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 Ga0222712_10044045

Scaffold Ga0222712_10044045


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10044045 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3389
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000403Metagenome / Metatranscriptome1177Y
F005697Metagenome / Metatranscriptome392Y
F009503Metagenome / Metatranscriptome317Y
F021065Metagenome / Metatranscriptome220Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_100440454F009503AGGAGMDTVQFECRKCKKITKQVIHKVTDNLPDGVEVIQCTKCEVMGVAQIGTSNANL
Ga0222712_100440455F021065N/ALKLTLSRQEEFECHDAALALARENTDYWQTRSGGYSMEKSFHDLIAQDAQSIGSEWVVAKYLGFEFDPFLQKGKFKADVGSHFEVRWTKYASGQLIIHEYDRTDDVAILVTGESPHYFIAGWIPIAMAKRPKYRHSKQPNWWVTQINLQPIENLRRSNYGHSSV
Ga0222712_100440456F000403GGAMSDYVEIINPRTMTCKLMENGVIIAEYKVEQCDKCSSLVKFDEFGYQKGYGNEKIIWFCAGCR
Ga0222712_100440457F005697GGCGGMGFLDNYEASRERLERWLKTYPTGRIETRIVEFSAEKGYVLVEAKAYRNDTDLQPAGIDYAYGYQGAYQQNMKRWFCEDTVTSAIMRVQQLVMGGAERSTKEIMEQVEKTSAKVANTDKDYDYWTTKFGDVPSYKTEEDMEAAGVPTLASGVKEIAKQLGGELVAEPPQCRHGHRVFRSGNSAKTGKDWANYSCVGRKPDQCDPVWLVLTSDGTWKPQV
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