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 Ga0222716_10013196

Scaffold Ga0222716_10013196


Overview

Basic Information
Taxon OID3300021959 Open in IMG/M
Scaffold IDGa0222716_10013196 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_13D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6232
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → unclassified Pelagibacteraceae → Pelagibacteraceae bacterium TMED287(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)38.0283Long. (o)-122.37Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023961Metagenome / Metatranscriptome208Y
F037431Metagenome / Metatranscriptome168Y
F094092Metagenome106N

Sequences

Protein IDFamilyRBSSequence
Ga0222716_100131961F094092GAGMEKKERNIGTMLKPLDSHKPADSVTFIPHERPDILRRLKEIKFDTADRLSANYMDLDWFGFEAISVYERNGKIVGFSSVAYREEYFDKDEARILNRYYESPDMRRTSKIIGDDHVCEMVAQQIDIAKKLGYKKVFISRSRSPRHLEMFIENVGIKTKTTWHMEDKKIAVCNPKNPECWQFKVWTEI
Ga0222716_100131965F023961GGAGGMPNFIQTDYTPDVGLLRAYMKDAWEDSNELYKEYMSWENNKFFVQEIKDFDRPLLREIKKIWNHIGIRPREWRCNFFRVLPGGELPLHVDVLSKCSVVIPMTEMTGELYFEDGTEVLYQNMTVINTKVAHGVKSPTMERIVFHMGIHDVPFEEIKIGHNS
Ga0222716_100131967F037431AGGAMPKYKTDRPFTEEQLEAMDVIHDPNTKMFKCQYEDSYVVEDFINGVECGSLDLWFRDNYPRIGYDINDHVYHITFPMLYEVVSDIVRPKIYDHFGNDVIFYSDVSKDPMSVGDQFFKSKRPYGLHTDAVTHLEGYRPYKDIIIPIALEGIHESQYVTFNQRYRGRATHFMKGRIKGSFANYANVIRHKDYEEYGVERIDRSGRDHDILQKIMPDHIPMSVYEGLTIEKILPWRPRCAIVHDTSVLHAPTDYRAQGCKVKVGLTLHLMKRDPHYNNRLEGYYTPFSRYTKPLIPA
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Institute for Fundamental Biomedical Research
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