ggKbase home page

berkeley_reactor_200306_biofilm_scaffold_24940

Search features with annotation key words

Displaying items 1-30 of 104 in total
*intergenic gaps > 150 nt are marked
name lists location/seqs annotations notes
berkeley_reactor_200306_biofilm_scaffold_24940_1
Methylobacterium nodulans, Methylobacterium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

1..1473
DNA (1473bp) protein (491aa)
peptidoglycan-binding protein n=1 Tax=Methylobacterium sp. WSM2598 RepID=UPI000368D424
ErfK/YbiS/YcfS/YnhG family protein
ErfK/YbiS/YcfS/YnhG family protein {ECO:0000313|EMBL:ACL55260.1}; Flags: Precursor;; TaxID=460265 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Methylobacterium.;" source="Methylobacterium nodulans (strain ORS2060 / LMG 21967).;"
berkeley_reactor_200306_biofilm_scaffold_24940_2
Microvirga lotononidis, Microvirga, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

1720..3336
DNA (1617bp) protein (539aa)
Uncharacterized protein n=1 Tax=Microvirga sp. WSM3557 RepID=I4YTP7_9RHIZ
Uncharacterized protein {ECO:0000313|EMBL:EIM27339.1}; TaxID=864069 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Microvirga.;" source="Microvirga lotononidis.;"
protein of unassigned function
berkeley_reactor_200306_biofilm_scaffold_24940_3
Nitratireductor aquibiodomus, Nitratireductor, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(3340..3618)
DNA (279bp) protein (93aa)
BolA family protein n=1 Tax=Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) RepID=B6JA02_OLICO
BolA family protein
Uncharacterized protein {ECO:0000313|EMBL:EIM72373.1}; TaxID=1189611 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Nitratireductor.;" source="Nitratireductor aquibiodomus RA22.;"
berkeley_reactor_200306_biofilm_scaffold_24940_4
Bradyrhizobium sp. ORS 285, Bradyrhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

3717..4826
DNA (1110bp) protein (370aa)
Uncharacterized protein n=1 Tax=Bradyrhizobium sp. ORS 285 RepID=H0S7X6_9BRAD
Uncharacterized protein {ECO:0000313|EMBL:CCD90303.1}; TaxID=115808 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Bradyrhizobium.;" source="Bradyrhizobium sp. ORS 285.;"
hypothetical protein
berkeley_reactor_200306_biofilm_scaffold_24940_5
bacterium YEK0313, Bacteria

Not on your lists

4950..6773
DNA (1824bp) protein (608aa)
oligoendopeptidase F n=1 Tax=Chelatococcus sp. GW1 RepID=UPI00031D70C7
Oligoendopeptidase F, plasmid {ECO:0000313|EMBL:CEJ14254.1}; TaxID=1522316 species="Bacteria.;" source="bacterium YEK0313.;"
Oligoendopeptidase, pepF/M3 family
berkeley_reactor_200306_biofilm_scaffold_24940_6
Asticcacaulis sp. AC460, Asticcacaulis, Caulobacterales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(6777..7211)
DNA (435bp) protein (145aa)
Uncharacterized protein n=1 Tax=Asticcacaulis sp. AC460 RepID=V4PBM7_9CAUL
Uncharacterized protein {ECO:0000313|EMBL:ESQ91302.1}; TaxID=1282360 species="Bacteria; Proteobacteria; Alphaproteobacteria; Caulobacterales; Caulobacteraceae; Asticcacaulis.;" source="Asticcacaulis sp. AC460.;"
hypothetical protein
berkeley_reactor_200306_biofilm_scaffold_24940_7
Skermanella aerolata, Skermanella, Rhodospirillales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(7208..7474)
DNA (267bp) protein (89aa)
Prevent-host-death family protein n=1 Tax=Methylosinus trichosporium OB3b RepID=D5QM72_METTR
Prevent-host-death protein {ECO:0000313|EMBL:KJB91092.1}; TaxID=1385368 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhodospirillales; Rhodospirillaceae; Skermanella.;" source="Skermanella aerolata KACC 11604.;"
prevent-host-death family protein
berkeley_reactor_200306_biofilm_scaffold_24940_8
Mesorhizobium sp. L2C084A000, Mesorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

7900..8727
DNA (828bp) protein (276aa)
UPI0003D04DD6 related cluster n=1 Tax=unknown RepID=UPI0003D04DD6
ABC transporter permease {ECO:0000313|EMBL:ESZ30333.1}; TaxID=1287116 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Mesorhizobium.;" source="Mesorhizobium sp. L2C084A000.;"
binding-protein-dependent transport system inner membrane protein
berkeley_reactor_200306_biofilm_scaffold_24940_9
Mesorhizobium ciceri, Mesorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

