<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 MDP02011

Description Mediator of RNA polymerase II transcription subunit 13 (Fragment)
SequenceAGVRMVYPACFVLVPQTDIPAPSAVGTSHCSTACLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDAQSAQKWVKLSSVSDGFISDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCEEEAADKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPVGQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEADSASQRLVMTAPDSQVRFSNIRTNDVAKTPQMHNTEMANSPQPPPLSPHPCDVVDEGVSKAPSTPQSQHFYQMPTPDPLVSTKTMEDRLDGLSQPFPAQFPEVIEPTMYVGTAVNLEEDEADTTWKYYKVPKKKDVEFLPPQLPSDKLRDDPVIPTGQENITSVTELMVQCRKPLKVSDELVQQYQSKNQYLTAVLSEADQEPEIDPYAFVDGDVEFLFPDSKKDRQNIEREAGKKHKAEDGTSSVTVLSHEGEDAMSLFSPSVKQDAQRIAAHARTASTSLFHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGSDDKSNCKEAKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTILEGNSSSVGAQFRIEVDEGFCSPKPAEIKDYSYVYKPENCQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWAVGKLDLLPPGPAMPFIKDGDGSTMDQEYGPAYTPQTHTPFGMPPSSAPPSNGGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNSSGLFLEDELDILGRNTECGKEAEKRFEALRATSIEHGSGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPLPKAGAASSLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKTTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGNGCAGSCPLIGLIDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGPTASKKLSEKLVTEWFSQTANANNEAFSKLKLYAQVCRYELGPYLASQPLDNSLLSQTNLIPAQSQPPSALPPVTAGNPNPNTPSSAPTAPTSSTMTVTSNSAMTSAATTANSTLTTTATSSSSASVGGGIPPSKAASFPPFSGMSAAAAAPLPAQAATVPNGQTGGQQPQPPLPTAGMSGENPSAPVQPHAEVSESTMDRDKVGVPTDGDSHAITYPPAIVVYIIDPFTYEKKDENSSSSSLWTLGLLRCFLEMVQVLPPNIKNIISVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALRSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGEQLETCIINIDVPNRARRKKGSARRLGLQKLWEWCLGLVQMSSLPWRVVIGRLGRLGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTGDDLDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length1902
PositionMiddle
OrganismTinamus guttatus (White-throated tinamou)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Dinosauria> Saurischia> Theropoda> Coelurosauria> Aves> Palaeognathae> Tinamiformes> Tinamidae> Tinamus.
Aromaticity0.07
Grand average of hydropathy-0.391
Instability index51.33
Isoelectric point5.60
Molecular weight207271.94
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

>MDP02011
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      79.28|      25|      31|     636|     666|       1
---------------------------------------------------------------------------
  636-  665 (33.99/31.26)	PencQALVGCSMfAPLKTLPSQCLPPIkLP
  709-  733 (45.30/18.37)	P...QTHTPFGM.PPSSAPPSNGGAGI.LP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     142.18|      31|      31|     249|     279|       2
---------------------------------------------------------------------------
  183-  218 (40.63/18.32)	PK.HKTnekqD.KGDKPQKRPL..TPfhHRVSISDDVAME
  249-  279 (58.90/30.36)	PQMHNT....E.MANSPQPPPL..SP..HPCDVVDEGVSK
  281-  313 (42.65/19.65)	PSTPQS....QhFYQMPTPDPLvsTK..TMEDRLD.GLSQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.62|      21|      27|    1189|    1215|       3
---------------------------------------------------------------------------
 1189- 1215 (31.78/21.15)	PYLASQPLDNSLLSqtnlipAQSQPPS
 1219- 1239 (39.84/15.76)	PVTAGNPNPNTPSS......APTAPTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     123.64|      27|      31|    1561|    1587|       4
---------------------------------------------------------------------------
 1534- 1558 (35.70/23.25)	.SCTDLYGEQL.ET.C.IINIDVPNRARR
 1561- 1587 (50.48/36.53)	GSARRLGLQKLWEW.C.LGLVQMSSLPWR
 1591- 1619 (37.46/24.83)	GRLGRLGHGELKDWsClLSRRNLQSLSKR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      96.54|      29|      31|     831|     859|       5
---------------------------------------------------------------------------
  831-  859 (55.75/29.49)	MNIK.GADVGVYIPDPTQEAQYRCTCG......FSA
  861-  896 (40.79/19.75)	MNRKfGNSSGLFLEDELDILGRNTECGkeaekrFEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     100.79|      27|      31|     745|     773|       6
---------------------------------------------------------------------------
  745-  768 (25.72/17.05)	.........TPRTPRtPRGAGGPASAQGSVKyE
  769-  798 (44.43/20.62)	NSDLYspasTPSTCR.PLNSVEPATVP.SIP.E
 1258- 1278 (30.64/11.60)	NSTLT....TTAT......SSSSASVGGGIP..
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     100.53|      29|      32|    1286|    1317|       7
---------------------------------------------------------------------------
 1286- 1305 (29.07/ 9.41)	..........P...PFSGMSA.AAAAPLPAQAAT
 1309- 1340 (40.69/21.13)	GQTGGQQPQpP..lPTAGMSGeNPSAPVQPHAEV
 1341- 1366 (30.77/ 7.98)	SESTMDRDK..vgvPTDGDSH.AITYP.PA....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     100.47|      30|      32|     924|     953|       8
---------------------------------------------------------------------------
  924-  953 (51.43/33.65)	QDQCTNLFSPFGAADQ..DPLPKAGAASSLVR
  957-  988 (49.04/31.66)	RDCCNDCYLALEHGRQfmDNMSGGKVDEALVK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     294.14|     113|    1058|     322|     456|       9
---------------------------------------------------------------------------
  123-  178 (48.15/12.24)	YSATSNGLcEEEAADkvASWDFVEATQRTNCNCSRHKnlKPRNSGQQGQAPPVGQQ...................................................................................
  328-  456 (174.94/125.61)	YVGTAVNL.EEDEAD..TTWKYYKVPKKKDVEFLPPQ..LPSDKLRDDPVIPTGQEnitsvtelmvQCRKPLKVSDElVQQYQ..SKNQYLTAVLSEADQePE.IDPYA..FVDGDVEflfpDSKKDRQNIEREAGKKH
 1449- 1515 (71.05/28.66)	..................................................................QCRRPLPTSTN.VKTLTgfGPGLAMETALRSPDR.PEcIRLYTppFILAPVK....DKQTELGETFGEAGQKY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.52|      12|      39|     577|     588|      10
---------------------------------------------------------------------------
  577-  588 (25.08/19.08)	GF.SPMNMNNKEY
  618-  630 (19.44/12.51)	GFcSPKPAEIKDY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     145.47|      27|     715|    1038|    1064|      11
---------------------------------------------------------------------------
 1038- 1064 (51.96/26.12)	QGPLTWQQFHKMAGRGSYGNGCAGS....CP
 1074- 1103 (41.77/19.57)	LSPFALPYWERLM.LEPYGSQRDVAyvvvCP
 1788- 1814 (51.74/25.98)	QQPLALGYFVSTAKAGPLPDWFWSA....CP
---------------------------------------------------------------------------




































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 MDP02011 with Med13 domain of Kingdom Metazoa
Unable to open file!