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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Metagenome / Metatranscriptome Family F103203

Metagenome / Metatranscriptome Family F103203

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Overview Alignments Structure & Topology Gene Neighborhood Phylogeny Ecosystems Sequences
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Overview

Basic Information
Family ID F103203
Family Type Metagenome / Metatranscriptome
Number of Sequences 101
Average Sequence Length 48 residues
Representative Sequence VLSRQCAECATRDGVPGAVSSAATTAAAISEQLAGHLPQDLRPA
Number of Associated Samples 80
Number of Associated Scaffolds 101

Quality Assessment
Transcriptomic Evidence Yes
Most common taxonomic group Bacteria
% of genes with valid RBS motifs 1.98 %
% of genes near scaffold ends (potentially truncated) 94.06 %
% of genes from short scaffolds (< 2000 bps) 93.07 %
Associated GOLD sequencing projects 79
AlphaFold2 3D model prediction Yes
3D model pTM-score0.49

Note: High quality evidence is represented by blue. Low quality evidence is represented by red.
Hidden Markov Model
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Most Common Taxonomy
Group Bacteria (65.347 % of family members)
NCBI Taxonomy ID 2
Taxonomy All Organisms → cellular organisms → Bacteria

Most Common Ecosystem
GOLD Ecosystem Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil
(56.436 % of family members)
Environment Ontology (ENVO) Unclassified
(61.386 % of family members)
Earth Microbiome Project Ontology (EMPO) Unclassified
(51.485 % of family members)



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Multiple Sequence Alignments

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Full Alignment
Alignment of all the sequences in the family.
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IDLabel
.2.4.6.8.10.12.14.16.18.20.22.24.26.28.30.32.34.36.38.40.42.44.46.48.50.52.54.56.58.60.62.64.66.68.70.72.74.76.78.80.82.84.86.
1JGI10216J12902_1036169452
2Ga0066388_1073453952
3Ga0070698_1002049403
4Ga0070684_1000371171
5Ga0066903_1004210923
6Ga0066903_1079480342
7Ga0074059_115022821
8Ga0079221_115046292
9Ga0079219_123060811
10Ga0105249_112385261
11Ga0126374_115391051
12Ga0126380_103470652
13Ga0126380_106079522
14Ga0126384_103640033
15Ga0126382_123548992
16Ga0126372_131839871
17Ga0126377_1000459510
18Ga0126379_107223851
19Ga0126379_131637712
20Ga0126381_1021747931
21Ga0126383_105055941
22Ga0126383_133202231
23Ga0137360_105130603
24Ga0126369_121489011
25Ga0182035_107800311
26Ga0182034_111751812
27Ga0182034_120823152
28Ga0187812_10989361
29Ga0187785_102752702
30Ga0187817_109570681
31Ga0210407_112427801
32Ga0210400_113032821
33Ga0210387_106193792
34Ga0210410_106902883
35Ga0210409_103314321
36Ga0126371_139274951
37Ga0207663_100532681
38Ga0207702_107373041
39Ga0209177_104506061
40Ga0307504_101709681
41Ga0222749_105029762
42Ga0318516_101433373
43Ga0318516_107995412
44Ga0318516_108421141
45Ga0318534_100408882
46Ga0318538_105971731
47Ga0318515_105572442
48Ga0318515_106053011
49Ga0318515_106377551
50Ga0310915_100999491
51Ga0310915_112297901
52Ga0318555_104021701
53Ga0318555_105565542
54Ga0318542_107728553
55Ga0318496_106551161
56Ga0306917_111644012
57Ga0318493_104184281
58Ga0318501_102936491
59Ga0306918_110931761
60Ga0318492_107073582
61Ga0318494_107393471
62Ga0318537_102876981
63Ga0318554_100797731
64Ga0318554_107991071
65Ga0318526_100670683
66Ga0318543_101938152
67Ga0318566_101312941
68Ga0318508_11533331
69Ga0318547_109839342
70Ga0318552_100645563
71Ga0318568_100920373
72Ga0318568_104506641
73Ga0318567_103167392
74Ga0318517_104564471
75Ga0318517_104946381
76Ga0306925_120111491
77Ga0306921_127213952
78Ga0310909_107923071
79Ga0310909_115596771
80Ga0306926_109506903
81Ga0306926_115744131
82Ga0318530_101466493
83Ga0306922_122710782
84Ga0318562_108950892
85Ga0318563_103324482
86Ga0310911_105699362
87Ga0318570_101061811
88Ga0318533_109229901
89Ga0318533_110891932
90Ga0318504_104616181
91Ga0318513_102155422
92Ga0318514_100463363
93Ga0318514_103340411
94Ga0318524_103066612
95Ga0318524_107187152
96Ga0306924_100312105
97Ga0307472_1003440263
98Ga0310914_103218922
99Ga0318519_105944971
100Ga0318519_106392622
101Ga0318519_108990291
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Structure & Topology

