<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 MDP29031

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSYVPNGASLEDCHSNLFCLADLTGIKWKRFVWQGPTSAPMLFPVTEEDPILCSFSRCLKADVLCVWRRSQRQGRRELWMFWWGDDPNFADLIHHELAAEDDGLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGDSNVCTSVEVNQHQPVYHLTEEHLTLAQQSSSPFQVILSPFGLNGTLTGQSFKMSDPPTQKLIEEWNQFYPISSKAKEGVSEDKLEDMDWEDDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVAPVGSSQCTTVYSSGHQVPASQREPAMSLVTLTPPTSPEEVQTLDSHSAQKWVKMPSTSDLFSVDRPSHHGGKIPQRLASQMVERVWQECNTNRAQNKRKFSAAATGTCEEDLKEKIGSWNFVEHSRRPYCSCCRYKSLKQRVSSTPGQAQTTGQLSQPPSKHKTGEGKADKVDKQQKRPHTPFHHRSLTSDDSSIETETTAGQNLTMRAQDGARFTGIRSSDMSSIQKAPQLHTGVVNTGPSEQTNSPQPPPLSPHPSERNDESGEVTKNLSSPNSQHFYQPPPEPCLVGVKTVGSSEEHGGSDSLNQHFQSHHLNPGISSFSEPPEPTIYVGTGLNLEDDSLHMPWRLFKLPHRKEANLPTPLLPGDKLREEASGFHDSLLTATEVMSTSKRHLKVSDERIQMYLARRNQYLCAVLTDGGHEPEVDPYAFEEGDVKFTFSNKKDKTGGEREPGKKHKAEDGGLGPSDDAQRGAAHNRMASTSLIHETDLVVSINDLDNLFNSDEDDLAPGLKRPVNGTDDKFSGKEPKPSSLDSVPCDLHQMFPTPPSLEQHIMGYSPMNMCSKEYGSMEANSGMTSLDGTSSLGGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQAFVGCSMFAPLKTLPSQCLAPIKIPDDCIYKPSWTMGRELLNPMSVMTFLNKDSNIPSVGSTMDQDYNQTYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADMGVYLSDPVGEAQEPCSCGFSSVVNRRYGNGCGLFLEDELDIIGRGSDISREAEKRFEELRLSSLERAGVGRSEHVPDEIILLLQDQCTNPFSPILTLEQDIVARGANGAPVSPCVRVEERDYCSDCYMALEHGRQFMDNMSGGKVDEALVKSSCLHKWTKQNAVDVSALCSQDVLHVLLSLQPLLQDAIQKKKTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDIGYMVVCPDNEALLSNAKSFFRDLTAVYESCRLGQHRPISKGYPDGIVLVGGSDAKTLVDQPVSDWFLKAASSNGDAFTRLKLYAQVCRHNLAPYLASQPLDSSLLSQPFPSPTQSSSTQTSSSTSSQQGPGNTGGSSISSSSISGSVNGSTSSSSLMTSAGQPSSGMPSSKPTSFPPFGSMSTQAQGGAPQSGQLGQQASAHNTGSSGESSSSHALGPTEPPESTLEREKIGIPTDGESHAITYPPAIVVYIVDPFSYDEANGATGPVPTHSSVWTLGLLRCYLEMLQFLPPHIRNIISVQIVPCQYLLQPVRGEDRHIYAQHLKSFAFSVYAQCRRPLPTTTNVKSLTGFGPGLAIDTALRVPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIINIDVPNRARRKKGSVRRLGLQKLWDWCLGLVQMTSVPWRIVIGRLGRIGHGELKDWSILLSRRNLQSLSRRLKEMCRMCGISSSDTPSILSVCLVAMEPQGSFFIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSAFVQVASSSYTNIDTNIDILNATTDGSDAIGIFDLLDQENDLVDPDIINISPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHEEVPNLLQQPLSLGYLVSTVKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2159
PositionMiddle
OrganismTakifugu rubripes (Japanese pufferfish) (Fugu rubripes)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Takifugu.
Aromaticity0.07
Grand average of hydropathy-0.412
Instability index55.82
Isoelectric point5.68
Molecular weight237658.97
Publications
PubMed=21551351

