<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 MDP22395

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKKFVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRQGWRELWLFWWGDDPNFADLIHHELAAEDDDLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKHEKPINKSEHLSCAFTFFLHGESNVCTSVEINQHQPIYHLTEEHLALAQQASSPFQVILSPFGLKATLTGQSFKTSDPPTQKLIEEWNQFYPISRSNKEGSSEDKPEDMDWEDDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVAPVGSSHCTAVYSGGHQVPASQREPAMSLVTLTPPTSPEETHTVDSQSAQKWVKMPSSSDAFSVDRTSHHGGKIPRRLARQVVERVWQECNINRVQNKRKFPTASNGTCEEEEVEKVGAWEFVVPSQRSYCSCSRHKSGKQRTGSTPGQTQLTGQPSQPPTKHKTGGEKPEKQQKRPQTPFHHRSLTSDETSTETEAAVAQRLAMRAQDSGRFRSADVTTLPKPPQLQGGAIGTGPSEQSNSPPPPPLSPRPSERSEESGEGIKNPSTPNSQHFYQLPPEPCLAGAKGDGEEPGGPHSLSYHFHNPHSHPGTSAFSEPPEPTVFVGSAVNLEDDSCHTPWRLFNLPRRKEAELPTPPLPGDKLRDEAAASQDLVSVTEVMSTSKMPLKVSEDRLQMYRARRNQYLSAAVTDGDHEPEEDPYAFEEGDVKFTFSTKKDKGGEREPGKKHKGEDEGTGQTDDAQHAAAHNRMASSSLMHVTDLVVSFTDLDNLFNSDEDDLTPGTRRPVNGTDERFGNKEPKTSSLDPVSCISSADLHQMFPTPPSLEQHIMGFSPMNMCNKEYNIMEPNPGMTSLDGTSTLGGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQAFVGCSMFAPLKTLPSQCLPPIKLPEDCVYRTSWTMGREMLSTVPVMGFLNKDSNIPSVGSAMDQDYTQTYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYLSGADGEDQDPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSKEAEKSFEELRLSSLERTGVERGERVPDELIVLLQDQCTNPFSPISVMEHEAASRGLSGAPAAPCQRVEERDYRNDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHHWAKQNAVDVSSLCSQDVLRVLMSLQPVLQDVIQKKRMVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPYGSQRDIGYLVVCPDSEAMLSGAKSFFRDLTAVYESCRLGQHRPISRSYPDGIVVVGGSGTKSVMDQPVSDWFHKAAGSNSDAFTKLMLYAQVCRHNLAPYLASQTLDSSLLTQPSASSSSNQTSSTQQSNSSTASQQSSSVPNSNSSSINVGSGSASASSNGLTASSGQPGSTMPSGKPNSFPPFGNMNSQGSQSGQLGQQAGTQNAATSGDNSSSQAQGPTEPPESTLEREKIGVPTDGESHAVTYPPAIIVYIVDPFSYEEADGGSGPVPTHSSVWTLGLLRCYLEMLQCLPPHIRNSISVQIVPCQYLLQQVRGEDRHIYAQHLKSLAFSVFAQCRRPLPTSTNVKSLTGFGPGLAIDNSLKSTERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVMFVGYCLSHDQRWLLATCTDLYGELLETSIINIDVPNRARRKKGSVRRLGLQKLWDWCLGLVQMTSVPWRVVIGRLGRMGHGELKDWSILLSRRNLQSLSRRLKEMCRMCGISSSDTPSILSVCLVAMEPQGSFIIMPDSVSTGSVFRRSTTLNMQTSQLNTPQDTSCTHILVFPTSASLQVASSNYTNIDTNIDILNPTTDGSDIGIFDLLDQENELDPDIINISPTTSPVHSPSPHYHHGVDGSKGQSTDRMESHEEVPNLLQQPLALGYLVSTAKAGPLPDWFWSACSQAQNQCPLFLKASLHLHVSTVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMTML
Length2149
PositionMiddle
OrganismXiphophorus maculatus (Southern platyfish) (Platypoecilus maculatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Xiphophorus.
Aromaticity0.07
Grand average of hydropathy-0.471
Instability index57.82
Isoelectric point5.58
Molecular weight236538.84
Publications
PubMed=23542700