Predicted Secondary Structure and Topology

Predicted Topology & Secondary Structure
Classification: Fibrous Signal Peptide: No Secondary Structure distribution: α-helix: 48.61%    β-sheet: 0.00%    Coil/Unstructured: 51.39%
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Variant

510152025303540VLSRQCAECATRDGVPGAVSSAATTAAAISEQLAGHLPQDLRPASequenceα-helicesβ-strandsCoilSS Conf. score
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Predicted 3D Structure

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Per-residue confidence (pLDDT):
  0-50   51-70   71-90   91-100  
pTM-score: 0.49
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Low Quality Model:

This family has a low confidence model (pTM < 0.7) and has not been screened against SCOPe or PDB.


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Gene Neighborhood

Neighboring Pfam domains


Neighboring Clusters of Orthologous Genes (COGs)



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Phylogeny

NCBI Taxonomy

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All Organisms
Unclassified
65.3%34.7%
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Associated Scaffolds





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Environmental Properties

Associated Habitat Types

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Freshwater Sediment
Soil
Soil
Vadose Zone Soil
Tropical Forest Soil
Agricultural Soil
Soil
Soil
Soil
Hardwood Forest Soil
Tropical Peatland
Tropical Forest Soil
Corn, Switchgrass And Miscanthus Rhizosphere
Corn Rhizosphere
Corn Rhizosphere
Switchgrass Rhizosphere
13.9%3.0%56.4%10.9%3.0%
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Associated Samples


Geographical Distribution
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Family Sequences

