<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 MDP30931

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKKFVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRQGWRELWLFWWGDDPNFADLIHHELAAEDDDLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKHEKPINKSEHLSCAFTFFLHGESNVCTSVEINQHQPIYHLTEEHLALAQQASSPFQVILSPFGLKATLTGQSFKTSDPPTQKLIEEWNQFYPISRSNKEGSSEDKPEDMDWEDDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVAPVGSSHCTAVYSGGHQVPASQREPAMSLVTLTPPTSPEETHTVDSQSAQKWVKMPSSSDAFSVDRTSHHGGKIPRRLARQVVERVWQECNINRVQNKRKFPTASNGTCEEEEVEKVGAWEFVVPSQRSYCSCSRHKSGKQRTGSTPGQTQLTGQPSQPPTKHKTGGEKPEKQQKRPQTPFHHRSLTSDETSTETEAAVAQRLAMRAQDSGRFRSADVTTLPKPPQLQGGAIGTGPSEQSNSPPPPPLSPRPSERSEESGEGIKNPSTPNSQHFYQLPPEPCLAGAKGDGEEPGGPHSLSYHFHNPHSHPGTSAFSEPPEPTVFVGSAVNLEDDSCHTPWRLFNLPRRKEAELPTPPLPGDKLRDEAAASQDLVSVTEVMSTSKMPLKVSEDRLQMYRARRNQYLSAAVTDGDHEPEEDPYAFEEGDVKFTFSTKKDKGGEREPGKKHKVGSWTSRLPVCPSSCPDAQHAAAHNRMASSSLMHVTDLVVSFTDLDNLFNSDEDDLTPGTRRPVNGTDERFGNKEPKTSSLDPVSCISSADLHQMFPTPPSLEQHIMGFSPMNMCNKEYNIMEPNPGMTSLDGTSTLGGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQAFVGCSMFAPLKTLPSQCLPPIKLPEDCVYRTSWTMGREMLSTVPVMGFLNKDSAMDQDYTQTYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYLSGADGEDQDPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSKEAEKSFEELRLSSLERTGVERGERVPDELIVLLQDQCTNPFSPISVMEHEAASRGLSGAPAAPCQRVEERDYRNDCYMALEHGRQFMDNMSGGKVDEALVKSTCLHHWAKQNAVDVSSLCSQDVLRVLMSLQPVLQDVIQKKRMVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPYGSQRDIGYLVVCPDSEAMLSGAKSFFRDLTAVYESCRLGQHRPISRSYPDGIVVVGGSGTKSVMDQPVSDWFHKAAGSNSDAFTKLMLYAQVCRHNLGTPPYLASQTLDSSLLTQPSASSSSNQTSSTQQSNSSTASQQSSSVPNSNSSSINVGSGSASASSNGLTASSGQPGSTMPSGKPNSFPPFGNMNSQGSQSGQLGQQAGTQNAATSGDNSSSQAQGPTEPPESTLEREKIGVPTDGESHAVTYPPAIIVYIVDPFSYEEADGGSGPVPTHSSVWTLGLLRCYLEMLQCLPPHIRNSISVQIVPCQYLLQQVRGEDRHIYAQHLKSLAFSVFAQCRRPLPTSTNVKSLTGFGPGLAIDNSLKSTERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVMFVGYCLSHDQRWLLATCTDLYGELLETSIINIDVPNRARRKKGSVRRLGLQKLWDWCLGLVQMTSVPWRVVIGRLGRMGHGELKDWSILLSRRNLQSLSRRLKEMCRMCGISSSDTPSILSVCLVAMEPQGSFIIMPDSVSTGSVFRRSTTLNMQTSQLNTPQDTSCTHILVFPTSASLQVASSNYTNIDTNIDILNPTTDGSDIGIFDLLDQENELDPDIINISPTTSPVHSPSPHYHHGVDGSKGQSTDRMESHEEVPNLLQQPLALGYLVSTAKAGPLPDWFWSACSQAQNQCPLFLKASLHLHVSTVQSDELLHSKHSHPLDSNQTSDVLSRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMTML
Length2151
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-0.463
Instability index58.16
Isoelectric point5.67
Molecular weight236823.41
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

