<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 MDP26907

Description Mediator of RNA polymerase II transcription subunit 13
SequenceNFLSQAELTGIKWRRYNFGGHGDCGPIISAPAQDDPILLSFIRCLQANLLCVWRRDVKPDCKELWIFWWGDEPNLVGVIHHELQVVEEGLWENGLSYECRTLLFKAIHNLLERCLMDKNFVRIGKWFVRPYDKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEIAQHQPIYVINEEHLHMAQSSPAPFQVLVSPYGLNGTLTGHAYKMSDPAARKLIEEWQCFYPMVLRKKEEPREEAELEYDDDFPVAVEVIVGGVRMVYPSAFVLISQNDIPVPQSGTSAGGHVTIAQQGLGSVKDPSNCGMPLTPPTSPEQVVIGESGVQSAASHLGSHDGGMIATHSPKRSKKIPPKLHSHMVHRVWKECILNRAQSKRSQMSAPAGEEEPAHSPAAWDFVDPTQRVSCSCSRCHKLLKRCAVGPSRPPTLSQPGFSAGPPPPSSLPPPASSKHKTTERQEKGDKLQKRPLVPFHHRPSVAEELCMEQDAPGQKLGLAGIDSSLEVSSSRKYDKQMAVPSRNTSKQMDLNPMDSPHSPISPLPPTLSPQPRGQETESLDPPSVPVNPALYGNGLDLQQLSALEDRTVLVGQRLPLMAEASETALYSGLRPSYTESSDRWWQSFRLPPSEDAEFRPPELQGEGFHTVLDVSPESTALQRLLAQPNKRFKIWQDEQPQVQPLPFLDPSPLSQQPGDTLGEVNDPYTFEDGDIKYIFTANKKCKQGTEKDSLKKNKSEDGFGTKDVTTPGHSTPVPDGKNAMSIFSSATKTDVRQDNAAGRAGSGSLTQVTDLAPSLHDLDNIFDNSDDDELGAVSPALRSSKMPTVGTEERPPGKDGRAAGPYPPTVADLQRMFPTPPSLEQHPAFSPVMNYKDGVSSETVTALGMLESPVVSMVPTHLTEFRMEVEDGLGSPKPEDIKDFSYVHRVPQFQPFVGSSMFAPLKTLPSHCLLPLKTPDACLFRPSWAVPPKMEQLPMPPAASSIRDGYNNVPSVGSLADADYLNTPQMNTPVTLNSAAPASNSGAGVLPSPATPRFSVPTPRTPRTPRTPRGGGTASGQGSVKYDSTDQGSPASTPSTTRPLNSVEPATMQPIPEAHSLYVTLILSDSVMNVFKDRNFDSCCICACNMNVKGADVGLYIPDSSKEDQYRCTCGFSAIVNRRLGYNSGLFLEDELDIFGKNSDIGQAAERRLMMCQTSCQSTLLPQVEGARKAPEPPVSLLLLLQNQHTQPFASLSFLDYISSSSRHALPCVSWTYDRVQADNNDYWTECVNALEQGRQYVDNPTGGKVDEALVRSATVHCWPHSNVLDTSMLSSQDVVRMLLSLQPFLQDAIQKKRTGRTWENIQHVQGPLTWQQFHKMAGRGTYGSEESPEPLPIPTLLVGYDKEFLTISPFSLPFWERLLLEPYGGHRDVAYIVVCPENEALLEGAKTFFRDLSAVYEMCRLGQHKPICKVLRDGIMRVGKTVAQKLTEELVSEWFNQPWSSEESDNHSRLKLYAQVCRHHLAPYLATLQLDSGLLMPPKHQSPPAEAQGQATPGNAGSSSSGSGAPPAGSAFNPTSSSSAASSSSSCSGPPGSSATSAPGITQMSTTSSSGFSGGVGGQNPSAGGSSTDGTPGNVACGDAEHAQSCAQPSQDGQDSVTERERIGIPTEPDSADSHAYPPAVVIYMVDPFTYTAEEDSSSGNFWLLSLMRCYTEMLDHIPEHMRSSFILQIVPCQYMLQTVKDEHVFYIQYLKSMAFSVYCQCRRPLPTQIHIKSLTGFGPAASIEMTLKNPERPSPIQLYSPPFILAPIKDKQTEPGEAFGEASQKYNVLFVGYCLSHDQRWLLASCTDLHGELLETCVVNIALPSRSRKSKVSARKIGLQKLWEWCLGIVQMTSLPWRVVIGRLGRLGHGELKDWSILLGECSLQTISKQLKDVCRMCGISAADSPSILSACLVAMEPQGSFVVMPDAVTMGSVFGRSTALNMQSSQLNTPQDASCTHILVFPTSSTIQVAPANYPNEDGFSPNNDDMFVDLPFPDDMDNDIGILMTGNLHSSPNSSPVPSPGSPSGIGVGSHFQHSRSQGERLLSREAPEELKQQPLALGYFVSTAKAENLPQWFWSSCPQARNQCPLFLKASLHHHISVAQTDELLPVRNSQRAPHPLDSKTTSDVLRFVLEQYNALSWLTCNPATQDRTSCLPVHFVVLTQLYNAIMNML
Length2188
PositionMiddle
OrganismRattus norvegicus (Rat)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Rattus.
Aromaticity0.07
Grand average of hydropathy-0.384
Instability index61.10
Isoelectric point5.72
Molecular weight239528.05
Publications
PubMed=15057822
PubMed=22673903

Function

Annotated function Component of the Mediator complex, a coactivator involved in the 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	ISO:RGD

GO - Biological Function
transcription coregulator activity	GO:0003712	IBA:GO_Central

