<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 MDP11973

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMTTAANWVANGASLEDCHSNLFSLAELTGIKWRCYSFRGGGEYGPVISAPAQDDPVLRSFIRCVQANLLCVWRRKVKPDAKELWIFWWGDEPNLSDVIHHELEVAEEGLWECGLSYECRTLLFKAIHNLLERCLMDKDFVRIGKWFVKPYDLEEKHMGTSEHLSCSFTFFLHGESNVCTSVEVAQHQPAYHITDDHTRLAQISSAPVQVILSPYGLAGSLTGQAYKMSDPAVRKLMEEWSYFYPMVLQRHREGGAGTGGMGAEREGTDRPYDPHSHVAVEVIVGGVRMIYPAAFVLVAQGDLPVEEPPPAPGAQGGSRDPSHCSIPLTPPTSPEQPCSADSGFVTTVSSVLPAQESAMGVTNSPKHSGKKLTNQVVHQAWKECYLNQLQHKCSGPSSVTPKKEAPNGVPTWDFTDPEERAPCSCSRLKQQKQQQQTNTSSANPPSGANTTPSSGPALPPPSLPKHKATDKPEKADKQPKRAAAMTPFHHRLSVGQEACLEQDSSGGSQLGLVSLDPPLDPMPSCKYPKPLSAGRKAPESLLHSPVSPLPPTLSPHPRGGQDPEVPDNTVGMAPCPDGASGMGVMEPSETALYAAPLGPREREAGAGWWRGFRTPRADKAEFRPPELPSDRVEVKTETQATEGVALKRLFMQTQKRFKISEACVREHIQTLGLLHQPGDPGDDPYDFKEGDIEYSFPTSKRLKGPCRDHSKRGPKGEEISNGALPDGKDAMSIFSSAPKADDDSPQDDDAAAKAQNPSLTRETDLVVLISDLENIFDEDEEELRTACPNQHTARVLVSGSEDRREGRVAVPYPSTVADLQRMFPTPPSLEQHPAFSPIMTYRDTPSQEPPAPSAGSDHPLGPLSSTQLQEYRMEVEEGMASPKPEDIKDFSFVYRVPSVQPQMGCSMFAPLRTLPSQCLPPLKLPDQCYYRPSWALLPKMEHYSSLPPSHHTTFIRDGYVNVPSVGDQEYAQLSASALSVGTTGGILPSPSPATPRFSVPTPRTPRTPRGVGTTSGQGSVKQEGTGTELSSPTSTPSTSLPMSSVAEPHTSSPPIPEAHSLYAALLLSDSVLNVFKDRNFDSCCICACNMNVKGADVGVYIPDSTLEDQYRCMCGFSAIVNRRLAHGTGLFLEDELDIFGRGSEVGQAAERRLALCRRDPPMGDPRAKRPQDSSPAPSSVMVLLQQQCSQPISSLASMHLPPSCSCHGRQGALLQSWMADKQWTDGSDACVECYNALVQGQQYVDNPAGGKVDPAVVRSSALHSWPHTNMLDISMLSSQDVVRMLLSLQPYLQDAIQKKRMGRTWENIQHVQGPLTWQQFHKMAGRGSYGSEESPEPLPIPTLLLGYYDYYDRNFLALSPLALPFWEKLLLEPYGGQRDVAFLVLCPNSDTLLAGAQVFFQELSAVYETCRLGKHRPLAKVSRDGLVRVGAVDTETETEKEKEKERQEEEQVDQWFTGPWAGQQHIDNLRKLKLYARACRRQLGPQLSALSLDSSLFIPPKHQPPLAPTPSSAQPAPSSSQPPSGPGVPAEGEPAAAPSSGSTTTPTAAALDQPGPAEITQGGAAEAKTTPNATPPPPPPSQPAETPESLAERERIGIPTLADSADSHAHPPAIVIYVVDPFLCSGGVRDGGGGGEEEEGEEVEAGSVWLLGLLRCYTEMLQTLPESMRPALVLQVVPCQYLLQPASGESPLYLQHLRSLAFSAYSQCRRLLPTKTHIKSLTGFGPASTLESVLKSPEHPSPLQGYSPPYILGPTRAKMPEPGEVWAEIPPRYNVLFVGYCLSHDQRWILVSCTDQQGELLETCIINIDVPNRVRRPKVSARKMGLQKLWDWCVGIIQMTSLPWRIVIGRLGRLGHGELKDWSVLLGEHSLHSISRQLKEACRMCGISSADSPSILSACLVAMEPQGSIVVMPDAVTMGSVFGRSTALNLQTSQLNTPQDASCTHILVFPTSATTQLAASSYPTEDNADDMFDLPFPDELENDIGHDILNLHPSPNTSPVPSPGSPSGMGGSSHFQHNRSQGERLLSRENPPEELKQQPLALGYYVSTAQADSLPHWFWASCPQAQNQCPLFLKASLHHHISIATAQSDEPNQTSSDKTTKRTPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHLAVLTQMYNAVLNML
Length2159
PositionMiddle
OrganismSalmo salar (Atlantic salmon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Protacanthopterygii> Salmoniformes> Salmonidae> Salmoninae> Salmo.
Aromaticity0.06
Grand average of hydropathy-0.436
Instability index59.15
Isoelectric point5.62
Molecular weight235404.12
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

