<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 MDP11839

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMWTNVFKIGGLHQITWFQFLPHEPDLNPLPDKSLKSDQKDAAMLLVLSSHLQLQKEGFLSTWTNSFVGPWDPSQGLHNPDEKIKLWLFLPGRHSSVSETAQPALSGLRVVASGLWVAPGDSEEVASALSQALRNCIERALLGLYYMRFGDVFSKVHQFQSEELLRKGHPAFEFVFAATEEAIFIHVIVSSKNIRMLSTSDLEKLLKHSTEATYRLPVVVSPHGVRGSLTGCSSSDLVKQSYFSSSAKFRVSNGIIGLPYHVSQGVGCQLRGQNCFVEVSLGFARSGTDKALQTNRNIVRNLPKSPVMGQSDHKGSPDHLLVNEKTFLYPAEAVLVPVFQTSLARSSLRRFWLQNWMGPSLTGSSSFIHCAGNVESTEDPWTEINGSRTQNSYDSSSNSNSSSISSLSASSSDSDYKTTGLSELEADADSLTCRQSMVSSGRLGSDGSILGSKRSRTGVTQSLSMTTHIPGQDAYMSDFGSMEVNNSAITRVGNEPIGSIWDWDDEEDKGMEMDIQALLSEFGDFGDFFENDVLPFGEPPGTAESQALILSAPDCGDVNSSPAGASAMDVSDQMLLPIGFSSFESFDPTPPSVMEECLNKGQDNLSNSMQMGPTNQTQMMYTREYDHVMKAEAMMTFAQEFGAVEAPTSGLSTALFRSPYFPKSRKAESSNSCSNNYLYGAEPPSSPYIEGSEGKNGLVINTKTCSGKHDTSMTLHSKNYYTFVDSRKDINDKKPVTCIDNSIAKSEGIVQPPFSNIGSNASVKSVLRKMTGGTKEADHFVLSAKNLLATDVTCAMLQASMCRLRHTLLSSGNNLLSVGLSRSTGVTFSNQLPTDPSTTTDISGKYEVKKKENIPVRIAGDIDGGMLDGHLNAPVGVWRSVGASKVVKPSNSPNIDVGSSFSHNSFNEESLLSYGQRKPLQELLDGIALLVQQATSFVDLALDADCGDGPYGLLAMQEQWRRGFCCGPSMVHAGCGGTLASSHSLDIAGLELVDPLSSDVHASTVISLLQSDIKTALKSAFSNLEGPLSVTDWCKGRNQLVDTGSIVDGVSAESSISECRDSSEPMSPSQSSVCGSSSIKVSSIMDNAKVDETSQRRSGQDSESEQHPSSRLKPTLIAVPLPSILVGYQDDWLKASANCLQHWEKAPLEPYALQKPITYHVVCPDIDPLTSAAADFFQQLGTVYETCKLGTHLPLGLGNQMEIEPAKSSTCGFVLLDCPQSMKIESSNASLVGSVSDYFLSLSNGWDLTSYLKSLSKALRALNLSSCFSANPTEGSNSSSLVIYVVCPFPDPTAILQTVIESSVAIGSVIQQSDRERRSSLHSQVVKALSGWATVDEASASNILVLSGCSIPKLVLQIVTVDAIFRVTSPSVSELVILKETAFTVYNKARRISRGISSDLAQLAFSSRSQSALAQMPSPISGMWKDCVGPRMVGHSLPRESDIDASLRPGNWDNSWQPARSGVLNCDPSRTGDIFLHDEIRYMFEPLFILAEPGSPEHGISVISSPSSEASKALADDSSGNHGQSTNTAGNVDSASSIDGSGSDQKTHPSLHCCYGWTEDWRWLVCIWTDSRGELLDCNIFPFGGISSRQDTKGLQCLFVQVLQQGCLILQSCDPGLAKPRDFMIARIGGFYELEYLEWQKAIYSVGGSEMKRWPLQLRKSLSDGASSTSNGSSLQQTDMSLIPERTLPSSPSPLYSPHAKQTGFIKGSLDGQPAARKQLMSGHSMVDSSRGLLHWAQSISFVAVSMDHTLQLVLPADSSSPGYVEGFTPVKSLGSASSAYILIPSPSMRSLPPTALQLPTCLTAESPPLAHLLHSKGSALPLSTGFVVSKAVPSMRKDYRSNLKEEWPSVLSVSLIDYYGGSNIPQEKIVRGVNKQGGRGLSWDAKDFETETHLILESLAAELHALSWMTVSPAYLERRTALPFHCDMVLRLRRLLHFADKELSKQSEKS
Length1950
PositionKinase
OrganismCicer arietinum (Chickpea) (Garbanzo)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> fabids> Fabales> Fabaceae> Papilionoideae> 50 kb inversion clade> NPAAA clade> Hologalegina> IRL clade> Cicereae> Cicer.
Aromaticity0.07
Grand average of hydropathy-0.224
Instability index53.58
Isoelectric point5.55
Molecular weight211042.35
Publications
PubMed=26259924

