<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 MDP21134

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSFVPNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGEDPNFADLIHHDLSDEEDGLWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLNEEHITLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISSCLKEMSEEKQEDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPTPSSVGSSHCSASCLGVHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFNSDSTSHHGGKIPRKLATHVVDRVWQECNMNRAQNKRKYSASSGGLCEEETADKVASWDFVEVTQRTNCSCSRHKNLKPRNPGQQGQAPSLGQQQQVLPKHKTNEKQEKSEKPQKRPLTPFHHRVSVSDDVSMDTDSASQRLVMSAPDSQVRFSNIRTNDVAKTPQMHGTEIANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPSKPMEDRIDSLSQSFPAQFQEAVEPTVYVGTAVNLEEDEANIAWKYYKVPKKKDVEFLPPQLPSDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDELVQQYQIKNQYLSAIASDAEQESKIDPYAFVEGDEEFLFPDKKDRQNSEREAGKKHKVDDGTSSVTVLSHEEDAMSLFSPSIKQDAPRPTSHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSVNGSDDKSSCKESKAGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSMDTTPGGTVLEGNNSNIGAQFKIEVDEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKSLPSQCLPPIKLPEECIYRQSWTVGKLELLHSGPAMPFIKEGDGSTMDQEYGPAYTPQTHTSFGMPPSSAPPSNGGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTECGKEAEKRFEALRATSAEHVNGGLKESEKLPDELILLLQDQCTNLFSPFGAADQDPFPKIGVISNWVRVEERDCCNDCYLALEHGRQFMDNMSGGKVDEALVKSSCLHPWSKRNVVDVSMQCSQDILRMLLSLQPILQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWERLMLEPYGSQRDIAYVVLCPENEALLNGAKSFFRDLTAIYESCRLGQHRPISRLLTDGIMRVGSTASKKLSENLVAEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVVPASQSLITPPQMTNTGNANTPSTTLASAVSNTMTLTSGGAMSSSVATANSTLTTTSASSSSSSSLNSGVSSNKLPSFPPFGSMNSSAAGSMSTQTTTVQNGQLGGQQASALQTAGISGESSLLTTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHEDRQIYTQHLKSLAFSAFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRYLNFPKCIIC
Length1839
PositionMiddle
OrganismTrichechus manatus latirostris (Florida manatee)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Afrotheria> Sirenia> Trichechidae> Trichechus.
Aromaticity0.08
Grand average of hydropathy-0.437
Instability index50.24
Isoelectric point5.29
Molecular weight202843.31
Publications









Function






Annotated function

Component of the Mediator complex, a coactivator involved in
the 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

>MDP21134
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      91.74|      26|      28|    1098|    1125|       1
---------------------------------------------------------------------------
 1100- 1125 (49.57/33.94)	MNIK.GADVGVYIPDPTQEAQYRCTCG
 1130- 1156 (42.16/20.85)	MNRKfGNNSGLFLEDELDIIGRNTECG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     110.70|      25|      30|     514|     538|       2
---------------------------------------------------------------------------
  515-  546 (39.57/15.82)	DVAKTPQM.HGTEIANSPQPPPLS.......PhpcdvvdE
  547-  571 (34.69/12.94)	GVTKTPSTpQSQHFYQMPTPDPLV.......P........
  973- 1003 (36.44/13.97)	GPAYTPQT.H.TSFGMPPSSAPPSnggagilP.......S
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     118.53|      25|      65|     345|     369|       3
---------------------------------------------------------------------------
  345-  369 (45.62/27.47)	WVKFSSVSDGFNSDSTSHHGGKIPR
  391-  412 (32.20/17.10)	KRKYSASSGGLCEEETA...DKVAS
  413-  435 (40.71/23.67)	W.DFVEVTQRTNCSCSRHKNLK.PR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     247.56|      75|     416|    1309|    1401|       4
---------------------------------------------------------------------------
  852-  927 (135.68/84.82)	MNNK.EYG...SMDTTPGGTVLEGNNSN..IGAQFKIEVDEGF.CSPKPSEiKDFSY.VYKPENCQVLVGC.SMFAPLKSLPSQC
 1318- 1401 (111.89/99.93)	MAGRgSYGtdeSPEPLPIPTFLLGYDYDflVLSPFALPYWERLmLEPYGSQ.RDIAYvVLCPENEALLNGAkSFFRDLTAIYESC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      73.47|      16|      30|    1027|    1042|       5
---------------------------------------------------------------------------
 1027- 1042 (28.94/13.92)	PASAQGSVKYENSDLY
 1044- 1056 (19.04/ 6.52)	PASTPSTCRPLNS...
 1059- 1072 (25.48/11.33)	PATVP.SIP.EAHSLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     166.07|      51|     263|     180|     233|       6
---------------------------------------------------------------------------
  180-  233 (82.59/66.57)	INQHQPVYllnEEHITLAQQ..SNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLI
  446-  498 (83.48/58.99)	LGQQQQVL...PKHKTNEKQekSEKPQKRPLTPFHHRVSVSDDVSMDTDSASQRLV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      40.15|      11|      29|     765|     775|       7
---------------------------------------------------------------------------
  765-  775 (20.48/10.80)	PPSTSLIYDSD
  796-  806 (19.67/10.05)	PGSKKSVNGSD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      71.88|      19|     740|    1076|    1096|       8
---------------------------------------------------------------------------
 1076- 1096 (33.96/22.60)	ILSESVMNLFkdCNFDSCCIC
 1821- 1839 (37.92/19.53)	IINIDVPNRY..LNFPKCIIC
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      65.80|      21|     739|     943|     967|       9
---------------------------------------------------------------------------
  943-  967 (34.91/33.62)	WTVGKLE.LLHSGPAMP.FIKegdgST
 1664- 1686 (30.89/18.34)	WTLGLLRcFLEMVQTLPpHIK....ST
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      86.16|      26|     716|      36|      64|      10
---------------------------------------------------------------------------
   36-   64 (41.62/29.89)	QGPTSAPILfpvTEEDPILSSFSRCLKAD
  730-  755 (44.54/23.96)	DGTSSVTVL...SHEEDAMSLFSPSIKQD
---------------------------------------------------------------------------




































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 MDP21134 with Med13 domain of Kingdom Metazoa
Unable to open file!