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 Ga0070765_100000009

Scaffold Ga0070765_100000009


Overview

Basic Information
Taxon OID3300006176 Open in IMG/M
Scaffold IDGa0070765_100000009 Open in IMG/M
Source Dataset NameWarmed and freeze-thawed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WFT 5
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)189415
Total Scaffold Genes153 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)115 (75.16%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000279Metagenome / Metatranscriptome1383Y
F002101Metagenome / Metatranscriptome593Y
F003293Metagenome / Metatranscriptome495Y
F004095Metagenome / Metatranscriptome453Y

Sequences

Protein IDFamilyRBSSequence
Ga0070765_10000000911F003293AGGMARRPDRVKAEILSEADLKELRHNLAHLSAPAVRDFYERAYRDCRLVYDHLPSPRQMQTLVQVWKQLWKWR*
Ga0070765_100000009116F000279GAGMTHKPEDRAVEEIILPENLLPLESVLGEGVTPLDVSMTLAKVFKVQYAEVALLRLEGGLLKFIFPEHLRTTGAIPISSKAVAAHTALSKKAEIFNNFARVKHASIFETIKPVGAEADQPAPPAPIQKLMSVPILDEHSTVLGVIQISRKGLDPRFTQDFSREDLHDLELAAGVLAASPVMRMN*
Ga0070765_10000000929F002101AGGAGMTTPVIVLPLSHPEGGPVTKKKRVLLLDTSQTKRDLRADVMRKLGIDVDCAADVIEARCWWRADLYNLVLINVAGETDSRDKFCTDIRNANPPQRIAFFVGGPEYLAAAPHSDEGPVEADADALHREMVAALLAQTSENSSQQRWGILEACRKISSVRSVSEARSRAIRETPRPSRWAEAIEQHSAPEAIKHQPLFAPETAAIETEREELL*
Ga0070765_10000000930F004095AGGAGMSGINGDKARFNRRRRQKISRRQSNQKMLKDLAEKHLVAPAKQASLKEKLA*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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