<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 MDP29643

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRFVWQGPTSAPILFPVTEEDPILCSFSRCLKADILSVWRRCQQQGRRELWLFWWGDDPNFADLIHNELAAEDDGLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGESNVCTSVEINQHQPVYHLTEEHLTLAQQASSPFQVILSPFGLNGTLTGQSFKMSDPPTQKLIEEWNQFYPISPSAKENVSEDKVEDMDWEDESLASVEVLVGGVRMVYPACLVLVPQSDIPVVTPVGSSHCTAVYSGGHQVPASQREPAMSLVTLTPPTSPEEAQTVDSHSAQKWVKMPSSSDAFSVDRTSHHGGKIPRRLASQMVERVWQECNINRAQNKRKFPAATNGTCEEEPSEKLGTWDFVESSQRSYCSCSRYKLVKQRTANNTGQAQSAGQPSQPPTKHKTGGEKPEKGDKQQKRPQTPFHHRCLASDEASIDTEATAGQRLALRSQDGARFPSIRSADVSAIQKAPQLHSGGVSTGPSEQANSPQPPPLSPHPCERSEESGEGMKNPSTPNSQHFYQPQPEACLVGVKGSSEEQGGPEALNQHFQSHQPNPHPGTSAYSEPPEPTVYVGAAINLEDDGSHAPWRLFNLPRRKEAELPTPLLPGDKLREEAAASQDNLVSVTEVMSTSKWPLKVSEERVQMYRARRNQHLAAAVTDGDHEPEVDPYAFEEGDVKFTFSNKKDKSGGEREPGKKHKGEDGGTGPSDDPQRAAPHNRVASTSLIHETDLVVSINDLDNLFNSDEDELAPGSRRPVNGTDGIFGNKEPKSSILDPVPCSDHLIQMFPTPPSLEQHIMGYSPMNMCSKEYCTMEPGTGMTTVEGPSTLGGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQPFVGCSMFAPLKTLPSQCLPPIKVPEDCIYRPSWTMGRDMLNPVPVMTYLNKDSNIPSVGSTMDQEYTPQTQTPFMINSAPPSNSGGTGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSIKYENSDLCSPAASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSETVMNLFKDCNFDSCCICECNMNIKGADAGVYLSDPVSEAQKQCGCGFSAVVNRRYGNGSGLFLEDELDIIGRGTDISREAEKRFEELRLSSLERNGVGRSDHISDELILLMQDQCTNPFSPISVLEHDAVTRGPGGAPIPPCVRVEERDYRSDCYMAMEHGRQFMDNMSGGKVDEALVKSTCLHNWAKQNAVDVSALCSQDVLRVLMSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDIGYLVVCPDNEALLSGAKTFFRDLTAVYESCRLGQHRPISKGYADGIVLVGGSGAKTPVDQPVSDWFLKAASSNSDTFAKLKLYAQVCRHNLAPYLASQALDSSLLTQPSPTPSSNQSSSTQLSNSTSSTASQQGSVNAAGSTVPSNSGPGNSSASSNNLVTSSGQTGSTIPAKPGSFPPFGSIGSQGQGGGPQSGQLGQQAGTQNTGVSGDNSSSQAQGPTEPPESTLEREKVGVPTDGESHAVTYPPAIVVYIVDPFSYEEADRGAGPVPAQSSVWTLGLLRCYLEMLQSLPPHIRNSVSVQIIPCQYLLQPVRGEDRHIYSQHLKSLAFSVFAQCRRPLPTSTNVKSLTGFGPGLAIDTALKSPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIINIDVPHRARRKKGSVRRLGLQKLWDWCLGLVQMTSLPWRVVIGRLGRIGHGELKDWSILLNRRNLQSLSRRLKDMCRMCGISASDTPSILSVCLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAIVQVASSNYTNIDTNIDILNPTTDGSDAIGILALLDQENDLVDPDIINISPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHEEVPNLLQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMNML
Length2162
PositionMiddle
OrganismOreochromis niloticus (Nile tilapia) (Tilapia nilotica)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Cichlomorphae> Cichliformes> Cichlidae> African cichlids> Pseudocrenilabrinae> Oreochromini> Oreochromis.
