<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 MDP29030

Description Mediator of RNA polymerase II transcription subunit 13
SequenceFFLLRFEQADLTGIKWKRFVWQGPTSAPMLFPVTEEDPILCSFSRCLKADVLCVWRRSQRQGRRELWMFWWGDDPNFADLIHHELAAEDDGLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCAFTFFLHGDSNVCTSVEVNQHQPVYHLTEEHLTLAQQSSSPFQVILSPFGLNGTLTGQSFKMSDPPTQKLIEEWNQFYPISSKAKEGVSEDKLEDMDWEDDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVAPVGSSQCTTVYSSGHQVPASQREPAMSLVTLTPPTSPEEVQTLDSHSAQKWVKMPSTSDLFSVDRPSHHGGKIPQRLASQMVERVWQECNTNRAQNKRKFSAAATGTCEEDLKEKIGSWNFVEHSRRPYCSCCRYKSLKQRVSSTPGQAQTTGQLSQPPSKHKTGEGKADKVDKQQKRPHTPFHHRSLTSDDSSIETETTAGQNLTMRAQDGARFTGIRSSDMSSIQKAPQLHTGVVNTGPSEQTNSPQPPPLSPHPSERNDESGEVTKNLSSPNSQHFYQPPPEPCLVGVKTVGSSEEHGGSDSLNQHFQSHHLNPGISSFSEPPEPTIYVGTGLNLEDDSLHMPWRLFKLPHRKEANLPTPLLPGDKLREEASGFHDSLVMSTSKRHLKVSDERIQMYLARRNQYLCAVLTDGGHEPEVDPYAFEEGDVKFTFSNKKDKTGGEREPGKKHKEPYLKSLEVNTRYCCADAQRGAAHNRMASTSLIHETDLVVSINDLDNLFNSDEDDLAPGLKRPVNGTDDKFSGKEPKPSSLDSVPCDLHQMFPTPPSLEQHIMGYSPMNMCSKEYGSMEANSGMTSLDGTSSLGGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQAFVGCSMFAPLKTLPSQCLAPIKIPDDCIYKPSWTMGRELLNPMSVMTFLNKDSTMDQDYNQTYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPASVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADMGVYLSDPVGEAQEPCSCGFSSVVNRRYGNGCGLFLEDELDIIGRGSDISREAEKRFEELRLSSLERAGVGRSEHVPDEIILLLQDQCTNPFSPILTLEQDIVARGANGAPVSPCVRVEERDYCSDCYMALEHGRQFMDNMSGGKVDEALVKSSCLHKWTKQNAVDVSALCSQDVLHVLLSLQPLLQDAIQKKKTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDIGYMVVCPDNEALLSNAKSFFRDLTAVYESCRLGQHRPISKGYPDGIVLVGGSDAKTLVDQPVSDWFLKAASSNGDAFTRLKLYAQVCRHNLAPYLASQPLDSSLLSQPFPSPTQSSSTQTSSSTSSQQGPGNTGGSSISSSSISGSVNGSTSSSSLMTSAGQPSSGMPSSKPTSFPPFGSMSTQAQGGAPQSGQLGQQASAHNTGSSGESSSSHALGPTEPPESTLEREKIGIPTDGESHAITYPPAIVVYIVDPFSYDEANGATGPVPTHSSVWTLGLLRCYLEMLQFLPPHIRNIISVQIVPCQYLLQPVRGEDRHIYAQHLKSFAFSVYAQCRRPLPTTTNVKSLTGFGPGLAIDTALRVPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLATCTDLYGELLETCIINIDVPNRCARRKKGSVRRLGLQKLWDWCLGLVQMTSVPWRIVIGRLGRIGHGELKDWSILLSRRNLQSLSRRLKEMCRMCGISSSDTPSILSVCLVAMEPQGSFFIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSAFVQVASSSYTNIDTNIDILNATTDGSDAIGIFDLLDQENDLVDPDIINISPTTSPVHSPGSHYHHGGDGSKGQSTDRMESHEEVPNLLQQPLSLGYLVSTVKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLSRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2142
PositionMiddle
OrganismTakifugu rubripes (Japanese pufferfish) (Fugu rubripes)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Eupercaria> Tetraodontiformes> Tetradontoidea> Tetraodontidae> Takifugu.
Aromaticity0.08
Grand average of hydropathy-0.414
Instability index55.12
Isoelectric point5.78
Molecular weight236462.92
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

>MDP29030
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      83.96|      26|      35|     966|    1000|       1
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  966-  984 (22.31/ 7.90)	..................PQT.HTPFmsNSAPPSNSGT
  985- 1018 (28.90/20.46)	GILPSPAtprfsaPTprtPRTpRTP....RGPASVQGS
 1024- 1044 (32.75/10.80)	SDLYSPA......ST...PST.CRPL..NSVEP.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     142.04|      35|      35|    1459|    1493|       2
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 1459- 1493 (62.62/25.30)	SSLLSQP..FPSPTQSSSTQ.....TSSSTSSQQGPGNTGGS
 1497- 1523 (34.60/10.75)	SSSISGS..VNGSTSSSSLM.....TSAGQPSSG........
