<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 MDP11955

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSHPNPTGNGCSLEDCHTNLFALTDLAGIKWRRLTHGNVFCIDPLDDPILLAFTKCIQADILCVWRRVHKASEQRINNDYLSKKELWVFWYGDEPADLKSILSTDLLAEEEAGCWDTGLSYECRTLLFRALHNLIERCLLSHNFVRLGKWFVLPLEYGSNSSDKSDHLSFSFSFFLHGESTVCASVDVRQQPAVWRPTLQHLTLAQNAQNGMPVLLAPYGLAGTLTGHSYKDADQDTRKLVEEWQQFYPLCSDSKEGAGSYQSKQMPQVVEVVVGGVRMRYPSRYVLMTELDNMRSRTICGTGQGRGDANRTSGLPLHTASALLSPPTSPASGQVIGDTCLKGLPLTSLDEGKRLGSQFTETLSDLIVERVWQESCLAVPSSKRSVGNENGIEENTVGNWDFVDPVQKAHCSCTKLKGNKQRLGFGQNKSGLPGGKEKRGDKLEKTEKEKSRLSRGMTPFHRRSPLSDDLLTQDLDIMIQRGSGGLQGTGNGADYPFSGYKSQPGSNLPQFRTPNFEQGGMGIPRSDAPSPLVATHSQPCEGGQSSDPTMPTLSPHPPPKIQDKDHVSSANTVPQESCNLPSQETTATANCNDGFTAGKMNGLPPKGNNFMPPYHRHMPEPKVEYPHSKSWLDAQRHKLEGQGVKRPMLPCKFYDREEMQESGELLYDFGLLNAWLSHPVKKFRGDGDPDSPPMVKPEPRHPHGYGHPQVSPKQHSQTSSGPPVDPYEFSDESSSNAGSFRPRSLRNSRDEFSRPSPFSRQMEEESRESAAGRGSDSKEDRHGHGDMGPIGSPLTPGGSGPMSSASLMRESDIRPSMNDLQNIFDTSDDDSNDDAFQPPSPPPSNKPEETTIKSAKTTLVNSGGSGAIDTTQLSRMFPTPPSQENNMAHSPCTGTDVHTDPSSVLDSRVDHFAQMSPSHENRDWSFVFRPPPSAKFVGSDKYGPIDLPSAKMSPVHVPVELAYRPSWQFPIPVIEKHHPPANQILPGVPVAESTPVRGLGEKPHPSPATFTGTSPGSAGYIGHSPAAYPGPGTSPAAFTGSMPGASPAAFHGMVQQRTPASYDLQSPASNASSYLNKNLSSVDNQGTNLQMPEAHGLVLNIVLSETLLNLFKDHNYDSCNICVCQGNIKGSDVGLYLDDPTNEPQYRCTCGFSAVRNRICGQNSGLFYEDELEITGIPHDHYERRKPSLLAIEPKKDENGVSKTGSSTLSSDIPQDLLLLLQETFSFFFPASAFRIYNQLGSLGGAPLDTPLMEIKDGCDACYTALEQGRQATDNCSSQKLEESVVKASCLHKWPYTHRGAILPTNPQDVVRLLKSLQPLLQDAIQKKRTTRLWEQVYQISGPLSWKDFHLLAGRGSDEAHEPQPIPSLLVGYDRDWLSQSPLAIKFWDKLLLEPYCKPRDIAYVVVAPENDFVLNYVRNFFKDLSTMYELCRLGRHSPIDKVLRDGIMRVGKTAARKLAEEPVDAWFTQIGDSVVASKLKLYAQVCKHHLAPFLSQTPLDKMFSPGGGRSTYKSAAHSAPSPAHTPDGQGAATPNHNDDKDRDFGSEASGHGSHGDGDHDEASEVPALMVYIVDPFTQGQQWEGISRLSMMGLLRCYQELINNLPESLQNNVHLQILPLQTILDRSGDCNHMQHMKSMAFSIFSQCRQALTHTVVGRTLTGFGPAAAAEAICKRSMDKMKIQNKLYSPPYVLAPMKDKQSQLAETCGEVRERSAKFFCGYCLSEDQRWLLAVCTDDRGDLMETCTINIEIPNRNRRKKASARKIGLQKLWDFILSVISTTTLPWRLVIGRFGRLGHGELKGWSGLLSRKSLLRASKQMRDICDQCSVLSNNDYPCILSACLVSMETQSTFLVLPDSVKPEEKRASNAPLDTPHDASVTHILVFPTSSTAQPNTSAQTNEHDLAAQLGTDLGDDDPLFAGLSEDLNIDQDLNSFFGLADSPNQSPVGSPKADGPGSPGMGVGGRQSPSHYTPGGKTNRGASISLDLQEEANLLQQPLAMGYYLSTAKTGPLPKWFWSSCPHKENVCPVTFKAALHVHVPMVQQNQDELFHTNMNKLSHPLDSNATCDVLRYVLETYNALSWLTIDPAKNDRRTCLPIHFAILMQIYQAMNVFL
Length2113
PositionMiddle
OrganismLingula unguis
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Brachiopoda> Linguliformea> Lingulata> Lingulida> Linguloidea> Lingulidae> Lingula.
Aromaticity0.07
Grand average of hydropathy-0.518
Instability index53.57
Isoelectric point6.12
Molecular weight232504.11
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

