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 F086136

Metagenome / Metatranscriptome Family F086136

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Overview Alignments Structure & Topology Gene Neighborhood Phylogeny Ecosystems Sequences
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Overview

Basic Information
Family ID F086136
Family Type Metagenome / Metatranscriptome
Number of Sequences 111
Average Sequence Length 39 residues
Representative Sequence MDRRRFLLTSLAGALAAPRAAEAQQAGKVARIGYLL
Number of Associated Samples 84
Number of Associated Scaffolds 111

Quality Assessment
Transcriptomic Evidence Yes
Most common taxonomic group Bacteria
% of genes with valid RBS motifs 52.56 %
% of genes near scaffold ends (potentially truncated) 61.26 %
% of genes from short scaffolds (< 2000 bps) 63.06 %
Associated GOLD sequencing projects 81
AlphaFold2 3D model prediction Yes
3D model pTM-score0.34

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 (54.054 % of family members)
NCBI Taxonomy ID 2
Taxonomy All Organisms → cellular organisms → Bacteria

Most Common Ecosystem
GOLD Ecosystem Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere
(16.216 % of family members)
Environment Ontology (ENVO) Unclassified
(25.225 % of family members)
Earth Microbiome Project Ontology (EMPO) Host-associated → Plant → Plant rhizosphere
(37.838 % 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
1FACENCA_1649370
2GPICC_02637900
3JGI1027J12803_1025873462
4JGI1027J12803_1064791872
5JGI10216J12902_1069681343
6Ga0062590_1026022282
7Ga0062594_1019918152
8Ga0073909_100474142
9Ga0070695_1008859861
10Ga0068857_1011915072
11Ga0066903_1056280801
12Ga0082029_14891612
13Ga0075421_1001392237
14Ga0075431_1017288191
15Ga0075433_105169741
16Ga0075433_107286692
17Ga0111539_100549431
18Ga0111539_116417643
19Ga0075418_101453761
20Ga0075418_106356542
21Ga0075418_118334891
22Ga0114129_102098344
23Ga0114129_102257255
24Ga0114129_106931321
25Ga0114129_126078801
26Ga0114129_126889952
27Ga0114129_130313702
28Ga0105243_100708861
29Ga0111538_122909901
30Ga0105092_101120581
31Ga0105092_103809032
32Ga0105092_108102371
33Ga0105104_108595211
34Ga0105241_105223201
35Ga0105241_113159611
36Ga0126374_104493053
37Ga0126380_100695262
38Ga0126380_101645391
39Ga0126380_114392311
40Ga0126382_103891683
41Ga0126382_121584391
42Ga0126376_129497021
43Ga0126372_101428591
44Ga0126377_106089732
45Ga0126377_112203621
46Ga0126377_124573891
47Ga0134128_124043831
48Ga0134124_112608761
49Ga0134122_100239513
50Ga0134123_109490072
51Ga0137375_103515334
52Ga0137390_101214372
53Ga0157332_10572761
54Ga0137394_109245571
55Ga0126375_107210311
56Ga0126369_126564712
57Ga0157373_104423372
58Ga0157373_111218801
59Ga0157378_121767221
60Ga0163162_101276921
61Ga0163163_108013901
62Ga0132258_135333813
63Ga0132255_1018023952
64Ga0163161_106949811
65Ga0184610_10542953
66Ga0184610_11798182
67Ga0184634_102566631
68Ga0184638_12232911
69Ga0184626_103577652
70Ga0184621_102700131
71Ga0184632_102463772
72Ga0190274_128478752
73Ga0184644_15449472
74Ga0193739_11456092
75Ga0210377_104471251
76Ga0224452_10483591
77Ga0207688_100953641
78Ga0207684_114421272
79Ga0207654_109501532
80Ga0207681_100871393
81Ga0207668_103210893
82Ga0208534_10048452
83Ga0207678_108883331
84Ga0209684_10166981
85Ga0209481_104048032
86Ga0209486_101760592
87Ga0209382_113434921
88Ga0247818_111909632
89Ga0247822_105056161
90Ga0247822_111835422
91Ga0247822_117230841
92Ga0299907_100700884
93Ga0299907_102904731
94Ga0268386_104376242
95Ga0308194_103584111
96Ga0310886_107257202
97Ga0310886_107744942
98Ga0310813_101985211
99Ga0307469_111499201
100Ga0307468_1003230161
101Ga0310900_114721941
102Ga0310899_103557671
103Ga0310895_103101571
104Ga0307470_102986521
105Ga0307470_110781912
106Ga0307471_1019823153
107Ga0316626_112938562
108Ga0247829_103817554
109Ga0247829_106579241
110Ga0247830_102316774
111Ga0247830_110588672
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Structure & Topology

