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GpdQ-like family domain assignments
in
PDB chains (SCOP 1.75)

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PDB chains (SCOP 1.75) (PDB) has 5 significant domains in 5 proteins.

     

Sequence ID   Superfamily evalue   Family evalue   Region   Closest structure  
2dxlA   3.84e-55   0.000000000189   1-257   3d03 A:1-271  
2hy1A   1.58e-55   0.000000000317   14-266   2hy1 A:10-265  
2hyoA   1.19e-52   0.000000000342   14-266   2hy1 A:10-265  
2hypA   1.49e-54   0.000000000345   14-266   2hy1 A:10-265  
3d03A   1.34e-54   0.000000000181   1-257   3d03 A:1-271  

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View all assignments containing a GpdQ-like domain in each group of genomes.

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Select to display   Genome       Domains   Proteins
No Yes ALL   16875 16875
No Yes Nakamurella multipartita DSM 44233   1 1
No Yes Kineococcus radiotolerans SRS30216   1 1
No Yes Frankia symbiont of Datisca glomerata   2 2
No Yes Frankia alni ACN14a   3 3
No Yes Kribbella flavida DSM 17836   1 1
No Yes Nocardioides sp. JS614   1 1
No Yes Micromonospora sp. L5   1 1
No Yes Micromonospora aurantiaca ATCC 27029   1 1
No Yes Segniliparus rotundus DSM 44985   1 1
No Yes Gordonia polyisoprenivorans VH2   1 1
No Yes Rhodococcus jostii RHA1   1 1
No Yes Rhodococcus opacus B4   2 2
No Yes Rhodococcus erythropolis PR4   1 1
No Yes Nocardia farcinica IFM 10152   1 1
No Yes Mycobacterium canettii CIPT 140010059   1 1
No Yes Mycobacterium africanum GM041182   1 1
No Yes Mycobacterium tuberculosis KZN 1435   1 1
No Yes Mycobacterium tuberculosis   1 1
No Yes Mycobacterium bovis BCG str. Pasteur 1173P2   1 1
No Yes Mycobacterium ulcerans Agy99   1 1
No Yes Mycobacterium marinum M   1 1
No Yes Mycobacterium leprae Br4923   1 1
No Yes Leifsonia xyli subsp. xyli str. CTCB07   1 1
No Yes Microbacterium testaceum StLB037   2 2
No Yes Clavibacter michiganensis subsp. michiganensis NCPPB 382   1 1
No Yes Intrasporangium calvum DSM 43043   1 1
No Yes Brachybacterium faecium DSM 4810   1 1
No Yes Arthrobacter phenanthrenivorans Sphe3   1 1
No Yes Arthrobacter chlorophenolicus A6   1 1
No Yes Arthrobacter aurescens TC1   1 1
No Yes Arthrobacter arilaitensis Re117   1 1
No Yes Arthrobacter sp. Rue61a   2 2
No Yes Arthrobacter sp. FB24   1 1
No Yes Renibacterium salmoninarum ATCC 33209   1 1
No Yes Bifidobacterium breve ACS-071-V-Sch8b   1 1
No Yes Paenibacillus sp. JDR-2   2 2
No Yes Desulfovibrio aespoeensis Aspo-2   1 1
No Yes Burkholderia phytofirmans PsJN   1 1
No Yes Burkholderia phymatum STM815   1 1
No Yes Burkholderia xenovorans LB400   1 1
No Yes Cupriavidus taiwanensis LMG 19424   1 1
No Yes Ralstonia eutropha H16   1 1
No Yes Burkholderia sp. RPE64   1 1
No Yes Burkholderia sp. CCGE1002   1 1
No Yes Burkholderia thailandensis E264   1 1
No Yes Burkholderia pseudomallei 1106a   1 1
No Yes Burkholderia mallei SAVP1   1 1
No Yes Burkholderia ambifaria AMMD   1 1
No Yes Burkholderia cenocepacia HI2424   1 1
No Yes Burkholderia multivorans ATCC 17616   1 1
No Yes Burkholderia vietnamiensis G4   1 1
