<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 MDP30868

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTAAANWVANGASLEDCHSNLFSLAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYLINEEHIHMAQSSPAPFQVLVSPYGLNGTLTGQAYKMSDPATRKLIEEWQYFYPMVLKKKEELKEEEELGYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSVAGAGGHITVGQQGLGSVKDPSNCGMPLTPPTSPEQAVMGESGGTQSAVSHLGSQDGGMITMHSPKRSGKIPPKLHNHMVHRVWKECILNRTQSKRSQMSTPTLEEEPANNPATWDFVDPTQRVSCSCSRHKLLKRCAVGPSRPPAASQPGFGAGPSSSSSLPPPASKHKTTERPEKGDKLQKRPLIPFHHRPSVADEFCVEQDTPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMNLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLELQQLSTLDDRTVLVGQRLPLMAEVSETALYCGIRPLNPESSDKSWNSYRLPPVDDAEFRPPELQGERCDAKMEVNSESTALQRLLAQPNKRFKIWQEKQPQMQPLHFLDPLPLSQQPGDSLGEVNDPYTFEDGDIKYIFTANKKCKQGAEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDSAAGRAGSSSLTQVTDLAPSLHDLDNIFDNSDDDELGAASPALRSSKMPAVGAEDRPLGKDGRAAVPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGISSETVTALGMMESPMVSMVSTQLTEFKMEVEDGLGSPKPEEVKDFSYVHKVPTFQPFVGSSMFAPLKMLPSQCLLPLKIPDACLFRPSWAVPPKIEQLPMPPAAIFSRDGYNNVPSVGSLADPDYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNIFKDRNFDSCCICACNMNIKGADVGLYIPDSSNEDQYRCTCGFSAIMNRKLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTTFLPQVEGARKSQEPPISLLLLLQNQHTQPFASLSFLDYISSNSRQTLPCVSWSYDRVQADNNDYWTECFNALEQGRQYVDNPTGGKVDEALVRSATVHSWPHSNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKDFLTISPFSLPFWERLLLDPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSSEENDNHSRLKLYAQVCRHHLAPYLATLQLDGSLLIPPKYQSPPAAAQGQATPGNAGPLASNSGSAAPSAGSAFNPTSSSSSGNPAAGSSASGSSVPPVSASAPAPAPVVNQISTTSSSGFSASVGGQNPGSGAGSADRTQGSAGCGGDPEPGQSSSQPSQDGQESVTERERIGIPTEPDSADSQAYPPAVVIYMVDPFTYTADEDSTSGNFWLLSLMRCYTEMLDNLPEHMRNSFILQIVPCQYMLQTMKDEQVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCIVNIALPNRSRRSKVSARKIGLQKLWEWCIGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKRLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQAQNQCPLFLKASLHHHISVAQTDELLPARNSQRVPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNIL
Length2212
PositionMiddle
OrganismFelis catus (Cat) (Felis silvestris catus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Laurasiatheria> Carnivora> Feliformia> Felidae> Felinae> Felis.
Aromaticity0.07
Grand average of hydropathy-0.373
Instability index57.87
Isoelectric point5.62
Molecular weight242253.39
Publications
PubMed=17975172

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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

