<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 MDP28934

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCSVPNGASLEDCHSNLFYLADLTGIKWKMFVWQGPTSAPILFPVTEEDPILCSFSRCLKADVLSVWRRSQRPGRRELWLFWWGDDPNFTELIHHELTAGDDGLWENGLPYECRTLLFKAIHNLLERCLMNRSFVRIGKWFVKPYEKDEKPVNKSEHLSCAFTFFLHGESNVCTSVEINQHQPIYHLTEEHLTLAQQASTPFQVILSPFGLNGTLTGQSFKMSDPPTQKLIEEWNQFYPISPSAKQTVSEDKPEDMDWEDDSLASVEVLVGGVRMVYPACLVLVPQSDIPVVTPVGSSQCTAVYSGGYQVPAMQREPAMSLVTLTPPTSPEEVHTVDSHSAQKWLKMPSSSDVFSVDRTNHHGGKVPRRLASQVVERVWQECNINRAQNKRKFSATTNCTGEEEVPEKVGAWDFVEPSQRSYCVCSRHKSVKQRAGGAQGLTQSMGQPSQPPTKHKTGGEKVDKGEKQQKRPQTPFHHRNLTSDETSMETEAAVGQRLNLRGQDGGRFRSANVTTIPKAPQLQSGRISTGPSEQVNSPQPPPLSPHPCDRGEESGEGMRNPSTPNNQHFYQPPLEPCLIGVKGGGEDAGGLVCLNQHFHSTHPHPHSGTSALTEPPEPTVYVSAAVNLEDDSSLTPWRLYNLPRRKEAEVPTPVLPIDRLRDEILPQELVSVTELMSTSKYTLKVSEERVQRYRARRNQYLSAAITDGEHEHEVDPYAFEEGDDKFVFSSKKDKSGGEREPGNKHKVRDSELSFHSFICSCVCSDAQGAVGHNRMASTSLIHETDLVVSINDLDNLFNSDEDDLAVSGDLRLTSKEPKASTLDHVSCISSAELHQMYPTPPSLEQHIMGYSPMNMCSKEYGSMEPNTGMTMLDGISTLGGHFKIEVEESFCSPKPSEVKDFSFVYKPEQCQPFVGCSMFAPLKTLPSQCLPPIKTPEDCTYRPSWTMGREMLNPVPVMTFLHKDSTMDQDYSQTYTPQTQAPFVSNSAPPSNSGAGILPSPATPRFAPTPRTPRTPRTPRGPSSVQGSLKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCICVCNMNLKGADVGVYLSDPISEAQEPCSCGFSAVVNRRYGNGSGLFLEDELDIIGRGTDVSREVEKRFEQLRLSGVGRGDRVPDELILLLQDQCTNPFSAIVTLEHDGVKRGPSGVPVPPCVRVEERDYCSDCYMALKHGREFMDSMSGDKVDEVLVKSTCLHQWAKENTVDMSALCSQDVLRVLMSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLVGYEYDFLVLSPFALPYWEKLLLDPFGSQRDIGYLVVCPDNEALLSGAKSFFRDLTSVYESCRLGQHRPISRGYPDGIVLVGGSEAQSLADKPVSDWFLKAASGNSDAFTKLKLYAQVCRHNLAPYLASQPLDSSLLTQPCPPPTSNQPSSTQQPSSASSAASHQGSSSIPTSSSGAGSANASASLHSHSASSGQPASTLSSAKPSSFPPFGSMGSQGSQNGQLGQQAGAQNTGSSGDTSNTQTQGSTEPLESTLEREKVGVPTDGESHAVTYPPAIVLYIVDPFSYEEADGCSGQLDSSVWTLSLLRCYLEMLQSLPPHIQNSISVQIVPCQYLLQPVRGEHCHIYAQHLKSLAFSAFTQCRRPLPFSTNVKSLTGFGPGLAIDTALRSPERPERLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVAYCLSHDQRWLLATCTDLYGELLETCIINIDVPNRARRKKGSGRLLGLQKLWEWCLGLVQMTSLPWRVVIGRLGRIGHGELKDWSILLSRRSLQSLSRRLKEMCRMCGISASDTPSILSVCLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAFVQITSSSYTNIDTNIDILNGTNDAIGIFDLLDPENELVDPDIINISPPTSPVHSPGSHYHHGGDGSKGPNTNHMPSLEEVPNLLQQPLALGYFVSTAKAGPLPDWFWSACPHAQNQCPLFLKASLHLHVSSVQSDELLHSKHSHPLDSNQTSDVLRYVLEQYNALSWLTCDPATQDRRSCLPLHFVVLNQMYNFIKNML
Length2139
PositionMiddle
OrganismOryzias latipes (Japanese rice fish) (Japanese killifish)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Actinopterygii> Neopterygii> Teleostei> Neoteleostei> Acanthomorphata> Ovalentaria> Atherinomorphae> Beloniformes> Adrianichthyidae> Oryziinae> Oryzias.
Aromaticity0.07
Grand average of hydropathy-0.396
Instability index53.61
Isoelectric point5.69
Molecular weight235698.12
Publications
PubMed=17554307

