<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 MDP31297

Description Mediator of RNA polymerase II transcription subunit 13-like
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKCFVWQGPTSSPILFPVTEEDPILCSFSRCLKADVLSVWRRHQTPGRRELWIFWWGDDPNFAELVHHDLSCNEDGSWESGLTYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFVHGDSNVCTSVEINQHQPVYLLSEEHLTLAQQSSSSVQVILSPYGLSGTLTGQSFKLSDPPTQKLIEEWKQFYPIGPNTKEVTDDKMDDLDWEDDSLAAVEVVVAGVRMVYPASLVLVAQSDIPLVATVSSSSSSGSYAGAPHNQLVHGDTGISSVTLTPPTSPEEAQAVSQPAQKWVKLSAMSGVFSVDSSSHHGGKIPRRLASQMVERVWQECNINRAQNKRKFSTMSNGVCEEETDKASVWDFVESSQRSQCSCSRLKNQKQRACSTPGHPPSAGQPPQPSTKHKMAEKLEKGDKQQKRPLTPFHHRSSLCEEQPSLEQGESVHRLCLQGHEDSRYPSLHHADVTSSKTPMLHSSADEMAGSPQPPPLSPHPCERMEEPADGMKSSSSPLHQHFYPPSSEPCLEPQKPPDESTLDPLPLPCPPPYPETLEATIYVGSAINPNEDTTHNPWKYFRVPGGRNSDFHTPHLPVVAHFEDGNRTGGQDGIVSITEMMSSSKRPLKVSEELVKMYEHKKNQYLSSAVCDEDPEQESDPYAFEEGDEEFNFSDKDKKSGPEREAGKKAKREDGSSSSDDAQGSGGSKPLPTTSLIHETDLVVSINDLDNLFNSDEDDLTQPGSRRAAGGAEEKFGGKEPKPAAPDPLPCCADLHQMFPTPPSLDQGYSPINMGNTESAAGLSLLDGAMSGNFKMEVEEGFCSPKPSEIKDFSYVFKPESCQALIGCSLYAPLKTLPSQCLLPVKLPEECVYRPSWTVGKLGMLQPMAAMTFLNKDSNIPSVGSVVEQEQSCTPQTHNTFMSNSAPPSNSGAGILPSPATPRISAPTPRTPRTPRTPRGPASVQGSLKYENSDLNSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNITGADVGIYISDPNMDSQYSSMDPCSCGFSAVMNRRYGNGAGLFLEDELDIMGRGSDAAREIEKHFEAVRAASLKRGTVLEEQVPDDLMLLLQDLCTNPFSPIIRPDLLGTVIKSPIRLEERDYYSDCYMALEHGRQFMDNMSGGKVDETLVKSSSLHHWAKRNAFDMSMLFSQDVLRMLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTLLVGYEYDYVVLSPFALPYWEKLLLDPYSSQRDVGYMVVCPDNEALLNGAKTFFRDLTAVYESCRLGQHRPIAKSHADGIVTVSDAGSKALTDQTLIDWLPKTINSSSSSEALNKLKLYAHVCRHDLASCLASQSLDGSLLTQRNPASSSQTSSSSSPVTTAQNVTPTTNSNSNTNTNTTPTSTSTSSSSSSCPQGVGNMPSSKPNTIPPFGAQGLQSSQQSGGQSAGTLGDATSATSQPQVPSEPAESTMEREKVGVPTDGDSHAVTYPPAIVIYIVNPFSYEENCQGSSSSVWTIALLRCYLEMLQLLPPHIRNAVYVQIIPSQYLLQPVWSEERHIYAQHLKSLAFSVYTQCRRRLPTSTNVKTLTGFGPGLAIDTALQSKERPQCLHLYAPPFVLAPVKDKQTELGETFGEAAQKYNVLFVAYCLSHDQRWLLASCTDQYGELLETCVISIDVPNRARRKKGSARRQGLQKLWEWCLDLVQMTSLPWRIVIGRLGRIGHGELRDWSILLSRRNLQSLGRRLKEMCRMCGISAADSPSILSTCLVAMEPQASFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSAGLQAFSDVTDGMGGMDGILDLFAENDLVDPDLINIIPNSPTTSPVHSPGSHYHHGGDGSKGQGTDRMESHDESPNILQQPMALGYFVSTAKAGPLPDWFWSSCPQAKNQCPLFLKASLHLNVSSVQSDELLHSKHSHPLDSSHTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQMYNFIMNML
Length2102
PositionMiddle
OrganismDanio rerio (Zebrafish) (Brachydanio rerio)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Ostariophysi> Cypriniformes> Danionidae> Danioninae> Danio.
Aromaticity0.07
Grand average of hydropathy-0.417
Instability index60.13
Isoelectric point5.49
Molecular weight230989.54
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
regulated gene 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 (By similarity). 


