<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 MDP01578

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMLSLLQADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEDHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCCSKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPIPSSVGSSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPQKLASHVVDRVWQECNMNRAQNKRKYSASSGGLNEDEIPDKVACWDFVEATQRTNCSCSRHKNLKPRSTGQQGQAPSLNQPQQVLPKHKTNEKQEKNEKPQKRPLTPFHHRVSINDDVGMDTDSASQRLVISAPDSQVRFSNLRTNDVAKTPQMHSTEMANSPQPPPLSPHPCDVADEGVTKTPSTPQSQHFYQIPTPDPLVPNKPMEDRIDTLSQSFPPQFQETVEPTVYVGAAVNLEEDEANTAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYISAIASDTEQESKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVEDGTSSVTVLSHEEDAMSLFSPSVKQDAPRPSSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSGTGSDDKASCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKDYGSMDTIPGGTVLEGNSSSIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLELLPSGSTIPFIKESDGSNMDQEYGPAYTPQTHTSFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAIMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRATSAEHISGGLKESEKLPDELILLLQDQCTNLFSPFGASDQDPFPRIGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLHGAKSFFRDLTAIYESCRLGQHRPISRLLMDGIMRVGSTASKKLSEKIVAEWFSQAADGNNEAFSKLKLYAQVCKYDLGPYLASQPLDSSLLSQPNLVTPTSQSLITPPQITNTGNANTSSVTLASTASSTMTVTSGVAISSSVATANSTLTTSSSSSSSNSNSGVSSNKLPSYPPFGSMNSSGTGSMSTQASTVQSGQLGGQQPSALQAAGISGESSSLPTHLHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYEDKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIININVPHRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTPDDLDPDIINILPASPTASPVHSPGSHYPHGGDTGKGQSTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAIQDRRSCLPIHFVVLNQLYNFIMNML
Length2156
PositionMiddle
OrganismFukomys damarensis (Damaraland mole rat) (Cryptomys damarensis)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Hystricomorpha> Bathyergidae> Fukomys.
Aromaticity0.08
Grand average of hydropathy-0.411
Instability index51.73
Isoelectric point5.44
Molecular weight237833.52
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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

>MDP01578
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.77|      28|      38|     686|     723|       1
---------------------------------------------------------------------------
  686-  717 (39.92/37.46)	EGDEEFLF.PDKKdrQNSEREAgkKHKVEDGTS
  725-  753 (46.85/19.66)	EEDAMSLFsPSVK..QDAPRPS..SHARPPSTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     492.62|     134|     202|     279|     426|       2
---------------------------------------------------------------------------
  279-  417 (223.96/122.88)	SVGSSHCSASCLGVHQVPASTRDPAMSSVTL..T.....PPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTShhGGKIPQKLASHVVDRVWQEC..NMNRAQNKRKYSASSGGLNEDEIPdkvACWDFVEATQRTNCSCSRHK....NLK
  484-  623 (204.31/100.84)	SAPDSQVRFSNLRTNDV...AKTPQMHSTEM..AnspqpPPLSPHPCDVAD.EGVTK.TPSTPQSQHFYQIPTP..DPLVPNKPMEDRIDTLSQSFppQFQETVEPTVYVGAAVNLEEDEAN...TAWKYYKVPKKKDVEFLPPQlpsdKFK
  974- 1032 (64.35/32.59)	SAPPSN...SGAGILPSPSTPRFPT......prT.....PRTPRTPRGAGGPASAQGSVKYEN.SDLYSPASTP..............................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     131.50|      38|     202|    1708|    1745|       3
---------------------------------------------------------------------------
 1708- 1745 (68.19/37.64)	LPTSTNVKTLTGFGPGLAMETA.LKSPDRPECIRLYTPP
 1908- 1946 (63.30/34.40)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     242.26|      61|     202|     833|     893|       4
---------------------------------------------------------------------------
  776-  826 (60.49/33.47)	............DELTPGSKKSGTGSDDKASCK.E.SKTGNLDP..LSCiSTADLHKMYptPPSLEQ
  833-  893 (106.27/65.57)	PMNMNNKDYGSMDTIPGGTVLEGNSSSIGAQFKIE.VDEGFCSP..KPS.EIKDFSYVY..KPENCQ
  903-  958 (75.49/43.98)	PLKTLPSQCLPPIKLPEECIYR.QSWTVG...KLElLPSGSTIPfiKES.DGSNMDQEY..GP....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      74.48|      23|     202|    1381|    1403|       5
---------------------------------------------------------------------------
 1381- 1403 (44.52/31.11)	ESCRLGQH.RP.ISRLLMD....GIMRVG
 1582- 1610 (29.96/17.96)	ESSSLPTHlHPdVSESTMDrdkvGIPTDG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.08|      26|      26|    1517|    1542|       6
---------------------------------------------------------------------------
 1517- 1542 (43.08/17.70)	LTTSSSSSSSNSNSGVSSNKLPSYPP
 1546- 1571 (44.00/18.21)	MNSSGTGSMSTQASTVQSGQLGGQQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      54.92|      15|     543|    1093|    1107|      11
---------------------------------------------------------------------------
 1093- 1107 (30.83/18.67)	VYIPDP.TQEAQYRCT
 1623- 1638 (24.09/12.81)	VYIIDPfTYEDKDEST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.72|      22|      28|    1312|    1333|      12
---------------------------------------------------------------------------
 1312- 1333 (41.36/30.57)	P..EPLPIPTFLLGYDYDFLVLSP
 1337- 1360 (36.37/25.66)	PywERLMLEPYGSQRDIAYVVLCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.67|      15|    1058|     194|     208|      19
---------------------------------------------------------------------------
  194-  208 (30.39/16.18)	PFGLNGTLTGQAF.KM
 1285- 1300 (30.28/16.10)	PWGVQGPLTWQQFhKM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      30.95|       9|      28|    1108|    1118|      20
---------------------------------------------------------------------------
 1108- 1118 (13.43/11.89)	CGFSAimNRKF
 1139- 1147 (17.52/ 8.15)	CGKEA..EKRF
---------------------------------------------------------------------------




































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 MDP01578 with Med13 domain of Kingdom Metazoa
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