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 Ga0210407_10000414

Scaffold Ga0210407_10000414


Overview

Basic Information
Taxon OID3300020579 Open in IMG/M
Scaffold IDGa0210407_10000414 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-27-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)49189
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)42 (77.78%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000262Metagenome / Metatranscriptome1428Y
F002518Metagenome / Metatranscriptome552Y
F002885Metagenome / Metatranscriptome523Y
F002959Metagenome / Metatranscriptome517Y
F020961Metagenome / Metatranscriptome221Y

Sequences

Protein IDFamilyRBSSequence
Ga0210407_1000041424F020961GGAGMNCEEFGIVGLDRDLGAGGRDSTAAREHLRSCPHCAALFESALALRADLRELGQVTREATAPSRVEMRLRQEFRTRHTTMKSRGRAVVTSWVLAAATLVLVAGSLVLRQREKRVNIAEVQPSTPSATHSVATGPELGGTLIAENDGDEFALIPGAIPGLLDDTTVVRVQMERGSLGALGLSVNEEHANDIVQVDLLLGADGQPQAYRLPQSSN
Ga0210407_1000041435F002885GGAGMAWMRRMFGVPASETQMGLTLALCIFSMSLMVVALIWQAQVIAKQNAVIHMMESRFGG
Ga0210407_1000041443F002959GGAGMDNQIPKYVTQSRAAYLLGLSVAEIGRISQETGIGHVERAGHIEERFFTYEELQRICVLATQENVVTH
Ga0210407_100004147F000262AGGMKINIWMGGVAVLGLLLVGCNGSSYGVLQPNPEDLCKCIPVEPDILDFRHLAKHVPIPAIAAQEIGVDTMLSWTQDAFVDPAAPRTGRELQVFHIATGFLQEASVNGADCDVHFEISQTADKNASRVIVETPVDTEFCAARQNAQSQLAKHGFRLDSQHGGELPQGLPVEVLGMAFEDFDHSRGSAQVATIWELHPATVNLLP
Ga0210407_100004148F002518GGAMDNAPKCPVTGKRKYPTEGAALATAKHQVATADAPMELRAYHCNWCHAWHLTKKPGETGKHRS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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