<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 MDP26125

Description WD repeat and HMG-box DNA binding protein 1 (Predicted)
SequenceMPAIQKPMRYGHTEGHTEVCFDDSGSFIVTCGSDGDVRMWEDLDDDDPKSVNVGEKAFSCALKNGKLVTAVSNNTVQVYTFPEGAPDGILTRFTTNANHVVFNGDGTKIAAGSSDFLVKVVDVMDNSQQQTFRGHDAPVLSLSFDPKDVFLASASCDGTVRVWNISDQTCAASWPVLRKSNDVVNSESICRLAWQPKTGKFLAVPVEKSVKLYRRETWSNPFDLSDSSVTQTLNIVTWSPCGQYLAAGAINGLIVVWNVETKECMERVKHEKGYAICGLAWHPTYSRICYTDVEGNLGILENVCDLSGKLSSNKVPSGVEKDYSDLFDGDDTSSAGDFLNDNAVEIPSFSKGIRNEEDDNDDLMLAADHVLGDDENSVDVTMLRNDLHREEGEDRQASSLHSLPLVKSQRPLYDGPMPTPRQKPFQPSSTPLHLTHRFMAWNSVGIIRCYNDDQDSAIDVEFHDTSIHHATHLSNAFNYTMGSLSHEAVLLACESADELASKLHCLHFSSWDSSKEWIVDMPENEDIEAICLGLGWAAAATSALLLRLFTIGGVQKEVFCLPGPVVSMAGHGEQLCIVYHRGTGFDGDQCLGVQLLELGRKKKQVLHGDPLPLTRKSYLTWLGFSAEGTPCYVDSEGCVRMLNRGLGNTWTPVCNIREHCKGKSDHYWVVGIHENPQQLRCIPCKGSRFPPTLPRPAVAILPFKLPYCQTSTEKGQMEEQFWHSVLFHNYLDYLAENGYDYEESIKKQAVKEQQELLMKMLALSCKLEREFRCVELADLMTQNAVHLAIKYASRSRKLILAQKLSELAAEKAAELAEIQTEEREEDFRERLNAGYSHTTTEWSQPRVRSQVEEDAEDREDTVSEGNPEPQNHGQNLIQSANSSDTPAMKSGAVFSSSQGRVNPFKVLVSSKEPAVSVNATRSANILDNMNKLSRKSTSFNRVANNEKSPVIKPLIPKPRCKQASAASYFQKRTSQAEKTEEVKENPKSSSSEAPAVCLQNSEVQRPKTGFQMWLEENRSHIMSDNPDISDEADIIKEGMIRFRVLSAEERKEWTNKAKGGTASDGAEAKKRKRGVSEICETEKQEEAVKENLELSKKQKALDLSTNQKLSAFAFKQE
Length1117
PositionTail
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-0.502
Instability index39.01
Isoelectric point5.40
Molecular weight124247.15
Publications
PubMed=15057822
PubMed=15632090

Function

Annotated function 
GO - Cellular Component
chromosome, centromeric region	GO:0000775	ISO:RGD
nuclear replication fork	GO:0043596	IBA:GO_Central
nucleoplasm	GO:0005654	IEA:Ensembl

GO - Biological Function
chromatin binding	GO:0003682	ISO:RGD
RNA binding	GO:0003723	ISO:RGD
RNA polymerase binding	GO:0070063	ISO:RGD

GO - Biological Process
DNA repair	GO:0006281	IBA:GO_Central
DNA-dependent DNA replication	GO:0006261	IBA:GO_Central
heterochromatin maintenance	GO:0070829	ISO:RGD
mitotic cell cycle	GO:0000278	IBA:GO_Central
regulation of chromosome organization	GO:0033044	ISO:RGD
RNA processing	GO:0006396	ISO:RGD









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP26125
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     700.52|     236|     294|     241|     506|       1
---------------------------------------------------------------------------
  241-  500 (363.02/238.90)	C.GQYLAAGAINGLIV....VWNVEtKE..CM..ERVKHE.KGYAICgLAWHptysRICYTDVEGNLGIleNVCDLSGK....LSSNKVPSgVEKDY.SDL.FDGDDTSSAGDflNDNAVEIpsFSKGIRNE....EDDNDDLMLAADH..VLGDDENSVDVTMLRNDLHR.EEGEDRQASSLHSLPLVKSQRPLYDGPMptprQKPFQpSSTPLHLTHRFMAWNSVGiircYNDD.QDSAI..D....................VEFHDTSIHHATHLsnAFNYTMGS....LSHEAVLLACESADELA
  531-  816 (337.50/163.64)	ClGLGWAAAATSALLLrlftIGGVQ.KEvfCLpgPVVSMAgHGEQLC.IVYH....RGTGFDGDQCLGV..QLLELGRKkkqvLHGDPLPL.TRKSYlTWLgFSAEGTPCYVD..SEGCVRM..LNRGLGNTwtpvCNIREHCKGKSDHywVVGIHENPQQLRCIPCKGSRfPPTLPRPAVAILPFKLPYCQTSTEKGQM....EEQFW.HSVLFHNYLDYLAENGYD....YEESiKKQAVkeQqellmkmlalscklerefrcVELADLMTQNAVHL..AIKYASRSrkliLAQKLSELAAEKAAELA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     140.25|      44|      70|     911|     955|       2
---------------------------------------------------------------------------
  911-  955 (66.66/55.99)	KEPAVSVNATRSANILDNmNKLSRKSTSFNRVANNEKSPVI..KPLI
  983- 1028 (73.59/56.24)	KENPKSSSSEAPAVCLQN.SEVQRPKTGFQMWLEENRSHIMsdNPDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     190.92|      42|      82|       9|      79|       3
---------------------------------------------------------------------------
    9-   50 (77.63/35.99)	RYGHTEGHTEVCFDDSGSFIVTCGSDGDVRMWEDLDDDDPKS
   92-  131 (64.78/67.97)	RFTTNANH..VVFNGDGTKIAAGSSDFLVKVVDVMDNSQQQT
  133-  164 (48.51/15.61)	R.GHDAPVLSLSFDPKDVFLASASCDGTVRVWN.........
---------------------------------------------------------------------------




































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 MDP26125 with Med16 domain of Kingdom Metazoa


     
       
      
        
        
        


      
      
   
   

      

      














Intrinsically Disordered Regions








IDR SequenceStartStop




1) DFRERLNAGYSHTTTEWSQPRVRSQVEEDAEDREDTVSEGNPEPQNHGQNLIQSANSSDTPAMKSGAVFSS
2) KEWTNKAKGGTASDGAEAKKRKRGVSEICETE
3) QASAASYFQKRTSQAEKTEEVKENPKSSSSEAPAVCLQNS
4) VSVNATRSANILDNMNKLSRKSTSFNRVANNEKSPVIKPLIPK
826
1051
962
915
896
1082
1001
957










Molecular Recognition Features






MoRF SequenceStartStop




1) EAKKRKRGVSEIC
2) IPKPR
3) SAASYFQKRT
1067
955
964
1079
959
973