<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 MDP19142

Description Mediator of RNA polymerase II transcription subunit 1
SequenceMTDRLESIARQNGLGSHLSASGTECYITSDMFYVEVQLDPAGQLCDVKVAHHGENPVSCPELVQQLREKNFDEFSKHLKGLVNLYNLPGDNKLKTKMYLALQSLEQDLSKMAIMYWKATNAGPLDKILHGSVGYLTPRSGGHLMNLKYYVSPSDLLDDKTASPIILHENNVSRSLGMNASVTIEGTSAMYKLPIAPLIMGSHPVDNKWTPSFSSITSANSVDLPACFFLKFPQPIPVSRAFVQKLQNCTGIPLFETQPTYVPLYELITQFELSKDPDPIPLNHNMRFYAALPGQQHCYFLNKDAPLPDGRSLQGTLVSKITFQHPGRVPLILNLIRHQVAYNTLIGSCVKRTILKEDSPGLLQFEVCPLSESRFSVSFQHPVNDSLVCVVMDVQDSTHVSCKLYKGLSDALICTDDFIAKVVQRCMSIPVTMRAIRRKAETIQADTPALSLIAETVEDMVKKNLPPASSPGYGMTTGNNPMSGTTTPTNTFPGGPITTLFNMSMSIKDRHESVGHGEDFSKVSQNPILTSLLQITGNGGSTIGSSPTPPHHTPPPVSSMAGNTKNHPMLMNLLKDNPAQDFSTLYGSSPLERQNSSSGSPRMEICSGSNKTKKKKSSRLPPDKPKHQTEDDFQRELFSMDVDSQNPIFDVNMTADTLDTPHITPAPSQCSTPPTTYPQPVPHPQPSIQRMVRLSSSDSIGPDVTDILSDIAEEASKLPSTSDDCPAIGTPLRDSSSSGHSQSTLFDSDVFQTNNNENPYTDPADLIADAAGSPSSDSPTNHFFHDGVDFNPDLLNSQSQSGFGEEYFDESSQSGDNDDFKGFASQALNTLGVPMLGGDNGETKFKGNSQADTVDFSIISVAGKALGPADLMEHHSGSQGPLLATGDLGKEKTQKRAKEGNGTSNSTLSGPGLDSKPGKRSRTPSNDGKSKDKPPKRKKADTEGKSPSHSSSNRPFTPPTSTGGSKSPGSSGRSQTPPGVATPPIPKITIQIPKGTVMVGKPSSHSQYTSSGSVSSSGSKSHHSHSSSSSSSSASTSGKMKSSKSEGSSSSKLSSSIYSSQGSSGSGQSKNSSQSGGKPGSSPITKHGLSSSSSSTKMKPQGKPSSLMNPSLSKPNISPSHSRPPGGSDKLASPMKPVPGTPPSSKAKSPISSGSGGSHMSGTSSSSGMKSSGLGSSGSLSQKTPPSSNSCTASSSSFSSSGSSMSSSQNQHGSSKGKSPSRNKKPSLTAVIDKLKHGVVTSGPGGEDPMDGQMGVSTNSSSHPMSSKHNISGGEFQGKREKSDKDKSKVSTSGSSVDSSKKTSESKNVGSTGVAKIIISKHDGGSPSIKAKVTLQKPGESSGEGLRPQMASSKNYGSPLISGSTPKHERGSPSHSKSPAYTPQNLDSESESGSSIAEKSYQNSPSSDDGIRPLPEYSTEKHKKHKKEKKKVKDKDRDRDRDKDRDKKKSHSIKPESWSKSPISSDQSLSMTSNTILSTDRPSRLSPDFMIGEEDDDLMDVALIGN
Length1505
PositionMiddle
OrganismSaimiri boliviensis boliviensis (Bolivian squirrel monkey)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Primates> Haplorrhini> Platyrrhini> Cebidae> Saimiriinae> Saimiri.
Aromaticity0.05
Grand average of hydropathy-0.687
Instability index52.98
Isoelectric point8.78
Molecular weight159849.15
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

