<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 MDP01787

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPVTSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKFSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEEMADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNAEMANSPQPPPLSPHPCDVVDEGVSKAPSTPQSQHFYQMPTPDPLVPTKTMEDRLDGLSQPFPAQFSEVIEPTMYVGTAVNLEEDEADSTWKYYKVPKKKDMEFLPPQLPNDKLRDDPVIPAGQENITSVTELMVQCRKPLKVSDELVQQYQSKNQYLTAVVSEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREAGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSIKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGSDDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWTVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSIEHSSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIAKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPSASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLIPPPSQPTSALPPVTGNAGNPNTPSSAPAAPTSSTMTVTSNSAMSSAATTANSTLTTTATSSSSANISSGIPTSKPSSFPPFSSMNNTTSASLPTQAATVQNGQTGGQQQQPPLQTAVISGDNTSAPVQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2157
PositionMiddle
OrganismStruthio camelus australis
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Palaeognathae> Struthioniformes> Struthionidae> Struthio.
Aromaticity0.07
Grand average of hydropathy-0.418
Instability index51.39
Isoelectric point5.42
Molecular weight237568.41
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

>MDP01787
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     146.30|      32|      32|     932|     963|       1
---------------------------------------------------------------------------
  495-  525 (29.08/ 7.52)	...AK.TPQM.HnaemanSP..qPP.PLSPHPCD....VVDEG
  932-  951 (27.80/ 6.86)	.......................PPGPAMPFIKDGDGSTMDQE
  952-  984 (52.63/19.57)	YGPAY.TPQT.H......TPfgmPPSSAPP.SNSGAG.ILPSP
  985- 1020 (36.78/11.46)	STPRFpTPRTpR......TP.rtPRGAGGPASAQGSVKYENSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     292.87|      94|     265|     543|     655|       2
---------------------------------------------------------------------------
  549-  652 (138.30/129.92)	PT.KTMEDRLDGLSqPFPAQFSEVIEPTMYVGTAVnlEEDEADSTWKYYKVpkKKDMEFLPPQlPNDkLRDDPVI..PagqEN.........ITSVTELMVQCRKPLKVSDELVQQ
  815-  920 (154.57/97.60)	PTpPSLEQHIMGFS.PMNMNNKEYGSMDTTLGGTV..LEGNSSSVGAQFRI..EVDEGFCSPK.PAE.IKDYSYVykP...ENcqalvgcsmFAPLKTLPSQCLPPIKLPEECIYR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     141.62|      43|      49|    1469|    1515|       3
---------------------------------------------------------------------------
 1469- 1513 (73.17/48.58)	TSALPPVTGN..AGNPNT.PSSAPaaPTSSTMTVTSNSAMSSAATTAN
 1518- 1563 (68.45/34.59)	TTATSSSSANisSGIPTSkPSSFP..PFSSMNNTTSASLPTQAATVQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     472.63|     154|     263|      24|     211|       5
---------------------------------------------------------------------------
   24-  211 (249.84/182.66)	PVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRelWI.FWWGDDPNFAD.LIHH......DLSEE.EDGVWenglsyecrtllfkavhnllERCLMN.....RNFV.............RIGKW.FVKPYEKDEKPINKSEHLSCSftfflhgdsnvcTSVEISQHQPV...YLLSEEHLTLAQQ..SNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLI
  290-  476 (222.79/116.63)	PASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQK..WVkFSSVSDGFISDsTSHHggkiprKLANQvVDRVW....................QECNMNraqnkRKYSatsnglcdeemadKVASWdFVEATQRTNCNCSRHKNLKPR............NSGQQGQAPPVgqqQQAAPKHKTNEKQdkGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     318.09|     100|     651|    1340|    1452|       7
---------------------------------------------------------------------------
 1340- 1452 (155.51/132.51)	LMLEPYGSQrdvayvVVCPENEALLNG..AKSFFRDLTAIYEScrlgqHRPICKLLPDGiMRVGPSASKKLSEKLvTEWF.SQTANANNEA..FSKLKLYAQVCRYELGPYLASQ...PLD
 1998- 2105 (162.58/105.20)	LPASPTGSP......VHSPGSHYPHGGdmGKGQGTDRLLSTES.....HDEVTNILQQP.LALGYFVSTAKAGPL.PDWFwSACPQAQNQCplFLKASLHLHVPSVQSDELLHSKhshPLD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     122.40|      38|      50|    1625|    1674|      10
---------------------------------------------------------------------------
 1625- 1665 (59.37/50.92)	YIIDPFTYEkkDENSSSSSLWTLGlLRCFLEMVQVLP..PNIK
 1677- 1716 (63.04/28.93)	YLLQPVKHE..DRQIYTQHLKSLA.FSAFTQCRRPLPtsTNVK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      50.12|      14|     450|     727|     740|      11
---------------------------------------------------------------------------
  727-  740 (23.60/12.00)	LFSPSIKQDAQRIA
 1179- 1192 (26.52/14.50)	LFSPFGAADQDPIA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      80.40|      25|     654|     656|     686|      12
---------------------------------------------------------------------------
  656-  686 (40.99/29.69)	KNQYLTavvseaDQEPEIDPY.AFVDG.DVEFL
 1301- 1327 (39.41/18.48)	RGSYGT......DESPEPLPIpTFLLGyDYDFL
---------------------------------------------------------------------------




































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 MDP01787 with Med13 domain of Kingdom Metazoa
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