<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 MDP05750

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMHRRSGSVSRILRNFISEVDASLGGGGNSSGNSNTDLTSAGMKRPMSSTDPLMPKLSPQPANLMASSGASISSGVDNLSMPLNSSHSLPCHQKPSVIANKPPCLVNYLQTNPKVEGGVLGSVKPKPMDWDDTHRPVTPKLPRCVVRVPPCSHQVKNLPPPTITSELLGTEVSWLAKQLPHQSRRPPSMLMNSLDQANSFEHATIAICDDFQRYQRQQTHQALRDNYGYDMYPEGTHRTLEDELYGSSLKSDVPGKAGVIRNQIKHTGGRNQSNVSGGDISGMYQAPPSLESALSGGPCSQPSPSDVKALSEENRLRQKQNLASNLVQGIIQNTRPIFEQESAVFPKEWQNMCPPSVQIPFSSKFKLTPEELHQVRDIEVSSRPGLAFEPVTGPTNGLYDCLFLYPPRRPPHSLPPSRSQQQPSSRVLSDPTDPDSTTFDLDELRGSDALKVNIILSDSLLNLFKDHNFDSCNICECTMSPLGMEVDIYIASPAPPPTQPCNCGFSALVNRKFALAGNLFWEDEVEVASLSIASVDPSRLLPKKSSPPPATVNAYLPIITQWMKGSLEEFGVRLLMEWLQYNESAMKFSDTRRGTLEKDALYDYNDVCALTASALEQSCCDLSTLDEIIMGSNFSSSEERMRQLKFDETSRKEGISFHPALFRQLPSDLPSNKNDQIRLLGSVRLWLQELIEKFDPTGKVEGPLTWKAFHQLAGRGRCESSKAQPIPQFKVGGNPRNTSSVVLISPFSLRDWRVAYAAVIPFWQNQSENHRRSTELLSSFFYELSAAFENCQLGHHYPYYQPNTGSLENAFIHVQCAYPFRDENDPASGFSPMNARQPRRQQQSGSGSHSTAAFHYCLQRYKASVVNTVRKMLSERGVAMPDGSQSILTPFTGIQEMPPVSIPLIQSKISPLNGQGLLTTAYDPTTDAKTDVHLVIYLIDPFTQLFDMGDEARGLATRCLAEIAGRLTMELPQSWRLRVSVQLLPMTHVISPRSGVCGREDVGDAGLLPHVKSMALAVYSSIDRVISPTLINANRTLTGMGPAADKEVISANFQKDHVNRVYAPAYTLAHTHDLWGQWEVHPSEPLSPSSVLFVSYCLSEDSNWLLATCIDQYGTLAKQTFINIRAPSAINAPSNKAGVDGFNISTRRLALARLWDFIISVVASTANAWRLVVGRLGRLGHGELKGWSALLSQRNLQNVNRSLRANCALCSLVSQTPITPSNGGPTYNGKLTVTTNLTADSRVSGTCAHETPSLLSACLISTEPQSTFRLFLGSDLNIGDLGGHTGHGGHGGGGGGGGNAGGGGGGLSASGGGVGQAGGQVGQAYAGPFASGVISAAGYAPSTSHILVFPTSTSAQAQSEQEDLNFNEFFCQLDEVDDNTEMCISNLEPPSTPTSAGPGRTGGPCAGIPPEPNTQGMSYDDACRERAKYFLQCALLPFGIPDPQSEKPSLMQQPLALGYHISTAPVGPLPEWFWAACQQARRNNPVCLKSALHLYCTLVRVEDDAAANGGQGTASGSGHLLDSGVTCDVLRFVLESYNALSWLSYDPCINDRRSCLPVHILSLAQLYQAAKAFV
Length1573
PositionMiddle
OrganismHymenolepis nana (Dwarf tapeworm) (Rodentolepis nana)
KingdomMetazoa
LineageEukaryota> Metazoa> Spiralia> Lophotrochozoa> Platyhelminthes> Cestoda> Eucestoda> Cyclophyllidea> Hymenolepididae> Rodentolepis.
Aromaticity0.07
Grand average of hydropathy-0.311
Instability index56.10
Isoelectric point6.23
Molecular weight170816.86
Publications









