQPSSASSAA...SHQ..GSS
 1483- 1505 (26.68/10.63)	PTSSSGAGSANASAslhSHS..ASS
 1527- 1548 (27.99/11.54)	GSQGSQNGQLGQQA...GAQntGSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.43|      25|      30|     899|     925|       3
---------------------------------------------------------------------------
  899-  925 (45.31/29.12)	PSEVkdFSFVYKPEQC..QP..FVGCSM.......FAP
  930-  958 (37.11/17.74)	PSQC..LPPIKTPEDCtyRPswTMGREM.......LNP
  960-  988 (31.00/13.56)	PV....MTFLHK.DSN..IP..SVGSTMdqdysqtYTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.79|      29|      30|    1007|    1036|       4
---------------------------------------------------------------------------
 1007- 1036 (51.44/26.00)	GILPSPATPRFAP..TPRTPRtPRTPRGPSSV
 1038- 1068 (48.35/20.68)	GSLKYENSDLYSPasTPSTCR.PLNSVEPATV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.26|      13|      22|     449|     462|       5
---------------------------------------------------------------------------
  449-  462 (21.09/13.56)	QPsQPPTKHK..TGGE
  473-  487 (20.17/ 7.87)	RP.QTPFHHRnlTSDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.25|      13|      21|    1152|    1164|       7
---------------------------------------------------------------------------
 1152- 1164 (23.05/13.87)	LDIIGRGTDVSRE
 1174- 1186 (24.20/14.98)	LSGVGRGDRVPDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.61|      16|      26|    1319|    1344|       8
---------------------------------------------------------------------------
 1209- 1224 (31.38/ 8.45)	GVKRGPSGVPVPPCVR
 1327- 1342 (30.23/10.77)	GTDESPEPLPIPTFLR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.47|      18|      28|    1102|    1119|       9
---------------------------------------------------------------------------
 1102- 1119 (34.03/22.08)	CVCNMN.....LKGADVGVYLSD
 1128- 1150 (29.44/17.97)	CSCGFSavvnrRYGNGSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.85|      15|      37|    1345|    1363|      10
---------------------------------------------------------------------------
 1345- 1363 (23.01/25.38)	GYlvvcPDNEALLSG..AKSF
 1385- 1401 (23.85/13.57)	GY....PDGIVLVGGseAQSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.10|      26|     195|    1761|    1786|      11
---------------------------------------------------------------------------
 1761- 1786 (46.20/27.19)	DLYGELLETCIINIDVPNRARRKKGS
 1952- 1977 (48.91/29.25)	DPENELVDPDIINISPPTSPVHSPGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.86|      15|      25|     828|     842|      13
---------------------------------------------------------------------------
  828-  842 (29.39/17.35)	HVSCIS.....SAELHQMYP
  850-  869 (23.47/12.25)	HIMGYSpmnmcSKEYGSMEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.57|      13|      27|     401|     413|      14
---------------------------------------------------------------------------
  401-  413 (22.96/12.86)	CTGEEEVPEKV.GA
  427-  440 (18.61/ 9.01)	CSRHKSVKQRAgGA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.77|      13|      27|    1245|    1257|      16
---------------------------------------------------------------------------
 1245- 1257 (22.03/14.77)	MDSMSGDKVDEVL
 1274- 1286 (21.73/14.45)	MSALCSQDVLRVL
---------------------------------------------------------------------------




































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 MDP22266 with Med13 domain of Kingdom Metazoa
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