8763..10049
DNA (1287bp) protein (429aa)
Extracellular solute-binding protein family 1 n=1 Tax=Mesorhizobium ciceri bv. biserrulae (strain HAMBI 2942 / LMG 23838 / WSM1271) RepID=E8TM90_MESCW
family 1 extracellular solute-binding protein
Extracellular solute-binding protein family 1 {ECO:0000313|EMBL:ADV11589.1}; Flags: Precursor;; TaxID=765698 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Mesorhizobium.;" source="Mesorhizobium ciceri bv. biserrulae (strain HAMBI 2942 / LMG 23838 /; WSM1271).;"
berkeley_reactor_200306_biofilm_scaffold_24940_10
Mesorhizobium sp. L2C084A000, Mesorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

10116..11024
DNA (909bp) protein (303aa)
UPI0003CFEE2B related cluster n=1 Tax=unknown RepID=UPI0003CFEE2B
Sugar ABC transporter permease {ECO:0000313|EMBL:ESZ30331.1}; TaxID=1287116 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Mesorhizobium.;" source="Mesorhizobium sp. L2C084A000.;"
binding-protein-dependent transport system inner membrane protein
berkeley_reactor_200306_biofilm_scaffold_24940_11
Methylobacterium nodulans, Methylobacterium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(11049..11318)
DNA (270bp) protein (90aa)
Prevent-host-death family protein n=1 Tax=Methylobacterium nodulans (strain ORS2060 / LMG 21967) RepID=B8IJW1_METNO
prevent-host-death family protein
Prevent-host-death family protein {ECO:0000313|EMBL:ACL59974.1}; TaxID=460265 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Methylobacterium.;" source="Methylobacterium nodulans (strain ORS2060 / LMG 21967).;"
berkeley_reactor_200306_biofilm_scaffold_24940_12
Bosea sp. LC85, Bosea, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

11486..12592
DNA (1107bp) protein (369aa)
Uncharacterized protein n=1 Tax=Bradyrhizobium sp. (strain ORS278) RepID=A4YS68_BRASO
Uncharacterized protein {ECO:0000313|EMBL:KFC61550.1}; TaxID=1502851 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Bosea.;" source="Bosea sp. LC85.;"
signal peptide
berkeley_reactor_200306_biofilm_scaffold_24940_13
Microvirga aerilata, Microvirga, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(12537..13253)
DNA (717bp) protein (239aa)
Carbonic anhydrase {ECO:0000256|RuleBase:RU003956}; EC=4.2.1.1 {ECO:0000256|RuleBase:RU003956};; TaxID=670292 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Microvirga.;" source="Microvirga aerilata.;"
carbonic anhydrase (EC:4.2.1.1)
Carbonic anhydrase n=1 Tax=Microvirga sp. WSM3557 RepID=I4YZH2_9RHIZ
berkeley_reactor_200306_biofilm_scaffold_24940_14
Starkeya novella, Starkeya, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(13259..15943)
DNA (2685bp) protein (895aa)
Aconitate hydratase {ECO:0000256|RuleBase:RU361275}; Short=Aconitase {ECO:0000256|RuleBase:RU361275};; EC=4.2.1.3 {ECO:0000256|RuleBase:RU361275};; TaxID=639283 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Starkeya.;" source="Starkeya novella (strain ATCC 8093 / DSM 506 / CCM 1077 / IAM 12100 /; NBRC 12443 / NCIB 9113).;"
Aconitate hydratase 1 n=1 Tax=Starkeya novella (strain ATCC 8093 / DSM 506 / CCM 1077 / IAM 12100 / NBRC 12443 / NCIB 9113) RepID=D7A9K1_STAND
aconitate hydratase 1
berkeley_reactor_200306_biofilm_scaffold_24940_15
Chelativorans sp. BNC1, Chelativorans, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(16110..16853)
DNA (744bp) protein (248aa)
truA; tRNA pseudouridine synthase A (EC:5.4.99.12)
tRNA pseudouridine synthase A {ECO:0000255|HAMAP-Rule:MF_00171}; EC=5.4.99.12 {ECO:0000255|HAMAP-Rule:MF_00171};; tRNA pseudouridine(38-40) synthase {ECO:0000255|HAMAP-Rule:MF_00171}; tRNA pseudouridylate synthase I {ECO:0000255|HAMAP-Rule:MF_00171}; tRNA-uridine isomerase I {ECO:0000255|HAMAP-Rule:MF_00171}; TaxID=266779 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Chelativorans.;" source="Chelativorans sp. (strain BNC1).;"
tRNA pseudouridine synthase A n=1 Tax=Mesorhizobium sp. (strain BNC1) RepID=TRUA_MESSB
berkeley_reactor_200306_biofilm_scaffold_24940_16
R_Brevundimonas_70_19, Caulobacterales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(16870..17166)
DNA (297bp) protein (99aa)
Antibiotic biosynthesis monooxygenase n=1 Tax=Nitratireductor pacificus pht-3B RepID=K2MH52_9RHIZ
antibiotic biosynthesis monooxygenase
Tax=RIFCSPHIGHO2_01_FULL_Brevundimonas_70_19_curated
berkeley_reactor_200306_biofilm_scaffold_24940_17
bacterium YEK0313, Bacteria

