<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 MDP22188

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSDPAVRKLMEEWSHFYPMVLKRKENERDESNPTYDSHSHVALEVIVGGVRMIYPAAFVLVAHADLPVEQPPPAQGAQSGTRDSSNCGIPLTPPTSPEQPCSGDSGFQTAVSSVASHECGPAQSPKHTEKKLTNQMVHQAWKECYVNQLHHRCSLSNSMTPKKEVSNGLATWDFTDPGERAPCSCSRLRQQAKQQQASGSCANPQPGANPSSCPASSAPSLPPPSIPKHKPADKPDKSDKGPKRVAITPFHHRLSVDQQQCPDQDPPAGSQLALVPLDPPLDSLPSCKYPKPMSSIRKGPESLLHSPVSPLPPTLSPHPRVQDPEAMEAPVGLPHCLEGPPMPPPPEMSETALYTASLVPRDAGGGWWKSYRNPRVDKAEFKPSELPCDLLESKLESTGEGTVLKRLYAHTHKRFKISEERLREHISTLGFLQQPGVEGLTDPGDDPYDFKEGDIEYSFPTSKRLKGPGRDPNRKSKGEEMNSNNAVPEGKDAMSIFSSAPKSEELAQDESGAKANPPLTREKDLIVLISDLENIFGEEEDELGTTFPNHQQSTKTVAPGAEERPQGIDGRVAVPYPSTVAELQRMFPTPPSLEQHPAFSPNMTYRDTPSQEPPAPSAGVEHPLSAHANSQLNDFKMEVEDGMSSPKAEDARDFSYVYRVPSVQPQLGCSMFAPLRALPSQCLPPLKIPEQCYYRPSWALLPKMEHYCLPAQAPFLRDGYVNVPSISTLQDQDYSQMSTCTTSVGTVGGVLPSPATPRFSVPTPRTPRTPRGMGTASGQGSVKQDGTELSSPASTPSASLPLSSVEPAACGPALPEAHSLYAILLLSDSVLDVFKDRNFDSCCICACNTNVKGADVGVYIPDSTREDQYRCMCGFSAIANRRLAHGAGLFLEDELDIFGRGSEAGRAAERRLALCRRELPAGATRRGTQEPPMSVLGLIQEQCSQPITSLASLHKPAACSCRSRQGALLQSWAADRLWADSIDACVECYNALVQGLQYVDNATGGKVEQALVRSTALHSWPHTNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLVGYDRDFLALSPLALPFWEKLLLEPYGGQRDVAYLVLCPNNDPIINGARAFFQELSAVYESCRLGKHRPLGRVSRDGIVPVGVDEAEKLEEDLVDEWLTGPWSGQHHEDHLSKLKLYAQTCKQRLAQQLSVLSLDSSLLLLPKPQPSPAPTQPAQSTPSSQPTPEADAAAAAASAASAAASAASAAASAAPASGSTPTPTSTTSAAQAASAEQGQSETKNVPNSTLNPNNQPAESNENNSAERERIGIPTVADSADSHVHPPAIVLYMVDPFLCSGTGMGPGDDEEAEEVESGSVWLLSLLRCFSDMLSMLPENLQPAVVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAHSQCRRRLPTQTQIKSLTGFGPAATVESLLKSPENPSSMQVYSPPFILGPTRSKQPEAGEVCSDTPARNNVLFVGYCLSHDQRWILVSCTDQQGELLETSIINIDVPNRSRRPKFSPRKIGLKKVWEWCISIIQMTAVPWRIVIGRLGRLGHGELKDWSLLLGEHSLHSISKQLREACRMCGISAADSPSILSACLVSMEPQGSFVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSSTTQVAPSSYPTEDNPDDMFGLPFPDELENDIGHDMMFFTGNLHPSPNTSPVPSPGSPSGMGVGSHFQHTRSQGERLLSREAPEELKQQPLALGYYVSTAQAEGLPHWFWASCPQAQNQCPLFLKASLHHHISIAQTDELVSSKTSQRSPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLVILIQMYNAILNIL
Length1904
PositionMiddle
OrganismAstyanax mexicanus (Blind cave fish) (Astyanax fasciatus mexicanus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Characiformes> Characoidei> Characidae> Astyanax.
Aromaticity0.06
Grand average of hydropathy-0.418
Instability index59.93
Isoelectric point5.65
Molecular weight206810.02
Publications
PubMed=25329095

