<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 MDP27585

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMRKDIFRRNENFTKVSSQQNQPLYGEASKIPAGSGPARDSAEDMPSSKEGDKDASRKQKIVKRPEFNNGGSLEDCVSNVYALLDLPGIKWKCFRPKPNAPRGLPLASDLILKAYSKCVLNEILATWRRKPLPPTDNTDMLPAPYFSNDSAKELWVFWFDEEPEELAKHCEGLESDEELSSANQMNIVSYEVRTILFKALHIVLERDLIKDGFVRFGRWFTVPLSARENYLHYLHSNHSPAIRFNFFVHGSHTVCASVQAQRQPTLIALAKRHIECKAVKRFPVVVGPWSMRGILVQDQLTILADPSMQENVEKEYNQWKEYIQIEEKEPEIIVEERPKTPDPEPSVLHPTRVLLASSSDEEPTTSYETDQANPESVPQRPRWMYEQDAPSEKPRELTYEEKEKRNQAREVRRRRRKNREERRKEQERQRSEVKNPEEYDSDVVTDPEVENKEEESVDSEIPKMVLVEIDNVRMLYPSKLICVTLDDDRQMLESMGLKTNPVPSELHVPGRRPRVKNVVNLSNPVLSTRAVVQYCENEIRQQREEMKRRCKKPITMRKRRAAVNDTFLTWKTKYQKSYHTPIREHNMLEAADDVYVMGDKLDRYGDLCQEHERVRYQEIALEGRTTLIERKDDFHAYHKKRMTKTLKERQKRRPLKKKVKSKGSKRRQQGNVAKLARIIKPSKKIIEKKAKPAKKVKIPGAVKPSANVKPSKSVKLSRRLKSIEKALILRNKRPLTWIERWKLSKKIRGIRIKRRSIYASKNKKIKLKGKKSFCGYFWVVLRRRKRKRYYGFPGFMIEIINRRIKRKRLRTKSAEQRRERNKKMGSLNADYKKIFEESDEALTSTVRPDNDDEPKSVDKFSIHDWSKCEAEMYTPGKIPDCEIEEIKPVYDMILPNPHHEEAVKPTPFYPIHFLSNNEANNEFEMMSGDEEMSEERFNEVFKDKLNRWKPNFTRGEKIENADYQFDPSNRPVGSPKEYHLKEIPKKSKFEPVLAIPPGNKYFKGSIIKNGLRGFEELCAEKDAQDAMKKAKYLKKTRRKVTKREIKTARACHLELKRQIVKRSLKKTLKKLRLIISKDTVVEESKKFKQLTTIRINNVRMNKFLYEKELARQVLLLCDPSSIFRHVENGGPYGLCDVSGLISPDYSNTPHSFDDEHSDSEMDERYGLGEGTSDKYQDGDSVDMIEPETQVIDELPMEMNSMTDHIRTVGDHLGPDGMLSPPASNEMPKGGPLSVGPPSIESQGLNQIYPTPPSVQMLQGDASQALSPGMHIKMRYTVNTGEDDIERISIPGGGATIVEIKADDDETRNMKKWNNITKKSKLEIETVPSELVYKSMVTRKFDCAPHRAFAVLIQPKASDRRIPPPFALPQPSTSVHPSLSTPMAPVFQSPALPPQHIPSPFSVGPMGHPSMGPPAYPGTPGAFPPTTPTYSQMTPRPGSNFGPGPGYSYPHQMGAPGYPGQMGQMGQMGVQRQYSNPQMFQHHQHQMQQMQMRMQQMRQMGQGVPPGYGAPGMPPYQPGTPGSGGYVTPVGGPSSVQRLNNFVNQSQFGPTNGPYGSMQPMIPQSPNFNQQYSGMGNPMGSPMVNPMMSPMQQHQFHQQQMMQQQQHHQQQQQQQQIQLQQIQRNHMQLQNSLPPQIAQPPNPQLLLMQQNEQVYNAFHGLSERDKRKFSRRQMQLKSGLMPTSLQPAAIKNLPNPPDANVPYKKQDSSIRPPDLNVPRGDSLTVAIVLSDTLLDLHFDSVFDACPICSCSVSIRSRDLGMYINPHMVLSSRERGHTNMREYTIGNWSGFHVNAPTTCTCGFSAIRHRYLSWCSGLFEEDADEATTSEHAVAPVIPPLDYPKKSTARDMVWFDSKSVHDLALIDQIRKMSYSNSLGKAVAQMGTIKEHNRNIAISVEISSDITVPSEYILSHVDTLELLMLGNSALGPMQKSGVGNQTPFSQFPQKFLNYFHPWGFQTANEITELNSSEWDDLLGLITPTLEVSMKQARHISPEVEFKIEGPMTWKEIVMKANRGTPLTEDDDDPALAEPIPAIMRSMPNEAIRAAPNIEQYADQALLGPIDQPKDVMYITIIPDDDLIFEQAVNFMDTVTETYETMRLGRHIPFPVSTGTATRFREVMTSFQSQFPFPEQHQQLVKAANAQLHNVSQNLAAEIDPLNKKPEYWSKKTKRKIAGQEELKQIETEDPEVNWKDKRQFKRGCRHPKLRFPEKHSTGFYDREGILRVGTPMAPVKSHQSIINTVEFENMTKHLTDSNGFVTRLRLYLQQLEDIVFNVLMDTKEAFERSGYRYQMAVEGRLKRQKHRKDIEEERIRYSHAKREDEQGNPQPPDEIEIGVGTEIGEATPEPWVDDELEEKRRQRERENEQYPPEGNQAPSPVPAGMIHIPETLSEQEKLVQPTLADIFSDPTVVAPHNAQNIAWKQRDTRVPNPFPYSNQPPVAFEATGSSDTDEYSTLPHVIVLYIVNPFTYGAEKQTALHMRIAILSFIRAFNSIVGRLPYNYRPQLQLEIIGMESMDPKAVPFPDYLNDPKIPFDILHDNRRKDAPTEYGNHQVARSLSVAVYTHPRVFFPDVYKSVSARCMTAFGPGTQLINTVNSFEKINQESYHRMLKRSKGSDSTEGYGQQGMMPPHQLTKNGYISYQIPSNISCLAPAPPVYQMDENGKPSIAQMDEQTLFVSYCLIGKEYLVATATDSQGKLIDNCLANIKPRRKNNEVYRYTTKTQILDGMGKLWSFILGVMSSDIKNWRLVVGRLGRIGHGEFRAWTHLLNKTSLLRYSSSLKDICGACRSMPTAVGTPAILSACLITLEPEPSIRIMPEIYDDEETCTKKNSVFHTPGDLSCTHILTFPVGTEINLEVQDQTSDIKAEENWEFGDLDIMEGLDDGDTEIMKDLGLETPSSAAIRHGGQTSMFFSEDSSSIEIQNQPLASGYYISTAPAPELPTWFWATCPSAKRHSPVHLKSSLHINISEVKNDDIAMESSKEKEKEKEKEEKDAHPLESRQTEEVLRHVLESYNALSWLNLNRDTGDRYSCLPIHIQHLLRLYHNVARLLG
Length3047
PositionMiddle
OrganismCaenorhabditis brenneri (Nematode worm)
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Chromadorea> Rhabditida> Rhabditina> Rhabditomorpha> Rhabditoidea> Rhabditidae> Peloderinae> Caenorhabditis.
Aromaticity0.07
Grand average of hydropathy-0.716
Instability index55.18
Isoelectric point8.55
Molecular weight347625.74
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. 