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

>MDP28934
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     129.19|      27|      28|     526|     553|       1
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  527-  553 (52.67/21.09)	GRISTGPSEQVNS..P.QPPPLSPHPCDRG
  557-  579 (34.17/11.90)	GEGMRNPSTPNNQ..HfYQPPL..EPC...
 2003- 2031 (42.35/14.29)	GDGSKGPNTNHMPslE.EVPNLLQQPLALG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     166.76|      30|      30|     998|    1027|       2
---------------------------------------------------------------------------
  932-  959 (35.96/14.76)	..LPPIKTPE.DC..TYRPSWTmGREMLNPVPV
  967-  995 (36.75/15.27)	STMDQDYSQTYTP..QTQAPFV.SNSAPPSNS.
  998- 1027 (53.42/26.10)	GILPSPATPRFAP..TPRTPRT.PRTPRGPSSV
 1029- 1059 (40.63/17.79)	GSLKYENSDLYSPasTPSTCR..PLNSVEPATV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     178.56|      52|      54|    1460|    1511|       3
---------------------------------------------------------------------------
 1460- 1511 (92.06/47.28)	ASQPLDSSLLT..QPCPPPTSNQPSSTQQPSSASSAASHQGSSSIPTSSSGAGS
 1514- 1567 (86.51/43.89)	ASASLHSHSASsgQPASTLSSAKPSSFPPFGSMGSQGSQNGQLGQQAGAQNTGS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      60.94|      12|      32|    1132|    1143|       4
---------------------------------------------------------------------------
 1101- 1112 (19.27/10.22)	GADVGVYLSDPI
 1132- 1143 (21.24/12.17)	GNGSGLFLEDEL
 1167- 1178 (20.43/11.37)	GVGRGDRVPDEL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     102.25|      27|     706|     598|     624|       5
---------------------------------------------------------------------------
  598-  624 (54.13/30.36)	QHFHSTHPHPHSGTSALTEP.PEPTVYV
 1306- 1333 (48.12/26.01)	QQFHKMAGRGSYGTDESPEPlPIPTFLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      62.16|      21|      28|     405|     431|       6
---------------------------------------------------------------------------
  407-  431 (33.64/29.85)	VPEKV.GAWDFV....EPSQRSycvcSRHK
  433-  458 (28.52/ 9.06)	VKQRAgGAQGLTqsmgQPSQPP....TKHK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      38.65|      11|      27|    1334|    1344|       7
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 1334- 1344 (21.39/13.60)	GYEYD..FLVLSP
 1359- 1371 (17.26/ 9.38)	GSQRDigYLVVCP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     116.82|      36|     706|     863|     919|       8
---------------------------------------------------------------------------
  824-  860 (63.45/51.69)	LDHVSCIS...SAELHQMY..PTPPSLEQHIMGYSPmNMCSK
  874-  914 (53.37/49.20)	LDGISTLGghfKIEVEESFcsPKPSEVKDFSFVYKP.EQCQP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.56|      18|      54|    1378|    1395|       9
---------------------------------------------------------------------------
 1378- 1395 (29.75/15.28)	SGAKSFFRDLTSVYESCR
 1435- 1452 (27.81/13.83)	SGNSDAFTKLKLYAQVCR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.77|      13|      28|    1236|    1248|      10
---------------------------------------------------------------------------
 1236- 1248 (22.03/12.96)	MDSMSGDKVDEVL
 1265- 1277 (21.73/12.68)	MSALCSQDVLRVL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.24|      27|    1190|      34|      62|      11
---------------------------------------------------------------------------
   34-   62 (48.05/36.55)	VWQGPTSAPILFPVTEEDPILCsfSRC...LK
 1201- 1230 (48.19/29.56)	VKRGPSGVPVPPCVRVEERDYC..SDCymaLK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      63.92|      21|    1190|     238|     260|      12
---------------------------------------------------------------------------
  238-  260 (34.21/30.13)	QFYPIS...P........SAKQTVSeDKPEDmDW
 1398- 1429 (29.71/15.88)	QHRPISrgyPdgivlvggSEAQSLA.DKPVS.DW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.95|      31|    1189|     643|     677|      13
---------------------------------------------------------------------------
  643-  677 (43.67/37.63)	NLPRRKEAevPTPVLPIDRLRDEILPqeLVSVTEL
 1798- 1828 (56.28/34.91)	NRARRKKG..SGRLLGLQKLWEWCLG..LVQMTSL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      69.27|      21|    1656|     323|     365|      14
---------------------------------------------------------------------------
  323-  365 (24.85/51.87)	LVTLTPPTSPeeVHTVDShsaqkwlkmpsssdvfsvdrTNHHG
 1982- 2002 (44.42/23.45)	IINISPPTSP..VHSPGS....................HYHHG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     119.81|      38|     275|     460|     500|      15
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  460-  500 (57.54/45.41)	GGEKvDKGEKQQKR.PQTPFHhrNLTSDETSMETEAAVGQ.RL
  738-  777 (62.28/37.78)	GGER.EPGNKHKVRdSELSFH..SFICSCVCSDAQGAVGHnRM
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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 MDP28934 with Med13 domain of Kingdom Metazoa
Unable to open file!