 1525- 1563 (44.82/16.06)	..PSSKPtsFP.PFGSMSTQaqggaPQSGQLGQQASAHNTGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.78|      22|      39|    1351|    1376|       3
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 1351- 1376 (35.81/37.60)	FGSQRDI..GYmvvcPDNEALL..SNAKSF
 1389- 1414 (31.98/20.89)	LGQHRPIskGY....PDGIVLVggSDAKTL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     417.37|     107|     215|     248|     388|       4
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  261-  368 (181.57/120.79)	VRMVYPACLVLVPQSDIPVVAPVG..SSQCTTVYSSGHQVPASQR.EPAMSLVTLTPPTSPEEVQT....L....DS.HSAQKWVKMPSTSDLFSVDRPSHHGGKIPQRlASQMVERVWQ
  565-  664 (128.02/66.24)	............PEPCLVGVKTVG..SSEEHGGSDSLNQHFQSHHlNPGISSFS.EPPEPTIYVGT...gLnledDSlHMPWRLFKLPHRKEA.NLPTPLLPGDKLREE.ASGFHDSLVM
  683-  771 (107.77/62.49)	ARRNQYLCAVLTDGGHEPEVDPYAfeEGDVKFTFSNKKDKTGGER.EPGKK..HKEPYLKSLEVNTryccA....DA.QRGAAHNRMASTSLIHETD.......................
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.59|      19|      19|     797|     815|       5
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  797-  815 (34.77/18.42)	PVNGTDDKFSGKEPKP..SSL
  819-  832 (27.65/12.88)	PCD.LHQMF....PTP..PSL
  841-  861 (26.18/11.74)	PMNMCSKEYGSMEANSgmTSL
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---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.46|      10|      18|    1182|    1191|       6
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 1182- 1191 (18.37/ 9.37)	PFSPILTLEQ
 1202- 1211 (19.09/10.07)	PVSPCVRVEE
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.18|      12|      18|    1237|    1248|       7
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 1237- 1248 (21.51/10.68)	VD.EALVKSSCLH
 1256- 1268 (17.67/ 7.55)	VDvSALCSQDVLH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.40|      27|      31|    1071|    1101|       8
---------------------------------------------------------------------------
 1071- 1101 (46.39/38.28)	KDCnfdSCCI.CVCNMNIkGADMGVYLSDP...VG
 1105- 1135 (42.01/22.65)	EPC...SCGFsSVVNRRY.GNGCGLFLEDEldiIG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     117.58|      31|      35|     878|     911|       9
---------------------------------------------------------------------------
  878-  899 (34.19/13.38)	.............SFCSPKPSEIKDYSFVYKPELC
  903-  935 (49.82/27.35)	VGCSMFAPLktlpSQCL.APIKIPD.DCIYKPSWT
  936-  964 (33.57/10.52)	MGRELLNPM.svmTFLNKDSTMDQDYNQTY.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     172.75|      51|     339|     168|     218|      11
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  168-  218 (89.58/48.32)	QHQPVYHLTEEHLTLAQQSSSPFQVILSPF.GLNGTLTGQSFK.MSDPPTQKL
  508-  560 (83.17/44.26)	QKAPQLHTGVVNTGPSEQTNSPQPPPLSPHpSERNDESGEVTKnLSSPNSQHF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      30.23|       8|      23|    1570|    1579|      12
---------------------------------------------------------------------------
 1570- 1579 (12.31/11.68)	SHALgpTEPP
 1596- 1603 (17.92/ 7.97)	SHAI..TYPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.56|      20|     671|    1216|    1235|      13
---------------------------------------------------------------------------
 1216- 1235 (40.88/28.41)	SDCYMALE.HGRQFM..DNMSGG
 1882- 1904 (27.68/16.61)	SVCLVAMEpQGSFFImpDSVSTG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.46|      16|     671|    1047|    1062|      14
---------------------------------------------------------------------------
 1047- 1062 (28.98/15.65)	VPSIPEAHSLYV.TLIL
 1720- 1736 (27.48/14.43)	VPERPECLRLYTpPFIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.14|      24|    1646|     400|     447|      18
---------------------------------------------------------------------------
  407-  433 (42.35/56.54)	RRPYCSCCRYKSLkqrVSSTPGQAQTT
 1693- 1716 (43.80/10.42)	RRPLPTTTNVKSL...TGFGPGLAIDT
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.78|      41|     624|    1418|    1458|      19
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 1418- 1458 (73.88/47.66)	PVSDWFLKAASSNGDA...FTRLKLYAQVC...RHNLAPYLASQPLD
 2043- 2089 (67.90/43.13)	PLPDWFWSACPQAQNQcplFLKASLHLHVSsvqSDELLHSKHSHPLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.13|      35|    1371|     473|     507|      21
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  473-  507 (60.74/36.85)	DSSIETETTAGQNLTMRAQDGARFTGIRSSDMSSI
 1846- 1880 (64.39/39.53)	DWSILLSRRNLQSLSRRLKEMCRMCGISSSDTPSI
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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 MDP29030 with Med13 domain of Kingdom Metazoa
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