<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 MDP06002

Description Mediator of RNA polymerase II transcription subunit 26 (Fragment)
SequenceLKHGDSVQANASVAGGAFKGSPVKLLGQREEGTLKFDLSLFVNNVAKACEAMDAIESVVMTKESLESSRLGLLINEVRRSNQLLHPDLAKRCRLLIKKWRKLISTTPTPTPTPTTTTQPAITDNGVDTAGVAPVAADDRAIRIRIKLGSSVNEATILGGQEKKQQQQQQQLDNCGIEQAENRRKRKHTSQNAPNNSKMNGISKTHLSAIGGNGGGSGETFSLASTVSKPCKPPRSSSSCSRPVPLPTAPASQPRHPPPPQPPLPPPSAPTPPPPPPPPPPPQSSPPPLPPSPPPPTPPPPPPPSTSPSLTTTSSRPPKLKTTAQLVADLTKCYPEELLVNINTSIGVDSTNALQQATASNSRDDAPSPALLFSAVEHQQPSGGGGGGEVNKLELLEKYLAEDADQQQQNQDHVVAGSSSGACTSSSSVDSDTSSRSSTPSRDKIVRASDDDDDDAPPRSGPGTVSSPSDGGGKPGLVDDGRRPIRRLPPVDRSMLDRLDEIPSPSKSRVSSLKYLDDYSNEPPERTRALAPFEQSLRMLPSEMRQLHSRVLVKTTDGRQVLALPYVDIGLPDFLEYDNSPATTEQLISWEAIRW
Length594
PositionUnknown
OrganismTrichinella sp. T9
KingdomMetazoa
LineageEukaryota> Metazoa> Ecdysozoa> Nematoda> Enoplea> Dorylaimia> Trichinellida> Trichinellidae> Trichinella> unclassified Trichinella.
Aromaticity0.03
Grand average of hydropathy-0.677
Instability index72.20
Isoelectric point7.72
Molecular weight63231.06
Publications









Function






Annotated function


GO - Cellular Component
nucleus	GO:0005634	IEA:InterPro

GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP06002
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     126.71|      24|      24|     256|     279|       1
---------------------------------------------------------------------------
  223-  246 (32.18/ 6.47)	.ASTVSKPCKPPRsS...SSCSRPVPLP
  247-  266 (43.80/11.71)	TAPASQPRHP........PPPQPPLPPP
  267-  294 (50.73/14.84)	SAPTPPPPPPPPPpPqssPPPLPPSPPP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      67.43|      16|     187|     107|     122|       2
---------------------------------------------------------------------------
  107-  122 (32.30/11.24)	PTPTPTPTTTTQPAIT
  295-  310 (35.13/12.93)	PTPPPPPPPSTSPSLT
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     128.50|      32|      75|     479|     510|       3
---------------------------------------------------------------------------
  479-  510 (56.56/33.83)	DGRRPIRRLPPVDRSMLDRL..DEIPSPSKSRVS
  531-  550 (24.20/ 9.85)	PFEQSLRMLPSEMRQLHSRV..............
  556-  588 (47.73/27.28)	DGRQ.VLALPYVDIGLPDFLeyDNSPATTEQLIS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     125.53|      28|      86|     363|     390|       4
---------------------------------------------------------------------------
  191-  215 (28.56/10.47)	.NAPNNSKMNGiSKTHLSAIGGNG.GG...
  363-  390 (52.61/25.17)	DDAPSPALLFS.AVEHQQPSGGGG.GGEVN
  453-  478 (44.36/20.13)	DDAP.PRSGPG.TV..SSPSDGGGkPGLVD
---------------------------------------------------------------------------




































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 MDP06002 with Med26 domain of Kingdom Metazoa
Unable to open file!