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 Ga0209274_10000055

Scaffold Ga0209274_10000055


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000055 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)113449
Total Scaffold Genes116 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)85 (73.28%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000238Metagenome / Metatranscriptome1494Y
F000359Metagenome / Metatranscriptome1236Y
F000912Metagenome / Metatranscriptome839Y
F006274Metagenome / Metatranscriptome377Y
F014416Metagenome / Metatranscriptome263Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_10000055105F006274N/AVAKTQSQNDSTPKHRRHPIYATETFGLLLIAFLLLVLTLIRYWHAIHWGLR
Ga0209274_10000055112F014416AGGMQHKRVLTEGETAVLTIIQEGYGPHNGIDQVYFGPADEAVIFVRLSNGMTKVMANLTNLAALRADGTISSDEDLRKKWLRLDR
Ga0209274_1000005572F000238N/AMPPTPHPPRWYAIPVRVLLVTFIGTLISFAVSLLLGIAGIVIVSTIRHVHPDMRVAYRLIALPATTVAASIILVLSLTMEIRHYRQSKTLDAIARIS
Ga0209274_1000005591F000359GGGGGMSGQVILYFDDQSDALRFALAAGSVMAGDGASFTDDLIQETTRVSRIRLDAANAGKVKTPTPVRAA
Ga0209274_1000005596F000912GGAMALDAFVRCTCIRDGKAKPHPFPDRLTFDEAGEPTLTGEPSDDEWEAHDQWLTDSCEHEGYLLSMFLGNITRVGNLRSFLRHLQGKPGPRFPMLLTKVLYDGTHTGDWISTEHAEKLLKEVEIVLHSSDILAESEKEFFNNVKQLCEASIETGNPIMF
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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