GO - Cellular Component
mediator complex	GO:0016592	IBA:GO_Central

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

GO - Biological Process
neural crest cell migration	GO:0001755	IMZFIN
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31297
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.08|      30|      32|    1452|    1482|       1
---------------------------------------------------------------------------
 1452- 1482 (48.32/32.83)	TQRNPASSSQTSSSSSPVTTAQNVtPTTNSN
 1487- 1516 (55.76/33.88)	TNTTPTSTSTSSSSSSCPQGVGNM.PSSKPN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.68|      21|      32|     535|     566|       2
---------------------------------------------------------------------------
  536-  560 (32.55/27.91)	PplSPHPCERMEEPADgmKSSSSPL
  567-  587 (39.12/10.36)	P..SSEPCLEPQKPPD..ESTLDPL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      90.69|      24|      33|     428|     451|       3
---------------------------------------------------------------------------
  428-  451 (48.23/23.22)	KNQKQRACS.TPGHPPSAGQPPQPS
  462-  486 (42.46/19.47)	KGDKQQKRPlTPFHHRSSLCEEQPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.28|      31|      33|    1062|    1093|       4
---------------------------------------------------------------------------
 1062- 1093 (56.18/36.54)	KDCNFDSC.CICVCNMNIT.GADVGIYISDpNMD
 1095- 1127 (48.10/26.22)	QYSSMDPCsCGFSAVMNRRyGNGAGLFLED.ELD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     129.28|      38|     201|    1669|    1706|       5
---------------------------------------------------------------------------
 1669- 1706 (66.71/39.32)	LPTSTNVKTLTGFGPGLAIDTA.LQSKERPQCLHLYAPP
 1869- 1907 (62.56/36.37)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     413.01|     143|     548|     663|     830|       7
---------------------------------------------------------------------------
  604-  655 (43.82/10.95)	............................YVGSAINpNEDTTHNPWKYFRVPGGRNSDFHTPHLPVVAHFEDG.....................................NRTGGQDG...............................................................................
  663-  812 (234.43/161.92)	MSSSkrplKVSEELVK..MYEH..KKNQYLSSAVC.DEDPEQESDPYAFEEGDEEFNFSDKDKKSGPEREAG.....................................KKAKREDGSSSSDDAQGSGGSKPLPTTSLI..HETDLVVSinDLDNLF.NS.DEDDLTQPGSRRAAGGAEEKFGGKEpKPAAPDPLP
 1219- 1321 (53.70/17.41)	MSGG....KVDETLVKssSLHHwaKRNAFDMSMLF.SQD.................................vlrmllslqpvlqdtiqkkrsvrswgvqgpltwqqfhKMAGR..GSYGTDES.....PEPLPIPTLLvgYEYDYVV................................................
 1916- 1984 (81.06/30.33)	........................................................................................................................SDVTDGMGGMDGI..LDLF..AENDLVDP..DLINIIpNSpTTSPVHSPGSHYHHGGDGSKGQGTD.RMESHDESP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.39|      32|      38|     978|    1012|       8
---------------------------------------------------------------------------
  956-  975 (22.55/ 6.11)	.............TPQTHNTFMS.NSAPPSNSGA...
  978- 1012 (53.92/39.45)	LPSPA.TPriSAPTPRTPRTPRT.PRGPASVQGSLkY
 1017- 1048 (46.91/24.29)	LNSPAsTP..STCRPLSSVEPATvPSIPEA..HSL.Y
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.48|      27|      42|     821|     847|      10
---------------------------------------------------------------------------
  821-  847 (49.86/34.37)	FPTP.PSLDQGYSPINMGNTESA.AGLSL
  864-  892 (43.62/28.78)	FCSPkPSEIKDFSYVFKPESCQAlIGCSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.19|      14|      29|    1539|    1552|      11
---------------------------------------------------------------------------
 1539- 1552 (23.97/15.87)	TLGDATSATSQPQV
 1570- 1583 (26.22/18.28)	TDGDSHAVTYPPAI
---------------------------------------------------------------------------




































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 MDP31297 with Med13 domain of Kingdom Metazoa
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