GO - Biological Process
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26907
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.34|      17|      21|    1526|    1545|       1
---------------------------------------------------------------------------
  422-  440 (24.73/ 7.38)	PPTLS......qPGfSAGPPPPSSL
 1540- 1563 (24.61/ 6.07)	PPAGSafnptssSS.AASSSSSCSG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     105.28|      26|      27|    1015|    1040|       2
---------------------------------------------------------------------------
 1015- 1035 (28.73/ 9.42)	........GAGVLPSPATPRFSVPTPRTP
 1036- 1063 (39.12/15.70)	RTPRT.prGGGTASGQGSVKYDSTDQGSP
 1579- 1606 (37.42/14.67)	STTSSsgfSGGVGGQNPSAGGSSTD.GTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.69|      12|      26|     524|     535|       3
---------------------------------------------------------------------------
  524-  535 (24.80/12.06)	NPMDSPHSPISP
  550-  561 (22.89/10.42)	ESLDPPSVPVNP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.97|      21|      26|    1672|    1697|       4
---------------------------------------------------------------------------
 1670- 1695 (32.31/34.88)	DSSSgnfWLLSLMRC.YteMLDHI.PEH
 1696- 1718 (31.66/18.14)	MRSS...FILQIVPCqY..MLQTVkDEH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      93.36|      19|      20|     931|     950|       6
---------------------------------------------------------------------------
  931-  950 (31.36/18.85)	FAPLKTL.PSHC.LLPLkTPDA
  953-  972 (34.87/17.22)	FRPSWAV.PPKMeQLPM.PPAA
 1070- 1087 (27.13/11.45)	TRPLNSVePATM.Q.PI..PEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.79|      27|      28|    2048|    2075|       7
---------------------------------------------------------------------------
 2048- 2075 (41.86/31.69)	HFQhSRSQGERL...LSREAPEELKQQPLAL
 2077- 2106 (45.94/29.34)	YFV.STAKAENLpqwFWSSCPQARNQCPLFL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.03|      23|      28|    1113|    1139|       8
---------------------------------------------------------------------------
 1110- 1132 (46.21/39.46)	DSC.CICACNMNVK...GADVGLYIPD
 1137- 1163 (34.83/17.91)	DQYrCTCGFSAIVNrrlGYNSGLFLED
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     185.46|      52|     254|    1483|    1534|       9
---------------------------------------------------------------------------
  834-  860 (29.14/ 8.70)	..............PYPPTVA.DLQRMFP.........TPPSLEQH.........PAfSP........
 1483- 1534 (94.34/45.98)	RLKLYAQVCRHHLAPYLATLQLDSGLLMP..P...KHQSPPAEAQG.........QA.TPGNA.GSSS
 1737- 1798 (61.98/27.48)	RRPLPTQIHIKSLTGFGPAASIEMTLKNPerPspiQLYSPP.....filapikdkQT.EPGEAfGEAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.17|      14|      21|    1361|    1374|      10
---------------------------------------------------------------------------
 1361- 1374 (27.54/14.77)	SPEPLPI..PTLLVGY
 1382- 1397 (22.63/10.56)	SPFSLPFweRLLLEPY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      29.97|      10|      17|     588|     604|      12
---------------------------------------------------------------------------
  588-  604 ( 8.92/21.69)	PlmaeASETALYsglRP
  620-  629 (21.04/11.23)	P....PSEDAEF...RP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.52|      16|      17|    1209|    1224|      13
---------------------------------------------------------------------------
 1209- 1224 (27.36/18.59)	SLLLLL..QNQHTQPFAS
 1226- 1243 (24.16/15.35)	SFLDYIssSSRHALPCVS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.34|      24|      27|      41|      65|      14
---------------------------------------------------------------------------
   41-   64 (45.77/28.44)	FIRCLQANLLCV............WRRDVKPDCKEL
   67-  102 (38.57/17.37)	FWWGDEPNLVGVihhelqvveeglWENGLSYECRTL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      61.43|      18|      27|     443|     460|      15
---------------------------------------------------------------------------
  443-  460 (29.94/19.12)	PASSKHKTTERQEKGDKL
  472-  489 (31.48/20.53)	PSVAEELCMEQDAPGQKL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.21|      17|      17|     878|     894|      16
---------------------------------------------------------------------------
  878-  894 (30.08/17.56)	M.LESPVVSMVPTHLTEF
  896-  913 (26.14/14.14)	MeVEDGLGSPKPEDIKDF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.07|      18|      28|    1997|    2019|      17
---------------------------------------------------------------------------
 1997- 2019 (24.82/26.32)	SPNNDdmfvDLPFPDDmDNDIGI
 2028- 2045 (34.25/17.82)	SPNSS....PVPSPGS.PSGIGV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.20|      11|      27|    1613|    1623|      18
---------------------------------------------------------------------------
 1613- 1623 (21.06/11.56)	DAEHAQSCAQP
 1642- 1652 (21.14/11.63)	EPDSADSHAYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.12|      19|      28|     343|     361|      19
---------------------------------------------------------------------------
  343-  361 (36.14/16.47)	KRSKKIPPKLHSHMVHR..VW
  372-  392 (29.99/12.55)	KRSQMSAPAGEEEPAHSpaAW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.26|      16|      21|     656|     676|      20
---------------------------------------------------------------------------
  656-  676 (25.43/23.92)	QPNKrfkiwQDEQP.....QV.QPLPF
  678-  699 (20.83/ 7.54)	DPSP.....LSQQPgdtlgEVnDPYTF
---------------------------------------------------------------------------




































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 MDP26907 with Med13 domain of Kingdom Metazoa
Unable to open file!