<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 MDP22261

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSCFVPNGASLEDCHSNIFCLADLTGIKWRRFVWQGPTSSPILFPFTEEDPILYSFSRCLAADVLSVWRRHHTQGRRELWLFWWGDDPSFAELIHNELSSEEDGEWESGLSYECRTLLFKAIHNLLERCLMNRGFVRIGKWFVKPYQKEEKIINKSEHLSCAFTFFVHGDSNVCTSVEIAQHQPLQRLSEEHLSLAQQSSNPLQVILSPYGLNGTLTGQAFKMSDHPTQKLIEEWRQFYPISPNPKEVQEDKMEDSDWEDDSLAAVEVLVAGVRMVYPSCLVLLPLLDLPTVVSQGSSNTPGSQCVAPQGQAAHKDPAMSSVTLTPPTSPEEAHTDYRPAQRWLKLSSASDCYNSNNSLHGGKIPRGLASQMVESVWQEYNTNRTGNKRKFTTLTNGAVEEESDKTAVWNFVEPAHRPPCNCSRHKNLKQRCSSTSGHPSSSGQPAQPPTKHKLSEKMEKGEKQQRRPQTPFHHRNSVSEELSLEPQTPRLCSRPQEESSYPSLHHVDTVPKAPMLHTHSLLTDLGSPPPPPLSPHPCDHVESDMTPGGMKTCSTPIHQPLYPPSVEPCLVPQKGSSGESPLESMPMPLPFPPAYNESMEPTVFVGSAVNPSEDSSHNPWRYFNLPRRKDSNFVTPQLPVDKIREDCWGGTESLVSVTETMCDSTQPLKVSQELVRTYAQRRNSHLVSISGDDEHGEEPDPYAFVEGDEEFSFIEKRDKAAAEKEGGKKHKLDEGAGTDDGQGPSGSKPLSSTSLIHENDLAVSYSDLDKIFNSDEDELAPGSKRAGIVTEGKFGSKETKPASIDQLSGLSSVDLHVMFPTPPSAENQGYSPMNSGSKDGLETGTGLTLLDGSQLNSHFKMEVEEGFCSPKPSEIKDFSFVYKPETCQSFIGCSMYAPLKTLPSRCLLPVKLPGDCVYTPSWTMGKMDLMPQVSNVNLLIKDGNLPSVEPDYSQTYTPQTHTPFLAGSAPPSNSGTGILPSPATPRFSVPTPRTPRTPRTPRGPSSVQGSLKYDNSDLYSPASTPSTCRPLSSVEPATVPSIPEAHSLYVTLILSESVMNLFKDCNFDSCCVCVCNMNIRGADVGVYLKDNGDAQYTCTCGFSAVTNRRFGQSAGLFLEDELDVVGRGSDAGRDTERCFDELRLSTTHKGGGLKEKYPDELILLLQDQCTNPLAQIAGVDSSKPRSTLSSFLRVEERDCYNDCYMALEHGRQFMDNMSGGKVDETLVKSTCLHQWPKSKSADISKLFSQEVLRVLLSLQPVLQDTIQKKRSVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPVPTFLVGYEHDFVVLSPFALPYWEKLLLDPYGSQRDVGYVVICPDVEALLRGARSFFKDLSAMYEACQLGQHRPISKSHPEGIVTVGSTEGSNVAEQPLSDWFLNLAAREGNNEAFNRLKLFAQVFRCDLAPYLSEQSLDSSLLSQRNSTPASSSSSSSSPQTSNTSSGLQSTNTTSTGSAQPSQVNSTTPSSASLGSQTIGAMASSKPSMYSPFGSAGTQGNATQNGPQINSQGGAGHTENGSSQPQVSAETPESTMERDKVGKPTDGDSHAVSYPPAIVVYIVDPFSYEDADREVHSSTFTLGLLRCYMEMLPFLPAHIRNVVSVQIVPCQYLLQPVHSGERHLYSQHLKSLAFSVYTQCRRPLPTSTNFKTLTGFGPGLAIDTALKNPERPECLRLYTPPFILAPVKDKQTELGETFGEASQKYNVLFVGYCLSHDQRYLLASCTDQHGELLETCIISIDVPNRARRKKGSARRVGLQKLWEWCVGLVQLTSLPWRVVIGRLGRMGHGELRDWSILLSRRNLQSLSKRLKEMCKMCGISAADTPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTSQLSTPQDTSCTHILVFPTSAMVQVNTNTSEPIDINFNPINPDGSDGMGFLDLFGNDMDHDMDPDLINILPNSPTTSPVHSPSGHYHQGGDGGKGPSADRMESHEEALNILQQPMALGYFISTAKAGPLPDWFWSACPEAQNQCPLFLKICSRAIQRPLLADMRPCNPGPALLSACSLCGAHTDVQLYHKHDLNS
Length2087
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-0.453
Instability index53.30
Isoelectric point5.62
Molecular weight229357.41
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

