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 Ga0224906_1000260

Scaffold Ga0224906_1000260


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1000260 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)30882
Total Scaffold Genes45 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)40 (88.89%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020815Metagenome222N
F028349Metagenome / Metatranscriptome192Y
F032993Metagenome / Metatranscriptome178Y
F044198Metagenome155N
F087896Metagenome / Metatranscriptome110N
F094531Metagenome / Metatranscriptome106N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100026011F028349GAGGMKVRTYHKNGKAVQFLGYSDIDASNAAKVVMGEVGDVGYFKPRLGTDEWIYDWIYKKEITDEDLQRVLGR
Ga0224906_100026013F020815AGGAGMRLYMNKQGEWVGTQAEAKKISASMVDVPVDKPNLLKWLNTFTGAIDDAAKEVMQDKPKPGRVTQKAHAWDTIMQCAKNASINDLTMALIVYMDRVQDIADKQKETQQ
Ga0224906_100026014F087896AGGAGMNYKTSQGVELADDGYTKVTQKKSLGYGWEATLYNNDRLVLTQDATGETLSIPPESTQTLRDIFKSINEET
Ga0224906_100026018F032993N/AMSLFTSRSVLERQMKTKKYTESLPNMEEPQLPVSMLQHMEQMGLLPVSHDDDGVNNIDLPWRSNTNYFRRDVLDERGEPLF
Ga0224906_100026023F044198AGGAGMQPKNVPCHIRIKVEPTQQQKGRACRLHGKDFKSIADAARHWNVNYSWAAEQVSKGWNKEGFPQKYRKSYV
Ga0224906_10002604F094531AGGAGGMITKDSIEAYNKQFKQLIGSNILDFKMVQCEFDPHQYWPTFKMRLGDQRYKLVLSQDTEGNGGGFAFIE
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