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_10009928

Scaffold Ga0222718_10009928


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10009928 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)7161
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (85.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
Not Available(Source: )

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?
F007621Metagenome / Metatranscriptome348Y
F017755Metagenome / Metatranscriptome239Y
F027160Metagenome / Metatranscriptome195Y
F031294Metagenome183N
F039150Metagenome / Metatranscriptome164Y
F050773Metagenome / Metatranscriptome145N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1000992816F039150GGAMRKKLVHHFAIVLLNIGKPFTRIGNWFWKKHRDVLDWNE
Ga0222718_1000992817F027160GGAMPVLSSGSKFVTHAVALTTTSDTDVYTVPNNFSSHVEHLLITNSDSSNRNYTLKFYQADSAITYTLFSSHAVAGKGSESVFTIDKPLYIHQGDKLIVTADTVDTLTVVVAAEEFFDPTR
Ga0222718_100099284F017755GGAGMAKRGAIIDMGRHKAVGSSWKAMDTLAFSRSYEPETRPEFRVYVTGQADAMLEQYKKDVDKADALAILDSMM
Ga0222718_100099285F031294AGGAGMKFEMLDLFLIAMLMVAIFFGLAILSLYGIGYMTWLSWTMLGCSAWCLICGWGIVAYNLENRNG
Ga0222718_100099286F007621AGGAMENSSTQIIPVVNNTLEAEGFALAKEWKSITKGDKARFTKSTKADGFDTRLGKLMLKLKAEGGDRIASARLKDCGIAGIDKRRRSEAMWFAANETACRDFIAKSKKGFTSLTALQAAMKPKADPKPKADTETPVEPKADEKSNVGLNSEADKTDPKSASDIALEALVQCELNGVSKAKFIAALKEQLEMLDDSTDKSVIKDDAGNVYVAAAYAA
Ga0222718_100099289F050773N/AMELYTILVYLSVIVMPDGELKTYTATVNECPSTEMVISMHQRMMDTGEIVDWTARCSSTEVQLTVPKGLKT
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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