>MDP30931
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     184.08|      38|      38|     537|     574|       1
---------------------------------------------------------------------------
  419-  452 (31.66/11.50)	.........PS....QRSycscsrHKSGK.....Q.RTG.STPGQTQLTGQPSQ
  462-  503 (46.17/20.63)	EKPEKQQKRPQtpfhHRS......LTSDE.....TSTET.EAAVAQRLAMRAQD
  537-  573 (64.29/32.02)	PPPPPLSPRPS....ERS......EESGE.....GIKNP.STPNSQHFYQLPP.
  575-  614 (41.97/17.98)	...PCLAGAKG....DGE......EPGGPhslsyHFHNPhSHPGTSAFSE.PPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     845.45|     268|     607|       5|     334|       2
---------------------------------------------------------------------------
    5-  301 (421.42/307.74)	FVPNGASLED..CHS..NLFCLADLTGIKWkkfvwqgPTsaPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRQGWRELWLFWWGDDPNFADLI...HHElAAEDDDLWENGlsyECRtLLFKAIHNLL.ERCLMNRSfvRIGKWFVK.PYEKHEKP..INKSEHLSCAFTFFLHGESNVCTSVEINQ.............HQPIyHLTEEHLALAQQASSPfqviLSPFG.LKATLTGQSFKTsdPPTqkLIEEWNQFYPISRSNKEGSSEDKPEDMdwedDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVAPVGSSH
  618-  910 (424.03/241.02)	FVGSAVNLEDdsCHTpwRLFNLPRRKEAEL.......PT..PPLPGDKLRDEAAASQDLVSVTEVMSTSKMPLKVSEDRLQMYRARRNQYLSAAVtdgDHE.PEEDPYAFEEG...DVK.FTFSTKKDKGgEREPGKKH..KVGSWTSRlPVCPSSCPdaQHAAAHNRMASSSLMHVTDLVVSFTDLDNlfnsdeddltpgtRRPV.NGTDERFGNKEPKTSS....LDPVScISSADLHQMFPT..PPS..LEQHIMGFSPMNMCNKEYNIMEPNPGM....TSLDGTSTLGGHFKIEVEESFCSPKPSEIKDYSFVYKPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     124.77|      28|      39|    1481|    1508|       3
---------------------------------------------------------------------------
 1481- 1508 (46.78/20.65)	SASSSSN.QTSSTQ...QSNSSTASQQSSSVP
 1521- 1549 (41.48/17.47)	SASASSNgLTASSG...QPGSTMPSGKPNSFP
 1573- 1603 (36.51/14.49)	AATSGDN.SSSQAQgptEPPESTLEREKIGVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.55|      33|     454|     939|     971|       4
---------------------------------------------------------------------------
  939-  971 (60.58/42.10)	EDCVYRTSWTMGREMLSTVPVMGFLNKDSAMDQ
 1398- 1430 (58.97/40.74)	ESCRLGQHRPISRSYPDGIVVVGGSGTKSVMDQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.58|      27|      39|    1000|    1026|       5
---------------------------------------------------------------------------
 1000- 1026 (54.33/25.74)	LPSPA.TPRFSAPTPRT.PRT.PRTPRGPS
 1039- 1068 (39.26/16.44)	LYSPAsTPSTCRPLNSVePATvPSIPEAHS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.94|      25|     607|    1431|    1456|       8
---------------------------------------------------------------------------
 1431- 1455 (47.56/24.78)	PVSDWFHKA...AGSNSDAFTKLMLYAQ
 2052- 2079 (44.38/22.37)	PLPDWFWSAcsqAQNQCPLFLKASLHLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      98.79|      27|     240|    1881|    1907|      10
---------------------------------------------------------------------------
 1881- 1907 (47.47/27.73)	CGISSSDTPSILSVCLVAMEPQGSFII
 2122- 2148 (51.32/30.62)	CDPATQDRRSCLPIHFVVLNQMYNFIM
---------------------------------------------------------------------------




































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 MDP30931 with Med13 domain of Kingdom Metazoa
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