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

>MDP22395
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     153.80|      38|      38|     537|     574|       1
---------------------------------------------------------------------------
  419-  456 (40.79/15.01)	..PSQRSycscsrHKSGK.....Q.RTGS.T..PGQT...QLTGQ.PSQPPTK
  519-  543 (34.07/11.20)	..PQLQG......GAIGT.....G...PSeQ..SNS..........PPPPPLS
  544-  574 (48.73/19.50)	PRPSERS......EESGE.....GIKNPS.T..PNSQHFYQLPPE........
 1551- 1590 (30.20/ 9.01)	GNMNSQG......SQSGQlgqqaGTQNAA.TsgDNSSSQAQ....gPTEPP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     177.22|      51|     610|    1432|    1489|       2
---------------------------------------------------------------------------
 1432- 1488 (81.26/60.39)	PVSDWFHKAAgsnSDAFTKLMLYAQVCRHNLAPYLASQTLdssLLTQPSASSSSNQT
 2051- 2101 (95.96/55.81)	PLPDWFWSAC...SQAQNQCPLFLKASLHLHVSTVQSDEL...LHSKHSHPLDSNQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.12|      18|     608|       5|      22|       3
---------------------------------------------------------------------------
    5-   22 (36.93/25.65)	FVPNGASLED..CHS..NLFCL
  618-  639 (25.20/14.75)	FVGSAVNLEDdsCHTpwRLFNL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.72|      17|      38|    1001|    1019|       4
---------------------------------------------------------------------------
  921-  937 (28.83/10.37)	LPSQCLPPIKLPEDCVY
 1001- 1017 (32.88/13.72)	LPSPATPRFSAPTPRTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.35|      30|     607|     220|     255|       5
---------------------------------------------------------------------------
  220-  255 (45.67/39.99)	QSFKTsdPPT..QKLIEewnqFYPISRSNKEGS.SEDKP
  831-  863 (54.68/30.10)	QMFPT..PPSleQHIMG....FSPMNMCNKEYNiMEPNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.67|      21|      74|     895|     917|       6
---------------------------------------------------------------------------
  895-  917 (36.53/27.14)	KDYSFVYKPELCQAFVGCSmfAP
  972-  992 (40.15/22.74)	QDYTQTYTPQTHTPFMSNS..AP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.44|      24|      27|    1490|    1513|       8
---------------------------------------------------------------------------
 1490- 1513 (40.57/20.95)	STQQSNSSTASQQSSSVPNSNSSS
 1518- 1541 (41.88/21.89)	SGSASASSNGLTASSGQPGSTMPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     112.15|      32|     450|     581|     615|       9
---------------------------------------------------------------------------
  581-  615 (58.29/42.58)	KGDGEEPGgphSLSYH...FHNPHSHPGTSAFSEPPEP
 1024- 1058 (53.85/30.05)	RGPSSVQG...SLKYEnsdLYSPASTPSTCRPLNSVEP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.10|      22|      37|    1366|    1389|      10
---------------------------------------------------------------------------
 1366- 1389 (34.33/28.11)	GSQRDIGYLVvcPDSEAML..SGAKS
 1404- 1427 (35.76/21.42)	GQHRPISRSY..PDGIVVVggSGTKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.34|      32|     450|     326|     357|      11
---------------------------------------------------------------------------
  326-  357 (58.10/31.20)	LTPPT.SPEET......HTVDSQSAQKWVKMPSSSDAFS
  793-  822 (46.91/23.63)	LTPGTrRPVN........GTDERFGNKEPK.TSSLDPVS
 1995- 2029 (39.33/18.50)	ISPTT.SPVHSpsphyhHGVDGSKGQSTDRMESHEE...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      34.93|      10|      26|    1148|    1157|      16
---------------------------------------------------------------------------
 1148- 1157 (17.09/ 9.49)	IGRGSDVSKE
 1175- 1184 (17.84/10.28)	VERGERVPDE
---------------------------------------------------------------------------




































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 MDP22395 with Med13 domain of Kingdom Metazoa
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