<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 MDP22396

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNIFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHNELSSEENGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKIINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLGEEHLSLAQQSSSPLQVILSPYGLNGTLTSQAFKMSDHPTQKLIEEWRQFYPICPNLKEVPEDKMEDADWEDDSLAAVEVLVAGVRMVYPSCLVLLPLSDLPAVVPQGSANTPGMQSGAHQGQAAHRDSAMSSVTLTPPTSPEEAHTDYQPAQRWLKMSSGSDCYSSNNTLHGGKIPRRLSSQMVKTVWQEYNINRAGNKRKFTTLTNGTCEEEPDRSGFWDFVEPTHRPSCNCSRPKNQKQRSSSTSGHPPSSGQPPQPAAKHKLGEKLEKGEKQQRRPQTPFHHRNSVSEEQSMEPQTQRLCPRPQEEGSYPSLHHADTAPPKAPSLHAHGPPADLVGSPPPPPLSPRPCDHVDGELTPSGAKNSSTPIHQAFYPPSMEPCLMPQKGSTEEPQPDSAAYPSNYNETFEPTVFIGSAINPGEDSTHNPWKYFNLPRKKTSNFLTPQLPVDKIRDDSSGGSETVVSVTELMCNSSHPLKVSQELVRTYAQRRNSHLGSSAGDGEHGDESDPYAFVDGDDEFSITEKRDKVGPEKDGNKKQKLDNGGTATSSDDGQGQSSCKPSASTSLIHEKDLVVSLSDLEKMFNSDEDEQEPGSKRAGAGNDDKTNLKEPKPERLDPLSSSDLMMMYPTPPSLDQNGYSPGNSGTKDGLETGAGLALLDSSQLSSHFKIEVEEGFCSPKPSEIKDFSFVYKPETCQSIIGCSMYAPLKTLPSQCLLPVKLPEDCVYTPSWTMGKMELMPPVSTVSLLTKDSNVPSVEPDYNQPFTPQTNTPFLPGSAPPSNSGPGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGSDVGVYLKDNGEDQYPCTCGFSAVANRRFGQSAGLFLEDELDVVGRGSDAGRDTERRFEELRGSLKEKPPDELILLLQDQCTNPLAPMAGVEWPKPSAVAVAAPSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTSLHQWPKCKSADMSKLYSQDVLRVLLSLQPALQDTIQKKGVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYVVICPENQTLLRGAKTFFKDLSVMYEACQLGQHKPICKSHPEGVLTVGSPEGRSMTEQPLSDWFLKMAARESNNEAFHKLKLFAQVCRYDLAPDLSELPLDSSLLSQRNPTNPAPQTSTSSSASSGLQSTNTTSTNSSQPAQVNSTPPPSSSSSSSSGSQTNGAMASGKPGSYMPFGTGGLQGSTTQNGPQTNSQSAGGLGDGASSQPQVSAETQESTMERDKVGKPTDGESHAVSYPPAIVVYIVDPFSYENADKEVHSSTYTVGLLRCFMEMLPFLPAHIRNAVSVQIVPCQYLLQPVHSGDRHIYSQHLKSLAFSVYTQCRRPLPNSTNFKALTGFGPGLALDMALKNPERPECLRLYTPSFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLESCIISIDVPNRARRKKSSARRVGLQKLWEWCVGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRTNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTTEPIDISFNHINPDGSEGMGIFDLFGSDMDPELINILPNSPTTSPGHSPGHHYHHGEAGKGQGADRMESHEEALSILQQPMALGYFISTAKAGPLPDWFWSTCPEAQNQCPLFLKASLHLHVSAVQSDEFLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHFVVLTQIYNFIMNML
Length2107
PositionMiddle
OrganismXiphophorus maculatus (Southern platyfish) (Platypoecilus maculatus)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Cyprinodontiformes> Poeciliidae> Poeciliinae> Xiphophorus.
Aromaticity0.07
Grand average of hydropathy-0.495
Instability index56.34
Isoelectric point5.66
Molecular weight231600.70
Publications
PubMed=23542700