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

>MDP22188
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.20|      21|      24|     227|     250|       1
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  229-  258 (23.36/13.78)	HKpadKPDKSDKGPKRVAITPF.hhrlsvDQ
  259-  286 (26.84/ 8.70)	QQ...CPDQDPPAGSQLALVPLdppldslPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.56|      23|      25|    1459|    1483|       2
---------------------------------------------------------------------------
  590-  613 (35.18/13.81)	PPS..LEQHPAF..SPNmtyRDTPS..QEP
 1459- 1483 (35.15/18.90)	PTQTQIKSLTGF..GPA...ATVESllKSP
 1486- 1506 (34.23/13.23)	PSSMQVYS.PPFilGPT...RS.....KQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     148.66|      22|      24|     307|     328|       3
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  307-  328 (41.92/16.62)	PVSPLPPTLSPHPRVQDPEAME
  330-  350 (42.10/16.72)	PVG.LPHCLEGPPMPPPPEMSE
 1709- 1727 (32.81/11.12)	PTEDNPDDMFGLPF...PDELE
 1740- 1759 (31.83/10.53)	NLHPSPNT.SPVPSPGSPSGM.
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     131.35|      29|      30|    1248|    1276|       4
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 1248- 1276 (48.55/25.85)	APTQPAQSTPSSQPTPE.ADAAAAAASAAS
 1281- 1309 (43.71/22.36)	AASAAASAAPASGSTPT.PTSTTSAAQAAS
 1328- 1356 (39.09/19.03)	N.NQPAESNENNSAERErIGIPTVADSADS
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.44|      23|      29|      69|      97|       5
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   69-   97 (38.28/30.20)	EQP.PPAQGAQsgTRDSS....NCGipltPPTSP
   98-  125 (36.16/14.95)	EQPcSGDSGFQ..TAVSSvashECG....PAQSP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.21|      20|      29|     162|     185|       6
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  162-  185 (28.18/24.69)	KKEVSNGLATwdfTDPGErAPCSC
  194-  213 (39.03/18.71)	QQQASGSCAN...PQPGA.NPSSC
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.11|      14|      15|     892|     905|       7
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  892-  905 (24.30/14.76)	EDELDIFGRGSEAG
  909-  922 (24.81/15.24)	ERRLALCRRELPAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.59|      24|     271|    1509|    1545|       8
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 1522- 1545 (47.20/55.77)	LFVGYCLSHDQ.....RWILVSCTDQQGE
 1789- 1817 (42.39/20.65)	LALGYYVSTAQaeglpHWFWASCPQAQNQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.08|      27|      29|    1550|    1578|       9
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 1550- 1578 (44.46/28.66)	SIINID.VPNRSRRPKFSprKIGLKKVWEW
 1581- 1608 (45.62/23.29)	SIIQMTaVPWRIVIGRLG..RLGHGELKDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.55|      20|      24|     435|     456|      10
---------------------------------------------------------------------------
  435-  454 (38.65/23.96)	PGVEGLTDPGDDPYDFKEGD
  460-  479 (36.90/16.47)	PTSKRLKGPGRDPNRKSKGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.58|      20|     271|     674|     699|      11
---------------------------------------------------------------------------
  674-  698 (35.96/20.90)	PLRALPSqclppLKIPEQCYYRP.......SW
  946-  972 (31.62/ 7.81)	PITSLAS.....LHKPAACSCRSrqgallqSW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.77|      23|      29|    1848|    1870|      12
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 1848- 1870 (39.78/22.97)	PHPLDSKTTSDV.LRFVLEQYNAL
 1877- 1900 (35.99/20.05)	PATQDRRSCLPVhLVILIQMYNAI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     125.17|      40|     271|    1370|    1427|      14
---------------------------------------------------------------------------
 1387- 1427 (67.60/31.97)	EEVESGSVWLLSL.LRCFSDMLSmLPENLQPAVVL........QVVPCQY
 1660- 1708 (57.57/21.55)	DAVTMGSVFGRSTaLNLQTSQLN.TPQDASCTHILvfptssttQVAPSSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.73|      21|      56|     500|     520|      16
---------------------------------------------------------------------------
  500-  520 (37.56/20.75)	APKSEELAQDESGAKANP.PLT
  558-  579 (35.17/18.90)	APGAEERPQGIDGRVAVPyPST
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.32|      12|      16|    1204|    1215|      22
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 1204- 1215 (21.48/16.01)	QHHEDHLSKLKL
 1222- 1233 (18.84/12.94)	QRLAQQLSVLSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.28|      20|      24|    1089|    1111|      23
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 1092- 1111 (38.41/26.65)	PLPI.PTLLV...GYDRD..FLALSP
 1113- 1138 (23.87/ 6.41)	ALPFwEKLLLepyGGQRDvaYLVLCP
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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 MDP22188 with Med13 domain of Kingdom Metazoa
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