>MDP19142
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             8|     397.83|      45|      50|    1000|    1044|       1
---------------------------------------------------------------------------
  577-  618 (36.63/ 6.40)	.PAQdfSTLYGS........SPlerQNSSSG.S..PRMEI................CSGSNKTKKKKSSR
  932-  971 (40.32/ 7.93)	KPPK..RKKADT........EG...K.SPSH.SS.SNRPFTPPTStggS.......KSPGSSG.......
 1000- 1044 (76.50/22.99)	KPSS..HSQYTS........SG...SVSSSG.SK.SHHSHSSSSS...S.......SSASTSGKMKSSKS
 1051- 1099 (44.56/ 9.70)	KLSS...SIYSS........QG...S.SGSGqSKnSSQSGGKPGS...SpitkhglSSSSSSTKMK...P
 1102- 1139 (45.98/10.29)	KPSS.lMNPSLS........KP...NISPS.......HSRPPGGS...D.......KLASP...MKPVPG
 1140- 1183 (50.19/12.04)	TPPS...SKAKS........PI...SSGSGG.S...HMSGTSSSSgmkS.......SGLGSSGSL.SQKT
 1184- 1228 (61.51/16.76)	PPSS..NSCTAS........SS...SFSSSG.SS.MSSSQNQHGS...S.......KGKSPSRNKKPSLT
 1233- 1284 (42.15/ 8.69)	K.LK..HGVVTSgpggedpmDG...QMGVST.NS.SSHPMSSKHN...I.......SGGEFQGKREKSDK
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     241.84|      52|      52|    1325|    1376|       2
---------------------------------------------------------------------------
 1286- 1328 (57.07/19.79)	KSKVSTS..G.SSVDSSK.KTSESKNVGSTGV..akiIISKHD........................GGSP...............SI
 1329- 1395 (83.56/32.75)	KAKVTLQKPGESSGEGLRPQMASSKNYGSPLISG...STPKHERGSPS..................HSKSPaytpqnldsesesgsSI
 1396- 1452 (54.48/18.52)	AEKSYQNSP..SSDDGIRP...........LPEY...STEKHKKHKKEkkkvkdkdrdrdrdkdrdKKKSH...............SI
 1453- 1486 (46.73/14.73)	KPESWSKSP.ISSDQSL..SMTSN....TIL.ST...DRPS..RLSP.........................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      64.33|      13|      26|     251|     263|       3
---------------------------------------------------------------------------
  223-  237 (18.07/ 9.27)	LPacFFLKFPQPIPV
  251-  263 (24.14/15.32)	IP..LFETQPTYVPL
  279-  291 (22.11/13.29)	IP..LNHNMRFYAAL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     122.74|      37|      50|      70|     117|       4
---------------------------------------------------------------------------
   70-  107 (60.44/60.48)	NFDEFSKHLKGLVNlYNLP..GDNKLKTKMYLALQSLEQD
  120-  158 (62.30/34.83)	NAGPLDKILHGSVG.YLTPrsGGHLMNLKYYVSPSDLLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     135.80|      36|      50|     824|     859|       5
---------------------------------------------------------------------------
  725-  765 (47.81/20.60)	PAIG.TPLRDSSSS.....GHSQStlfDSDVFQTNNneNPYTDPADL
  833-  870 (57.96/26.67)	PMLG.GDNGETKFK.....GNSQA...DTVDFSIISvaGKALGPADL
  880-  914 (30.03/ 9.97)	PLLAtGDLGKEKTQkrakeGNGTS...N....STLS..GPGLDS...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     165.48|      43|     340|      25|      68|       6
---------------------------------------------------------------------------
   25-   68 (74.11/41.15)	CYITSDMFY..VEVQlDPAGQ..LC...DVKVAHH.GENPVSC...PELVQQLRE
  367-  409 (60.79/29.48)	CPLSESRFS..VSFQ.HPVNDslVCvvmDVQDSTH.....VSC....KLYKGLSD
  637-  678 (30.58/11.15)	.......FSmdVDSQ.NPIFD..VNmtaDTLDTPHiTPAPSQCstpPTTYPQ...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      75.30|      20|      20|     457|     476|       7
---------------------------------------------------------------------------
  457-  476 (37.00/17.95)	EDMVKKNLPPASSPGYGMTT
  479-  498 (38.29/18.86)	NPMSGTTTPTNTFPGGPITT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      73.82|      22|      25|     780|     803|       8
---------------------------------------------------------------------------
  768-  789 (37.73/17.29)	DAAGSPSSDSPTNHFFHDGVDF
  792-  813 (36.09/23.46)	DLLNSQSQSGFGEEYFDESSQS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.04|      12|     422|     545|     556|      10
---------------------------------------------------------------------------
  545-  556 (27.54/10.62)	SPTPPHHTPPPV
  973-  984 (24.50/ 8.67)	SQTPPGVATPPI
---------------------------------------------------------------------------




































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 MDP19142 with Med1 domain of Kingdom Metazoa
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