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

>MDP22396
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     155.26|      35|      36|     931|     965|       1
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  279-  302 (31.59/10.28)	.........................P.SCLVLL.PLSD.....LPA.VVPQ.GSANTP..
  931-  959 (47.39/19.29)	.........................PVSTVSLLTKDSN.....VPS.VEPDYNQPFTPQT
  960-  993 (35.02/12.24)	NTPFLP................gsaP.........PSNsgpgiLPSpATPRFSVP.TPRT
  995- 1043 (41.25/15.79)	RTPRTPrgpssvqgslkyensdlysPASTPSTCRPLS........S.VEP.ATVPSIPE.
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     109.54|      34|      34|    1446|    1479|       2
---------------------------------------------------------------------------
  389-  426 (51.17/21.73)	KRKFTTLTNGTCEEEPDRSGfwdfVEPTHRPSCNCSRP
 1446- 1479 (58.37/25.88)	QRNPTNPAPQTSTSSSASSG....LQSTNTTSTNSSQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.24|      26|      36|      30|      64|       3
---------------------------------------------------------------------------
   21-   57 (33.10/38.13)	CLA.DltgikWRRFvwQGPTSSPI.LFpVTEEDPilcSF
   60-   91 (44.14/23.94)	CLAaD.vlsvWRRH..HTPGRRELwLF.WWGDDP...SF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     104.51|      23|      24|     565|     587|       4
---------------------------------------------------------------------------
  487-  510 (26.53/ 9.07)	.PQTQRLCPRPQ.eEGSYPSlHHADT
  565-  587 (45.57/21.74)	YPPSMEPCLMPQ..KGSTEE.PQPDS
  590-  614 (32.41/12.98)	YPSNYNETFEPTvfIGSAIN.PGEDS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.96|      14|      27|    1077|    1090|       5
---------------------------------------------------------------------------
 1077- 1090 (25.28/17.04)	NIR.GSDVGVYLKDN
 1106- 1120 (20.68/12.41)	NRRfGQSAGLFLEDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     279.94|      80|     841|     634|     726|       6
---------------------------------------------------------------------------
  644-  726 (130.77/99.73)	DDSSGGSETvvSVTELMCNSSHPLKVSQELVRTYAQRRN.SHLGSSAGDGEhGDESDP...YAFVDGDDEFSITEKRDKVGPEKDGN
  730-  805 (102.52/53.65)	KLDNGGTAT..SSDDGQGQSSCKPSASTSLIHEKDLVVSlSDLEKMFNSDE..DEQEPgskRAGAGNDDKTNLKEPK....PER...
 1532- 1570 (46.65/18.92)	......................................N.SQ..SAGGLGD.GASSQP...QVSAETQE..S.TMERDKVGKPTDGE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     163.72|      50|     205|    1666|    1715|       7
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 1666- 1715 (86.59/57.58)	LPNSTNFKALTGFGPGLALDMA.LKNPERPECLR.LYTPSFILAPVKDKQTE
 1866- 1917 (77.13/50.29)	MPDSVSTGSVFGRSTTLNMQTSqLSTPQDTSCTHiLVFPTSAMVQVNTNTTE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.91|      18|     205|     327|     349|       8
---------------------------------------------------------------------------
  330-  347 (36.54/25.06)	SPEEAHTDYQPAQRW.LKM
 1388- 1406 (31.37/ 7.20)	SPEGRSMTEQPLSDWfLKM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      70.59|      20|      24|     513|     533|       9
---------------------------------------------------------------------------
  513-  533 (35.82/17.60)	PKaPSLHAHG..PPADLVGSPPP
  538-  559 (34.76/13.43)	PR.PCDHVDGelTPSGAKNSSTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.66|      30|      37|     806|     838|      10
---------------------------------------------------------------------------
  806-  838 (52.60/36.67)	LDPLSSSDLMMMYPTPPsldQNGY.SPGNSGTKD
  846-  876 (47.06/25.21)	LALLDSSQLSSHFKIEV...EEGFcSPKPSEIKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     179.83|      68|    1057|     175|     246|      14
---------------------------------------------------------------------------
  175-  222 (62.10/43.81)	...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................CTSVEIAQ..HQPLQRLgeeHLSL..AQQSSSPLQ.......VILSPYGLNGTLTSQAF
  223-  246 (18.79/ 7.99)	KMSDHPTQKlIEEWRQFYPICPNL......................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
 1234- 1281 (55.91/31.45)	........................kevpedkmedadweddslaavevlvagvrmvypsclvllplsdlpavvpqgsantpgmqsgahqgqaahrdsamssvtltpptspeeahtdyqpaqrwlkmssgsdcyssnntlhggkiprrlssqmvktvwqeyninragnkrkfttltngtceeepdrsgfwdfvepthrpscncsrpknqkqrssstsghppssgqppqpaakhklgeklekgekqqrrpqtpfhhrnsvseeqsmepqtqrlcprpqeegsypslhhadtappkapslhahgppadlvgsppppplsprpcdhvdgeltpsgaknsstpihqafyppsmepclmpqkgsteepqpdsaaypsnynetfeptvfigsainpgedsthnpwkyfnlprkktsnfltpqlpvdkirddssggsetvvsvtelmcnsshplkvsqelvrtyaqrrnshlgssagdgehgdesdpyafvdgddefsitekrdkvgpekdgnkkqkldnggtatssddgqgqssckpsastslihekdlvvslsdlekmfnsdedeqepgskragagnddktnlkepkperldplsssdlmmmyptppsldqngyspgnsgtkdgletgaglalldssqlsshfkieveegfcspkpseikdfsfvykpetcqsiigcsmyaplktlpsqcllpvklpedcvytpswtmgkmelmppvstvslltkdsnvpsvepdynqpftpqtntpflpgsappsnsgpgilpspatprfsvptprtprtprtprgpssvqgslkyensdlyspastpstcrplssvepatvpsipeahslyvtlilsesvmnlfkdcnfdsccvcvcnmnirgsdvgvylkdngedqypctcgfsavanrrfgqsaglfledeldvvgrgsdagrdterrfeelrgslkekppdelilllqdqctnplapmagvewpkpsavavaapssflrveerdcyndcymalehgrqfmdnmsggkvdetlvkstslhqwpkCKSADMSKlySQDVLRV...LLSLqpALQDTIQKK.......GVRS.WGVQGPLTWQQF
 1283- 1320 (43.03/22.30)	KMAGRGSYG.TDESPEPLPIPTFL..............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................vgyeydfVVLSPFGL.........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.12|      18|     843|     352|     369|      15
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  352-  369 (34.97/18.12)	DCYSS.......NNTLHGGKIPRRL
 1198- 1222 (28.15/13.30)	DCYMAlehgrqfMDNMSGGKVDETL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.14|      16|      33|     427|     442|      19
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  427-  442 (28.07/13.93)	KNQKQRSSSTSGHPPS
  463-  478 (30.07/15.51)	EKQQRRPQTPFHHRNS
---------------------------------------------------------------------------




































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 MDP22396 with Med13 domain of Kingdom Metazoa
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