<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 MDP33640

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYNFRGGGEYGPVISAPAQDDPVLRSFTCCVQANLLCVWRRRVKPDAKELWIFWWGDEPNLSDIIHHELEMVEEGLWECGLSYECRTLLFKAIHNLLERYRKKWFVCNLIIHLSCSFSFFLHGESNVCTSVEIAQHQPAYHITEEHVRLAQTSSSPIQVILSPYGLGGTLTGQAFKMSDPAVRKLMEEWSHFYPMVLKRKENERDESNPTYDSHSHVALEVIVGGVRMIYPAAFVLVAHADLPVEQPPPAQGAQSGTRDSSNCGIPLTPPTSPEQPCSGDSGFQTAVSSVASHECGPAQSPKHTEKKLTNQMVHQAWKECYVNQLRQQAKQQQASGSCANPQPGANPSSCPASSAPSLPPPSIPKHKPADKPDKSDKGPKRVAITPFHHRLSVDQQQCPDQDPPAGSQLALVPLDPPLDSLPSCKYPKPMSSIRKGPESLLHSPVSPLPPTLSPHPRVQDPEAMEAPVGLPHCLEGPPMPPPPEMSETALYTASLVPRDAGGGWWKSYRNPRVDKAEFKPSELPCDLLESKLESTGEGTVLKRYVLYAHTHKRFKISEERLREHISTLGFLQQPGVEGLTDPGDDPYDFKEGDIEYSFPTSKRLKGPGRDPNRKSKVGNMSVVWKLSVAELQRMFPTPPSLEQHPAFSPNMTYRDTPSQEPPAPSAGVEHPLSAHANSQLNDFKMEVEDGMSSPKAEDARDFSYVYRVPSVQPQLGCSMFAPLRALPSQCLPPLKIPEQCYYRPSWALLPKMEHYCLPAQAPFLRDGYVNVPSISTLQDQDYSQMSTCTTSVGTVGGVLPSPATPRFSVPTPRTPRTPRGMGTASGQGSVKQDGTELSSPASTPSASLPLSSVEPAACGPALPEAHSLYAILLLSDSVLDVFKDRNFDSCCICACNTNVKGADVGVYIPDSTREDQYRCMCGFSAIANRRLAHGAGLFLEDELDIFGRGSEAGRAAERRLALCRRELPAGATRRGTQEPPMSVLGLIQEQCSQPITSLASLHKPAACSCRSRQGALLQSWAADRLWADSIDACVECYNALVQGLQYVDNATGGKVEQALVRSTALHSWPHTNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLVGYDRDFLALSPLALPFWEKLLLEPYGGQRDVAYLVLCPNNDPIINGARAFFQELSAVYESCRLGKHRPLGRVSRDGIVPVGVDEAEKLEEDLVDEWLTGPWSGQHHEDHLSKLKLYAQTCKQRLAQQLSVLSLDSSLLLLPKPQPSPAPTQPAQSTPSSQPTPEADAAAAAASAASAAASAASAAASAAPASGSTPTPTSTTSAAQAASAEQGQSETKNVPNSTLNPNNQPAESNENNSAERERIGIPTVADSADSHVHPPAIVLYMVDPFLCSGTGMGPGDDEEAEEVESGSVWLLSLLRCFSDMLSMLPENLQPVVPCQYLLQPASGESPLYLQHLRSLAFSAHSQCRRRLPTQTQIKSLTGFGPAATVESLLKSPENPSSMQVYSPPFILGPTRSKQPEAGEVCSDTPARNNVLFVGYCLSHDQRWILVSCTDQQGELLETSIINIDVPNRSRRPKFSPRKIGLKKVWEWCISIIQMTAVPWRIVIGRLGRLGHGELKDWSLLLGEHSLHSISKQLREACRMCGISAADSPSILSACLVSMEPQGSFVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSSTTQVAPSSYPTEDNPDDMFGLPFPDELENDIGHDMMFFTGNLHPSPNTSPVPSPGSPSGMGVGSHFQHTRSQGERLLSREAPEELKQQPLALGYYVSTAQAEGLPHWFWASCPQAQNQCPLFLKASLHHHISIAQTDELVSSKTSQRSPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLVILIQMYNAILNIL
Length1980
PositionMiddle
OrganismAstyanax mexicanus (Blind cave fish) (Astyanax fasciatus mexicanus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Characiformes> Characoidei> Characidae> Astyanax.