Predicted Secondary Structure and Topology

Predicted Topology & Secondary Structure
Classification: Globular Signal Peptide: Yes Secondary Structure distribution: α-helix: 40.62%    β-sheet: 0.00%    Coil/Unstructured: 59.38%
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5101520253035MDRRRFLLTSLAGALAAPRAAEAQQAGKVARIGYLLSequenceα-helicesβ-strandsCoilSS Conf. scoreSignal Peptide
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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: 0.34
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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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Visualization
All Organisms
Unclassified
54.1%45.9%
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Associated Scaffolds





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Environmental Properties

Associated Habitat Types

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Freshwater Sediment
Groundwater Sediment
Groundwater Sediment
Groundwater Sediment
Soil
Soil
Vadose Zone Soil
Terrestrial Soil
Tropical Forest Soil
Surface Soil
Termite Nest
Soil
Agricultural Soil
Soil
Hardwood Forest Soil
Soil
Soil
Natural And Restored Wetlands
Tropical Forest Soil
Corn, Switchgrass And Miscanthus Rhizosphere
Arabidopsis Rhizosphere
Corn Rhizosphere
Corn, Switchgrass And Miscanthus Rhizosphere
Switchgrass Rhizosphere
Switchgrass Rhizosphere
Populus Rhizosphere
Miscanthus Rhizosphere
Corn Rhizosphere
Corn Rhizosphere
Miscanthus Rhizosphere
Switchgrass Rhizosphere
Corn Rhizosphere
3.6%6.3%7.2%3.6%11.7%3.6%4.5%11.7%16.2%
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Associated Samples


Geographical Distribution
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Family Sequences

