<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 MDP15704

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYNFRGGGEYGPVISAPAQDDPVLCSFTRCVQANLLCVWRRKLKPDAKELWIFWWGDEPNLSDIIHHELEVVEEGLWECGLSYECRTLLFKAVHNLLERCLMDKDFVRIGKWFVKPYELEEKHLGASSEHLSCSFSFFLHGESNVCTSVEISQHQPVYHITEEHVRLAQTSSSPIQVILSPYGLGGTLTGQVFKMSDPAVRKLIEEWSYFYPMVLKHSRGEQDSNLSYDPHSHVALEVIVGGVRMIYPAAFVLIAQADLPVEQPPPAQGAQSGTRDSSNCGIPLTPPTSPEQPCSGDSGFQTAVSSVSSQESGATHSPKHSEKKLSNQMVHQAWKECYMNQLQRKCNLSNGMVPKKEVTSEVAVWDFTDPGERAPCSCNRMRQQSKQQQQTNGFSANSQPSTNPSSSSSSSSLSSSLPPPSTPKSKTADKADKSDKVSKRSAITPFHHRLSVDQQPCPEQDAPPGPQLVLAALDTSLDTLPGCKYPKPMFTGRKGPESLLHSPVSPLPPTLSPHPRVQDPEVMEAPMDVSQCLEGTSLPTAPEMSDTALYTASLVPREANGGWWKSYRTPRVDKAELKPPELPYDMVEIKAEGEGTALKSFFAQTHKRFKISEERLQEHMSTLGFLQQPGVEGLGEAGEDPYDFKEGDIEYSFPTTKRLKSRDPSRKSKGEEVNGNSAVPEGKDAMSIFSSAPKFAEELAQDESGGKANPPLTREKDLIVLISDLENIFGEEEDDLGTTFPNHQQPSKTVVPGAEERPLGIDGRVAVPYPSTVAELQRMFPTPPSLEQHPAFSPITTYRDTPSQETPAPSAGHEHPLNTHTNNQLNDYRSEMDESMTSPKAEDIRPQMGCSMFAPLRTLPSQCLPPLKIPEQCYYRPSWSMLPKMEPYCLPSQAPFVRDGYVNVPSIGALQDQDYAQMSTGTASVGTAGGVLPSPATPRFSVPTPRTPRTPRGVGTASGQGSIKQDGTELSSPISTPSTGLPLSSVEPLASGPVLPEAHSLYVILLLSDSVLDVFKDRSFDSCCICACNMNVKGADVGIYIPDSTREDQYRCMCGFSAIANRRLAHGAGLFLEDELDIFGRGSEAGRAAERRLALGRRDTPTGGKRAQEQTPMEVLELIQEQCSQPILSVASLHSPAACSCRSRQRALLQSWVADRLWADGSDACVECYNALVQGLQYVDNAAGGKVEQALVRSSALHSWPHTNVLDISMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYDRDFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPDNDILLTGARTFFQELSAVYESCRLGKHHPLARMSRDGIVPVGAMESEKLEENGREVDEWMTGPWAGQYREDHLSKLKLYAQTCKQKLAPQLSALSLDSSLLLPPKPQPSSAPAPSTQLNPGSGAPEGETSATAAAAGVPGSGNTPTSTSTSTGQASTEGADTLQSVPNTTPIQQSHPTESAESLAERERIGIPTAAQSADSHAYPPAIVLYLVDPFLCSGSGVGSGEEEEAEEVESRSMWLLALLRCYTDMLSVLPENIQPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAHSQCRRRLPTQTHIKSLTGFGPAATIDSLFKSVENPSSMQVYSPPFVLAPLRTKQPEVGEEATTRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRSRRPKFSPRKIGLQKLWEWCIGIIQMTAIPWRIVIGRLGRLGHGELKDWSLLLGEHSLHSISRQLREACRMCGISATDSPSILSACLVSMEPQGSFVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSSTTQVAPSSYPTEDNPDDIFGLPFTDDLEKDIEHDMMLITGNLHASPNTSPVPSPGSPSGLGVGSHFPHTRSQGERLLSREAPEELKQQPLALGYYVSTAQAEGLPHWFWASCPQAQNQCPLFLKASLHHHISIAQTDELVSSKTSQRNPHPLDSKTTSDVLRFVLEQYNALSWLTCSPATQDRRSCLPVHLVILTQMYNAILNIL
Length2098
PositionMiddle
OrganismIctalurus punctatus (Channel catfish) (Silurus punctatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Siluriformes> Ictaluridae> Ictalurus.
Aromaticity0.07
Grand average of hydropathy-0.375
Instability index56.81
Isoelectric point5.49
Molecular weight229749.89
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