ECO:0000256	RuleBase:RU364134

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

>MDP27585
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     176.76|      32|      33|    1437|    1468|       1
---------------------------------------------------------------------------
 1397- 1431 (41.50/17.59)	......SPFSV..GP.MGHP.SM..GPPAYP.GTPGAFppttptySQM
 1432- 1466 (66.54/33.31)	TP.rpgSNFGP..GPGYSYPHQM..GAPGYP.GQMGQM.......GQM
 1467- 1500 (36.65/14.54)	GVqrqySN..P..QMFQHHQHQM..QQMQMRmQQMRQM.......GQ.
 1544- 1574 (32.07/11.67)	......SQFGPtnGP.YGSMQPMipQSPNFN.QQYSGM.......G..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     155.29|      40|      77|    1105|    1146|       2
---------------------------------------------------------------------------
 1105- 1146 (66.89/47.91)	EKELarQVL..LLCDPSSIFRHVENGGPYGL..........CDVSGLISPDYSN
 1147- 1186 (38.31/20.29)	TPHS........FDDEHS...DSEMDERYGLgegtsdkyqdGDSVDMIEPE...
 1188- 1223 (50.09/28.54)	......QVIdeLPMEMNSMTDHIRTVGDHLG..........PD..GMLSPPASN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      69.55|      17|      17|     661|     677|       3
---------------------------------------------------------------------------
  661-  677 (26.71/14.43)	KGSKR..RQQGNVAKLARI
  679-  697 (22.13/10.52)	KPSKKiiEKKAKPAKKVKI
  702-  717 (20.70/ 9.30)	KPSAN..VKPSKSVKLSR.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      82.58|      24|      78|    2463|    2487|       4
---------------------------------------------------------------------------
 2463- 2487 (38.69/32.90)	PFTYGaEKQTALHMRIAILSFIRAF
 2542- 2565 (43.88/32.23)	PTEYG.NHQVARSLSVAVYTHPRVF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.66|      11|      14|     877|     887|       5
---------------------------------------------------------------------------
  877-  887 (21.55/12.21)	IPDCEIEE.IKP
  893-  904 (18.11/ 8.81)	LPNPHHEEaVKP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     217.38|      74|     239|     981|    1082|       6
---------------------------------------------------------------------------
  140-  209 (73.33/39.68)	LPAP....YFSNDSAKE.LWVFwfdeepEELakhCEGLESDEELSSANQM.....NIV.SYEVRTIlfKALHIVL....ERDLIK............
  992- 1072 (109.13/133.93)	LAIPpgnkYFKGSIIKNgLRGF......EEL...CAEKDAQDAMKKAKYLKKTRRKVT.KREIKTA..RACHLEL....KRQIVKRSLKKtlKKLRL
 2164- 2205 (34.91/ 6.97)	..................................................KKTKRKIAgQEELKQI..ETEDPEVnwkdKRQF.KRGCRH..PKLRF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      77.51|      20|      25|    1592|    1611|       7
---------------------------------------------------------------------------
 1592- 1604 (18.28/ 6.38)	.............HQFHQQQMMQQQQ
 1605- 1630 (27.36/13.95)	HHQQQQQqqqiqlQQIQRNHMQLQNS
 1631- 1650 (31.88/17.72)	LPPQIAQ......PPNPQLLLMQQNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      72.27|      16|      78|     639|     654|       8
---------------------------------------------------------------------------
  639-  654 (27.54/16.87)	KRMTKTLKE.RQKRRPL
  720-  734 (23.65/13.30)	KSIEKALIL.RNK.RPL
  740-  756 (21.09/10.95)	WKLSKKIRGiRIKRRSI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     115.95|      34|     511|    1230|    1280|       9
---------------------------------------------------------------------------
 1233- 1270 (53.93/50.19)	VGPPSIESQGLNQIYP..TPPSVQMLQgdaSQALSPgMHI
 1360- 1395 (62.02/21.33)	IPPPFALPQPSTSVHPslSTPMAPVFQ...SPALPP.QHI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     169.40|      51|     235|    2252|    2303|      10
---------------------------------------------------------------------------
 2252- 2303 (82.67/44.85)	NGFVTRLRL.YLQQLE.DIVFNVLMDTKeAFERSGYRYQMAVEGRLKRQKHRKD
 2488- 2540 (86.73/43.70)	NSIVGRLPYnYRPQLQlEIIGMESMDPK.AVPFPDYLNDPKIPFDILHDNRRKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.71|      14|      15|     428|     442|      12
---------------------------------------------------------------------------
  428-  442 (20.37/13.77)	QrSEVKNPEE..YDSDV
  445-  460 (18.34/ 7.12)	D.PEVENKEEesVDSEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.66|      21|      80|     851|     875|      13
---------------------------------------------------------------------------
  851-  875 (36.40/26.09)	DEPKSVDKFS..IHD....WSkceaEMYTPG
  928-  954 (28.26/11.71)	DEEMSEERFNevFKDklnrWK....PNFTRG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     152.80|      48|     367|    2015|    2095|      14
---------------------------------------------------------------------------
 1685- 1737 (71.64/28.46)	PAAIKNLPNPPDANVPYKKQ..DSSIRPPdLNVPRgDSLTVAIVLSDtllDLHFD
 2030- 2079 (81.16/64.78)	PAIMRSMPNEAIRAAPNIEQyaDQALLGP.IDQPK.DVMYITIIPDD...DLIFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.16|      33|     238|    1962|    1996|      15
---------------------------------------------------------------------------
 1962- 1996 (52.24/28.00)	ELNSSEWDDLLGLI...TPTLEVSMKQArhISPEVEFK
 2207- 2242 (53.92/23.87)	EKHSTGFYDREGILrvgTPMAPVKSHQS..IINTVEFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      50.59|      10|      31|     781|     790|      18
---------------------------------------------------------------------------
  781-  790 (19.21/10.76)	RRRKRKRYYG
  801-  810 (15.39/ 6.95)	RRIKRKRLRT
  815-  824 (15.98/ 7.54)	QRRERNKKMG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.43|      20|     510|     564|     585|      19
---------------------------------------------------------------------------
  564-  585 (28.81/22.56)	DTFLtWKTKYQKsYHTPIREHN
  592-  611 (32.62/16.77)	DVYV.MGDKLDR.YGDLCQEHE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.55|      22|      30|     360|     387|      21
---------------------------------------------------------------------------
  360-  381 (39.42/28.41)	EEP..TTSYETDQANPESVPQRPR
  391-  414 (32.13/ 9.75)	EKPreLTYEEKEKRNQAREVRRRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      94.20|      23|    1110|    1505|    1527|      22
---------------------------------------------------------------------------
 1505- 1527 (50.20/28.82)	GYGAPG.MPPYQPGTPGSGGYVTP
 2617- 2640 (44.00/24.17)	GYGQQGmMPPHQLTKNGYISYQIP
---------------------------------------------------------------------------




































