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 Ga0222718_10039629

Scaffold Ga0222718_10039629


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10039629 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3074
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006971Metagenome / Metatranscriptome361Y
F028777Metagenome / Metatranscriptome190Y
F035554Metagenome / Metatranscriptome172N
F039398Metagenome / Metatranscriptome164N
F058532Metagenome135N
F072865Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_100396292F006971GGAMMYQGIEYKKNQKIKFVIPTDNRIIDPQTKRILWKYGTIQFFAKNTKAAWILENGTKETVKISLFCILPVH
Ga0222718_100396293F039398GAGGMEYAADDINIGYMTCLMFINSEHTLVDKLNNITEIQPIDHQGGVSFDLVLKSLPTYVEITMNHNGNFDIYTKTLKGETEFKDEVVETLINFLHIFYVNMVDDENKLLLNALDTTTYRKIAKRMHYRENFGNDVSGD
Ga0222718_100396294F058532N/AMMDGTIGIVPNIVGVDMTLNQNGRRQIVQDEYDLFDNKARTSWDFICNYMNWEIVKNKEDYFEDYVCKIKGIYYPMELQVAAYWHNHSLEKLSNFYISKSKIDLLRGYVDQYINVEAGCVFMNCVPNKFATINIKDIKDDYLQQNDKGELYYKIPINQNVNYFTSGLIDGKCDCLENHLEIMQRSKGRMRHLEKDYNIRGFNGICCR
Ga0222718_100396297F072865N/AMKKIIVKYIGVKNYTVNYDVTQQEIHDMFQTDLSTVPVAFAKNIVPIAYAEEE
Ga0222718_100396298F028777AGGGGGMLGLFGRSKPLSTVEVLSLEKDISEARKIRYILEVENFICSLDPEFSASGNLRKAVYRLNNVYNSGIYKEECHCDFKQKAKLNLDGTPRKHYAYKKDWAV
Ga0222718_100396299F035554N/ATGQGSKYSTEDHWLEKAEQKSRGRCLRVLLGSEPTAEEMEGIVPSKAATPKKKSLDEKVKDLEAEGLVEDISMKAQAVMDNIKEFAMEITNQDLDLARNYTAQALGSMGMSKTEVSINNLQSVKNKIQDIATMARSEIDKGE
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