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

>MDP29031
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.87|      32|      32|    1015|    1046|       1
---------------------------------------------------------------------------
  984- 1015 (39.32/16.08)	..TPQT.HTPfMSNSAPPSNSGTgiLPSPATPRFS
 1016- 1047 (60.05/28.76)	APTPRTPRTP.RTPRGPASVQGS..LKYENSDLYS
 1049- 1076 (46.50/20.47)	ASTPSTCR.P.LNSVEPATVP.S..IP.EAHSLY.
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      92.21|      29|      33|     543|     573|       2
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  543-  565 (35.40/16.98)	.......................QPPP...L....SPHPSERNDESGEVTKNL
  567-  598 (17.58/ 9.83)	SPNsQHF...............yQPPPepcLvgvkTVGSSEEHGGSD......
  599-  643 (39.24/17.16)	SLN.QHFqshhlnpgissfseppEPTI...Y....VGTGLNLEDDSLHMPWRL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     143.92|      37|      37|    1476|    1512|       3
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 1476- 1512 (66.24/24.97)	LDSSLLSQP..FPSPTQSSSTQT......SSSTSSQQGPGNTGGS
 1514- 1542 (35.11/10.06)	ISSSSISGS..VNGSTSSSSLMT......SAGQPSSG........
 1544- 1583 (42.56/13.63)	....PSSKPtsFP.PFGSMSTQAqggapqSGQLGQQASAHNTGSS
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     461.90|     120|     513|    1197|    1317|       4
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 1197- 1317 (206.16/132.19)	QCTNPFSPILTLE..QDIVAR........GANGAPVSPCVRVEERDYCSDCY.....MALE.HGRQFM..DNMSGGKVDE...ALVKSSCL.H..KWTKQNAVDVSALCSqDVLHVLLSLQPLLQDAIQKKKTVRSWGVQGPLTW
 1710- 1835 (170.36/104.35)	QCRRPL.PTTTNV..KSLTGF........GP.GLAIDTALRVPERPECLRLYtppfiLAPV.KDKQTE..LGETFGEASQkynVLFVGYCLsHdqRWLLATCTDLYG....ELLETCIINIDVPNRARRKKGSVRRLGLQKLWDW
 1860- 1950 (85.39/48.06)	GELKDWSILLSRRnlQSLSRRlkemcrmcGISSSD.TPSI.......LSVCL.....VAMEpQGSFFImpDSVSTGSV......FGRSTTL.N..MQTSQLNTPQDTSCT....HIL............................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.15|      29|      37|      20|      56|       5
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   20-   51 (48.50/42.44)	CL.ADLTGIkWKRFVWQGPTSAPMLFpvTEEDP
   59-   88 (57.64/27.41)	CLkADVLCV.WRRSQRQGRRELWMFW..WGDDP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     247.55|      77|     513|     227|     366|       6
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  278-  358 (128.56/126.59)	YPA......CLVLVPQSDIPVVAPVG..SSQCTTVYSSGHQVPASQREPAMSLVTLTPPTSPEEvqtlDSHSAQKWVKMPSTSDLFSVD
  699-  783 (119.00/40.30)	YLArrnqylCAVLTDGGHEPEVDPYAfeEGDVKFTFSNKKDKTGGEREPGKKHKAEDGGLGPSD....DAQRGAAHNRMASTSLIHETD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.73|      28|      33|    1092|    1124|       7
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 1092- 1124 (43.64/39.96)	CNFDSccicVCNMNIkGADMGVYLSDP...VGEAQE
 1128- 1158 (48.09/26.90)	CGFSS....VVNRRY.GNGCGLFLEDEldiIGRGSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     122.03|      33|      33|     458|     490|       8
---------------------------------------------------------------------------
  433-  465 (38.79/17.93)	...KQRVSSTPGQAQTtgqLSQPPSKHK......TGEGKADK
  466-  497 (56.70/29.77)	VDKQQKRPHTPFHHRS...LTSDDSSIE......T.ETTAGQ
  501-  529 (26.54/ 9.83)	MRAQDGARFTGI..RS.....SDMSSIQkapqlhTG......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.96|      19|      33|     905|     923|       9
---------------------------------------------------------------------------
  842-  854 (21.90/10.46)	...PSLEQHIMG...YSPM
  905-  923 (36.33/22.81)	VYKPELCQAFVGCSMFAPL
  941-  956 (32.73/19.73)	IYKPSWT...MGRELLNPM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      30.23|       8|      25|    1589|    1598|      11
---------------------------------------------------------------------------
 1589- 1598 (12.31/11.50)	SHALgpTEPP
 1615- 1622 (17.92/ 7.82)	SHAI..TYPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.82|      12|     514|     808|     827|      13
---------------------------------------------------------------------------
  808-  824 (13.34/17.43)	RPVNgTDDKFsgkePKP
  830-  841 (25.48/ 6.18)	VPCD.LHQMF....PTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      56.06|      13|      37|    1383|    1395|      15
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 1383- 1395 (22.74/13.60)	PDNEALL....SNAKSF
 1419- 1433 (15.45/ 6.58)	PDGIVLV..ggSDAKTL
 1437- 1453 (17.87/ 8.91)	PVSDWFLkaasSNGDAF
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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 MDP29031 with Med13 domain of Kingdom Metazoa
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