<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 MDP04424

Description RNA polymerase II transcription mediator
SequenceMKSGNMFIELDKLPINRVEAVDDSGIERFPLDVDPEERKVDLIRKLDFSSEVEKYTKRSRNGSDEIAKEKNKKPPGSTSWPWQSLIESMQAAHQELSVIIDIINTVEANDAVTVAGMTKPKPLTNEILSDLSVSTATKLQSIRHLGKYFKQGSKSFEKLVAKETRFYNALIRLQQNWKVKRHRLTISGHSNEGFTIDLMDISSSESNTFPRPFSTSIIRVDRDLNGKLVVQLPLRSFRSLYFRFFDSNSSRRLLHSLRSKMHSITNKFPLDGNNETVVENVNECVKGSHSVLRNIHLSLFEEKVFDFVIHEALASLSGVEIVTLYENFLKLGVGKGASVNLSLMLSDEADPKPIFDDPCEENIDSHTNLLEELDIDREHNTFKETITRFPNAACFQIHLTSTVHEYMSSRAKEGCRDEIGLISDFCMTGAHSIFSQKVLSDLETLASGIPYLRLLTHPTWHSRISSWSLFVKLPQSILNPLNAHKMRSEFNIKVTVTDDCVKVTGIGSPNVIDSFSGNSSFSKSVYSYYDRNLVDLKMSLLLKIACQLIQWLHEEALVLGLIASRDFLTLNFDIAEGSNMKLMAHVDVKDGHCSISWSMVVNENDGKPLTEYSTTKSEGTITFLGYLSLETLYSILMDLVSFCNNPLNLVVSSHPNIFSS
Length660
PositionHead
OrganismZostera marina (Eelgrass)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> Liliopsida> Zosteraceae> Zostera.
Aromaticity0.08
Grand average of hydropathy-0.224
Instability index40.28
Isoelectric point6.05
Molecular weight74424.94
Publications
PubMed=26814964

Function

Annotated function 
GO - Cellular Component
core mediator complex	GO:0070847	IBA:GO_Central
mediator complex	GO:0016592	IBA:GO_Central

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

>MDP04424
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     222.94|      63|     238|     288|     359|       1
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  288-  352 (97.27/53.79)	SHSVL....RN...IHLSLFE......EKVFDFV..IHEALASLSGV..EIVTLYENFLKLGVGKGASVNLSLMlsDEADPK
  522-  589 (76.00/35.96)	SKSVYsyydRNlvdLKMSLLL......KIACQLIqwLHEE.ALVLGL...IAS..RDFLTLNFDIAEGSNMKLM..AHVDVK
  598-  651 (49.67/23.03)	SMVVN....EN...DGKPLTEysttksEGTITFL..GYLSLETLYSIlmDLVSFCNNPLNLVV...................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.01|      13|     238|      24|      36|       2
---------------------------------------------------------------------------
   24-   36 (24.64/15.95)	SGIERFPLDVDPE
  263-  275 (24.38/15.70)	SITNKFPLDGNNE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     205.59|      77|      92|      54|     145|       3
---------------------------------------------------------------------------
   54-  145 (102.37/123.77)	KYTKR.SRNGSDEIAKEkNKkppgstsWpWQSLI...ESMQAAHQELSV........IIDIINtVEANDAVTVagmtkPKPLTNEIL...SDLSVSTATKL..QSIRHL
  147-  240 (103.22/78.15)	KYFKQgSKSFEKLVAKE.TR.......F.YNALIrlqQNWKVKRHRLTIsghsnegfTIDLMD.ISSSESNTF.....PRPFSTSIIrvdRDLNGKLVVQLplRSFRSL
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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 MDP04424 with Med17 domain of Kingdom Viridiplantae
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