No Yes Burkholderia gladioli BSR3   1 1
No Yes Burkholderia glumae BGR1   1 1
No Yes Collimonas fungivorans Ter331   1 1
No Yes Herbaspirillum seropedicae SmR1   1 1
No Yes Bordetella avium 197N   1 1
No Yes Bordetella pertussis Tohama I   1 1
No Yes Bordetella parapertussis 12822   1 1
No Yes Bordetella bronchiseptica RB50   1 1
No Yes Achromobacter xylosoxidans A8   1 1
No Yes Achromobacter xylosoxidans   1 1
No Yes Tistrella mobilis KA081020-065   2 2
No Yes Rhodospirillum centenum SW   1 1
No Yes Rhodospirillum rubrum F11   1 1
No Yes Azospirillum lipoferum 4B   1 1
No Yes Azospirillum sp. B510   1 1
No Yes Polymorphum gilvum SL003B-26A1   1 1
No Yes Xanthobacter autotrophicus Py2   1 1
No Yes Azorhizobium caulinodans ORS 571   2 2
No Yes Methylobacterium sp. 4-46   1 1
No Yes Methylobacterium nodulans ORS 2060   1 1
No Yes Rahnella sp. Y9602   1 1
No Yes Rahnella aquatilis CIP 78.65 = ATCC 33071   1 1
No Yes Serratia sp. ATCC 39006   1 1
No Yes Dickeya dadantii Ech703   1 1
No Yes Dickeya zeae Ech1591   1 1
No Yes Pectobacterium wasabiae WPP163   1 1
No Yes Pectobacterium sp. SCC3193   1 1
No Yes Pectobacterium atrosepticum SCRI1043   1 1
No Yes Pectobacterium carotovorum subsp. carotovorum PC1   1 1
No Yes Pantoea sp. At-9b   1 1
No Yes Pantoea vagans C9-1   1 1
No Yes Pantoea ananatis LMG 20103   1 1
No Yes Erwinia billingiae Eb661   1 1
No Yes Klebsiella oxytoca E718   1 1
No Yes Klebsiella variicola At-22   1 1
No Yes Klebsiella pneumoniae NTUH-K2044   1 1
No Yes Enterobacter aerogenes KCTC 2190   1 1
No Yes Enterobacter sp. R4-368   1 1
No Yes Pseudomonas sp. TKP   1 1
No Yes Pseudomonas brassicacearum subsp. brassicacearum NFM421   1 1
No Yes Pseudomonas syringae pv. tomato str. DC3000   1 1
No Yes Pseudomonas fluorescens SBW25   1 1
No Yes Frankia sp. EuI1c   1 1
No Yes Frankia sp. CcI3   1 1
No Yes Saccharothrix espanaensis DSM 44229   1 1
No Yes Rhodococcus pyridinivorans SB3094   1 1
No Yes Rhodococcus erythropolis CCM2595   1 1
No Yes Nocardia brasiliensis ATCC 700358   2 2
No Yes Mycobacterium liflandii 128FXT   1 1
No Yes Mycobacterium canettii CIPT 140070017   1 1
No Yes Mycobacterium canettii CIPT 140060008   1 1
No Yes Mycobacterium canettii CIPT 140070008   1 1
No Yes Mycobacterium canettii CIPT 140070010   1 1
No Yes Mycobacterium tuberculosis EAI5/NITR206   1 1
No Yes Mycobacterium tuberculosis EAI5   1 1
No Yes Mycobacterium tuberculosis CAS/NITR204   1 1
No Yes Mycobacterium tuberculosis str. Beijing/NITR203   1 1
No Yes Mycobacterium tuberculosis UT205   1 1
No Yes Mycobacterium tuberculosis RGTB327   1 1
No Yes Mycobacterium tuberculosis CTRI-2   1 1
No Yes Mycobacterium tuberculosis KZN 605   1 1
No Yes Mycobacterium tuberculosis KZN 4207   1 1
No Yes Mycobacterium tuberculosis CCDC5079   1 1
No Yes Mycobacterium tuberculosis CCDC5079   1 1
No Yes Mycobacterium tuberculosis H37Ra   1 1
No Yes Mycobacterium tuberculosis str. Haarlem/NITR202   1 1
No Yes Mycobacterium tuberculosis str. Haarlem   1 1
No Yes Mycobacterium tuberculosis F11   1 1
No Yes Mycobacterium tuberculosis H37Rv   1 1
No Yes Mycobacterium tuberculosis CDC1551   1 1
No Yes Mycobacterium bovis AF2122/97   1 1
