<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 MDP30934

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNIFCLADLTGIKWRRFVWQGPTSSPILFPVTEEDPILCSFSRCLAADVLSVWRRHHTPGRRELWLFWWGDDPSFAELIHNELSSEENGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKIINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLGEEHLSLAQQSSSPLQVILSPYGLNGTLTSQAFKMSDHPTQKLIEEWRQFYPICPNLKEVPEDKMEDADWEDDSLAAVEVLVAGVRMVYPSCLVLLPLSDLPAVVPQGSANTPGMQSGAHQGQAAHRDSAMSSVTLTPPTSPEEAHTDYQPAQRWLKMSSGSDCYSSNNTLHGGKIPRRLSSQMVKTVWQEYNINRAGNKRKFTTLTNGTCEEEPDRSGFWDFVEPTHRPSCNCSRPKNQKQRSSSTSGHPPSSGQPPQPAAKHKLGEKLEKGEKQQRRPQTPFHHRNSVSEEQSMEPQTQRLCPRPQEEGSYPSLHHADTAPPKAPSLHAHGPPADLVGSPPPPPLSPRPCDHVDGELTPSGAKNSSTPIHQAFYPPSMEPCLMPQKGSTEEPQPDSAAYPSNYNETFEPTVFIGSAINPGEDSTHNPWKYFNLPRKKTSNFLTPQLPVDKIRDDSSGGSETVVSVTELMCNSSHPLKVSQELVRTYAQRRNSHLGSSAGDGEHGDESDPYAFVDGDDEFSITEKRDKVGPEKDGNKKQKVGSVGKLNHSHDFCLFLDSGQSSCKPSASTSLIHEKDLVVSLSDLEKMFNSDEDEQEPGSKRAGAGNDDKTNLKEPKPERLDPLSSSDLMMMYPTPPSLDQNGYSPGNSGTKDGLETGAGLALLDSSQLSSHFKIEVEEGFCSPKPSEIKDFSFVYKPETCQSIIGCSMYAPLKTLPSQCLLPVKLPEDCVYTPSWTMGKMELMPPVSTVSLLTKDSVEPDYNQPFTPQTNTPFLPGSAPPSNSGPGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGSDVGVYLKDNGEDQYPCTCGFSAVANRRFGQSAGLFLEDELDVVGRGSDAGRDTERRFEELRGSLKEKPPDELILLLQDQCTNPLAPMAGVEWPKPSAVAVAAPSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTSLHQWPKSADMSKLYSQDVLRVLLSLQPALQDTIQKKGVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFVVLSPFGLPYWEKLLLDPFGSQRDVGYVVICPENQTLLRGAKTFFKDLSVMYEACQLGQHKPICKSHPEGVLTVGSPEGRSMTEQPLSDWFLKMAARESNNEAFHKLKLFAQVCRYDLAPDLSELPLDSSLLSQRNPTNPAPQTSTSSSASSGLQSTNTTSTNSSQPAQVNSTPPPSSSSSSSSGSQTNGAMASGKPGSYMPFGTGGLQGSTTQNGPQTNSQSAGGLGDGASSQPQVSAETTMERDKVGKPTDGESHAVSYPPAIVVYIVDPFSYENADKEVHSSTYTVGLLRCFMEMLPFLPAHIRNAVSVQIVPCQYLLQPVHSGDRHIYSQHLKSLAFSVYTQCRRPLPNSTNFKALTGFGPGLALDMALKNPERPECLRLYTPSFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRWLLASCTDQHGELLESCIISIDVPNRARRKKSSARRVGLQKLWEWCVGLVQVTSLPWRVVIGRLGRMGHGELRDWSILLSRTNLQSLSKRLKETCRMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTTEPIDISFNHINPDGSEGMGIFDLFGSDMDPELINILPNSPTTSPGHSPGHHYHHGEAGKGQGADRMESHEEALSILQQPMALGYFISTAKAGPLPDWFWSTCPEAQNQCPLFLKASLHLHVSAVQSDEFLHSKHSHPLDSNHTSDVLRFVLEQYNALSWLTCNPATQDRRSCLPVHFVVLTQIYNFIMNML
Length2103
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-0.481
Instability index56.04
Isoelectric point5.72
Molecular weight231365.68
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