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

>MDP05750
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.70|      15|      15|    1287|    1301|       1
---------------------------------------------------------------------------
 1287- 1301 (34.05/15.62)	GGHGGGGGGGGNAGG
 1304- 1318 (29.66/12.70)	GGLSASGGGVGQAGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.87|      15|      20|     779|     798|       3
---------------------------------------------------------------------------
  782-  798 (24.26/25.10)	E.....LSAAFENCQLGhhYPY
  800-  819 (23.61/ 7.32)	QpntgsLENAFIHVQCA..YPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.09|      15|      19|     271|     288|       4
---------------------------------------------------------------------------
  271-  288 (23.76/21.31)	QSNVSGGDISgmyQAPPS
  290-  304 (30.33/16.53)	ESALSGGPCS...QPSPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.11|      15|      19|     876|     892|       5
---------------------------------------------------------------------------
  878-  892 (28.94/17.20)	AMPDGS....QSILTPFTG
  895-  913 (23.17/ 6.33)	EMPPVSipliQSKISPLNG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.88|      19|      19|     634|     652|       7
---------------------------------------------------------------------------
  634-  652 (32.02/22.10)	SSSEERMRQLKFDETSRKE
  655-  673 (34.87/24.83)	SFHPALFRQLPSDLPSNKN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.92|      12|      17|     708|     720|       8
---------------------------------------------------------------------------
  708-  720 (18.33/15.43)	FhQLAGRGRCESS
  728-  739 (22.59/12.93)	F.KVGGNPRNTSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.08|      13|      16|     357|     369|       9
---------------------------------------------------------------------------
  357-  369 (23.61/13.81)	QIPFSSKFKLTPE
  376-  388 (22.47/12.76)	DIEVSSRPGLAFE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.67|      18|      21|     971|     990|      10
---------------------------------------------------------------------------
  971-  990 (30.13/26.65)	PQS...WRLRVS.VQLLPmtHVIS
  991- 1012 (24.54/13.74)	PRSgvcGREDVGdAGLLP..HVKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.39|      24|    1029|     389|     433|      11
---------------------------------------------------------------------------
   72-   95 (44.62/ 9.44)	SSGV.DNLSM..PLNSSHSLP...CHQKPS
  394-  423 (33.77/42.38)	TNGLyDCLFLypPRRPPHSLPpsrSQQQPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     113.21|      33|     705|     745|     778|      15
---------------------------------------------------------------------------
  745-  778 (56.19/28.75)	PFSLrDWRVAYAAVIP....FWQNQSENHRRSTELLSS
 1453- 1489 (57.02/25.74)	PLAL.GYHISTAPVGPlpewFWAACQQARRNNPVCLKS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.01|      17|      19|    1174|    1192|      16
---------------------------------------------------------------------------
 1175- 1192 (25.79/22.41)	LGRLGHGeLKGWSA...LLSQ
 1195- 1214 (23.22/ 8.79)	LQNVNRS.LRANCAlcsLVSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      32.92|      10|      21|     579|     588|      17
---------------------------------------------------------------------------
  579-  588 (18.55/12.50)	QYNE.SAMKFS
  602-  612 (14.37/ 7.88)	DYNDvCALTAS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.29|      14|     827|     427|     445|      18
---------------------------------------------------------------------------
  432-  445 (27.27/21.87)	DPDSTTFDL.DELRG
  939-  953 (24.03/ 6.56)	DPFTQLFDMgDEARG
---------------------------------------------------------------------------




































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 MDP05750 with Med13 domain of Kingdom Metazoa
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