Protein ID Sample Taxon ID Habitat Sequence
FACENCA_16493702035918004SoilMHRRRFLLTSLAGAVAGPLAVEAQQAGKVARIGYLLGAARE
GPICC_026379002067725002SoilVIDRRRFLLTSVAAALGPPGAIGAQPAEKVYRVGL
JGI1027J12803_10258734623300000955SoilMDRRRFLLTSLAGALAAPLIADAQPAGKVRIIGFLGP
JGI1027J12803_10647918723300000955SoilVIDRRRFLLTSLAGALAAPLAAEAQQAGKVYRVGYLGNF
JGI10216J12902_10696813433300000956SoilMDRRRFLLTSLAGALVAPLAVGAQPSSKVWRIGILALVETRS*
Ga0062590_10260222823300004157SoilMPRHPGMDRRRFLLTSLAGAVAGPLAAGAQQAGKVPRIGF
Ga0062594_10199181523300005093SoilVIDRRRFLVTSVAGVLAAPLGAAAQQAGRVWRVGTLHTSSAKDE
Ga0073909_1004741423300005526Surface SoilMPHRPGMDRRRFLLTSLAGALAAPLAVDAQPAAKVVPRVGF
Ga0070695_10088598613300005545Corn, Switchgrass And Miscanthus RhizosphereMPRHPGMDRRRFLLTSLAGAVAGPLAAGAQQAGKVPRIGFLS
Ga0068857_10119150723300005577Corn RhizosphereMNRRRFLLTSLAGAITPRASGAQQPGKIWRIGYLSLVSGE
Ga0066903_10562808013300005764Tropical Forest SoilVIDRRRFLLTSLAGTLAMPLTGESQQAERVYRVGLVSLGGD
Ga0082029_148916123300006169Termite NestVDRRRFLRTSLAGALAAPLAAEAQQAGKIARVGVLAG
Ga0075421_10013922373300006845Populus RhizosphereMDRRRFLLTSLAGALAAPFGVGAQQAERVYRVGLVSLGGDP
Ga0075431_10172881913300006847Populus RhizosphereMDRRRFLLTSMAGAVAAPRAAEAQQAAKITRMGYLLRDNDNPAAL
Ga0075433_1051697413300006852Populus RhizosphereVDRRHFFLTSLAGALAAPIAVDAQQTPRPPRVGIVMPTPP
Ga0075433_1072866923300006852Populus RhizosphereMIDRRRFLLTSLTSALAVPVAAGAQQAGKVYRVG*
Ga0111539_1005494313300009094Populus RhizosphereMDRRRFLLTSLAGALAAPLAAEALRTGTVPRIGVLTLSVG
Ga0111539_1164176433300009094Populus RhizosphereMDRRRFLLTSLVGALAAPLAAEAQPVDRIYRIGVLGVMPTPRL
Ga0075418_1014537613300009100Populus RhizosphereMIDRRRFLLTSLAGAVAGPLAAGAQAAEKVWRIGLLVPGQPP
Ga0075418_1063565423300009100Populus RhizosphereMGGPGDSPHYPGMDRRRFLLTSLAGAVATPRAAEAQHADRNARIGYLSL
Ga0075418_1183348913300009100Populus RhizosphereMDRRRFLLTSLAGALIMPLGAEGQPGRVYRIGVTVATDIYY
Ga0114129_1020983443300009147Populus RhizosphereMIDRRRFLVTSLAGALTVPLAAGAQQAGKLWRIGFLAGTTVPEFVE
Ga0114129_1022572553300009147Populus RhizosphereVDRRRFLRILLAGAVAAPLAVEAQGADKVAKIGLLT
Ga0114129_1069313213300009147Populus RhizosphereVDRRRFLLTSLAGALPAPLAAGAQQAGKVWRIGFLAGTTVPE
Ga0114129_1260788013300009147Populus RhizosphereMNRRHFLLASLAGALAAPLAAEAQQAGKVYRLGFLAHSEPKTP
Ga0114129_1268899523300009147Populus RhizosphereVDRRRFLLTSLAGVFAAPLAAEAQAAAKVPLIGFVVAGSR
Ga0114129_1303137023300009147Populus RhizosphereMDRRRFFLTSLAWSIAAPLAAEAQEPLRVPRIGMLNVFGPEH
