NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0222714_10001464

Scaffold Ga0222714_10001464


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10001464 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)26598
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (80.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004761Metagenome / Metatranscriptome424Y
F039606Metagenome / Metatranscriptome163Y
F040004Metagenome / Metatranscriptome162N
F052563Metagenome / Metatranscriptome142N
F054000Metagenome140Y
F057330Metagenome / Metatranscriptome136N
F073489Metagenome / Metatranscriptome120N

Sequences

Protein IDFamilyRBSSequence
Ga0222714_1000146417F073489AGGAGMENRHAAIQMSVAFTDSDVRDCMPHLKGAMACVALEDIEELFRSYVRESGCEIMSQLLRDAGWDVNGKSFKEMGGW
Ga0222714_1000146422F039606AGGAGMDKDRAIITQVAAKIASDLVNKEADTDTKLGEFTTLFTSVKDIMFEIIDGSQDAQIYEMAKSTFNATPVNNSATSESVGGVLQIIGKQHGDLPDWLIKACKRDGVTKVYDNRDGLSVNPKRPWFKAVDADKAYWAPKTR
Ga0222714_1000146426F040004GAGGMKESRWDIPKPNFKKDLEFGKQGEDQVKQFLQGIVNGSFEVKSDRYRNGKMVVEIAQNPRKHGWKPSGIMVTEAEWWVYVYTMNQAMIVVSTERLKRYIEMLPKSRIRLFAEGTNNPAKGYLLLPEEVSQLLYDPAYDDVKK
Ga0222714_1000146429F052563N/AMSSKESQDWIYDIIPAKQVEEIESKAKSLQQNLDNGVNIVLSATNDSAIRLCRAYYDGTQGNLDAWLHIMGFLSALIDTIEEHLNEEGIDPYAK
Ga0222714_1000146431F057330GAGMRPVIVLWDDAYSEDEWMSVEHYNPKPETPNISIGYIVAYNNGYVHIASTVDQDGGNCCGIMAIPYDMIVYVAPLQILSEAKMYGDKEEFERYLQGKFAQRAEVYEFTESVEISSETNPEPSV
Ga0222714_1000146436F054000AGGAMAYNPADYEARRRGYTQQYGATGAMNAYANFLARQRGTRGRQDMLRQYDEAQPKVVAGYSRRGLVGPNVKSGIFSRGLQTLAKQRARNLQDYDQGQLEEQRMYDLGEAQRLEAFKNQLADMESEKAQTIANAARQLYANRMGMI
Ga0222714_1000146440F004761AGCAGGMTMSLADVRTMVRNISDLDSVDLPNTIIDNAVKEAFQRIIALERRWPKYQETYTFNTVASQRPYTISTIGDIREVISLVDTSSAGSRLTMIPYDNAEDIWLGNTDVPSRPYFYAIWDAQLHLYPKPDAVYAITLRAYRNPVYTWLTNTSEAIDLDEWFHILLAYFVLARVYQRQEDPELSAMYLRSFEEGVAMARRDLMKTPSARPLLMSGGRQYPTMRRWLQTLGATLGT
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.