Protein ID Sample Taxon ID Habitat Sequence
JGI10216J12902_10361694523300000956SoilMRPRGGVPEAVSLAAKTAATISEQLAGHLPQDLRPA*
Ga0066388_10734539523300005332Tropical Forest SoilPAFQMYYQMGNFAPWRGAAWVLLSERTAILSRQCAETATHAGVPDAVSSAAAAAAKISQQIAGYVPDNLRPA*
Ga0070698_10020494033300005471Corn, Switchgrass And Miscanthus RhizosphereATVLSRRYAECATRDGVPEAVSSAATTAAAISEQLAGHLLQDLRPA*
Ga0070684_10003711713300005535Corn RhizosphereTALLSRQCAECAMRDGAPEAVSAAATTAAKISEQLAGHLPQDLRPA*
Ga0066903_10042109233300005764Tropical Forest SoilCATHDGVPEAVGSAAAAAAGIAEQLAGHVPQDLRPA*
Ga0066903_10794803423300005764Tropical Forest SoilSRQCAQCATQDGVPEVVRPAAEAAAKISEQLAGHLPQELRPA*
Ga0074059_1150228213300006578SoilDEELRTVAKRVWVPPSERATVLSRRYAECATRDGVPEAVSSAATTAAAISEQLAGHLPQDLRPA*
Ga0079221_1150462923300006804Agricultural SoilLLSERATVLSRQCAECAARDGVPWAVSSAATAAATISEQLAGHLPQDLQPA*
Ga0079219_1230608113300006954Agricultural SoilVLSRQCAECAARNGVPEAVSSAATTAATVSEQLAGHLPQDLRPAKDKLVTDPAS*
Ga0105249_1123852613300009553Switchgrass RhizosphereLLSERTALLSRQCAECAMRDGAPEAVSAAATTAAKISEQLAGHLPQDLRPA*
Ga0126374_1153910513300009792Tropical Forest SoilLLTERAAVLSRQCAECATRDGIPEGVSSAAMTAAAISEQLATHVPQDLRPA*
Ga0126380_1034706523300010043Tropical Forest SoilVLSRQCAACATRDGVTEAVGSAAAAAAGISDELAKHIRKDLRSA*
Ga0126380_1060795223300010043Tropical Forest SoilRQCAECAMHDGVPEAVSSAATAAAAISEQLAGHVPHELRPA*
Ga0126384_1036400333300010046Tropical Forest SoilAAVLSRQCAECATRDGVPEAVSSAATTAAAISEQLAGPLPQDLRPA*
Ga0126382_1235489923300010047Tropical Forest SoilPWRNAAWVLLSERAGVLSRQCAECAAQDGIPEGVSSAATTAAAISAQLAGHVPQHLRPA*
Ga0126372_1318398713300010360Tropical Forest SoilAGCATRDGAPQAVGSAAAAAEGIAEQLAGHLPQGLRPA*
Ga0126377_10004595103300010362Tropical Forest SoilCERAAVLSRQCAGCAMRDGVPEVVSSAAVTAAAISEQLARHVPHGLRPG*
Ga0126379_1072238513300010366Tropical Forest SoilRQCAQCAAQAGVPEAVGLAATTAATISEQLAGHLPQDLRPA*
Ga0126379_1316377123300010366Tropical Forest SoilSERAAVLSRQLAECATQDGVPEGVSSAATTAAAISAQLAAHVPQDLRPV*
Ga0126381_10217479313300010376Tropical Forest SoilERAAVLSRQCAEFATQDGIPDGVSSAATTAAAISAQLAGHVPQDLRPA*
Ga0126383_1050559413300010398Tropical Forest SoilLSRQCAECATRDGVPEAVSSAATTAATISDQLAAHLPQDLRPA*
Ga0126383_1332022313300010398Tropical Forest SoilECATRDGVPEAVSSAATTAATISEQLAGHLPQDLRPA*
Ga0137360_1051306033300012361Vadose Zone SoilMRDGVPEAVSSAATTAATISEQLAGHLPEDLRPA*
Ga0126369_1214890113300012971Tropical Forest SoilERATVLSRQCAECATWDGVPVAVSSAATTAATISEQLAAHLPPDLRPA*
Ga0182035_1078003113300016341SoilRVLLVERAAVLSRRCVDCAARDGVPETVGSAAAAAEGIAEQLAGHVPQELRPA
Ga0182034_1117518123300016371SoilQCAECATQDGIPEGVSSAATTAAAISAQLAGHLPQDLRPA
Ga0182034_1208231523300016371SoilLSRQLAECAARDGVPEAVSSAATAAAAISEQLAGHLPQDLRPA
Ga0187812_109893613300017821Freshwater SedimentMGNFVPWRKATWMLLSERAAMLSRQCAQTAGHDEVPAAVSAAATTASAISEQLAGHLPQDLRPV
Ga0187785_1027527023300017947Tropical PeatlandAVLSRQCAGCAMRDGVPEAVSSAAVTAAAISEQLAGHVPHGLRPA
Ga0187817_1095706813300017955Freshwater SedimentNFVPWRKAAWVLLSERAAMLSRQCAQTAGHDEVPAAVSAAATTASAISEQLAGHLPQDLRPV