Ga0105243_1007088613300009148Miscanthus RhizosphereVDRRRFLLTSLAWTLAAPFAAAAQHEGKMARVGFLAGARREM
Ga0111538_1229099013300009156Populus RhizosphereMDRRRFLLTSLAGALAAPLAAEAQHPGKIYRIGIL*
Ga0105092_1011205813300009157Freshwater SedimentVIDRRRFLLTSLAGALAAPIVADAQQAGKVYRIGWLPPARHPDPSEPA
Ga0105092_1038090323300009157Freshwater SedimentMDRRRFLPTSLAGALAAPLAAEAQQAGKMVRLGVISA
Ga0105092_1081023713300009157Freshwater SedimentMDRRRFVLTSLGGLLAAPLATAAQQAAKPARIALVCG
Ga0105104_1085952113300009168Freshwater SedimentMDRRRFLLTSLAGALAGPVVAEAQEPGKVYRVGRLSLSDVDSTSIEA
Ga0105241_1052232013300009174Corn RhizosphereVDRRRFLLTSLAGALAAPCFATAQQVGVMYRIGFLPF
Ga0105241_1131596113300009174Corn RhizosphereMPRHPGMDRRRFLLTSLAGAVAGPLAAGAQQAGKVPRI
Ga0126374_1044930533300009792Tropical Forest SoilMERRRFLLTSLAGAVAGPLAARAQQAEKVARPTATF*
Ga0126380_1006952623300010043Tropical Forest SoilMDRRRFLLTSLAGVLAAPLAAGAQPPGKVYRVGFPS*
Ga0126380_1016453913300010043Tropical Forest SoilMDRRRFLLTSLAGALAAPLGAGAQQVARPWRLGYLSA
Ga0126380_1143923113300010043Tropical Forest SoilMDRRRFLLTSLAGAFAGPFAAEAQVAALPRIAVVFSTSP
Ga0126382_1038916833300010047Tropical Forest SoilMDRRRFLLTSLAGAFAAPLAAGAQEARKVYRIGWLAP
Ga0126382_1215843913300010047Tropical Forest SoilMDRRRFLLTSLAGTLAAPLGVGAQQTGKVLMVGTPTT
Ga0126376_1294970213300010359Tropical Forest SoilMDRRRFLLTSLAGALAAPLGAEAQQGAKVRRIGVLSPGPPF
Ga0126372_1014285913300010360Tropical Forest SoilMDRRRFLVTSLAGAVAGPLAARAQQAEKVARPTATF*
Ga0126377_1060897323300010362Tropical Forest SoilMIDRRRFLLTSLAGALVGPLAAGAQQSPKVPRIGYLSAARAE
Ga0126377_1122036213300010362Tropical Forest SoilVDRRRFLLISLTGAVTGPLAAGAQQALKTYRVGFLALAP
Ga0126377_1245738913300010362Tropical Forest SoilMDRRRFLLTSLAGALPTPLTAGAQQAGKVYRIGLIAAAPTAT
Ga0134128_1240438313300010373Terrestrial SoilMDRRRFLLTSLAGAVAAPLAAEGQGTGKVPRIGYVFVTSASDSQSVLD
Ga0134124_1126087613300010397Terrestrial SoilMDRRRFLLTLLAGAFAAPLAAGAQQAREVPRVGFLFYGSA
Ga0134122_1002395133300010400Terrestrial SoilMDRRRFLLTSLAGALAAPLASEVHAQQPSKIHRIGCLN*
Ga0134123_1094900723300010403Terrestrial SoilVIDRRRFLLTALVTLAGPHAAEAQHAGKMYRVGFLW
Ga0137375_1035153343300012360Vadose Zone SoilMHRRRFLLTSLAGALAGPLAAEAQQAGRVYRIGVLLQGSVAL
Ga0137390_1012143723300012363Vadose Zone SoilMDRRRFLLTSLAGAVAAPLAADTRRLGERARIIVR*
Ga0157332_105727613300012511SoilVDRRRFLLTSLAGALATPLAVKAQQTGKVPKIGWLSDGVRV
Ga0137394_1092455713300012922Vadose Zone SoilVDRRRFLLTSLAGALAGPLAGQAEQAAKVARVGFLTADM
Ga0126375_1072103113300012948Tropical Forest SoilMDRRRFLLTSLAGALPVPLAAEAQQAKNIYVIGILSMAGGPSP
