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 AF_2010_repII_A1DRAFT_10001573

Scaffold AF_2010_repII_A1DRAFT_10001573


Overview

Basic Information
Taxon OID3300000597 Open in IMG/M
Scaffold IDAF_2010_repII_A1DRAFT_10001573 Open in IMG/M
Source Dataset NameForest soil microbial communities from Amazon forest - 2010 replicate II A1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)5880
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Amazon Forest, Brazil

Source Dataset Sampling Location
Location NameAmazon forest, Fazenda Nova Vida, City of Ariquemes, State of Rondonia, Brazil
CoordinatesLat. (o)-10.171667Long. (o)-62.7875Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010306Metagenome305Y
F036348Metagenome / Metatranscriptome170Y
F047849Metagenome / Metatranscriptome149N

Sequences

Protein IDFamilyRBSSequence
AF_2010_repII_A1DRAFT_100015731F010306N/AKSVRGNWVIAIWWNEAFGGFQSAGFPVAMVDGPITLPPVNVRPQTSPTDRSDHPPGGATPGGPTEGSDHPPGDLSSAGQPNQNPTVQSINQTRQVRPVNATTLGSPSTRPARILPSQQGAGPLQQGTDTNQTIGVPQVRPALALPLQQGTALNQTVLPLQQGTSANQTIGVPQVRPVLVLPQGTVQTALPLPLRQGTGTNQTIGVGQVRPANAGTSMRAQGVIGRRL*
AF_2010_repII_A1DRAFT_100015733F036348N/AMRAVATLTLLLAVVLPTAAQPLRPALKQAQCPVGYMQSGGYCTPMLRNAPPSTEKRGLVPRSPLIPRKAFPLSPXPPLE*
AF_2010_repII_A1DRAFT_100015738F047849GGAGMTSISAAKRLRTRVETYLAGVFHPFPEERVIAGTIQSFYGWFFPLLRNAVICGALQYFADASGSVTLQILAIIGYIVLAAYXFSYINMWVLTPFHFVKHKRXGSWLDGXVTLAVLLLLGYAIWAGTVFAIDEIAKGHAASRSNAPRNSPGPSPSS*
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