<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 MDP06900

Description Mediator of RNA polymerase II transcription subunit 1-like
SequenceMVYNTLISSCVSENSINKDYSELLYFEVSPVKDTSFSISFQHPVGVNLACVVINVLSCKKIKCSLRINPQDATLNCSNDFITRVVERCLSVPLVMRAIFKNVVNREADGRTQNMEIVCEQNPEVTCEQSASCNNIKENMSASSTHNATVTNMQNLTVTIEESFSTTNLQISSTIMEENSSTASQHSSDGIEGRQAGCRNTASFI
Length204
PositionMiddle
OrganismAlligator mississippiensis (American alligator)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Archelosauria> Archosauria> Crocodylia> Alligatoridae> Alligatorinae> Alligator.
Aromaticity0.05
Grand average of hydropathy-0.175
Instability index46.04
Isoelectric point5.09
Molecular weight22454.04
Publications
PubMed=22293439

Function

Annotated function 
GO - Cellular Component
GO - Biological Function
GO - Biological Process








Interaction





Binary Interactions











Repeat regions





Repeats

>MDP06900
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      99.37|      32|      73|      57|      90|       1
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   57-   90 (52.70/34.84)	SCKKIKCSLRINP.QDATL.NCSNdfITRVVERCLS
  131-  164 (46.66/24.85)	SCNNIKENMSASStHNATVtNMQN..LTVTIEESFS
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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 MDP06900 with Med1 domain of Kingdom Metazoa
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