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 Ga0224504_10000585

Scaffold Ga0224504_10000585


Overview

Basic Information
Taxon OID3300022308 Open in IMG/M
Scaffold IDGa0224504_10000585 Open in IMG/M
Source Dataset NameSediment microbial communities from San Francisco Bay, California, United States - SF_Oct11_sed_USGS_24
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16234
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (5.88%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families5

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.7Long. (o)-122.34Alt. (m)Depth (m)11
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003038Metagenome / Metatranscriptome511Y
F023555Metagenome / Metatranscriptome209Y
F025977Metagenome / Metatranscriptome199Y
F047317Metagenome / Metatranscriptome150Y
F048942Metagenome / Metatranscriptome147Y

Sequences

Protein IDFamilyRBSSequence
Ga0224504_1000058510F025977N/AMVIMTEIFNLMVKEGLTPNSFYVLYCIKEKIVPTSIINKKLECKKLISQEWITPDLQLTNKSIIFTTKVDGYFKKSKKKTSKNLMGNNFMQNIDAYVKIFPNKKLSSGKYARIPAKSLENGFRWFFENYNYDWQTIFTATQKYVNEYATKNYEYMRNSQYFLRKQNIDKSWNSDLAVYCEYLNDIPENDENPFEELIV
Ga0224504_1000058512F048942N/AMLKVKELKEDALIDVKVNRSFYLMAKAASFTILQSMNIPEKKNGDEYFKKIMNEKYEDLDDAQRAFYTIILLLAEIEKKATEDNLYVEKEILEPGDEGYEEPKSN
Ga0224504_1000058518F047317N/AMSKEKLVGMICKERLQTLEENPPRCPYSKGIKKVLTPYS
Ga0224504_100005856F003038N/AMALSTEDLGTGSGSGLPKTISPGNNVLKINSVTLDEFKFIDNAYHLMLHVETKPIDGFEGFMIDRNNPKGGNYSGQIGRIKASQYAFADGETKSGIKIQRDKSILIFLQNLCKTLGINDWMTKQHNQHETIEDFVQAFNDDKPFKDVYLEFCVAGKEYMGKTGYTNYDMWLPKAQGGKYATGTVDSGKVITYNEDIHLRKLENKPVETFGDEDFSKSPSNSDFSLD
Ga0224504_100005858F023555N/AMSSLRKEKEREFYTHHMDTFKAIGIADPFFTIKTAFFKKGKYGRQCQFFEWELRKQEDIYIEFYDNVYDDNGKNKNMIPMNEDRQLFKLKYNPYYEEEHDMIEGTDYQGNSDRKYLVPINEMSVVLKSGQEISYSLYEKRKEDAKSEIPELQKSTTLFPDFEQEFALKKESDNKDDNKDSDLKSVLLKLSHEISNLSSILETKIHKLK
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