<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 MDP12485

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMISTKKDGEAKINGTNSAVDKADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLSVWRRDQRPGRRELWIFWWGDDPNFADLIHHDLAEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEISQHQPVYLLSEEHLTLAQQSNSPFQVILSPFGLNGTLTGQSFKLSDSSTKKLIGEWKQFYPITSNLKEGSEEKQEEMDWEDDSLAAVEVLVAGVRMVYPACFVLVPQTDIPAPSTVGASHCSTTCLGVHQVPATTRDPAMSSVTLTPPTSPEEVQTAVDAQSAQKWVKFSSVSDGFSSDSTSHHGGKIPRKLANQVVDRVWQECNMNRAQNKRKYSATSNGLCDEETVDKVASWDFVEATQRTNCNCSRHKNLKPRNSGQQGQAPPASQQQQAAPKHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEAESASQRLVITAPDSQVRFSNIRTNDVAKTPQMHGTEMANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKAMEDRIDGLSQSFPAQFPEVIEPTIYIGTAVNLEEDEADNTWKYYKVPKKKDVEFLPPPLPCDKFRDDPVVPAGQENLTSVTELMVQCRKPLKVSDELVQQYQSKNQYLAAVVSETDQEPEIDPYAFVDGDVEFLFPDNKKERQNNERETGKKHKAEDGTPNVTVLSHEGKDAMSLFSPSVKPEQRTAAHARTASTSLIHETDLVVSYTDLDNLFNSDEDELTPGSKRTVNGSDDKPNCKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTLGGTVLEGNSSSIGAQFRIEVDEGFCSPKPSEIKDYSYVYKPEICQALVGCSMFAPLKTLPSQCLPPIKLPEECIYRQSWAVGKLELLPPGPAMPFIKEGDGSTMDQEYGPAYTPQTHTPFGMPPNSAPPSNSGAGILPSPSTPRFPTPRTPRTPRTPRGGGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEIQYRCTCGFSAVMNRKFGNNSGLFLEDELDILGRNTEGGKEAEKRFEALRATSVEHGGGGLKEPEKLPDELILLLQDQCTNLFSPFGAADQDPIPKVGAVSNLVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSTCLHHWSKRNVVDVSMQCSQDILRMLLSLQPVLQDAIQKKRTVRSWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDVAYVVVCPENEALLNGAKSFFRDLTAIYESCRLGQHRPICKLLPDGIMRVGSTASKKLSEKLVAEWFSQAANANNEAFSKLKLYAQVCRYELGPYLASQPLDSSLLSQINLVPPTSQSVSTQPQAAGNTGNSNTPSSTPVAATSSTMTSNSAMSSAATTTNSTLTTTAASSSSTNIGSGLSANKPSSFPPFSSMNSTTSASLPTQATTVQNGQPGGQQQQATLQAAGIPGEASSAPAQPHPEVSESTMDRDKVGVPTDGDSHAITYPPAIVIYIIDPFTYERKDENSSSSSVWTLGLLRCFMEMVQILPSSIRNIVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWLLASCTDLYGELLETCIINIDVPNRARRKKGSARRLGLQKLWDWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSFLSACLVAMEPQGSFIIMPDSVSTGSVFGRSTTLNMQTSQLNTPQDTSCTHILVFPTSASVQVASSTYTTENLDLAFNTNNDGADGMGIFDLLDTADELDPDIINILPASPTGSPVHSPGSHYPHGGDMGKGQSTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQNQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPATQDRRSCLPVHFVVLNQLYNFIMNML
Length2176
PositionMiddle
OrganismAlligator sinensis (Chinese alligator)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Crocodylia> Alligatoridae> Alligatorinae> Alligator.
Aromaticity0.07
Grand average of hydropathy-0.424
Instability index49.70
Isoelectric point5.48
Molecular weight239507.41
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