>MDP22261
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             7|     246.27|      36|      37|    1485|    1520|       1
---------------------------------------------------------------------------
  527-  550 (39.23/14.55)	..............GSPPP......PPLSP....HPCD..HVES.........DMTPGG
  576-  601 (33.61/11.19)	..............GSSGESPLESMPMPLP....FPPA..YNES..........M...E
  968- 1004 (34.40/11.66)	..............GSAPPS..NSGTGILP....SPAT..PRFSvptprtprtPRTPRG
 1447- 1475 (27.77/ 7.69)	...............SSLLSQRNSTPASSS....SSSSspQT...........SNTSSG
 1485- 1514 (44.08/17.45)	..............GSAQPSQVNSTTPSSA....SLGS..QTIG.........AMASSK
 1515- 1534 (29.38/ 8.66)	PSMYSP.......fGSA...................GT..Q..G.........NATQNG
 1535- 1582 (37.81/13.70)	PQINSQggaghtenGSSQP.QVSAETPESTmerdKVGK..PTDG........dSHAVSY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.74|      24|      24|     446|     469|       2
---------------------------------------------------------------------------
  415-  434 (22.47/ 8.02)	PAhRPPcncSRHK.....NL....K.QR...CS
  446-  469 (45.45/24.11)	PA.QPP...TKHK..LSEKMEKGEKQQR...RP
  471-  496 (22.83/ 8.27)	....TP...FHHRnsVSEELSLEPQTPRlcsRP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     357.29|      93|     710|     291|     405|       3
---------------------------------------------------------------------------
  291-  387 (157.63/82.79)	PTVVsQGSSNTPGSQCVAPQGQAAHKDPAMSSV.TLTPPTSPEEAHTDYRP...AQRWLKLssASDC.YN.............S......NNSLHGGKIPRGLASQMVESVWQEYnTNRTG
 1005- 1102 (130.97/57.23)	PSSV.QGSLKYDNSDLYSPASTPSTCRP.LSSVePATVPSIP.EAHSLYVTlilSESVMNL..FKDCnFD.............SccvcvcNMNIRGADV..GV..YLKDNGDAQY.TCTCG
 1169- 1236 (68.69/39.01)	..............QCTNPLAQIAGVDSSKPRS.TLSSFLRVEE.R...................DC.YNdcymalehgrqfmD......NMS..GGKVDETLVKSTCLHQW.........
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      89.97|      27|      36|      30|      64|       4
---------------------------------------------------------------------------
   21-   57 (38.01/39.58)	CLA.DltgikWRRFVWQGPtSSPILFpFTEEDPilySF
   60-   91 (51.95/30.41)	CLAaD.vlsvWRRHHTQGR.RELWLF.WWGDDP...SF
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.09|      12|      35|     829|     840|       5
---------------------------------------------------------------------------
  829-  840 (24.04/13.76)	QGY.SPMNSGSKD
  866-  878 (18.04/ 8.04)	EGFcSPKPSEIKD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.12|      26|      33|    1783|    1814|       6
---------------------------------------------------------------------------
 1787- 1814 (45.47/39.42)	QKLWEWCVGLVQ..LTSLPWRvvIGRLGRM
 1817- 1844 (40.64/19.67)	GELRDWSILLSRrnLQSLSKR..LKEMCKM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      87.97|      28|      33|    1991|    2023|       7
---------------------------------------------------------------------------
 1993- 2023 (42.56/38.10)	MESH.EEALNilQQPMALgYFISTAKAGP.LPD
 2025- 2054 (45.41/22.76)	FWSAcPEAQN..QCPLFL.KICSRAIQRPlLAD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      74.40|      17|      33|     733|     749|       8
---------------------------------------------------------------------------
  700-  730 (18.83/ 7.41)	PDPYAFVEGDEEFSfiekrdkaaaekegGKK
  733-  749 (28.88/15.99)	LDEGAGTDDGQGPS..............GSK
  769-  785 (26.69/14.12)	LDKIFNSDEDELAP..............GSK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.11|      19|      21|     885|     903|       9
---------------------------------------------------------------------------
  885-  903 (36.87/19.86)	PETCQ...SFIGCSMYAPLKTL
  904-  925 (34.24/17.88)	PSRCLlpvKLPGDCVYTPSWTM
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     124.81|      45|     408|    1281|    1351|      10
---------------------------------------------------------------------------
  787-  855 (56.67/18.42)	AGivtEGKFGSKET.KPASIDQ.LSGLSSvDLHVMFPTP.PSAENqgyspmnsgskdgletgtgLtLLD..GSQ
 1291- 1340 (68.13/58.68)	AG...RGSYGTDESpEPLPVPTfLVGYEH.DFVVLSPFAlPYWEK...................L.LLDpyGSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.63|      24|      26|    1873|    1898|      11
---------------------------------------------------------------------------
 1124- 1147 (43.11/19.94)	DVVGRGSDAGRDTERCFDELRLST
 1874- 1897 (41.52/20.97)	DSVSTGSVFGRSTTLNMQTSQLST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.55|      16|      26|     605|     621|      13
---------------------------------------------------------------------------
  605-  621 (25.67/20.59)	FVGSAVnPSEDSSHNPW
  634-  649 (30.88/19.54)	FVTPQL.PVDKIREDCW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.33|      11|      32|    1927|    1937|      14
---------------------------------------------------------------------------
 1927- 1937 (21.97/11.68)	INFNPINPDGS
 1959- 1969 (20.36/10.22)	INILPNSPTTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      90.53|      21|     388|    1242|    1262|      16
---------------------------------------------------------------------------
 1242- 1262 (32.62/18.89)	ADISKLFSQEVLRVLLSLQPV
 1605- 1622 (23.87/11.69)	...SSTFTLGLLRCYMEMLPF
 1625- 1645 (34.04/20.06)	AHIRNVVSVQIVPCQYLLQPV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      57.13|      18|      22|    1380|    1401|      19
---------------------------------------------------------------------------
 1380- 1401 (24.57/22.35)	PISkshpEGIVTVGSTEGSNVA
 1404- 1421 (32.56/17.74)	PLS....DWFLNLAAREGNNEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.98|      20|      40|     187|     206|      24
---------------------------------------------------------------------------
  187-  206 (33.84/21.29)	QRLSEEHLSLAQQSSNPLQV
  230-  249 (38.14/25.12)	QKLIEEWRQFYPISPNPKEV
---------------------------------------------------------------------------




































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 MDP22261 with Med13 domain of Kingdom Metazoa
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