<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 MDP31700

Description Mediator of RNA polymerase II transcription subunit 34
SequenceMESEAIQEDLQNLDVELKDVQGQISALIEHQDRLYERKSELKTLLKALAASGSPVASSGGSSAIENWSETFEWDSRADDVRFNVFGISKYRANQKEIINAIMTGRDVLVIMAAGGGKSLCYQLPAMLRGGTTLVVSPLLSLIQDQVMGLAALGISAYMLTSTSGKENEKFVYKALEKGEDDLKILYVTPEKVSKSKRFMSKLEKCHNAGRLSLISIDEAHCCSQWGHDFRPDYKNLSILKTQFPKVPMVALTATATQKVQNDLIEMLHIPKCVKFVSSVNRPNLFYSVREKSAVGKLVVDEIAEFIRESYSNNESGIVYCFSRKECEQIAGDLRERGISADYYHADMDANMREKVHMRWSKNKLQVIVGTVAFGMGINKPDVRFVIHHSLSKSMETYYQESGRAGRDGLPSECILFFRSADVPRQSSMVFYEYSGLQNLYDIVRYCQSKTKCRRSAFFRHFGEPSQDCNGMCDNCALSSEVKEVDVSDLSKLVVSMVQETQAKDQRVTMLQLGDKLRNKHKDLIAELKRDEVEHLVIKLIVDSVLKEEFQHTPYSTNAYVTMGPLANQLLQGRKTIKMETSSRQTKKLKRSITFSGLELKLDELRKEISAADGSILPHTVLSTQQIGSISSQKPVSLQELESIIGKLKTEKYGDRILEEVMRHEAVSEQLVEDPTKEETCKSRLRKRAKTQKDVVLVESSGEEEA
Length705
PositionUnknown
OrganismArabidopsis thaliana (Mouse-ear cress)
KingdomViridiplantae
LineageEukaryota> Viridiplantae> Streptophyta> Embryophyta> Tracheophyta> Spermatophyta> Magnoliopsida> eudicotyledons> Gunneridae> Pentapetalae> rosids> malvids> Brassicales> Brassicaceae> Camelineae> Arabidopsis.
Aromaticity0.07
Grand average of hydropathy-0.385
Instability index41.60
Isoelectric point7.21
Molecular weight79367.96
Publications
PubMed=11058127
PubMed=11130712
PubMed=27862469
PubMed=12856935
PubMed=16371241
PubMed=17560376
PubMed=18419780
PubMed=19755539
PubMed=22021418
PubMed=23771268
PubMed=24265739

Function

Annotated function 3'-5' DNA helicase that may play a role in the repair of DNA (PubMed:18419780, PubMed:19755539). Its DNA unwinding activity in vitro is dependent on magnesium, and ATP or dATP (PubMed:18419780, PubMed:19755539). Can use GTP/dGTP, CTP/dCTP or UTP/dUTP as nucleotide cofactors (PubMed:18419780, PubMed:19755539). Catalyzes Holliday junction branch migration and replication fork regression (PubMed:19755539, PubMed:23771268). Disrupts D-loop structures (PubMed:18419780). 
GO - Cellular Component
chromosome	GO:0005694	IBA:GO_Central
cytoplasm	GO:0005737	IBA:GO_Central
mediator complex	GO:0016592	IDA:UniProtKB

GO - Biological Function
3'-5' DNA helicase activity	GO:0043138	IDA:TAIR
ATP binding	GO:0005524	IEA:UniProtKB-KW
DNA binding	GO:0003677	IEA:UniProtKB-KW
four-way junction helicase activity	GO:0009378	IDA:TAIR
metal ion binding	GO:0046872	IEA:UniProtKB-KW

GO - Biological Process
DNA duplex unwinding	GO:0032508	IBA:GO_Central
DNA recombination	GO:0006310	IBA:GO_Central
DNA repair	GO:0006281	IBA:GO_Central
DNA unwinding involved in DNA replication	GO:0006268	IBA:GO_Central
double-strand break repair via homologous recombination	GO:0000724	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31700
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     258.66|      69|     300|     237|     306|       1
---------------------------------------------------------------------------
  238-  306 (111.52/81.79)	ILKTQFPKVPMVALTATATQKVQN.DLIEMLHIPKCVKF.VSSVNRPNLFYSVREKSAVGKLVVDEIAEFI
  494-  542 (53.10/34.01)	........VSMVQETQAKDQRVTMlQLGDKLR.NKHKDL.IAELKRDEV......EHLVIKLIVD......
  544-  608 (94.04/63.20)	VLKEEFQHTPYSTNAYVTMGPLAN.QL...LQGRKTIKMeTSSRQTKKLKRSITF.SGL.ELKLDELRKEI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.65|      22|     299|      71|     106|       2
---------------------------------------------------------------------------
   85-  106 (39.38/50.75)	FGISKY.......RANQKEIINAIMTGRD
  152-  180 (31.27/11.29)	LGISAYmltstsgKENEKFVYKALEKGED
---------------------------------------------------------------------------




































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 MDP31700 with Med34 domain of Kingdom Viridiplantae
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