>MDP12485
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     673.80|     191|     203|     289|     491|       1
---------------------------------------------------------------------------
  286-  454 (241.31/158.97)	..................................QTD.......I........PAP.STVGASHCSTTCLGVHQ....VPATTRDPAMSS..VTLTPPTSPEEVQTAVDAQSAQKWVKFSSV..SDGFSSDSTS..HHGGKIPRKLANQVVDRVWQE..CNMNRAQNKRKYSATSNGLcDEETVDKvaSWDFVEATQRTNCN.......CSRHKNlkprnsgqqGQAPPASQQQQAAP
  455-  654 (273.57/154.25)	KHKTNEKQDKGDKPQKRPLTPFHHRVSISDDVAMEAEsasqrlvI........TAPdSQVRFSNIRTN..DVAK....TP.QMHGTEMAN..SPQPPPLSPHPCD.VVD....EGVTKTPSTpqSQHFYQMPTP....DPLVPSKAMEDRIDGLSQSfpAQFPEVIEPTIYIGTAVNL.EEDEADN..TWKYYKVPKKKDVEflppplpCDKFRD.........DPVVPAGQENLTSV
  714-  856 (158.93/83.04)	KERQNNERETGKKHKAEDGTPNVTVLSHEGKDAM...........slfspsvkPEQ.RTAAHARTASTSL.IHEtdlvVSYTDLDNLFNSdeDELT.PGSKRTVNGS.DDKPNCKESKTGNL...DPLSCISTAdlHKMYPTPPSLEQHIMG..FSP..MNMN...NK......................................................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     131.50|      38|     203|    1728|    1765|       2
---------------------------------------------------------------------------
 1728- 1765 (68.19/43.35)	LPTSTNVKTLTGFGPGLAMETA.LKSPDRPECIRLYTPP
 1928- 1966 (63.30/39.62)	MPDSVSTGSVFGRSTTLNMQTSqLNTPQDTSCTHILVFP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      93.49|      30|     203|     874|     918|       3
---------------------------------------------------------------------------
  874-  906 (49.98/47.06)	SSSIGaqfRIE.VDEGFCSP..KPSEI....KDYSYVYKP
  943-  979 (43.51/14.49)	SWAVG...KLElLPPGPAMPfiKEGDGstmdQEYGPAYTP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     121.64|      35|     472|    1540|    1612|       7
---------------------------------------------------------------------------
 1498- 1532 (59.93/32.47)	GNTGNSNTPSSTPVAATSSTMTSNSAMSSAATTTN
 1548- 1582 (61.71/60.78)	GSGLSANKPSSFPPFSSMNSTTSASLPTQATTVQN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.51|      11|      18|    1325|    1335|       8
---------------------------------------------------------------------------
 1325- 1335 (22.98/13.88)	YGTD...ESPEPLP
 1343- 1356 (17.52/ 8.26)	YDYDflvLSPFALP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      51.48|      14|    1004|     110|     124|      10
---------------------------------------------------------------------------
  110-  124 (22.27/17.36)	LSYECrTLLFKAVHN
 1119- 1132 (29.21/17.95)	IQYRC.TCGFSAVMN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.06|      13|      18|    1144|    1157|      13
---------------------------------------------------------------------------
 1144- 1157 (18.65/17.70)	EDELDILgRNT...EGG
 1161- 1176 (18.42/10.58)	EKRFEAL.RATsveHGG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     114.19|      35|     477|    1401|    1435|      14
---------------------------------------------------------------------------
 1401- 1435 (62.15/35.97)	SCRLGQH..RPICKLLPDGIMRVGSTASKK...LSEKLVA
 1879- 1918 (52.04/28.95)	SCLLSRRnlQSLSKRLKDMCRMCGISAADSpsfLSACLVA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      76.98|      23|     649|    1436|    1458|      16
---------------------------------------------------------------------------
 1436- 1458 (40.70/27.80)	EWF.SQAANANNEA..FSKLKLYAQV
 2081- 2106 (36.28/23.85)	DWFwSACPQAQNQCplFLKASLHLHV
---------------------------------------------------------------------------




































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 MDP12485 with Med13 domain of Kingdom Metazoa
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