<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 MDP01935

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKKFVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRQGWRELWLFWWGDDPNFADLIHHELAAEDDDLWENGLSYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKHEKPINKSEHLSCAFTFFLHGESNVCTSVEINQHQPIYHLTEEHLALAQQASSPFQVVILSPFGLKATLTGQSFKMSDPPTQKLIEEWNQFYPISRSNKEGSSEDKPEDMDWEDDSLASVEVLVGVGGVRMVYPACLVLVPQSDIPVVAPVGSSHCTAVYPGGHQVPASQREPAMSLVTLTPPTSPEEAHTVDSQSAQKWVKMPSSSDAFSVDRTSHHGGKIPRRLARQVVERVWQECNINRAQNKRKFPTASNGTCEEEEVEKVGAWDFVVPSQRSYCSCSRHKSGKQRTGSTPGQTQSTGQPSQPTTKHKTGGEKPEKQQKRPQTPFHHRSLASDETSIETEAAVGQRLAMRAQDSGRFRSADQLHGGAIGAGPSEQSNSPPPPPLSPRPSERGEESGEGIKNPSTPNSQHFYQLPPEPCLAGAKGDGEEPGGPHGSSAFSEPPEPTVYVGSAVNLEDDGCHTPWRLFNLPRRKEAELPTPPLPGDKLRDEAAASQDLVSVTEVMSTSKMPLKVSEDRLQMYRARRNQYLSAAVTDGDHEPEEDPYAFEEGDVKFTFSTKKDKGGEREPGKKHKVGVRGLSQKIDTTTGHNSPVPQLASRLPVCPSSCPDAQRAAAHNRMASSSLMHVTDLVVSFTDLDNLFNSDEDDLTVSGGLTLHAEPGTRRPVNGTDERFGNKEPKTSSLDPPGSADLHQMFPTPPSLEQHIMGFSPMNMCKEYNIMEPNPGMTTLDGTSMLAGHFKIEVEESFCSPKPSEIKDYSFVYKPELCQAFVGCSMFAPLKMLPSQCLPPIKLPEDCIYRTSWTMGRDMLSTVPVMGFLNKDSFVNIPSVGSAMDQDYTQTYTPQTHTPFMSNSAPPSNSGTGILPSPATPRFSAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYLSGADGEDQDPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGSDVSKEAEKSFEELRLSSLERTGVGRGERVPDELIVLLQDQCTNPFSPISVMEHETASRGSSGAPAAPCQRVEERDYRNDCYRALEHGRQFMDNMSGGKVDEALVKSTCLHHWAKQNAVDVSSLCSQDVLRVLMSLQPVLQDVIQKKRMVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPYGSQRDIGYLVVCPDSEAMLSGAKSFFRDLTAVYESCRLGQHRPISKSYPDGIVVVGGSGTKSVMDQPVSDWFHKAAGSNSDAFTKLKLYAQVCRHNLAPYLASQTLDSSLLTQPSASSSSSQTSSTQQYGGSGSASASSNGLTASSGQPGSAMPSGKPNSFPPFGNMNSQGSQSGQLGQQAGPQNAATSGDNSSSQAQGPTEPPESTLEREKIGVPTDGESHAVTYPPAIVVYIVDPFSYEEPADGGSGPGPTHSSVWTLGLLRCYLEMLQCLPPHIRNSISVQIVPCQYLLQQVRGEDRHIYAQHLKSLAFSVFAQCRRPLPTSTNVKSLTGFGPGLAIDNSLKSTERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVMFVGYCLSHDQRWLLATCTDLYGELLETSIINIDVPNRARRKKGSVRRLGLQKLWDWCLGLVQMTSVPWRVVIGRLGRMGHGELKDWSILLSRRNLQSLSRRLKEMCRMCGISASDTPSILSVCLVAMEPQGSFIIMPDSVSTGSVFRRSTTLNMQTSQLNTPQDTSCTHILVFPTSASLQVASSNYTNIDSNIDILNPTTGNLFFCLNLDGSDIGIFDLLDQENELDPDIINISPTTSPVHSPSHHYHQGADGSKGQSTDRMESHEEVPNLLQQPLALGYLVSTAKAGPLPDWFWSACSQAQNQCPLFLKASLHLHVSSVQSDELLHGKHSHPLDSNQTSEVLSYLLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQMYNFIMTML
Length2153
PositionMiddle
OrganismPoecilia formosa (Amazon molly) (Limia formosa)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Poecilia.
Aromaticity0.07
Grand average of hydropathy-0.441
Instability index56.90
Isoelectric point5.68
Molecular weight236518.50
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

