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 Ga0244775_10004340

Scaffold Ga0244775_10004340


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10004340 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)14756
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)29 (74.36%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001507Metagenome / Metatranscriptome681Y
F005745Metagenome / Metatranscriptome391Y
F007263Metagenome / Metatranscriptome354Y
F009531Metagenome / Metatranscriptome316Y
F015988Metagenome / Metatranscriptome250Y
F034902Metagenome / Metatranscriptome173Y
F056558Metagenome / Metatranscriptome137Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1000434025F034902AGGMISTALAIQMATQEAVIDESVMGMASALYHNRNEMTNEQFAQAMFTYSAHLSAMTATLVTHACLTESQINDMLETIKEMDSMGKGIE
Ga0244775_1000434028F009531GGAMTLNVEIYEMEYSVSPGGVNCWEVNIQGYGSSRCVSDFDTAGQALNWVVDQYPDQMIELTVTSLPAYEKEYV
Ga0244775_1000434029F001507AGGAMKQAFKPYTIDELVTEIYEDNFSHFDFMENMNGGDCDCDLHLTMQTIMRYWDI
Ga0244775_100043403F056558N/AMGILDNLENAWDDNFEFESKPVAETDAMGREKFWEDLGRPENDGLALKLFKEECCTECSCKSK
Ga0244775_1000434031F015988AGGAMPNYLLEYMKIHLISLEQDLENIAQEMESLDPESKACKELDYEYNYLSGQSIATRHFIKVGEEHAGN
Ga0244775_1000434032F005745AGGAGMQAINELDPRLQLAVDMRISGLDIMHGELKVLLLEAERELEEAQQIEEDNGYSDAMQSMERKYWEGRVDALGDLYGLTYQLSFAIMDKNNKETE
Ga0244775_100043406F007263GGAMITEYIDQNEFYLIKDEQRFCCGESQFRYVCKSHGEAMGCYYCEFDYSNDCEEQH
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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