No Yes Mycobacterium bovis BCG str. Korea 1168P   1 1
No Yes Mycobacterium bovis BCG str. Mexico   1 1
No Yes Mycobacterium bovis BCG str. Tokyo 172   1 1
No Yes Mycobacterium leprae TN   1 1
No Yes Mycobacterium kansasii ATCC 12478   1 1
No Yes Clavibacter michiganensis subsp. sepedonicus   1 1
No Yes Clavibacter michiganensis subsp. nebraskensis NCPPB 2581   1 1
No Yes Burkholderia phenoliruptrix BR3459a   1 1
No Yes Pandoraea pnomenusa 3kgm   1 1
No Yes Burkholderia sp. CCGE1003   1 1
No Yes Burkholderia sp. CCGE1001   1 1
No Yes Burkholderia sp. KJ006   1 1
No Yes Burkholderia thailandensis MSMB121   1 1
No Yes Burkholderia pseudomallei MSHR305   1 1
No Yes Burkholderia pseudomallei NCTC 13179   1 1
No Yes Burkholderia pseudomallei BPC006   1 1
No Yes Burkholderia pseudomallei 1026b   1 1
No Yes Burkholderia pseudomallei MSHR346   1 1
No Yes Burkholderia pseudomallei 668   1 1
No Yes Burkholderia pseudomallei 1710b   1 1
No Yes Burkholderia pseudomallei K96243   1 1
No Yes Burkholderia mallei NCTC 10229   1 1
No Yes Burkholderia mallei NCTC 10247   1 1
No Yes Burkholderia mallei ATCC 23344   1 1
No Yes Burkholderia lata   1 1
No Yes Burkholderia ambifaria MC40-6   1 1
No Yes Burkholderia cenocepacia MC0-3   1 1
No Yes Burkholderia cenocepacia AU 1054   1 1
No Yes Burkholderia cenocepacia J2315   1 1
No Yes Burkholderia multivorans ATCC 17616   1 1
No Yes Burkholderia cepacia GG4   1 1
No Yes Variovorax paradoxus B4   1 1
No Yes Variovorax paradoxus EPS   1 1
No Yes Bordetella pertussis CS   1 1
No Yes Bordetella parapertussis 18323   1 1
No Yes Bordetella parapertussis Bpp5   1 1
No Yes Bordetella bronchiseptica MO149   1 1
No Yes Bordetella bronchiseptica 253   1 1
No Yes Achromobacter xylosoxidans NBRC 15126 = ATCC 27061   1 1
No Yes Rhodospirillum rubrum ATCC 11170   1 1
No Yes Rhodopseudomonas palustris DX-1   1 1
No Yes Rhodopseudomonas palustris TIE-1   1 1
No Yes Rhodopseudomonas palustris BisB18   1 1
No Yes Rhodopseudomonas palustris CGA009   1 1
No Yes Bradyrhizobium sp. BTAi1   1 1
No Yes Rahnella aquatilis HX2   1 1
No Yes Dickeya dadantii Ech586   1 1
No Yes Dickeya dadantii 3937   1 1
No Yes Pectobacterium carotovorum subsp. carotovorum PCC21   1 1
No Yes Pantoea ananatis LMG 5342   1 1
No Yes Pantoea ananatis PA13   1 1
No Yes Raoultella ornithinolytica B6   1 1
No Yes Salmonella enterica subsp. enterica serovar Typhimurium str. T000240   1 1
No Yes Klebsiella oxytoca KCTC 1686   1 1
No Yes Klebsiella pneumoniae JM45   1 1
No Yes Klebsiella pneumoniae CG43   1 1
No Yes Klebsiella pneumoniae KCTC 2242   1 1
No Yes Klebsiella pneumoniae 342   1 1
No Yes Klebsiella pneumoniae subsp. pneumoniae 1084   1 1
No Yes Klebsiella pneumoniae subsp. pneumoniae HS11286   1 1
No Yes Klebsiella pneumoniae subsp. pneumoniae MGH 78578   1 1
No Yes Klebsiella pneumoniae subsp. rhinoscleromatis SB3432   1 1
No Yes Enterobacter aerogenes EA1509E   1 1
No Yes Escherichia coli JJ1886   1 1
No Yes Enterobacter cloacae SCF1   1 1
No Yes Pseudomonas syringae pv. phaseolicola 1448A   2 2
No Yes Pseudomonas syringae pv. syringae B728a   2 2
No Yes Pseudomonas poae RE*1-1-14   1 1
No Yes Pseudomonas fluorescens F113   1 1