Aromaticity0.07
Grand average of hydropathy-0.435
Instability index56.96
Isoelectric point5.57
Molecular weight236844.64
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

>MDP29643
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     187.50|      32|      32|     529|     560|       1
---------------------------------------------------------------------------
  529-  560 (59.22/29.97)	SGGV....STGPSEQANSPQPPPLSPHPCERS..........EESG
  563-  594 (57.02/28.52)	MKNP....STPNSQHFYQPQPEACLVGVKGSS..........EEQG
  605-  637 (36.68/15.07)	SHQP....NPHPGTSAYSEPPEP.........tvyvgaainlEDDG
  638-  668 (34.58/13.68)	SHAPwrlfNLPRRKEA..ELPTPLLPGDKLRE..........E...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.24|      20|      26|    1505|    1527|       2
---------------------------------------------------------------------------
 1486- 1507 (29.45/10.82)	SPTPSSNQSSSTQLSNS..tsSTA
 1508- 1531 (29.79/16.88)	SQQGSVNAAGSTVPSNSgpgnSSA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.04|      24|      32|    1091|    1118|       3
---------------------------------------------------------------------------
 1091- 1118 (38.39/34.42)	KDCnfdSCCICECnMNIK.GADAGVYLSD
 1125- 1149 (40.65/22.78)	KQC...GCGFSAV.VNRRyGNGSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     161.33|      30|      32|     996|    1025|       4
---------------------------------------------------------------------------
  929-  970 (34.14/13.46)	LPSQCLPPIKVPEDCIYR.PswtmgrdmlnpvPvMTYLNKDSN
  971- 1005 (42.51/18.92)	IPSVGSTMDQEYTPQT.QTP......fminsaP.PSNSGGTGI
 1006- 1040 (45.92/21.13)	LPSPATPRFSAPTPRTPRTP.......rtprgP.SSVQGSIKY
 1041- 1066 (38.76/16.47)	ENSD....LCSPAASTPSTC............R.PLNSVEPAT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     103.60|      29|      37|      21|      57|       5
---------------------------------------------------------------------------
   21-   52 (47.25/36.61)	CL.ADLTGIkWKRFVWQGPTSAPILFpvTEEDP
   60-   89 (56.35/23.33)	CLkADILSV.WRRCQQQGRRELWLFW..WGDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.91|      20|      37|    1372|    1395|       6
---------------------------------------------------------------------------
 1372- 1395 (32.74/30.27)	GSQRDI..GYlvvcPDNEALL..SGAKT
 1410- 1433 (29.17/16.33)	GQHRPIskGY....ADGIVLVggSGAKT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.46|      11|      32|    1173|    1183|       7
---------------------------------------------------------------------------
 1173- 1183 (18.88/11.76)	LSSLERNGVGR
 1206- 1216 (18.59/11.46)	ISVLEHDAVTR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.92|      10|      42|     714|     723|       8
---------------------------------------------------------------------------
  714-  723 (20.76/ 8.46)	DGDHEPEVDP
  756-  765 (20.15/ 7.98)	DGGTGPSDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.10|      12|      33|     152|     163|       9
---------------------------------------------------------------------------
  152-  163 (22.43/12.64)	KPINK..SEHLSCA
  184-  197 (17.67/ 8.35)	QPVYHltEEHLTLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.09|      30|      34|     289|     322|      10
---------------------------------------------------------------------------
  291-  322 (49.72/29.76)	IPVVTPVGSSHCTAVYSGGHQ....VPASQrePAMS
  324-  357 (46.37/17.78)	VTLTPPTSPEEAQTVDSHSAQkwvkMPSSS..DAFS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.65|      29|      38|     769|     799|      11
---------------------------------------------------------------------------
  769-  799 (45.63/34.57)	APHNR..VASTSLI.HETDLVVSIndLDNLFNSD
  804-  835 (45.02/27.22)	APGSRrpVNGTDGIfGNKEPKSSI..LDPVPCSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      89.64|      22|      38|    1252|    1273|      12
---------------------------------------------------------------------------
 1219- 1247 (18.90/ 7.83)	..GGapippcvRV.EERDYRSDCYMAMehGRQ
 1252- 1273 (39.24/24.83)	MSGG.......KV.DEALVKSTCLHNW..AKQ
 1291- 1313 (31.51/18.37)	MSLQ.......PVlQDAIQKKRTVRSW..GVQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.58|      32|      44|    1541|    1573|      13
---------------------------------------------------------------------------
 1541- 1573 (55.54/29.50)	GQTG..STIPAKPGSFPPFGSIGSQgQGGGPQSGQ
 1584- 1617 (51.04/22.77)	GVSGdnSSSQAQGPTEPPESTLERE.KVGVPTDGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.81|      31|      44|     374|     409|      14
---------------------------------------------------------------------------
  374-  409 (47.12/45.68)	SQmveRVWqeCNINRAQNKRKFPAATNGTCEE..EPSE
  420-  452 (50.69/33.08)	SQ...RSY..CSCSRYKLVKQRTANNTGQAQSagQPSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.04|      25|      40|     855|     880|      15
---------------------------------------------------------------------------
  855-  880 (44.97/27.91)	SPMNMCSKEYCTM.EPGTGMTTVeGPS
  896-  921 (43.07/22.37)	SPKPSEIKDYSFVyKPELCQPFV.GCS
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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 MDP29643 with Med13 domain of Kingdom Metazoa
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