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 MDP27585 with Med13 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) GEDDIERISIPGGGATIVEIKADDDETRNMKKWNNITKKS
2) HKKRMTKTLKERQKRRPLKKKVKSKGSKRRQQGNVAK
3) LKRQKHRKDIEEERIRYSHAKREDEQGNPQPPDEIEIGVGTEIGEATPEPWVDDELEEKRRQRERENEQYPPEGNQAPSPVPAGMIHIPETLSEQ
4) NAFHGLSERDKRKFSRRQMQLKSGLMPTSLQPAAIKNLPNPPDANVPYKKQDSSIRPPDLN
5) PEIIVEERPKTPDPEPSVLHPTRVLLASSSDEEPTTSYETDQANPESVPQRPRWMYEQDAPSEKPRELTYEEKEKRNQAREVRRRRRKNREERRKEQERQRSEVKNPEEYDSDVVTDPEVENKEEESVDSEIPK
6) RRIPPPFALPQPSTSVHPSLSTPMAPVFQSPALPPQHIPSPFSVGPMGHPSMGPPAYPGTPGAFPPTTPTYSQMTPRPGSNFGPGPGYSYPHQMGAPGYPGQMGQMGQMGVQRQYSNPQMFQHHQHQMQQMQMRMQQMRQMGQGVPPGYGAPGMPPYQPGTPGSGGYVTPVGGPSSVQRLNNFVNQSQFGPTNGPYGSMQPMIPQSPNFNQQYSGMGNPMGSPMVNPMMSPMQQHQFHQQQMMQQQQHHQQQQQQQQIQLQQIQRNHMQLQNSLPPQIAQPPNPQLL
7) RRNENFTKVSSQQNQPLYGEASKIPAGSGPARDSAEDMPSSKEGDKDASRKQKIVKR
8) YSNTPHSFDDEHSDSEMDERYGLGEGTSDKYQDGDSVDMIEPETQVIDELPMEMNSMTDHIRTVGDHLGPDGMLSPPASNEMPKGGPLSVGPPSIESQGLNQIYPTPPSVQMLQGDASQ
1279
637
2295
1654
329
1358
7
1144
1318
673
2389
1714
462
1644
63
1262










Molecular Recognition Features






MoRF SequenceStartStop




1) PLYGEA
22
27