No Yes Mycobacterium tuberculosis H37Rv (Duplicate of ex)   1 1
No Yes Air microbial communities Singapore indoor air filters 1 (meta-genome)   1 1
No Yes Air microbial communities Singapore indoor air filters 2 (meta-genome)   1 1
No Yes Atta cephalotes fungus garden (ACEF) (meta-genome)   2 2
No Yes Combined (meta-genome)   3 3
No Yes Cyphomyrmex longiscapus fungus garden (meta-genome)   3 3
No Yes Dendroctonus ponderosae beetle community (MPB hybrid beetle) (Lodgepole pine) (meta-genome)   3 3
No Yes Dendroctonus ponderosae fungus gallery (Hybrid pine) (MPB hybrid gallery) (meta-genome)   1 1
No Yes Dump bottom (Dump bottom) (meta-genome)   5 5
No Yes Dump top (Dump top) (meta-genome)   3 3
No Yes Endophytic microbiome from Rice (meta-genome)   1 1
No Yes Fungus garden combined (combined) (meta-genome)   2 2
No Yes Fungus garden microbial communities from Atta colombica in Panama, sample from fungus garden bottom (Fungus garden bottom) (meta-genome)   3 3
No Yes Fungus garden microbial communities from Atta colombica in Panama, sample from fungus garden top (meta-genome)   2 2
No Yes Methylotrophic community from Lake Washington sediment combined (v2) (meta-genome)   2 2
No Yes Methylotrophic community from Lake Washington sediment Formaldehyde enrichment (meta-genome)   1 1
No Yes Methylotrophic community from Lake Washington sediment Formate enrichment (meta-genome)   1 1
No Yes Mountain Pine Beetle microbial communities from Grand Prairie, Alberta, sample from Hybrid pine (MPB hybrid beetle) (meta-genome)   5 5
No Yes NCBI 2017_08 genome   14203 14203
No Yes simLC - Simulated Low Complexity Metagenome (meta-genome)   1 1
No Yes simMC - Simulated Medium Complexity Metagenome (meta-genome)   1 1
No Yes Soil microbial communities from Minnesota Farm (meta-genome)   1 1
No Yes Soil microbial communities from sample at FACE Site 1 Maryland Estuary CO2- (Maryland Estuary ambient) (meta-genome)   1 1
No Yes Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2+ (meta-genome)   3 3
No Yes Soil microbial communities from sample at FACE Site 3 Nevada Test Site Creosote CO2- (meta-genome)   2 2
No Yes Soil microbial communities from sample at FACE Site 4 Nevada Test Site Crust CO2- (meta-genome)   1 1
No Yes Soil microbial communities from sample at FACE Site 5 Oak Ridge CO2- (Oak Ridge ambient) (meta-genome)   1 1
No Yes STRING v9.0.5 (STRING)   89 89
No Yes Switchgrass rhizosphere microbial community from Michigan, US, sample from East Lansing bulk soil (meta-genome)   1 1
No Yes Uniprot 2018_03 genome   2117 2117
No Yes Global Ocean Sampling Expedition (GOS)   28 28
No Yes NCBI plasmid sequences (Plasmids)   6 6
No Yes PDB chains (SCOP 1.75) (PDB)   5 5
No Yes Protein Data Bank (all PDB sequenc)   19 19
No Yes SCOP2 SCOPe CATH ECOD (all domain sequ)   39 39

Jump to [ Top of page · Assignment details · Add assignments from groups of genomes · Add assignments from individual genomes ]
Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). "Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure." J. Mol. Biol., 313(4), 903-919.

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