<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 MDP06362

Description Mediator of RNA polymerase II transcription subunit 1 (Fragment)
SequenceLDIMSKDLQLLMEHLRQKSQHCMSWKDILKSAKVNLMEKRSPLDAQDRVEVAKSYERLLQGLRVASSYELFGRLEDIATKMNLTFVRTPGSANSQSCFITADCFFLEICAEETGSVFLVNVTHEKQTSESVLLRDIINDKRWTELQRHLWGLYSAYIQCKDIDTKNQAFKFMQNLENILHIQSLQRINDNTLPVVEYLRTSDMYFFRRREVGDPPRLYFFCTPLSFWDSETGDFKQLFQNEVDNVMDVSKFKSVIYAELAMENVQGEQFLSISMQSVNTLGQFNDVPLSMQIAAVFTLTFPEKLIISMDSVTKIEALTGFKPAFNNQSKILDLILDEILPSGFSVLRSFVLLEDQLHYYTVDLEGCLTEGVVLEKIFWTNLEMLHKILPILRTEALFKHMFTSFIRNIATTQQQFAQKMFRRDIHVIPSPDLSILECQVKLPQEREFFYIVFRLAPINEISVKVAGVDNADENLNDVAYKVFSRVWSIPVTIRALLKQLLRLSERNVVVAAAGDGNSGNGDQNAVVPMQIDCDRSLHLSSDSNCAAHSSVSIPDGNYNMSEYSVCNDDANDFAVAVADDDDDADADADAVISVSGIAQSLTIEQQMQKLIVNVDKVLEELLLVCSGRLAGGPNLLDLFKKPKVWRELIPPRRCAGRRGQRSRQQMAPSLAQQCCASAAGQLPAPVAAAAAAAPFGKVGPNLKSRHFSSTSETLTELDELCQLSSSCAEGNGHQGQSEPVAASGDAAVADGEQKSSIQDTIDSVLGSVRFPGSMAESLINISSCCINNNNNTNNSNPNNNNSNTNTSNNNNNNNMNALASIRKIELGYGQSSATVAAPMASSSPALAPLPRSSDSTGDVFDYETRSPTTAGAVDQGGRSLSSTVCCADDMSIRAASYADAGAAAAAASASAPTLDVGFWPPAGGVERLDVRGALLNRGMRRRRRCRKAFANTGDRALDMVLKEMRKAERLVRGAGGTRRPRRSRLATATASFTADMREVASKVTLKIRSSSAALPGQGAQESSLSLASSSLSPADQGSSSGAPGGKDEQRKSFKLAANAGGAVGAAAALPSQLQPTAAAALSTWTQPPSSVFRSLSHAADEPCSSQSSAAPPQLVKPASKRKNSLDVVIGKLMDKVGTSPTKPDPPSDVPDSAGDKQRHFYGFCFSPTASQQQKSGTVAAAGSASEFTIQRRGECSTTAAVPPSASDLSDAPEGGIKLVIKKSVIKLKSARHGRGAGAGHFAETGAPSGRPRVSSPSSVGERLAASKFELLKQKMQARKIKRQSSTEKSRQRGPRSGALAAVSKTASNKSKLSTVGPSPGVAELPSVFPGAEGLLFSKSLKGFKIPKIEDNSSKTTTTTTATTATVVTAAASASASAITTTAVAASTATTATVATAAASAAATMTTTTTTTIASATASAAVVTNASTVATATTTSANATTTANVAVTPSTVVEKRLADGPPMALVVNDGRASPAGVVSGGGGGGILRMKPPLLAVQQVPPPCGGGSSKPLIRRSRPVPLPLPPRSLVATGAHFPAPPAVELALPTGPAVPRYVRRTLLPNPPLQTASSARPPSQPLLELNKHHQQQMLVQQPQQRPTKQELLNPMTNQTSPKSASPEPTGLVIDDNLNTTAAITSPQKSAEEVDVLSPGLRIAVDEGDETKGATTHSSSTT
Length1670
PositionMiddle
OrganismTrichinella papuae
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella.
Aromaticity0.05
Grand average of hydropathy-0.241
Instability index49.59
Isoelectric point8.64
Molecular weight177887.16
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

