<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 MDP01704

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVAKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAQFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDLEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNVEREAGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGADDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRSTSVEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANTNNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQPASALPPATANAGNPNTPSSAPAAPTSSTMTATSNSAMSSAATTANSTLTTTAPSSSSASIGSGIPTSKPSSFPPFSSMNNTTSASLPAQAATVQNGQTGGQQQQPTLQTAGMSGDTASAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPSNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSSFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismNipponia nippon (Crested ibis) (Ibis nippon)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Pelecaniformes> Threskiornithidae> Nipponia.
Aromaticity0.07
Grand average of hydropathy-0.411
Instability index51.13
Isoelectric point5.40
Molecular weight239586.53
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

>MDP01704
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     226.85|      36|      40|     979|    1014|       1
---------------------------------------------------------------------------
  519-  566 (46.57/17.05)	TPQM.HnaemanSP..Q.P..PPlS.........................PHPC....DvV...DEGVAKAP.STPqsqhfyQMPTP
  979- 1014 (78.15/33.89)	TPQT.H......TPFGM.P..PS.S.........................APPS....N.S...GAGILPSP.STP......RFPTP
 1016- 1055 (45.57/16.52)	TPRTpR......TPRGAgG..PA.S.........................AQGSvkyeN.S...D...LYSPaSTP......STCRP
 1485- 1504 (27.00/ 6.63)	.....................PP.S.........................SQP............ASALP.P.ATA......NAGNP
 1506- 1564 (29.56/ 7.99)	TPS............SA.PaaPT.SstmtatsnsamssaattanstltttAPSS....S.SasiGSGI.PT..SKP......SSFPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     106.68|      33|      40|    1118|    1157|       2
---------------------------------------------------------------------------
 1118- 1143 (43.31/25.61)	...............QEA..QYRCTCGFSAVMNRKFGNSSGLF
 1144- 1180 (36.72/40.56)	LEDELdILgrntecgKEA..EKR....FEALRSTSVEHGSGGL
 1186- 1206 (26.65/13.81)	LPDEL.IL..........llQDQCTNLFS.....PFG......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     337.89|     112|     265|     571|     704|       3
---------------------------------------------------------------------------
  571-  701 (155.08/121.69)	PT.KTMEDRLDGLSqPFPAQFPEV..IEPTMYvGTAVnleEDEADTTWKYYKVpkKKDLEFLPPQlPNDkLRDDPVI..PagqEN.........VTSVTELMVQCRKPLKVSDELVQQyQSknqylaAVATEADQEPEIDPYAFV
  837-  962 (182.81/92.97)	PTpPSLEQHIMGFS.PMNMNNKEYgsMDTTLG.GTVL...EGNSSSVGAQFRI..EVDEGFCSPK.PAE.IKDYSYVykP...ENcqalvgcsmFAPLKTLPSQCLPPIKLPEECIYR.QS......WTVGKLDLLPPGPAMPFI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.44|      20|     202|     234|     258|       4
---------------------------------------------------------------------------
  234-  258 (31.77/28.45)	GEWKQFYPvtsnlKEGSEEKQEEMD
  447-  466 (37.67/21.65)	GQQQQAAP.....KHKTNEKQDKGD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     203.25|      63|     263|      46|     115|       5
---------------------------------------------------------------------------
   46-  115 (110.01/86.13)	PVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWEnglsyEC
  312-  383 (93.24/57.39)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHHggkiprKLANQvVDRVWQ.....EC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      88.05|      31|      44|     708|     739|       6
---------------------------------------------------------------------------
  708-  739 (49.26/39.24)	LF.PDSKKDRQNV...EREAGKK..HKAeDGTSSVTVL
  749-  785 (38.79/25.03)	LFsPSVKQDAQRIaahARTASTSlfHET.DLVVSYTDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      36.88|      14|      18|    1425|    1441|       7
---------------------------------------------------------------------------
 1425- 1441 (15.01/17.55)	TASKKLSeKLvtEWFSQ
 1445- 1458 (21.86/11.79)	TNNEAFS.KL..KLYAQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.97|      17|      18|    1594|    1610|       8
---------------------------------------------------------------------------
 1594- 1610 (29.20/21.09)	QPTLQTAGMSGDTASAP
 1614- 1630 (29.77/21.69)	HPEVSESTMDRDKVGVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.00|      62|     447|    1329|    1406|       9
---------------------------------------------------------------------------
 1343- 1406 (101.89/84.15)	GYDYDFLVLSpFALPYWERLML....EPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCrLG
 1789- 1854 (108.11/55.65)	GQKYNVLFVG.YCLSHDQRWLLasctDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWC.LG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.94|      15|     447|    1520|    1538|      10
---------------------------------------------------------------------------
 1521- 1535 (24.98/18.41)	ATSNSAMSSAATTAN
 1571- 1585 (25.96/ 8.52)	TTSASLPAQAATVQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.24|      27|     446|     794|     835|      11
---------------------------------------------------------------------------
  807-  835 (42.68/23.89)	ADDKSNC..KEAKAGNLD.PLSCisTADLHKM
 1256- 1285 (38.56/23.71)	ALVKTTClhHWSKRNVVDvSMQC..SQDILRM
---------------------------------------------------------------------------




































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 MDP01704 with Med13 domain of Kingdom Metazoa
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