Ga0210407_1124278013300020579SoilRQCAEFATRDGVPEAVSSAATTAAAISEQLAAHLPQDLRPA
Ga0210400_1130328213300021170SoilRYAECATRDGVPEAVSSAATTAAAISEQLAGHLLQDLRPA
Ga0210387_1061937923300021405SoilVPPSERATVLSRRYAECATRDGVPEAVSSAATTAAAISEQLAGHLLQDLRPA
Ga0210410_1069028833300021479SoilVLLSERAAVLSRQCAEFATRDGVPEAVSSAATTAAAISEQLAAHLPQDMRP
Ga0210409_1033143213300021559SoilSRRCADCATRDGVPEAVSSAATTAAAISEQLAGHLPQDLRPA
Ga0126371_1392749513300021560Tropical Forest SoilVLSRQCAECATRDGVPGAVSSAATTAAAISEQLAGHLPQDLRPA
Ga0207663_1005326813300025916Corn, Switchgrass And Miscanthus RhizosphereVLSRRCAECATQDGVPEAVSSAAGAAAAISERLAGHVPHELRPA
Ga0207702_1073730413300026078Corn RhizosphereSRRCAECATEDGVPEAVSSAAGAAAAISERLAGHVPHELRPA
Ga0209177_1045060613300027775Agricultural SoilATVLSRQCAECAARNGVPEAVSSAATTAATVSEQLAGHLPQDLRPAKDKLVTDPAS
Ga0307504_1017096813300028792SoilCAECATRDGVPEAVGSAATTAAAISEQLAGHLPQDLRPA
Ga0222749_1050297623300029636SoilVLLSERAAVLSRQCAEFATRDGVPEAVSSAATTAAAISEQLAGHLLQDLRPA
Ga0318516_1014333733300031543SoilPTVLSRQCAECAMRDGLPEAVSSAATTAATISEQLAGHLPQDLRPAAS
Ga0318516_1079954123300031543SoilVLLSERAAVLSRQCAECATRDGVPEAVSSAATTAAAISEQLAAHVPQDLRPA
Ga0318516_1084211413300031543SoilELSRQCAECAMQDGVPEGVSSAATAAAAISEQLAGHVPQDLRPA
Ga0318534_1004088823300031544SoilVLLSEWPTVLSRQCAECAMRDGLPEAVSSAATTAATISEQLAGHLPQDLRPAAS
Ga0318538_1059717313300031546SoilPWRNAAWVLLCERAAVLARRCVECATRDGVPETVGSAAAAAEGIAEQLAGHVPQELRPA
Ga0318515_1055724423300031572SoilNAAWVLLSERAAVLSRQCAECATQDGIPEGVSSAATTAAAISAQLAGHLPQDLRPA
Ga0318515_1060530113300031572SoilQCAETGTHDGVPVAVSSAATTAAAISAQLAGHVPQDLRPA
Ga0318515_1063775513300031572SoilVPWRNAAWVLLSERATVLSRQCAECAARDDIPEAVSSAAASAARISEQLAAHVPQDLRPA
Ga0310915_1009994913300031573SoilCVTQDDTPEEVSSAATTAAAIAEQIAGHVPQHLRPA
Ga0310915_1122979013300031573SoilQLAECAARDGVPEAVSSAATAAAAISEQLAGHLPQDLRPA
Ga0318555_1040217013300031640SoilSRQCAECATRDGVPEAVSSAATTAAAISEQLAAHVPQDLRPA
Ga0318555_1055655423300031640SoilSVRITGVMWTREAAECVTRDGVPEAVISAAATAAAISEQLAGYLPQDLRSA
Ga0318542_1077285533300031668SoilAVLSRQCAECATGDGVPEAVSSAATTAATISEQLAGHLPQDLRPA
Ga0318496_1065511613300031713SoilPWRNAAWVLLSERAAVLSRQCADCARRDGVPTTVSSAAAAAARISEQLAGYVPQELRPA
Ga0306917_1116440123300031719SoilARRSAAWVLLSEWPTVLSRQCAECAMRDGLPEAVSSAATTAATISEQLAGHLPQDLRPAA
Ga0318493_1041842813300031723SoilAVLSRQCAECAMQDGVPEGVSSAATAAAAISEQLAGHVPQDLRPA
Ga0318501_1029364913300031736SoilFVPWRKAAWVLLSERAAVLSRQCAECATQDGIPEGVSSAATAAAAISEQLAGYVPQNLRP
Ga0306918_1109317613300031744SoilAWVLLSERAAVLSRQCAECATRDGVPDAVSSAAATAAKISEQLAGHLPQDLRPA
Ga0318492_1070735823300031748SoilAILSRQCAECATRDGVPEAVSSAAAAAAAISEQLAGYVPDNLRPA
Ga0318494_1073934713300031751SoilLLSERATVLSRQCAECAARDDIPEAVSSAATTSATISEQLAAHVPQDLRPA
Ga0318537_1028769813300031763SoilPWRNAAWVLLSERATVLSRQCAQCAAQAGVPEAVSSAATTAATISEQLAGHLPQDLRPA
Ga0318554_1007977313300031765SoilATGDGVPEAVSSAATTAATISEQLAGHLPQDLRPA
Ga0318554_1079910713300031765SoilLLAERAAVLSRQCAECATRDGVPEGVSSAATTATAISEQLAGHLPQNLRPA
Ga0318526_1006706833300031769SoilSRQCAECVTQDDTPEEVSSAATTAAAIAEQIAGHVPQHLRPA
