NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0222718_10009980

Scaffold Ga0222718_10009980


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10009980 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7140
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (95.65%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003051Metagenome / Metatranscriptome510Y
F007645Metagenome / Metatranscriptome347Y
F046985Metagenome150N
F066266Metagenome / Metatranscriptome127N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1000998014F046985AGGAGMSSLLKLYNESWSKEFDVDVDASKSIKVHVAPKTYAMLVQIGVFNIHSKGIHDDVRKVNVKAIDINTDFSVDMLLNNYEAMKMAEILNEYPFERGYQQQADKIWYNILKHLNEFNPKDAEHLRNKLFKRRVA
Ga0222718_1000998023F003051GAGGMKTKILKNKVTIEMNNEEYDTMFKYIDKLRSMLNTLHETNDLWLSDVQNLHSLKWELVEMLDAEWNQNTYKYVKRGSK
Ga0222718_100099807F007645AGGAGMAKYVYGKRDTKTVKSIYDRASIGEKAIWNFANSLGVNIVRVRKDKERNETTVGDTFLGYHSGKVSIYQQRGNPSKPLHFVRPTPLGKDNKGMQILEVANNLDVQEVLEALKDYQILMTGSFFGRMKLRFARLFS
Ga0222718_100099808F066266AGGAGMSILNEHELEKKIVSTIKYRIQEALAYRTYDRKTNKSCHQDYRKTIRDAKDFDELKRIMSEFVDDLMHI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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