Not on your lists

comp(17220..18152)
DNA (933bp) protein (311aa)
Methionyl-tRNA formyltransferase {ECO:0000256|HAMAP-Rule:MF_00182, ECO:0000256|SAAS:SAAS00043680}; EC=2.1.2.9 {ECO:0000256|HAMAP-Rule:MF_00182, ECO:0000256|SAAS:SAAS00150580};; TaxID=1522316 species="Bacteria.;" source="bacterium YEK0313.;"
Methionyl-tRNA formyltransferase n=1 Tax=Microvirga sp. WSM3557 RepID=I4YUP4_9RHIZ
fmt; methionyl-tRNA formyltransferase
berkeley_reactor_200306_biofilm_scaffold_24940_18
Rhizobium sp., Rhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(18152..18724)
DNA (573bp) protein (191aa)
Peptide deformylase {ECO:0000256|HAMAP-Rule:MF_00163, ECO:0000256|RuleBase:RU003335}; Short=PDF {ECO:0000256|HAMAP-Rule:MF_00163};; EC=3.5.1.88 {ECO:0000256|HAMAP-Rule:MF_00163, ECO:0000256|SAAS:SAAS00013131};; Polypeptide deformylase {ECO:0000256|HAMAP-Rule:MF_00163}; TaxID=391 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Rhizobiaceae; Rhizobium/Agrobacterium group; Rhizobium.;" source="Rhizobium sp.;"
def; peptide deformylase (EC:3.5.1.88)
Peptide deformylase n=1 Tax=Rhizobium sp. RepID=L0NBS5_RHISP
berkeley_reactor_200306_biofilm_scaffold_24940_19
unknown

Not on your lists

18799..19365
DNA (567bp) protein (189aa)
hypothetical protein
berkeley_reactor_200306_biofilm_scaffold_24940_20
Novosphingobium aromaticivorans, Novosphingobium, Sphingomonadales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

19374..19892
DNA (519bp) protein (173aa)
YceI n=1 Tax=Novosphingobium aromaticivorans (strain DSM 12444) RepID=Q2G7M2_NOVAD
hypothetical protein
YceI {ECO:0000313|EMBL:ABD26151.1}; TaxID=279238 species="Bacteria; Proteobacteria; Alphaproteobacteria; Sphingomonadales; Sphingomonadaceae; Novosphingobium.;" source="Novosphingobium aromaticivorans (strain DSM 12444 / F199).;"
berkeley_reactor_200306_biofilm_scaffold_24940_21
Hyphomicrobium nitrativorans, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(20115..20906)
DNA (792bp) protein (264aa)
DNA-binding protein n=1 Tax=Hyphomicrobium zavarzinii RepID=UPI00037379CC
XRE family transcriptional regulator
XRE family transcriptional regulator {ECO:0000313|EMBL:AHB48854.1}; TaxID=1029756 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium nitrativorans NL23.;"
berkeley_reactor_200306_biofilm_scaffold_24940_22
Hyphomicrobium nitrativorans, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(20906..21586)
DNA (681bp) protein (227aa)
Sarcosine oxidase n=1 Tax=Hyphomicrobium nitrativorans NL23 RepID=V5SEB0_9RHIZ
sarcosine oxidase
Sarcosine oxidase {ECO:0000313|EMBL:AHB48853.1}; TaxID=1029756 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium nitrativorans NL23.;"
berkeley_reactor_200306_biofilm_scaffold_24940_23
Hyphomicrobium nitrativorans, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(21587..24499)
DNA (2913bp) protein (971aa)
Aminomethyltransferase n=1 Tax=Hyphomicrobium nitrativorans NL23 RepID=V5SED4_9RHIZ
Aminomethyltransferase {ECO:0000313|EMBL:AHB48852.1}; TaxID=1029756 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium nitrativorans NL23.;"
aminomethyltransferase
berkeley_reactor_200306_biofilm_scaffold_24940_24
Hyphomicrobium nitrativorans, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(24496..24777)
DNA (282bp) protein (94aa)
Sarcosine oxidase subunit delta n=1 Tax=Hyphomicrobium nitrativorans NL23 RepID=V5SDB1_9RHIZ
sarcosine oxidase subunit delta
Sarcosine oxidase subunit delta {ECO:0000313|EMBL:AHB48851.1}; TaxID=1029756 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium nitrativorans NL23.;"
berkeley_reactor_200306_biofilm_scaffold_24940_25
Hyphomicrobium nitrativorans, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(25062..25931)
DNA (870bp) protein (290aa)
Sarcosine oxidase subunit beta n=1 Tax=Hyphomicrobium nitrativorans NL23 RepID=V5SFP8_9RHIZ
sarcosine oxidase subunit beta
Sarcosine oxidase subunit beta {ECO:0000313|EMBL:AHB48850.1}; TaxID=1029756 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium nitrativorans NL23.;"
berkeley_reactor_200306_biofilm_scaffold_24940_26
Hyphomicrobium nitrativorans, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