Aromaticity0.07
Grand average of hydropathy-0.354
Instability index58.92
Isoelectric point5.88
Molecular weight216284.47
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

>MDP33640
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.59|      22|      24|     397|     420|       1
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  397-  415 (21.23/11.26)	............PKHK.PadKPDKS.DKGPKRV
  416-  442 (28.49/10.61)	AITPF.hhrlsvDQQQ....CPDQD.PPAGSQL
  443-  473 (24.87/ 8.18)	ALVPLdppldslPSCKyP..KPMSSiRKGPESL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.28|      20|      24|    1170|    1192|       2
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 1173- 1192 (38.41/25.35)	PLPI.PTLLV...GYDRD..FLALSP
 1194- 1219 (23.87/ 6.21)	ALPFwEKLLLepyGGQRDvaYLVLCP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.62|      26|      28|     279|     306|       3
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  279-  298 (32.99/11.98)	.......QP................PPAQGAQSGTRDSS....NCGI
  301-  329 (25.44/10.65)	TPPTSPeQP...............cSGDSGFQ..TAVSSvashECG.
 1337- 1378 (30.19/ 7.50)	TPSSQP.TPeadaaaaaasaasaaaSAASAAASAAPASG....STPT
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.06|      13|      28|     607|     619|       4
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  607-  619 (26.25/13.40)	PGVEGLTDPGDDP
  632-  644 (25.81/13.04)	PTSKRLKGPGRDP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.95|      25|      28|    1735|    1762|       5
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 1738- 1762 (41.67/25.87)	VTMGSVFGRSTALNLQTSQLNTPQD
 1765- 1789 (44.28/19.78)	CTHILVFPTSSTTQVAPSSYPTEDN
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     132.94|      27|      28|     483|     509|       6
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  483-  504 (34.41/12.73)	.....PTLSP.......HPRVQDPEAMEAPVGLP
  505-  530 (46.79/20.26)	HCLEGPPMPP.......PPEMSETALYTASL.VP
  531-  557 (28.07/ 8.87)	RDAGG.....gwwksyrNPRV.D.KAEFKPSELP
  667-  682 (23.67/ 6.20)	.......MFP.......TP....PSLEQHPAFSP
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.05|      17|      28|      98|     114|       7
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   98-  114 (32.58/22.29)	IHHELEMVEEGLWECGL
  126-  142 (32.47/22.19)	IHNLLERYRKKWFVCNL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.23|      13|      28|    1535|    1548|       8
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 1535- 1548 (21.30/15.99)	PTQTQIKSlTGF..GP
 1562- 1576 (22.93/12.06)	PSSMQVYS.PPFilGP
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.77|      23|      28|    1924|    1946|       9
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 1924- 1946 (39.78/25.28)	PHPLDSKTTSDV.LRFVLEQYNAL
 1953- 1976 (35.99/22.09)	PATQDRRSCLPVhLVILIQMYNAI
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.03|      28|      28|    1838|    1865|      10
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 1838- 1865 (47.95/25.08)	GSHFQHTRSQG.ERLLSREAPEELKQQPL
 1868- 1896 (51.09/27.23)	GYYVSTAQAEGlPHWFWASCPQAQNQCPL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.68|      21|      28|    1390|    1413|      11
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 1390- 1413 (32.18/22.05)	SAEQGQSETKNVPNST...LNPnnqPA
 1420- 1443 (30.50/13.51)	SAERERIGIPTVADSAdshVHP...PA
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.65|      13|      16|     735|     748|      12
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  735-  748 (21.22/13.82)	FSYVYRVPSvQ..PQL
  753-  767 (20.44/ 8.39)	FAPLRALPS.QclPPL
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     215.96|      52|     448|     334|     394|      13
---------------------------------------------------------------------------
  330-  391 (82.47/63.97)	PAQ.sPKHTEKKLTNQMVHQAWKECYVNqlrqqakqqQASGSCANPQPGAN...PSSCPASSAP...SL
  783-  832 (68.90/38.42)	.....PKMEHYCLPAQAPF..LRDGYVN.........VPSISTLQDQDYSQ...MSTCTTSVGTvggVL
  833-  886 (64.59/35.42)	PSPatPRFS...VPTPRTPRTPRGMGT...........ASGQGSVKQDGTElssPASTPSASLP.lsSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.70|      14|      15|     973|     986|      14
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  973-  986 (24.60/13.52)	EDELDIFGRGSEAG
  990- 1003 (25.11/13.95)	ERRLALCRRELPAG
---------------------------------------------------------------------------
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.08|      27|      30|    1626|    1654|      19
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 1626- 1654 (44.46/28.95)	SIINID.VPNRSRRPKFSprKIGLKKVWEW
 1657- 1684 (45.62/23.51)	SIIQMTaVPWRIVIGRLG..RLGHGELKDW
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.32|      12|      15|    1285|    1296|      20
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 1285- 1296 (21.48/13.88)	QHHEDHLSKLKL
 1303- 1314 (18.84/11.20)	QRLAQQLSVLSL
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.45|      17|     858|      58|      85|      22
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   58-   79 (31.63/33.79)	RSF.TCCVqanllCVWRRRVK........PD
  918-  943 (25.82/ 6.74)	RNFdSCCI.....CACNTNVKgadvgvyiPD
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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 MDP33640 with Med13 domain of Kingdom Metazoa
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