Ga0126369_1265647123300012971Tropical Forest SoilMDRRRFLLTSLAGALATPLAAWAQPTGKVWHIGYLGLGAR
Ga0157373_1044233723300013100Corn RhizosphereMDRRRFLLTSLAGAVAMPFAAGCQQAGKVARIGVLG
Ga0157373_1112188013300013100Corn RhizosphereMMDRRRFMLTSVAGALAAPLAAEAQQARRIYRVGVLEVRAV
Ga0157378_1217672213300013297Miscanthus RhizosphereMDRRRFLLTSLAGAVAGPLAAGAQQAGKLPRIGFLSL
Ga0163162_1012769213300013306Switchgrass RhizosphereMDRRRFLLTSLAGALAMPRASEAQQPGRMYRIGVL
Ga0163163_1080139013300014325Switchgrass RhizosphereVDRRRFLLTSLAGAIAGPLVVEAQQAGKVHQIGFLPAG
Ga0132258_1353338133300015371Arabidopsis RhizosphereMDRRRFLLTSLAGALAGPRAAEAQQTAKIWRIGTLHTSPEKDE
Ga0132255_10180239523300015374Arabidopsis RhizosphereMDRRRFLLTSLAGALAAPLTAEAQHADRVRRIGFLGQ
Ga0163161_1069498113300017792Switchgrass RhizosphereMMDRRRFLLTSLVGSLLGAPLAAEAQQARKIPTVGFLVSQ
Ga0184610_105429533300017997Groundwater SedimentVERRRFLLTSLAGALAAPLAAEGQQTAKVARIGYLGPTLAAN
Ga0184610_117981823300017997Groundwater SedimentMDRRRFLLTSLAGPVGAPLAAGAQPAGKVYRVGFV
Ga0184634_1025666313300018031Groundwater SedimentVDRRSFLLTSLAGALAAPFSAEAQPAGKVPRVGVLC
Ga0184638_122329113300018052Groundwater SedimentMDRRRFLLTSLAGAIAAPLAAEAQARKVARIGFLGGNDAS
Ga0184626_1035776523300018053Groundwater SedimentMDRRRFLLTSLACAVAAPIGAGAQQAGRLARVGELVA
Ga0184621_1027001313300018054Groundwater SedimentMDRRRFLLTSLAGALAAPLAAGAQPVSGPARIAWI
Ga0184632_1024637723300018075Groundwater SedimentMDRRRFLLTSLAGALAVPLAAGAQQAGKVPRIGFLSAG
Ga0190274_1284787523300018476SoilMINRRRFLLTSLAGALVGPLAADAQQPAGVARVGLLDP
Ga0184644_154494723300019269Groundwater SedimentMDRRRFLLTPLAGALAVPLGAEAQQRAGKVYRIGYL
Ga0193739_114560923300020003SoilMDRRRFLLTSLAGIAAPLAAEAQHAGTRARIGYLSLASPTATTGD
Ga0210377_1044712513300021090Groundwater SedimentVDRRRFLLTSLAGALAVPLAAEGQQAGKVARIGYLP
Ga0224452_104835913300022534Groundwater SedimentMDRRRFLLTSLAGAFAAPLAVAAQQGSKTARVGVLVAGPPQA
Ga0207688_1009536413300025901Corn, Switchgrass And Miscanthus RhizosphereMTSVMDRRRFLLTSLAVLTAPVSVEAQQPGKIWRIGYL
Ga0207684_1144212723300025910Corn, Switchgrass And Miscanthus RhizosphereVDRRRFLLTSLVGALPLAAGAQQARTIPVVGILHD
Ga0207654_1095015323300025911Corn RhizosphereMDRRRFLLTSLAGILAAPLAAEGQSAGKAYRIGYLGNASA
Ga0207681_1008713933300025923Switchgrass RhizosphereMDRRRFLLTSLAGAVAGPLAVEGQQAGKVATIGFLLNQ
Ga0207668_1032108933300025972Switchgrass RhizosphereMDRRRFLLTSLAGAVATPLGAGAQQAGKIWRIGYLSVVSVE