comp(25871..26173)
DNA (303bp) protein (101aa)
Sarcosine oxidase subunit beta n=1 Tax=Hyphomicrobium nitrativorans NL23 RepID=V5SFP8_9RHIZ
sarcosine oxidase subunit beta
Sarcosine oxidase subunit beta {ECO:0000313|EMBL:AHB48850.1}; TaxID=1029756 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium nitrativorans NL23.;"
berkeley_reactor_200306_biofilm_scaffold_24940_27
Mesorhizobium sp. ORS3324, Mesorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

26463..27359
DNA (897bp) protein (299aa)
Glutamine amidotransferase-like protein glxB {ECO:0000313|EMBL:CDX18628.1}; EC=2.4.2.- {ECO:0000313|EMBL:CDX18628.1};; TaxID=1505932 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Mesorhizobium.;" source="Mesorhizobium sp. ORS3324.;"
glutamine amidotransferase n=1 Tax=Hyphomicrobium zavarzinii RepID=UPI0003812474
glutamine amidotransferase
berkeley_reactor_200306_biofilm_scaffold_24940_28
Agrobacterium fabrum, Agrobacterium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

27361..28047
DNA (687bp) protein (229aa)
Formyl-methanofuran dehydrogenase n=1 Tax=Agrobacterium tumefaciens (strain C58 / ATCC 33970) RepID=A9CG93_AGRT5
fwdC; formyl-methanofuran dehydrogenase
Formyl-methanofuran dehydrogenase {ECO:0000313|EMBL:AAK89211.1}; TaxID=176299 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Rhizobiaceae; Rhizobium/Agrobacterium group; Agrobacterium; Agrobacterium tumefaciens complex.;" source="Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium; tumefaciens (strain C58)).;"
berkeley_reactor_200306_biofilm_scaffold_24940_29
Mesorhizobium sp. ORS3324, Mesorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

28171..29502
DNA (1332bp) protein (444aa)
Putative large subunit of glutamate synthase {ECO:0000313|EMBL:CDX18623.1}; EC=1.4.1.13 {ECO:0000313|EMBL:CDX18623.1};; TaxID=1505932 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Mesorhizobium.;" source="Mesorhizobium sp. ORS3324.;"
UPI0003CEA9D0 related cluster n=1 Tax=unknown RepID=UPI0003CEA9D0
glutamate synthase
berkeley_reactor_200306_biofilm_scaffold_24940_30
Hyphomicrobium sp. MC1, Hyphomicrobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

29605..30912
DNA (1308bp) protein (436aa)
gmas; gamma-glutamylmethylamide synthetase (EC:6.3.1.-)
Gamma-glutamylmethylamide synthetase {ECO:0000313|EMBL:CCB67575.1}; EC=6.3.1.- {ECO:0000313|EMBL:CCB67575.1};; TaxID=717785 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Hyphomicrobiaceae; Hyphomicrobium.;" source="Hyphomicrobium sp. (strain MC1).;"
Gamma-glutamylmethylamide synthetase n=1 Tax=Hyphomicrobium sp. (strain MC1) RepID=F8JB53_HYPSM
Displaying items 1-30 of 104 in total

View Taxonomy