<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 MDP11954

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSHPNPTGNGCSLEDCHTNLFALTDLAGIKWRRLTHGNVFCIDPLDDPILLAFTKCIQADILCVWRRVHKASEQRINNDYLSKKELWVFWYGDEPADLKSILSTDLLAEEEAGCWDTGLSYECRTLLFRALHNLIERCLLSHNFVRLGKWFVLPLEYGSNSSDKSDHLSFSFSFFLHGESTVCASVDVRQQPAVWRPTLQHLTLAQNAQNGMPVLLAPYGLAGTLTGHSYKDADQDTRKLVEEWQQFYPLCSDSKEGAGSYQSKQMPQVVEVVVGGVRMRYPSRYVLMTELDNMRSRTICGTGQGRGDANRTSGLPLHTASALLSPPTSPASGQVIGDTCLKGLPLTSLDEGKRLGSQFTETLSDLIVERVWQESCLAVPSSKRSVGNENGIEENTVGNWDFVDPVQKAHCSCTKLKGNKQRLGFGQNKSGLPGGKEKRGDKLEKTEKEKSRLSRGMTPFHRRSPLSDDLLTQDLDIMIQRGSGGLQGTGNGADYPFSGYKSQPGSNLPQFRTPNFEQGGMGIPRSDAPSPLVATHSQPCEGGQSSDPTMPTLSPHPPPKIQDKDHVSSANTVPQESCNLPSQETTATANCNDGFTAGKMNGLPPKGNNFMPPYHRHMPEPKVEYPHSKSWLDAQRHKLEGQGVKRPMLPCKFYDREEMQESGELLYDFGLLNAWLSHPVKKFRGDGDPDSPPMVKPEPRHPHGYGHPQVSPKQHSQTSSGPPVDPYEFSDESSSNAGSFRPRSLRNSRDEFSRPSPFSRQMEEESRESAAGRGSDSKEDRHGHGDMGPIGSPLTPGGSGPMSSASLMRESDIRPSMNDLQNIFDTSDDDSNDDAFQPPSPPPSNKPEETTIKSAKTTLVNSGGSGAIDTTQLSRMFPTPPSQENNMAHSPCTGTDVHTDPSSVLDSRVDHFAQMSPSHENRDWSFVFRPPPSAKFVGSDKYGPIDLPSAKMSPVHVPVELAYRPSWQFPIPVIEKHHPPANQILPGVPVAESTPVRGLGEKPHPSPATFTGTSPGSAGYIGHSPAAYPGPGTSPAAFTGSMPGASPAAFHGMVQQRTPASYDLQSPASNASSYLNKNLSSVDNQGTNLQMPEAHGLVLNIVLSETLLNLFKDHNYDSCNICVCQGNIKGSDVGLYLDDPTNEPQYRCTCGFSAVRNRICGQNSGLFYEDELEITGIPHDHYERRKPSLLAIEPKKDENGVSKTGSSTLSSDIPQDLLLLLQETFSFFFPASAFRIYNQLGSLGGAPLDTPLMEIKDGCDACYTALEQGRQATDNCSSQKLEESVVKASCLHKWPYTHRGAILPTNPQDVVRLLKSLQPLLQDAIQKKRTTRLWEQVYQISGPLSWKDFHLLAGRGSDEAHEPQPIPSLLVGYDRDWLSQSPLAIKFWDKLLLEPYCKPRDIAYVVVAPENDFVLNYVRNFFKDLSTMYELCRLGRHSPIDKVLRDGIMRVGKTAARKLAEEPVDAWFTQIGDSVVASKLKLYAQVCKHHLAPFLSQTPLDKMFSPGGGRSTYKSAAHSAPSPAHTPDGQGAATPNHNDDKDRDFGSEASGHGSHGDGDHDEASEVPALMVYIVDPFTQGQQWEGISRLSMMGLLRCYQELINNLPESLQNNVHLQILPLQTILDRSGDCNHMQHMKSMAFSIFSQCRQALTHTVVGRTLTGFGPAAAAEAICKRSMQDKMKIQNKLYSPPYVLAPMKDKQSQLAETCGEVRERSAKFFCGYCLSEDQRWLLAVCTDDRGDLMETCTINIEIPNRNRRKKASARKIGLQKLWDFILSVISTTTLPWRLVIGRFGRLGHGELKGWSGLLSRKSLLRASKQMRDICDQCSVLSNNDYPCILSACLVSMETQSTFLVLPDSVKPEEKRASNAPLDTPHDASVTHILVFPTSSTAQPNTSAQTNEHDLAAQLGTDLGDDDPLFAGLSEDLNIDQDLNSFFGLADSPNQSPVGSPKADGPGSPGMGVGGRQSPSHYTPGGKTNRGASISLDLQEEANLLQQPLAMGYYLSTAKTGPLPKWFWSSCPHKENVCPVTFKAALHVHVPMVQQNQDELFHTNMNKLSHPLDSNATCDVLRYVLETYNALSWLTIDPAKNDRRTCLPIHFAILMQIYQAMNVFL
Length2114
PositionMiddle
OrganismLingula unguis
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Brachiopoda> Linguliformea> Lingulata> Lingulida> Linguloidea> Lingulidae> Lingula.
Aromaticity0.07
Grand average of hydropathy-0.519
Instability index53.61
Isoelectric point6.12
Molecular weight232632.24
Publications