Ga0208534_100484523300026013Natural And Restored WetlandsMGRLPRRQFLLVSVAFLARSLAAEAQQAGRVYRIGYL
Ga0207678_1088833313300026067Corn RhizosphereMDRRRFLLTSLAGTLIAPLGTEAQQAGKVYRVSFLGNSSAAL
Ga0209684_101669813300027527Tropical Forest SoilMDRRRFVLTSLAGAFAAPLGAGAQQAAKVPRIGFLSAVT
Ga0209481_1040480323300027880Populus RhizosphereMDRRRFLLTSLAGALAAPRAAEAQQAGKVARIGYLL
Ga0209486_1017605923300027886Agricultural SoilMNRRRFLLTSLAGALAAALTAEAQQAGKMFRVGALSSVP
Ga0209382_1134349213300027909Populus RhizosphereMDRRRFLLTSLASALARPPTTEAQQAGRTYRLGTMIPLG
Ga0247818_1119096323300028589SoilMDRRRFLLTSLAGALAGPRAAEAQQAGKVYRIGFLSAIS
Ga0247822_1050561613300028592SoilMMDRRRFLLTSLAGALAAPLAAGAQQTAKIWRIGTLHTSSE
Ga0247822_1118354223300028592SoilMDRRRFLLTSLAGVLAAPRAAGAQQAGKVWRIGYLLLAP
Ga0247822_1172308413300028592SoilMDRRRFVLTSLAGAFAGPLAAAAQQAGKVPRIGFLSLTSP
Ga0299907_1007008843300030006SoilVDRRRFLLTSLAGALTAPPAVAAQQVQRVARVGVLAPR
Ga0299907_1029047313300030006SoilMDRRRFLLTSLAGALAGPLPAEAQQAKVARLGVLL
Ga0268386_1043762423300030619SoilMDRRRFLLTSLAGALAAPLGGEAQARKPVRVGFLSSFPNNP
Ga0308194_1035841113300031421SoilMDRRRFLLTSLAGALAAPLAAGAQQAGKVWRIGTLSLTTPAAGAPNP
Ga0310886_1072572023300031562SoilMPRHPGMDRRRFLLTSLAGAVAGPLAAGAQQAGKVPRIGFL
Ga0310886_1077449423300031562SoilMMDRRRFVLTSLAGTFAEPLAAGAQQAREVPRVGFLF
Ga0310813_1019852113300031716SoilMDRRRFLLTSLAGALAAPLGAGAQQAGKLYRIGLLGGSPP
Ga0307469_1114992013300031720Hardwood Forest SoilVDRRRFLLTSLAGALATPLVAGAQQAEKLPRVGFLSAL
Ga0307468_10032301613300031740Hardwood Forest SoilLTPDPRLPHHPGMDRRRFLLTSLAGALAAPLAVEAQPAEKGKVYRIGFIGP
Ga0310900_1147219413300031908SoilMDRRRFLLTSLAGALAAPLASEVHAQQPSKIHRIGCLN
Ga0310899_1035576713300032017SoilMERRRFVLTSLAAALAGPLAAVAQQAGKSARIRRLTP
Ga0310895_1031015713300032122SoilMMDRRRFMLTSVAGALAAPLAAEAQQARRIYRVGVLEVRAVGSNAT
Ga0307470_1029865213300032174Hardwood Forest SoilMMDRRRFLLTSLAGALVGPLVAEAQQTGKVYRLGFL
Ga0307470_1107819123300032174Hardwood Forest SoilMDRRRFLLTSLAGALAAPLATGAQQAAKISRIAMLV
Ga0307471_10198231533300032180Hardwood Forest SoilMDRRRFLLTSLAGPLAAEAQQAGKVPRVGILVSEPTP
Ga0316626_1129385623300033485SoilMDRRRFLLISLAGALAAPLAAEPQQAGKVYRVGFLAGISPTT
Ga0247829_1038175543300033550SoilMDRRRFLLTSLAGALAAPVGVASQQSVKSPRVGVLR
Ga0247829_1065792413300033550SoilMMDRRRFLLTSLAGALAAPLAAEALRTGTVPRIGVLTLS
Ga0247830_1023167743300033551SoilMDRRRFVLTSLAGAFAGPLAAAAQQAGKVPRIGFL
Ga0247830_1105886723300033551SoilMDRRRFLLISLAGALAAPLGAEAQQGGRIHRIGMLETRSTTLN


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