>MDP01935
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     165.01|      26|      26|     549|     574|       1
---------------------------------------------------------------------------
  518-  537 (30.97/10.35)	...........G.......GAI..G....AGPSEQS..NSPPPPPL
  538-  572 (41.57/16.54)	SPrpsergeesG.......EGIKNP....STPNSQHFYQLPPEPCL
  573-  599 (41.53/16.52)	AG.......akG.......DG.EEP....GGPHGSSAFSEPPEPTV
  601-  634 (26.41/ 7.68)	VG..........savnledDGCHTPwrlfNLPRRKE.AELPTPP.L
 1570- 1585 (24.53/ 6.57)	...........G.......D............NSSSQAQGPTEPPE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.87|      32|      32|    1025|    1056|       2
---------------------------------------------------------------------------
  994- 1025 (39.31/15.79)	..TPQT.HTPfMSNSAPPSNSGTgiLPSPATPRFS
 1026- 1057 (59.63/28.17)	APTPRTPRTP.RTPRGPSSVQGS..LKYENSDLYS
 1059- 1086 (45.93/19.82)	ASTPSTCR.P.LNSVEPATVP.S..IP.EAHSLY.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     122.38|      35|      38|    1493|    1527|       3
---------------------------------------------------------------------------
 1493- 1527 (57.04/27.20)	QPSASSSSSQTSSTQQYGGSGSASASSNGLTASSG
 1528- 1562 (65.34/32.37)	QPGSAMPSGKPNSFPPFGNMNSQGSQSGQLGQQAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     146.39|      35|      38|     835|     869|       4
---------------------------------------------------------------------------
  800-  820 (27.23/10.70)	..............LTV.SG..GLTLH.....AEPGT..RR.........PVNG
  821-  865 (53.76/29.26)	TDErFgnkepktssLDP.PG..SADLHQM.FPTPPSL..EQHIMG...FSPMNM
  866-  907 (40.95/20.30)	CKE.Y.......niMEPnPGmtTLDGTSM.LAGHFKIevEESFCS...PKPSEI
  908-  933 (24.45/ 8.76)	.KD.Y........................sFVYKPEL..CQAFVGcsmFAPLKM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.30|      14|      38|    1147|    1160|       5
---------------------------------------------------------------------------
 1147- 1160 (26.19/15.65)	RYGNGSGLFLEDEL
 1187- 1200 (26.11/15.57)	RTGVGRGERVPDEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     213.37|      59|     250|     458|     517|       6
---------------------------------------------------------------------------
  347-  402 (49.61/23.37)	.......................QKWVKMPSSSDAFSVDRTS.HHGGKIPRRL.........ArqvvervwqecniNRAQNKRKFPTAS...
  458-  517 (98.68/57.66)	TKHKTGGEK.PEKQ.........QKRPQTPFHHRSLASDETSiETEAAVGQRL.........A.............MRAQDSGRFRSADQLH
  710-  778 (65.09/33.01)	TKKDKGGERePGKKhkvgvrglsQKIDTTTGHNSPVPQ..........LASRLpvcpsscpdA.............QRAAAHNRMASSSLMH
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      70.01|      15|     121|    1324|    1338|       7
---------------------------------------------------------------------------
  218-  230 (18.31/ 7.60)	.LTGQSF.KMSDPPT
  234-  247 (20.53/ 9.56)	IEEWNQFYPISRSN.
 1324- 1338 (31.16/18.90)	PLTWQQFHKMAGRGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.15|      40|     305|     935|     988|       8
---------------------------------------------------------------------------
  935-  976 (69.79/36.34)	PSQCLPPIKLPEDCiYRtSWTMGR...DMLSTVPVMGFLNKDSFV
 1234- 1276 (66.36/27.33)	PCQRVEERDYRNDC.YR.ALEHGRqfmDNMSGGKVDEALVKSTCL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     148.44|      42|     305|    1098|    1140|       9
---------------------------------------------------------------------------
 1098- 1140 (79.03/54.98)	LFKDCN..FDSCCICVCNMNIKGADVGVYLSGADGE....DQdPCSCGF
 1405- 1452 (69.42/43.07)	FFRDLTavYESCRLGQHRPISKSYPDGIVVVGGSGTksvmDQ.PVSDWF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.64|      11|      30|     273|     283|      10
---------------------------------------------------------------------------
  273-  283 (21.45/10.26)	VGVGGVRMVYP
  300-  310 (22.19/10.85)	VGSSHCTAVYP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     180.24|      54|     248|    1846|    1901|      11
---------------------------------------------------------------------------
 1846- 1901 (90.78/60.70)	HGelKDWSILLSRRNLQSLSRRLKE...MCRM.CGISASDTPSILSVCLVAMEPQGSFII
 2093- 2150 (89.46/54.25)	HG..KHSHPLDSNQTSEVLSYLLEQynaLSWLtCDPATQDRRSCLPIHFVVLNQMYNFIM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.36|      22|     254|    1341|    1367|      13
---------------------------------------------------------------------------
 1341- 1367 (35.83/29.05)	TDESPEPLPIPTFLVGYeydfvVLSPF
 1597- 1618 (40.53/21.49)	TDGESHAVTYPPAIVVY.....IVDPF
---------------------------------------------------------------------------




































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 MDP01935 with Med13 domain of Kingdom Metazoa
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