<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 MDP01330

Description Mediator of RNA polymerase II transcription subunit 5
SequenceMDGETIVLPQTSSAAALRTAHAFWSRFADRCIRERIDNDRFQSLARLVHDEHPLPPAAVADLFLRPQPDNCYSLDPRVPPYLQVLSDLEYIDAPAILRALYRYSSSHTLIESYRETSQGDGDGDGNGNANANANNEGKEQDTGSGTTNAKDTDTASLNANHIHNGEEKKSSVEKKGSGDKRSNGSAPLRWKSSYWVEEVMFFRLCKSVHEGQAVRDTNTALEVIKIVSKWLALFAQASSAFAADLLAQMHNLQLEMESARAAFVPLLLRLTDNPSLLKVIARPVAKDARRELSENLSNFVPTLQLVNAGTEKSIAEKLDFFRNAVLAKLDPIDKKKQAADAAMNDMLDSAVGPDAFEVREVPIITTRVGMYIYLNAALVGRPLVDDGTLFNYIHNRYRGDNQSAAMDLILASFDVLANAVFRDGGKEDAHLLKSFLINKVPLVLCQLLPPGFSNPSAELCITNALNQVDTSLFPTASLMFDESRNNNPYTESVREEFCAACVLHGLINREHVEAILGEMSMSYQPEKKSKDKLVQDYQSHTIKVQDLLGDLEKMDGNVAAVSHALVEIIRKLCDEKDTMSLKLLCTEIVQKPQSLDMLLLFETLPGIVGPLCQLLDNWRYEDDQAEYQPVYEEFGAILLLVLAFVNRYSLRPSDIGLYNPKSSVRRIITHGRFHRDPSRLSEEENKHLHRWIVGLFDNEGGGLGDELMSSCPPQEFYKLVAPLFYNIVVGYSHGYITEDSLKSGVEYLVDTFLLPSLVPALRFLADYLWVDQKEQKAIIRVLQLILLPSAISNEASAMLASVKKIVAKPLDNALRNYLNRRDPKNQDIMPLLNALEDSIPMSKRTGLPDLSDVTEWCKSKPDGGLYALLKGVTQGLIQWSMQPAMSVMPITYTHRQFTMGIRLIGPQGVLRLLLEELRSHTRSDADMRNQNDQQQQQQQQQQQQLNHQDQIAGVVYDVATALACAHNVTNMPPAAPWTDNPPPGQQQAPPQVERMMGVPEVLRLEADKCRKMQKTDPDRAEMVVRLHRRVEAQLAPPQAPPGMMPAPDMGGMDMSGGMDMGTNGEVSLNDAMAAMQGDQSGVGLDMSLDPLGSGGGGGDGMGGDDLFGGLDTNIDTNLDDLDWGDGMDLS
Length1130
PositionTail
OrganismAcremonium chrysogenum (strain ATCC 11550 / CBS 779.69 / DSM 880 / JCM 23072 / IMI 49137)
KingdomFungi
LineageEukaryota> Fungi> Dikarya> Ascomycota> Pezizomycotina> Sordariomycetes> Hypocreomycetidae> Hypocreales> Hypocreales incertae sedis> Acremonium.
Aromaticity0.06
Grand average of hydropathy-0.313
Instability index43.62
Isoelectric point5.05
Molecular weight125069.67
Publications
PubMed=25291769

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

>MDP01330
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     177.09|      37|      50|    1025|    1070|       1
---------------------------------------------------------------------------
  986- 1018 (53.58/25.94)	QQAPPQV.ERMMGVPEVLRLEADKCRKM....QKTDPD
 1033- 1070 (69.80/58.64)	QLAPPQAPPGMMPAPDMGGMDMSGGMDMgTNGEVSLND
 1088- 1120 (53.71/29.02)	.LDPLGSGGG..GGDGMGGDDLFGGLD..TNIDTNLDD
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      83.13|      18|      19|     237|     254|       3
---------------------------------------------------------------------------
  237-  254 (28.39/16.36)	ASSAFAADLLAQMHNLQL
  259-  276 (27.94/15.99)	ARAAFVPLLLRLTDNPSL
  288-  305 (26.80/15.03)	ARRELSENLSNFVPTLQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      60.54|      18|      25|     673|     696|       4
---------------------------------------------------------------------------
  652-  671 (27.16/22.12)	PSDIGLYNPKSSVRRIIthG
  677-  694 (33.38/22.28)	PSRLSEEENKHLHRWIV..G
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      87.54|      25|      25|     115|     139|       5
---------------------------------------------------------------------------
  115-  134 (28.73/14.53)	.......ETSQGDGDGDGNGNANANAN
  135-  160 (34.40/18.85)	NEGKE.qDTGSGTTNAKDTDTASLNAN
  163-  186 (24.41/11.24)	HNGEEkkSSVEKKGSGDKRSNGSA...
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      48.18|      16|      49|     767|     783|       7
---------------------------------------------------------------------------
  747-  762 (26.75/16.82)	YL.VDTFLLPSLVPALR
  767-  783 (21.43/19.37)	YLwVDQKEQKAIIRVLQ
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.97|      32|      35|      32|      63|       8
---------------------------------------------------------------------------
   28-   59 (57.06/34.29)	ADRCIRERIDN....D.RFQSLARLVHD.EHPLPPAAV
   60-   97 (42.91/23.96)	ADLFLRPQPDNcyslDpRVPPYLQVLSDlEYIDAPAIL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      45.02|      13|      22|     455|     467|       9
---------------------------------------------------------------------------
  455-  467 (22.95/14.69)	PSAELCITNALNQ
  474-  486 (22.07/13.85)	PTASLMFDESRNN
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      52.89|      17|      22|     390|     406|      10
---------------------------------------------------------------------------
  390-  406 (32.13/22.09)	FNYIHNR.YR.GDNQSAAM
  413-  431 (20.76/11.42)	FDVLANAvFRdGGKEDAHL
---------------------------------------------------------------------------




































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 MDP01330 with Med5 domain of Kingdom Fungi
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