>MDP30868
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     113.00|      28|      28|    1033|    1060|       1
---------------------------------------------------------------------------
  973- 1002 (25.18/ 9.69)	..PSWAVP.PKIEQLPmppaaiFS........RDGYNNVPS.
 1007- 1040 (38.15/19.70)	ADPDY.LNTPQM.NTP......VTlnsaapasNSGAGVLPSP
 1041- 1068 (49.68/28.59)	ATPRFSVPTPRTPRTP......RT........PRGGGTASGQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      73.42|      16|      19|    1614|    1630|       2
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 1563- 1576 (20.51/ 6.67)	...NPTSSSSSGNPAA.G
 1614- 1630 (26.07/16.30)	GGqNPGSGAGSADRTQ.G
 1635- 1651 (26.84/11.99)	GG.DPEPGQSSSQPSQdG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.69|      27|      29|    1856|    1884|       3
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 1856- 1884 (44.42/36.48)	C..IVNI.ALPNRSRRSKVSarKIGLQKLWEW
 1885- 1914 (42.27/27.64)	CigIVQMtSLPWRVVIGRLG..RLGHGELKDW
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.55|      25|      28|    1126|    1150|       4
---------------------------------------------------------------------------
 1126- 1150 (51.64/27.90)	NFDSC.CICACN..MNIK.GADVGLYIPD
 1153- 1181 (36.91/18.07)	NEDQYrCTCGFSaiMNRKlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     339.21|      90|     628|    1449|    1540|       5
---------------------------------------------------------------------------
  142-  208 (61.08/31.99)	..............................IGKWFVRPYEK.DEKPvNKSeHLSCAFTFFLHgesNVCTSVEIAQHQPIYLINEE.HihmaQSSPAPFQ....
 1449- 1540 (151.72/100.05)	LGQHKPicKVLRDGIMRVGKTVAQKLTDELVSEWFNQPWSS.EEND.NHS.RLKLYAQVCRH...HLAPYLATLQLDGSLLIPPK.Y....QSPPAAAQGQAT
 2084- 2164 (126.41/76.52)	LSREAP..EELKQQPLALGYFVSTAKAENL.PQWF...WSScPQAQ.NQC.PLFLKASL..H...H...HISVAQTD..ELLPARnS....QRVPHPLDSKTT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.93|      20|      20|    1689|    1708|       6
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 1689- 1708 (37.33/24.48)	YTADEDSTSG...NFWLLSLMRC
 1709- 1731 (31.61/19.44)	YTEMLDNLPEhmrNSFILQIVPC
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     767.30|     261|     298|     379|     655|       7
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  317-  545 (258.21/140.71)	DP....SNCGMPLTPPTSP..........................................................................................................eqavmgesggtqsavshlgsqdggmitmhspkrsgkippklhnhmvhRVWKECILNRTQSKRSQMSTP.TLEEEPANN....PATWDFVDPTqrVSCSCSRHKLLKRCAVGPSRPPAASQPGFGAGPSSSS..SLPPPASKHKTTERpEKGDKLQKRPlIPFHHRPSVADEFCVEQDTPgqklGLAGIDSSLEVSSSRKYDkqMAVPSRNTSKQMNLNPMD
  546-  840 (407.19/205.74)	SP....HSPISPLPPTLSPQPRGQETesldPPSVPVNPAL.....YGNGLELQQLSTLDD.RTVLVGQRLPLMAEVsETALYCGIRPLNPES.SDKSWnSYRLPP....VDDAEFRPPELQGERC.......................dakmevnsestalqrllaqpnkrfKIWQE...KQPQMQPLHFLDPlPLSQQPGDSlgevNDPYTFEDGD..IKYIFTANKKCKQGAEKDSLKKNKSEDGFGTKDVTTPghSTPVPDGKNAMSIF.SSATKTDVRQ.DSAAGRAGSSSLTQVTDLAP....SLHDLDNIFDNSDDDELG..AASPALRSSKMPAVGAED
  841-  971 (101.91/40.36)	RPlgkdGRAAVPYPPTVADLQRMFPT....PPSLEQHPAFspvmnYKDGISSETVTALGMmESPMVSMVSTQLTEF.KMEVEDGLGSPKPEEvKDFSY.VHKVPTfqpfVGSSMFAPLKMLPSQC...........................................llplKIPDACLF......................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.95|      23|      24|    1375|    1397|       8
---------------------------------------------------------------------------
 1375- 1397 (41.19/28.93)	SPEPLPIPTLLVGY....DKDFLTISP
 1398- 1424 (37.75/25.69)	FSLPFWERLLLDPYgghrDVAYIVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.52|      20|      24|      65|      84|      10
---------------------------------------------------------------------------
   65-   84 (38.38/25.75)	QANLLCVWRRDVKPDCKELW
   91-  110 (35.14/22.91)	EPNLVGVIHHELQVVEEGLW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.49|      11|      21|    1580|    1590|      12
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 1580- 1590 (19.67/10.93)	SGSSVPPVSAS
 1602- 1612 (18.83/10.05)	STTSSSGFSAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.28|      11|      24|    2032|    2043|      13
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 2032- 2043 (17.73/13.14)	PFPDDmDNDIGI
 2059- 2069 (21.55/10.53)	PSPGS.PSGIGV
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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 MDP30868 with Med13 domain of Kingdom Metazoa
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