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

>MDP11839
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     101.87|      26|      54|     426|     479|       1
---------------------------------------------------------------------------
  426-  451 (45.24/36.30)	DADSLTCRQSMVSSGRLGSD..GSILGS
  481-  499 (12.14/16.02)	....MEVNNSAIT..RVGNEpiGSI...
 1515- 1540 (44.50/ 9.30)	DDSSGNHGQSTNTAGNVDSA..SSIDGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.14|      25|      54|     512|     543|       2
---------------------------------------------------------------------------
  512-  543 (35.33/37.45)	MDI..QALLS.EFGDFGDFfenDvlPfgEPPGTAE
  567-  594 (38.82/19.93)	MDVsdQMLLPiGFSSFESF...D..P..TPPSVME
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.50|      25|      54|     712|     737|       3
---------------------------------------------------------------------------
  712-  737 (42.39/37.38)	MTLHSKNYYTFVDSRKDInDKKPVTC
  769-  793 (44.11/33.04)	MTGGTKEADHFVLSAKNL.LATDVTC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.84|      27|      54|     817|     845|       4
---------------------------------------------------------------------------
  817-  845 (42.87/25.68)	VGLSRSTGVtfSNQLPTDPSTTTDISGKY
  874-  900 (45.97/22.04)	VGVWRSVGA..SKVVKPSNSPNIDVGSSF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     106.79|      35|      58|       2|      58|       5
---------------------------------------------------------------------------
    2-   43 (53.84/44.17)	WTNVFkIGGlhqitW..FQFLpHEPDLNP.....LPDK.SLKSDQKDAAM
   62-  104 (52.95/45.41)	WTNSF.VGP.....WdpSQGL.HNPDEKIklwlfLPGRhSSVSETAQPAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     149.61|      46|      58|     966|    1012|       6
---------------------------------------------------------------------------
  966- 1012 (73.37/46.12)	GPSMVHAGCGG..TLASSHSLdIAGLELVDPLSSDVHASTVISLLQSDI
 1025- 1072 (76.24/43.69)	GPLSVTDWCKGrnQLVDTGSI.VDGVSAESSISECRDSSEPMSPSQSSV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.84|      24|      59|    1750|    1780|       7
---------------------------------------------------------------------------
 1687- 1717 (30.91/ 7.01)	LPS.SPSPLYSphakqTGF..IKgSLdGQPAARK
 1754- 1780 (34.93/26.27)	LPAdSSSPGYV.....EGFtpVK.SL.GSASSAY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.46|      23|      59|    1273|    1298|       8
---------------------------------------------------------------------------
 1273- 1298 (31.75/26.42)	EGSNSSSLVIyVVCPFPDptAILQTV
 1336- 1358 (38.70/20.00)	EASASNILVL.SGCSIPK..LVLQIV
---------------------------------------------------------------------------




































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 MDP11839 with Med13 domain of Kingdom Viridiplantae
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