>MDP11955
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             6|     221.92|      34|      35|     928|     961|       1
---------------------------------------------------------------------------
  689-  712 (31.28/ 9.78)	...PD.............SPP..M...VKPEPRHPHGY...GH.PQVSP................
  836-  887 (26.71/ 7.20)	FQPPSpppsnkpeettikSAKttL...VNSGGSGAIDT...TQlSRMFP.TP..P....SQEnnM
  888-  926 (40.14/14.77)	AHSPC.............TGT..D...VHTDPSSVLDSrvdHF.AQMSP.SHenR....DWS..F
  928-  961 (61.48/26.78)	FRPPP.............SAK..F...VGSDKYGPIDL...PS.AKMSP.VH..V....PVE..L
  963-  999 (26.81/ 7.26)	YRP...............SWQ..FpipV.IEKHHP......PA.NQILPgVP..VaestPVR.gL
 1012- 1035 (35.50/12.15)	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 (51.38/30.48)	DHNYD.SCNICVCQGNIKGSDVGLYLDD
 1143- 1170 (46.47/26.85)	EPQYRcTCGFSAVRNRICGQNSGLFYED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.96|      18|      28|     298|     317|       3
---------------------------------------------------------------------------
  305-  333 (20.97/12.39)	GRGDANrTSGLPLhtasallsppTSPASG
  783-  800 (36.99/14.58)	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 (26.08/10.32)	.......DTCLkGLPLTSLDEGKRL..GSQfTETLSDL
  367-  400 (58.61/32.63)	IVERVWQESCL.AVPSSKRSVGNEN..GIE.ENTVGNW
  402-  428 (33.25/15.23)	FVDPVQKAHC.....SCTKLKGNKQrlGFG.QN.....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.90|      14|      33|     493|     514|       5
---------------------------------------------------------------------------
  493-  506 (27.44/ 6.21)	ADYPFSGYKSQP..GS
  528-  543 (23.47/13.57)	APSPLVATHSQPceGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     256.83|      81|    1260|      30|     116|       7
---------------------------------------------------------------------------
   30-  116 (138.04/93.79)	KWRRLTHGNVFCIDPLDDPILLAFTKCIQADIL......CVWRRVHKaseqrINNDyLSKKELWVF.WYG.DE...PADLKSIL...STDLLAEEEAG..CWD
 1293- 1389 (118.80/67.82)	KWPYTHRGAILPTNPQDVVRLLKSLQPLLQDAIqkkrttRLWEQVYQ.....ISGP.LSWKDFHLLaGRGsDEahePQPIPSLLvgyDRDWLSQSPLAikFWD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     389.74|     114|     944|     551|     688|       8
---------------------------------------------------------------------------
  175-  221 (44.10/11.97)	....................................................................FLHGESTVCASVDVRQQPAVWRPTLQHLTLAQNAQNGMPVLLAPYGL...................
  568-  688 (189.22/120.63)	SSANTVPQEScNLPSQETTATANCND....GFtAGKMNGLPPKGNNfmppYHRHMPE.PKV......EYPHSKSWLDAQRHKLEGQGVKRPMLPCKFYDREEMQESGELLYDFGLlNAWLS.HPVKK.FRGDGD
 1515- 1629 (156.42/79.42)	SAAHSAPSPA.HTPDGQGAATPNHNDdkdrDF.GSEASGHGSHGDG....DHDEASEvPALmvyivdPFTQGQQWEGISRLSMMG......LLRC..Y.QELINNLPESLQN....NVHLQiLPLQTiLDRSGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     174.07|      53|     621|    1185|    1282|       9
---------------------------------------------------------------------------
 1223- 1282 (86.26/97.90)	ETFSFF..FPASafrIYNQLGSLGGAPLDTPlmeiKDGCDACYTALEQGRQATDNCSSQKLE
 1846- 1900 (87.81/33.41)	ETQSTFlvLPDS...VKPEEKRASNAPLDTP....HDASVTHILVFPTSSTAQPNTSAQTNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.85|      17|      35|    1691|    1707|      10
---------------------------------------------------------------------------
 1691- 1707 (31.20/22.61)	YVLAPMKDKQSQLAETC
 1729- 1745 (33.65/25.11)	WLLAVCTDDRGDLMETC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.37|      21|      32|     229|     249|      13
---------------------------------------------------------------------------
  229-  249 (39.06/29.69)	SY..KDADQDTRKLVEEWQQFYP
  260-  282 (33.31/24.00)	SYqsKQMPQVVEVVVGGVRMRYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     280.04|      84|     505|    1420|    1504|      14
---------------------------------------------------------------------------
 1420- 1504 (143.55/96.41)	NFFKDLSTMYELCRLGRHSPIDKVLRDGIMRVG.KTAARKLAEEPVDAWFTQIGDSvVASKLKLYAQVCKHHLA..PFLSQT...PLDKMF
 1926- 2015 (136.49/87.23)	NIDQDLNSFFGLADSPNQSPVGSPKADGPGSPGmGVGGRQSPSHYTPGGKTNRGAS.ISLDLQEEANLLQQPLAmgYYLSTAktgPLPKWF
---------------------------------------------------------------------------




































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 MDP11955 with Med13 domain of Kingdom Metazoa
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