>MDP15704
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      64.58|      18|      21|    1472|    1492|       1
---------------------------------------------------------------------------
 1472- 1489 (31.72/11.13)	PGSGAPEGETSATAAAAG
 1491- 1508 (32.86/19.52)	PGSGNTPTSTSTSTGQAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.56|      20|      21|     428|     447|       2
---------------------------------------------------------------------------
  428-  447 (32.86/16.32)	SANSQPSTNPSSSSSSSSLS
  448-  467 (33.70/16.97)	SSLPPPSTPKSKTADKADKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.71|      17|      22|    1302|    1318|       3
---------------------------------------------------------------------------
 1302- 1318 (34.14/20.53)	SPEPLPI.PTLLL...GYDRD
 1323- 1343 (22.57/10.60)	SPLALPFwEKLLLepyGGQRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.28|      17|      22|     292|     310|       4
---------------------------------------------------------------------------
  292-  310 (26.35/17.02)	LPVEqpPPAQGAQSGTRDS
  315-  331 (33.93/15.81)	IPLT..PPTSPEQPCSGDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.90|      18|      20|     893|     912|       5
---------------------------------------------------------------------------
  536-  553 (33.80/13.11)	PVSPLPPTLSPHPRVQDP
  893-  910 (38.10/16.51)	PSQCLPPLKIPEQCYYRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.90|      20|      23|    1509|    1528|       6
---------------------------------------------------------------------------
 1509- 1528 (35.71/20.94)	TEGADTLQ.....SVPNTTPIQQSH
 1530- 1554 (27.20/14.01)	TESAESLAereriGIPTAAQSADSH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      41.85|      10|      23|     814|     823|       7
---------------------------------------------------------------------------
  814-  823 (21.02/12.02)	PTPPSLEQHP
  840-  849 (20.84/11.82)	PAPSAGHEHP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.37|      21|      27|    1080|    1100|       8
---------------------------------------------------------------------------
 1080- 1100 (42.06/28.23)	EDQYRCMC.GFSA..IANRRLAHG
 1106- 1129 (27.31/15.56)	EDELDIFGrGSEAgrAAERRLALG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      86.78|      20|      22|    1188|    1207|       9
---------------------------------------------------------------------------
 1166- 1183 (25.58/11.34)	..LHSPAACSCRSRQRALLQ
 1188- 1207 (38.42/20.63)	DRLWADGSDACVECYNALVQ
 1213- 1226 (22.78/ 9.32)	DN.AAGGK...VE..QALVR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.40|      12|     806|     975|     988|      10
---------------------------------------------------------------------------
  976-  988 (21.92/13.98)	PTPrTPRTPRGVG
 1943- 1954 (24.48/ 6.81)	PVP.SPGSPSGLG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.57|      23|     806|     867|     891|      13
---------------------------------------------------------------------------
  867-  891 (37.61/26.40)	ESMTSPKAEDI.RPQMGcsMFAPLRT
 1656- 1672 (21.66/ 7.80)	.....PTQTHI.KSLTG...FGPAAT
 1678- 1700 (31.29/14.81)	KSVENPSSMQVySPPF...VLAPLRT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.54|      17|      28|     484|     500|      14
---------------------------------------------------------------------------
  484-  500 (34.86/18.05)	SVDQQPCPEQDAP.....PGPQ
  509-  530 (27.68/12.47)	SLDTLPGCKYPKPmftgrKGPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.29|      20|      28|      65|      84|      15
---------------------------------------------------------------------------
   65-   84 (36.36/21.07)	QANLLCVWRRKLKPDAKELW
   91-  110 (34.92/19.96)	EPNLSDIIHHELEVVEEGLW
---------------------------------------------------------------------------




































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 MDP15704 with Med13 domain of Kingdom Metazoa
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