NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0209274_10000070

Scaffold Ga0209274_10000070


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000070 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)98722
Total Scaffold Genes108 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)85 (78.70%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000208Metagenome / Metatranscriptome1593Y
F001010Metagenome / Metatranscriptome807Y
F001533Metagenome / Metatranscriptome676Y
F002004Metagenome / Metatranscriptome605Y
F002094Metagenome / Metatranscriptome594Y
F044615Metagenome / Metatranscriptome154Y
F066447Metagenome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000007015F001010N/AVIGSAAGKWLRFPFLYNTEDMAVRIEIQNTGDPQVRGEIVAILEHVLSDRPGEWRVSIVGSHANDNWEMKVEGPAGFERSYTLVGGAGEHQPAAIGSLVVRLLPTRKP
Ga0209274_1000007016F002004GAGMRKIPNSRHLEEHISRALNKIRKPSTPEEITELLNRDLEPEDEPFQTKEVAERLRNTGDAVLTLYWSRTRPRR
Ga0209274_1000007022F066447GGCGGMADRIACSCVTCPKCGIWVVLRPQNQLAFSKEKSLAICPAAECGKDFEFDANEARAFEVPLPLFERRHFYRSELQESGK
Ga0209274_100000705F000208GAGGMRIRVTTRADLFEKRKQQHIERGYRIEDERPIPVNGFCSFIAVSEIPDSDAVGALIVQALNGMAR
Ga0209274_1000007053F044615GAGVPSRAREGSSTSTAVAEKVRSILASKRLTLYRASQRSVALYGLSSPYFLPHQLYYDLRSGSFRPSIHQIFALSRISGYPVADWLRVFGFDLEDITRLQIEISSKRTIVLDTSLTNPNDWIPWLRNRPLGEPIRSITPLARLLEVGPRKRIASLPQLDRHFIYAKIGVEDALAFPDLTPGSIVRVDPDVTADLAAGQNSGISDRLFLIEHSKGFCCCRIRILDGAVIVPFDNGLSYAQVELHCPQEARLWGAVDLEFRPLLSGEEPKVPKDLARHWKPQLLPAHDDFGQLLKRTRTRMNLSIREAAAMSRMIAEVLKDDRYVTSPSSLSDYELRNLPPRDFHKIITLCSVYGVQFESVMKRMGIDVVEVGTESMPDRYLTRAVPTVATKHSDLETVGAGFVGKLLGQLLEMPLFLRDSLGYFARSAHVSLDDFFWVGGDDDPLHPFLADGLLAMVNRRRKTPFHFASKPWWQQPLYIVLMREGVYLACCCSVENGMLVIHPYSRDFHRSAQYRLHRDAEVVGQIVAIARRFS
Ga0209274_1000007057F002094GAGVQPSAPDAELNSGDRVMGLADFGKPTGEFGTVEKTNEDDALVKWDDDGRTRQHQPSLKKV
Ga0209274_1000007090F001533GGAMFRDKIGRLRVEVTDIQVLNQQFRRDGGNGTGSQLAHGQRSERLQAIQHELVQIADLGRRVVLTEQVKERHSSRLRPVKQKRAA
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.