>MDP11973
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     351.47|      59|      62|     400|     458|       1
---------------------------------------------------------------------------
  377-  432 (84.99/31.31)	HQAW..KECYLNQ.LQH.KCS....GPSS..........................vtPKKE.A........P..N.GVPTW.DF....T..D.PE..ERAPCSCS...............RLKQQKQ
  433-  496 (56.50/18.13)	QQQT..NTSSANP.PSG.ANT....TPSSGPALP...................ppslPKHK.A.........................T..DkPEkaDKQPKRAA........amtpfhhRLSVGQE
  497-  560 (58.02/18.83)	ACLE..QDSSGGS.QLGlVSL....DPPLDP.MP..............sckypkplsAGRK.A........P..E.SL.....L....H..S.PV..SPLPPTLS...............PHPRGGQ
  561-  652 (36.05/ 8.68)	DPEVpdNTVGMAPcPDG.ASGmgvmEPSETALYAaplgprereagagwwrgfrtpraDKAEfR........P..P.ELPS..DRvevkT..E.TQ..ATEGVALK...............RLFMQ.T
  653-  702 (33.92/ 7.69)	QKRF..KISEACV.REH.IQT....L.....................................gllhqpgdP..G.DDP.Y.DF....KegD.IE..YSFPTS.K...............RLK....
 1509- 1563 (38.71/ 9.90)	..............PSS.AQP....APSSS...Q.......................P.............PsgP.GVPAE.G........E.PA..A.APSSGStttptaaaldqpgpaEITQGGA
 1564- 1611 (43.28/12.02)	AEAK..TTPNATP.P.....P....PPPSQPAET...................peslAERE.R............iGIPTLaDS....A..D.SH..AHPP..........................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     116.95|      25|      25|     823|     847|       2
---------------------------------------------------------------------------
  308-  335 (38.10/14.27)	PPAPGAqggSRDPSHCSIPLTPPTSPEQ
  823-  847 (45.69/18.67)	PTPPSL...EQHPAFSPIMTYRDTPSQE
  848-  869 (33.17/11.42)	PPAPSA..gSDHP.LGPLSS...TQLQE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.27|      19|      20|    1720|    1739|       3
---------------------------------------------------------------------------
 1720- 1739 (29.79/26.61)	LTGFGPASTL.ESVLKSPEhP
 1742- 1761 (33.48/23.32)	LQGYSPPYILgPTRAKMPE.P
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.52|      25|      25|    1333|    1357|       4
---------------------------------------------------------------------------
 1333- 1357 (48.24/25.22)	SPEPLPI..PTLLLGYYDYYDRNFLAL
 1358- 1384 (40.28/19.83)	SPLALPFweKLLLEPYGGQRDVAFLVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.27|      30|     221|    1453|    1482|       5
---------------------------------------------------------------------------
 1453- 1482 (58.26/39.88)	QWFTGPWAGQQ..HIDNLRKLKLYA.RACRRQL
 1679- 1711 (44.01/27.97)	QYLLQPASGESplYLQHLRSLAFSAySQCRRLL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.67|      21|      26|     766|     791|       6
---------------------------------------------------------------------------
  766-  791 (32.88/37.79)	VLISDlenifDEDEEELRTACPNQHT
  794-  814 (37.79/27.73)	VLVSG.....SEDRREGRVAVPYPST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.09|      20|      26|     913|     937|       7
---------------------------------------------------------------------------
  916-  937 (35.89/29.07)	QCLPPLKlpDQCYYRPSWALLP
  943-  962 (37.20/15.15)	SSLPPSH..HTTFIRDGYVNVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.59|      24|     261|    1762|    1798|       8
---------------------------------------------------------------------------
 1775- 1798 (47.20/52.07)	LFVGYCLSHDQ.....RWILVSCTDQQGE
 2039- 2067 (42.39/18.39)	LALGYYVSTAQadslpHWFWASCPQAQNQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     105.19|      33|     260|    1123|    1158|       9
---------------------------------------------------------------------------
 1123- 1158 (48.29/45.59)	LAHGTGLFLEdELDIFGRGSEVGQaaERRLALCRRD
 1391- 1423 (56.90/40.71)	LLAGAQVFFQ.ELSAVYETCRLGK..HRPLAKVSRD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     182.50|      46|     258|     969|    1020|      11
---------------------------------------------------------------------------
  211-  261 (67.65/26.08)	.LSPYGLAGSLTGQAYKMSDPAVRKlmeeWSY.FYPMVLQRHRegGAG.TGGMG
  971- 1017 (79.22/44.09)	QLSASALSVGTTGGILPSPSPATPR....FSV.PTPRTPRTPR..GVGtTSGQG
 1027- 1055 (35.64/ 8.11)	ELS.SPTSTPSTS..LPMSSVAEPH....TSSpPIP..................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     117.96|      36|    1590|      39|      78|      12
---------------------------------------------------------------------------
   39-   78 (57.38/45.78)	GGG..EYGPVISApaqDDPVLRSFIRCvQANLLCVWRRKVKP
 1632- 1669 (60.57/35.71)	GGGeeEEGEEVEA...GSVWLLGLLRC.YTEMLQTLPESMRP
---------------------------------------------------------------------------




































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 MDP11973 with Med13 domain of Kingdom Metazoa
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