Ga0318543_1019381523300031777SoilATVLSRQCAQCAAQAGVPEAVSSAATTAATISEQLAGHLPQDLRPA
Ga0318566_1013129413300031779SoilAVLSRQCAECVTQDGTPEEVSSAATTAAAIAEQIAGHVPQHLRPA
Ga0318508_115333313300031780SoilCATRDGVPGAVSSAATTAATISAQLAGHLPQDLRPA
Ga0318547_1098393423300031781SoilVLLSERAAVLSRQCAECAMQDGVPEGVSSAATAAAAISEQLAGHVPQDLRPA
Ga0318552_1006455633300031782SoilQMGNFAPWRDAAWVLLSERTAMLSRQCAEATKREGVPAAVSDAAAAAAGISQQLAGYVPPDLRPA
Ga0318568_1009203733300031819SoilAAWVLLSERAAVLSRQCAECVTQDGTPEEVSSAATTAAAIAEQIAGHVPQHLRPA
Ga0318568_1045066413300031819SoilVPWRNAAWVLLSERAAVLSRQCAECATRDGVPDAVSSAAATAAKISEQLAGHLPQDLRPA
Ga0318567_1031673923300031821SoilSERAAVLSRQCAECATRDGVPEAVSSASATAAAISEQLAGHLPQDLRPA
Ga0318517_1045644713300031835SoilCAECATQDGIPEGVSSAATTAAAISAQLAGHLPQDLRPA
Ga0318517_1049463813300031835SoilGPRRLARRSAAWVLLSEWPTVLSRQCAECAMRDGLPEAVSSAATTAATISEQLAGHLPQDLRPAAS
Ga0306925_1201114913300031890SoilATVLSRQCAECAARDDIPEAVSSAATTSATISEQLAAHVPQDLRPA
Ga0306921_1272139523300031912SoilFVPWRNAAWVLLAERAAVLSRQCAECATRDGVPEGVSSAATTATAISEQLAGHLPQNLRP
Ga0310909_1079230713300031947SoilVLAHQCAVCATHDGVPASVGSAAAAAAGIAEQLAGHVP
Ga0310909_1155967713300031947SoilERAAVLARQCAECAMQDGVPEEVSAAATTAAAISEQFAGHVPQDLRPA
Ga0306926_1095069033300031954SoilCAHCATRDGVPEAVSSAATTAAAISEQLAGHLPQDLRPA
Ga0306926_1157441313300031954SoilECAARDDIPEAVSSAAASATISEQLAGHLPQDLRPA
Ga0318530_1014664933300031959SoilAVLSRQCAECVTQDDTPEEVSSAATTAAAIAEQIAGHVPQHLRPA
Ga0306922_1227107823300032001SoilMWTREAAECATRDGVPEAVISAAATAAAISEQLAGYLPQD
Ga0318562_1089508923300032008SoilAWVLLSERATVLSRQCAECAARDDIPEAVSSAAASARISEQLAGHLPQDLRPA
Ga0318563_1033244823300032009SoilCADCATQAGVPEAVSSAATTAATIAEQLAGHLPQDLRPV
Ga0310911_1056993623300032035SoilVLLTERAAVLSRQCAECATRDGAPQAVSSAATTAATISEQLAGHLPQDLRPAAS
Ga0318570_1010618113300032054SoilVLLSERATVLSRQCADCARRDGVPTTVSSAAAAAARISEQLAGYVPQELRPA
Ga0318533_1092299013300032059SoilPWRNAAWVLLSERAAVLSRQCAECATRDGVPEAVSSASATAAAISEQLAGHLPQDLRPA
Ga0318533_1108919323300032059SoilLLSERATVLSRQCAQCAAQAGVPEAVSSAATTAATISEQLAGHLPQDLRPA
Ga0318504_1046161813300032063SoilVLSRQCAECATRDGVPDAVSSAAATAAKISEQLAGHLPQDLRPA
Ga0318513_1021554223300032065SoilAECAARDGVPEAVSSAATAAAAISEQLAGHLPQDLRPA
Ga0318514_1004633633300032066SoilVLLSERATVLSRQCAQCAAQAGVPEAVSSAATTAATISEQLAGHLPQDLRPA
Ga0318514_1033404113300032066SoilCADCATQAGVPEAVSSAATTAATIAEQFAGHLPQDLRPA
Ga0318524_1030666123300032067SoilLLSERAAVLSRQCAETGTHDGVPVAVSSAATTAAAISAQLAGHVPQDLRPA
Ga0318524_1071871523300032067SoilCAECATRDGVPEAVSSAAATAATISEQLAGHLPQDLRPA
Ga0306924_1003121053300032076SoilRQCAECVTQDDTPEEVSSAATTAAAIAEQIAGHVPQHLRPA
Ga0307472_10034402633300032205Hardwood Forest SoilNAAWVLRSERATALSQQCAECATRDGVPEAVSSAATAAATISEQLAGHLPQDLRPAQDKLVTDPAS
Ga0310914_1032189223300033289SoilCAARDGVPEAVSSAATAAAAISEQLAGHLPQDLRPA
Ga0318519_1059449713300033290SoilAECAMQDGVPEGVSSAATAAAAISEQLAGHVPQDLRPA
Ga0318519_1063926223300033290SoilSERAAMLSRQCADCAARDGVSEGVSSAATTAAAISDQLAGHLPQDLRPA
Ga0318519_1089902913300033290SoilSRQCANTATNDGIPAAISSAAATAAAIAEQLAGHVPQDLRPA


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