>MDP06362
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      92.23|      22|      22|    1388|    1409|       1
---------------------------------------------------------------------------
 1362- 1382 (28.64/12.74)	.TATVVTAAASASASA.ITTTAV
 1388- 1409 (38.68/20.01)	TTATVATAAASAAATM.TTTTTT
 1412- 1434 (24.92/10.05)	ASATASAAVVTNASTVaTATTTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      66.78|      17|      17|     779|     795|       2
---------------------------------------------------------------------------
  779-  795 (33.91/22.96)	NISSCCINNNNNTNNSN
  799-  815 (32.88/22.02)	NNSNTNTSNNNNNNNMN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.16|      16|      22|    1516|    1536|       5
---------------------------------------------------------------------------
 1516- 1532 (24.48/ 9.03)	VpLPLPPRS....LVATGAHF
 1575- 1594 (17.68/ 9.84)	L.LELNKHHqqqmLVQQPQQR
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      59.50|      19|      22|     999|    1017|       6
---------------------------------------------------------------------------
  999- 1017 (31.54/13.97)	ASKVTLKIRSSSAALPGQG
 1018- 1036 (27.96/11.55)	AQESSLSLASSSLSPADQG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      72.33|      22|      24|    1595|    1616|       7
---------------------------------------------------------------------------
 1595- 1616 (39.69/27.43)	PTK...QELLNPMTNQTSPKSASPE
 1617- 1641 (32.64/20.92)	PTGlviDDNLNTTAAITSPQKSAEE
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      42.94|      13|      24|    1174|    1186|       8
---------------------------------------------------------------------------
 1174- 1186 (22.79/10.93)	SGTVAAAGSASEF
 1195- 1207 (20.15/ 8.68)	STTAAVPPSASDL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      75.78|      16|      24|     615|     630|       9
---------------------------------------------------------------------------
  615-  630 (25.95/12.98)	KVLEELL..LVCSGRLAG
  642-  658 (23.13/10.85)	KVWRELIppRRCAGR.RG
  664-  679 (26.70/13.55)	QMAPSLA..QQCCASAAG
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      39.65|      13|      16|     393|     408|      11
---------------------------------------------------------------------------
  393-  408 (19.05/21.45)	TEALF.KHMFTsfiRNI
  411-  424 (20.60/12.45)	TQQQFaQKMFR...RDI
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      44.76|      13|      15|    1058|    1070|      12
---------------------------------------------------------------------------
 1058- 1070 (21.10/12.86)	AGGAVGAAAALPS
 1076- 1088 (23.66/15.66)	AAAALSTWTQPPS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.33|      14|      16|     723|     736|      13
---------------------------------------------------------------------------
  723-  736 (26.24/14.44)	SSSCAEGNGHQGQS
  742-  755 (23.08/11.83)	SGDAAVADGEQKSS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      88.13|      23|      24|    1283|    1305|      14
---------------------------------------------------------------------------
 1227- 1248 (32.67/16.92)	KSARHGRGAGA...GHFAETGAPSG
 1287- 1309 (36.49/19.92)	KSRQRGPRSGA..LAAVSKTASNKS
 1310- 1330 (18.97/ 6.15)	KLSTVGPSPGVaeLPSVFPGA....
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.93|      17|      24|    1533|    1549|      15
---------------------------------------------------------------------------
  682-  699 (26.42/10.99)	PAPvAAAAAAAPFGKVGP
 1533- 1549 (32.51/15.42)	PAP.PAVELALPTGPAVP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      37.48|      12|      16|     234|     245|      16
---------------------------------------------------------------------------
  234-  245 (21.33/14.57)	FKQLFQNE..VDNV
  251-  264 (16.14/ 9.29)	FKSVIYAElaMENV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     136.56|      44|     318|     552|     602|      18
---------------------------------------------------------------------------
  552-  602 (61.35/57.57)	IPDGNYNMSEYSVCNDDANDFAVAVAddddDADAdADAVISVSgiAQSLTI
  872-  915 (75.21/46.74)	VDQGGRSLSSTVCCADDMSIRAASYA....DAGA.AAAAASAS..APTLDV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      49.51|      13|      41|    1099|    1112|      22
---------------------------------------------------------------------------
 1099- 1111 (24.61/10.62)	DEPCSSQSSAAPP
 1133- 1145 (24.90/ 6.77)	DKVGTSPTKPDPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.41|      13|      15|     504|     516|      23
---------------------------------------------------------------------------
  504-  516 (21.08/12.69)	ERNVVVAAAGDGN
  521-  533 (24.33/15.87)	DQNAVVPMQIDCD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      43.62|      14|      68|     972|     985|      24
---------------------------------------------------------------------------
  972-  985 (26.81/17.57)	GA.GGTRRPRRS.RLA
 1040- 1055 (16.80/ 7.79)	GApGGKDEQRKSfKLA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      56.58|      18|      27|    1447|    1465|      26
---------------------------------------------------------------------------
 1447- 1465 (28.54/18.27)	PSTVVEKRLADG.....PPMaLVV
 1472- 1494 (28.03/13.47)	PAGVVSGGGGGGilrmkPPL.LAV
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      58.62|      16|      19|     197|     213|      27
---------------------------------------------------------------------------
  197-  213 (25.66/22.14)	YLRTSDMYFFrRREVGD
  218-  233 (32.95/23.10)	YFFCTPLSFW.DSETGD
---------------------------------------------------------------------------




































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 MDP06362 with Med1 domain of Kingdom Metazoa
Unable to open file!