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 Ga0063454_100000899

Scaffold Ga0063454_100000899


Overview

Basic Information
Taxon OID3300004081 Open in IMG/M
Scaffold IDGa0063454_100000899 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from Hopland, California, USA - 2 (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4663
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Grasslands → Soil → Soil Microbial Communities From Mediterranean Grasslands, California

Source Dataset Sampling Location
Location NameHopland, California
CoordinatesLat. (o)38.99297339Long. (o)-123.0674491Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F057725Metagenome / Metatranscriptome136N
F080564Metagenome115Y
F089092Metagenome / Metatranscriptome109N

Sequences

Protein IDFamilyRBSSequence
Ga0063454_1000008991F057725AGGMRPRVLLVLALVVVAVGCSSSPPDPYAAYRQTSTEDVPGTLDWQIGPVPTDYRASIGPADAYDELFDAGDRKQAYAILGQVSNTSDHSVGPPAWVFVTPKTCYATAKGDLVSPGRTGNGCTKQNLYVQGVNATTGERLGGFTAFDTPTPWVPARAGTPDVVEAEVQAGTTLLH*
Ga0063454_1000008994F080564GGAGGMRRLMKLFVPVAGTIVSVALVASPATANMQVSSVNHVEYRYTDSSICPFDLRVHLHGSYKNVDYYDNTGFLYKTIDTPGGGEPFAVSYSAKGTTLTQRNDAFSTVVIYNHDGTWTYTERGPVNRFTAPGVGIVLLDAGIASWSEPDETLLFMGGPHQAANGDFVAFCAAFG*
Ga0063454_1000008996F089092GGGGGVTIDERLRSGLGARAELTDSEIERKLSVTLQRGRRRRTLRRVGSAVVVGVMALGLLVALPKLLSTSNRKEPVGPLSPSIKAHSPSPIVGTYTLVLGPRDPGAQRLHAVGTWVLTFRDDGDASLSRGNAVGAGGYRLVPASVLITGLFDSCQGTEAGDYSWVISDGVLRFFKPSTDPCPLRRFVLLGPGHGHGWVVGPAT*
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