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

>MDP11954
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     221.92|      34|      35|     928|     961|       1
---------------------------------------------------------------------------
  689-  712 (31.28/ 9.38)	...PD.............SPP..M...VKPEPRHPHGY...GH.PQVSP................
  836-  887 (26.71/ 6.89)	FQPPSpppsnkpeettikSAKttL...VNSGGSGAIDT...TQlSRMFP.TP..P....SQEnnM
  888-  926 (40.14/14.20)	AHSPC.............TGT..D...VHTDPSSVLDSrvdHF.AQMSP.SHenR....DWS..F
  928-  961 (61.48/25.79)	FRPPP.............SAK..F...VGSDKYGPIDL...PS.AKMSP.VH..V....PVE..L
  963-  999 (26.81/ 6.95)	YRP...............SWQ..FpipV.IEKHHP......PA.NQILPgVP..VaestPVR.gL
 1012- 1035 (35.50/11.67)	GTSPG.............SAG..Y...IG...HSPAAY...PG.PGTSP................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      97.85|      27|      28|    1113|    1139|       2
---------------------------------------------------------------------------
 1113- 1139 (51.38/34.32)	DHNYD.SCNICVCQGNIKGSDVGLYLDD
 1143- 1170 (46.47/30.26)	EPQYRcTCGFSAVRNRICGQNSGLFYED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.96|      18|      28|     298|     317|       3
---------------------------------------------------------------------------
  305-  333 (20.97/14.32)	GRGDANrTSGLPLhtasallsppTSPASG
  783-  800 (36.99/16.83)	GHGDMG.PIGSPL..........TPGGSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     117.94|      34|      34|     362|     395|       4
---------------------------------------------------------------------------
  338-  366 (26.08/11.79)	.......DTCLkGLPLTSLDEGKRL..GSQfTETLSDL
  367-  400 (58.61/36.84)	IVERVWQESCL.AVPSSKRSVGNEN..GIE.ENTVGNW
  402-  428 (33.25/17.31)	FVDPVQKAHC.....SCTKLKGNKQrlGFG.QN.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     198.91|      58|     733|    1289|    1346|       6
---------------------------------------------------------------------------
 1289- 1346 (105.15/63.75)	SCLHKW...PYTHRGAI...LPTNPQDVVRLLKSLQPLLQDAIQKKRTTRLWEQVYQISGPLSW
 2019- 2082 (93.76/56.01)	SCPHKEnvcPVTFKAALhvhVPMVQQNQDELFHTNMNKLSHPLDSNATCDVLRYVLETYNALSW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.15|      16|     733|     464|     480|       7
---------------------------------------------------------------------------
  464-  480 (24.75/18.08)	SPLSDDlLTQDLDIMIQ
 1207- 1222 (27.39/15.30)	STLSSD.IPQDLLLLLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.73|      16|      18|     610|     626|      10
---------------------------------------------------------------------------
  610-  626 (29.40/19.68)	FMPPyHRHMPEPK.VEYP
  631-  647 (25.33/11.42)	WLDA.QRHKLEGQgVKRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.33|      13|      18|     527|     539|      12
---------------------------------------------------------------------------
  527-  539 (23.84/ 9.96)	DAPSPLVATHSQP
  547-  559 (27.48/12.69)	DPTMPTLSPHPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.14|      33|     622|    1223|    1282|      13
---------------------------------------------------------------------------
 1246- 1282 (55.57/69.37)	APLDTPlmeiKDGCDACYTALEQGRQATDNCSSQKLE
 1869- 1901 (58.57/22.95)	APLDTP....HDASVTHILVFPTSSTAQPNTSAQTNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      68.35|      19|    1272|     561|     588|      14
---------------------------------------------------------------------------
  561-  579 (32.81/28.64)	IQDKDHVSSANTVPQESCN
  591-  609 (35.54/13.02)	CNDGFTAGKMNGLPPKGNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      95.21|      30|    1272|      94|     124|      15
---------------------------------------------------------------------------
   94-  124 (50.69/27.94)	EPADLKSIL...STDLLAEEEAG..CWDTGL..SYeCR
 1362- 1398 (44.52/20.45)	EPQPIPSLLvgyDRDWLSQSPLAikFWDKLLlePY.CK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.82|      21|    1477|     433|     453|      17
---------------------------------------------------------------------------
  433-  453 (35.91/25.62)	PGGKEKRGDKLEKTEKEKSRL
 1973- 1993 (35.91/25.63)	PGGKTNRGASISLDLQEEANL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.72|      28|     506|    1420|    1447|      19
---------------------------------------------------------------------------
 1420- 1447 (50.78/32.27)	NFFKDLSTMYELCRLGRHSPIDKVLRDG
 1927- 1954 (49.94/31.59)	NIDQDLNSFFGLADSPNQSPVGSPKADG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.37|      21|      32|     229|     249|      20
---------------------------------------------------------------------------
  229-  249 (39.06/26.54)	SY..KDADQDTRKLVEEWQQFYP
  260-  282 (33.31/21.49)	SYqsKQMPQVVEVVVGGVRMRYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.85|      17|      35|    1692|    1708|      25
---------------------------------------------------------------------------
 1692- 1708 (31.20/17.88)	YVLAPMKDKQSQLAETC
 1730- 1746 (33.65/19.84)	WLLAVCTDDRGDLMETC
---------------------------------------------------------------------------




































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 MDP11954 with Med13 domain of Kingdom Metazoa
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