>MDP30934
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             5|     195.80|      35|      35|     958|     992|       1
---------------------------------------------------------------------------
  487-  530 (27.87/ 6.35)	PQTQRL.CPRP.......qeegsyPslhHA.DTapPKAPSlHAH...........GPpaDLVGS
  531-  576 (49.91/17.08)	PPPPPLS.PRPcdhvdgeltpsgaK...NS.ST..PIHQA.FYPPS....ME....P..CLMPQ
  577-  617 (35.60/10.11)	KGSTE..EPQP.......dsaaypS...NY.NE..TFEPT.VFIGS..aiNP...GE..DSTHN
  958-  981 (37.42/11.00)	........................P...QT.NT..PFLPG.SAPPS....NS...GP..GILPS
  982- 1026 (45.00/14.69)	PATPRFSVPTP...........rtP...RTpRT..PRGPS.SVQGSlkyeNSdlySP..ASTPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      85.92|      23|      35|    1444|    1466|       2
---------------------------------------------------------------------------
 1444- 1466 (42.84/22.51)	SQRNPTNPAPQTSTSSSASSGLQ
 1476- 1498 (43.08/22.69)	SQPAQVNSTPPPSSSSSSSSGSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.80|      13|      35|     831|     843|       3
---------------------------------------------------------------------------
  831-  843 (25.60/13.60)	QNGY.SPGNSGTKD
  868-  881 (20.20/ 8.96)	EEGFcSPKPSEIKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     104.65|      29|      35|     404|     432|       4
---------------------------------------------------------------------------
  404-  432 (56.11/32.83)	PDRSGFWDFVEPTHRPSCNCSRPKNQKQR
  440-  468 (48.54/27.22)	PPSSGQPPQPAAKHKLGEKLEKGEKQQRR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      47.62|      15|      34|      50|      67|       5
---------------------------------------------------------------------------
   50-   67 (21.24/19.23)	EDPilcSFSRCLAADVLS
   87-  101 (26.38/14.00)	DDP...SFAELIHNELSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.73|      11|      33|    1081|    1091|       6
---------------------------------------------------------------------------
 1081- 1091 (19.59/ 9.42)	GSDVGVYLKDN
 1111- 1121 (19.14/ 9.05)	GQSAGLFLEDE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      77.30|      22|      26|    1295|    1316|       8
---------------------------------------------------------------------------
 1295- 1316 (41.25/23.92)	P..EPLPIPTFLVGYEYDFVVLSP
 1320- 1343 (36.05/19.90)	PywEKLLLDPFGSQRDVGYVVICP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      81.22|      24|      26|    1561|    1584|       9
---------------------------------------------------------------------------
 1561- 1584 (43.13/22.43)	KPTDGESHAVSYPPAIVVYIVD..PF
 1587- 1612 (38.09/18.99)	ENADKEVHSSTYTVGLLRCFMEmlPF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.60|      12|      35|     232|     243|      13
---------------------------------------------------------------------------
  232-  243 (25.48/12.85)	LIEEWRQFYPIC
  270-  281 (23.11/11.06)	LVAGVRMVYPSC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.27|      19|      33|    1151|    1170|      14
---------------------------------------------------------------------------
 1151- 1170 (29.90/20.12)	PDELILLLQDQCTNPlAPMA
 1185- 1203 (36.37/20.54)	PSSFLRVEERDCYND.CYMA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.84|      14|      36|      30|      45|      16
---------------------------------------------------------------------------
   30-   45 (23.99/24.23)	WRRFvwQGPTSSPI.LF
   69-   83 (24.85/14.97)	WRRH..HTPGRRELwLF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      78.14|      23|      24|     725|     747|      17
---------------------------------------------------------------------------
  725-  747 (40.42/24.27)	GNKKQKVGSVGKLNHSHDFCLFL
  750-  772 (37.72/22.12)	GQSSCKPSASTSLIHEKDLVVSL
---------------------------------------------------------------------------




































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 MDP30934 with Med13 domain of Kingdom Metazoa
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