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 Ga0334980_0001533

Scaffold Ga0334980_0001533


Overview

Basic Information
Taxon OID3300033816 Open in IMG/M
Scaffold IDGa0334980_0001533 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME16Sep2004-rr0005
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10645
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (73.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012455Metagenome / Metatranscriptome280Y
F015434Metagenome / Metatranscriptome254Y
F023275Metagenome / Metatranscriptome210Y
F047494Metagenome149Y
F084217Metagenome / Metatranscriptome112N

Sequences

Protein IDFamilyRBSSequence
Ga0334980_0001533_2753_2926F047494AGGAMNSLKNKVCKHTPNKNAISIVNDERFTFCENCEQNITSHYREDNDFMSYWTSWKVGK
Ga0334980_0001533_3137_3271F012455GGAMFNKIKNKVIRIQELRRSNAATPIPNKKKYSRKIKHKNKLEQTF
Ga0334980_0001533_3637_3744F084217AGGTGGMSDYLNYQDEVYTDLVAEYGEGITLAYREANIKEM
Ga0334980_0001533_675_842F015434GGAGGMESEYPESWSRHTPKGMNVVSETTKSTKCCDTCECGQVEEEKFNKLMETQTSFEE
Ga0334980_0001533_832_984F023275N/AMAFLENLESSMADKDGMPSQKVTDAIKEMLEDPEHHKLMERLKYMEDHGI
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