<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 MDP01587

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSSVGAPHCSTACLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCEEETADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGPQQPAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFANIRTNDVAKPPQLHGAELANSPQPPPLSPHPCDGADEGVPKAPSTPQSQHFYQMPTPDPLVPTKAMEDRLDGLSQPFPAAFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLTAVATEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREVGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRLAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGTDDKSNCKEAKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSTVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTLDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSIEHGSGGLKEPEKLPDDLILLLQDQCTNLFSPFGAADQDSIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLVPPSSQAASALPPVTAPAANPNTPSSAPAAPTSSTITVTSTSAMSSAATTANSTLTTTAPSSSSASLGSGIPTSKPSSFPPFSNMNNTTPASLPAQTAPVPNGQTGGQQQQPTLQTAGMSGDTAAAPAQPHPEISESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPGGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPIHFVVLNQLYNFIMNML
Length2179
PositionMiddle
OrganismCorvus brachyrhynchos (American crow)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Neognathae> Passeriformes> Corvoidea> Corvidae> Corvus.
Aromaticity0.07
Grand average of hydropathy-0.397
Instability index52.36
Isoelectric point5.40
Molecular weight239332.51
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

>MDP01587
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     214.58|      65|      67|     921|     986|       1
---------------------------------------------------------------------------
  444-  476 (32.80/10.54)	PPvGPQQPA.APKHKTNEKQD.KGdkPQKRPLT..PF..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
  921-  953 (29.03/12.17)	.....................................hhrvsisddvameadsasqrlvmtapdsqvrfanirtndvakppqlhgaelanspqppplsphpcdgadegvpkapstpqsqhfyqmptpdplvptkamedrldglsqpfpaafpevieptmyvgtavnleedeadttwkyykvpkkkdveflppqlpndklrddpvipagqenvtsvtelmvqcrkplkvsdelvqqyqsknqyltavateadqepeidpyafvdgdveflfpdskkdrqnierevgkkhkaedgtssvtvlshegedamslfspsvkqdaqrlaahartastslfhetdlvvsytdldnlfnsdedeltpgskrtvngtddksnckeaktgnldplscistadlhkmyptppsleqhimgfspmnmnnkeygsmdttlggtvlegnsstvgaqfrievdegfcspkpaeikdysyvykpencqalvgcsmfaPLKTLPSQCLPPIkLPEECIYR.QSWTVGKLDLL
  954- 1022 (115.61/62.37)	PP.GPAMPFIKDGDGSTLDQE.YG..PAYTPQTHTPF.........................................................................................................................................................................................................................................................................................................................................................................................................................................................gmpPSSAPPSNSGAGI.LPSPSTPRfPTPRTPRTPRT
 1023- 1056 (37.14/13.24)	PR.GAGGPASAQGSVKYENSDlYS..PASTPSTCRPL..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.31|      26|      40|    1413|    1451|       2
---------------------------------------------------------------------------
 1413- 1442 (42.19/50.88)	KL.LPDGIMR..VGP.TASKKLSEKLvtewFSQT
 1452- 1481 (33.12/12.07)	KLkLYAQVCRyeLGPyLASQPLDNSL....LSQT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     144.90|      35|      40|    1508|    1543|       3
---------------------------------------------------------------------------
 1508- 1543 (52.12/30.24)	SSAPA..APTSSTITvTSTSAMSSAATTANSTLTTTAP
 1549- 1573 (41.30/19.12)	SLGSG..IPTSKP.........SSFPPFSN..MNNTTP
 1574- 1610 (51.48/25.88)	ASLPAqtAPVPNGQT.GGQQQQPTLQTAGMSGDTAAAP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     120.97|      34|      40|    1118|    1157|       4
---------------------------------------------------------------------------
 1098- 1116 (29.87/14.34)	......CVCN....MNIK.GADVGVY.....IPD..........P
 1118- 1157 (54.79/49.05)	QEAQYRCTCGFSAVMNRKFGNSSGLF.....LEDELdILgrnteC
 1159- 1192 (36.31/17.64)	KEAEKR....FEALRATSIEHGSGGLkepekLPDDL.IL......
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.09|      19|      40|     382|     400|       5
---------------------------------------------------------------------------
  382-  400 (34.48/22.55)	ECNMNRAQNKRKYSATSNG
  423-  441 (34.62/22.67)	NCNCSRHKNLKPRNSGQQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     291.27|      87|      98|     518|     605|       6
---------------------------------------------------------------------------
  518-  593 (123.64/61.68)	..............................KPPQLHGAELANSpQPPPLSPHPCDGADEGVPKAPSTPQSQHFYQMPTPDPLVPTKAMEDRLDGLSQPFPAAFPEV
  594-  689 (125.04/58.70)	IEPTMYVGTAVN.....leedeadttwkyyKVPKKKDVEF....LPPQL.PNDKLRDDPVIPAGQENVTSVTELMVQCRKPLKVSDELVQQYQSKNQYLTAVATEA
  695-  756 (42.59/14.98)	IDPYAFVDGDVEflfpdskkdrqnierevgKK...HKAEDGTS.SVTVLS.H..EGEDAMSLFSPSVKQ.....................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     210.00|      62|     448|    1329|    1406|       7
---------------------------------------------------------------------------
 1343- 1406 (101.89/79.51)	GYDYDFLVLSpFALPYWERLML....EPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCrLG
 1789- 1854 (108.11/52.58)	GQKYNVLFVG.YCLSHDQRWLLasctDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWC.LG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     143.65|      44|      69|    1663|    1710|      10
---------------------------------------------------------------------------
 1663- 1710 (68.64/59.50)	SSSLWTLGLLRCFLEMVQVL.PPNIKNIISVQIVPcqYLLQPVKheDRQ
 1734- 1778 (75.01/49.84)	STNVKTLTGFGPGLAMETALrSPDRPECIRLYTPP..FILAPVK..DKQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.52|      12|      40|     848|     859|      11
---------------------------------------------------------------------------
  848-  859 (25.08/14.16)	GF.SPMNMNNKEY
  889-  901 (19.44/ 9.22)	GFcSPKPAEIKDY
---------------------------------------------------------------------------




































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 MDP01587 with Med13 domain of Kingdom Metazoa
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