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berkeley_reactor_200306_biofilm_scaffold_44015

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Displaying items 1-30 of 123 in total
*intergenic gaps > 150 nt are marked
name lists location/seqs annotations notes
berkeley_reactor_200306_biofilm_scaffold_44015_1
Xanthobacter autotrophicus, Xanthobacter, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

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1..141
DNA (141bp) protein (47aa)
Elongation factor Tu n=1 Tax=Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2) RepID=A7IFX9_XANP2
elongation factor Tu
Elongation factor Tu {ECO:0000256|HAMAP-Rule:MF_00118, ECO:0000256|RuleBase:RU004061}; Short=EF-Tu {ECO:0000256|HAMAP-Rule:MF_00118};; TaxID=78245 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Xanthobacter.;" source="Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2).;"
berkeley_reactor_200306_biofilm_scaffold_44015_2
Shinella sp. DD12, Shinella, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


229..537
DNA (309bp) protein (103aa)
30S ribosomal protein S10 n=18 Tax=Rhizobiaceae RepID=RS10_RHIME
rpsJ; 30S ribosomal protein S10
30S ribosomal protein S10 {ECO:0000256|HAMAP-Rule:MF_00508}; TaxID=1410620 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Rhizobiaceae; Shinella.;" source="Shinella sp. DD12.;"
berkeley_reactor_200306_biofilm_scaffold_44015_3
Roseibium sp. TrichSKD4, Roseibium, Rhodobacterales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


567..1271
DNA (705bp) protein (235aa)
50S ribosomal protein L3 n=1 Tax=Pannonibacter phragmitetus RepID=UPI00035CA687
50S ribosomal protein L3 {ECO:0000256|HAMAP-Rule:MF_01325}; TaxID=744980 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhodobacterales; Rhodobacteraceae; Roseibium.;" source="Roseibium sp. TrichSKD4.;"
rplC; 50S ribosomal protein L3
berkeley_reactor_200306_biofilm_scaffold_44015_4
Azorhizobium caulinodans, Azorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


1282..1902
DNA (621bp) protein (207aa)
50S ribosomal protein L4 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI0002E6CDD3
rplD; 50S ribosomal protein L4
50S ribosomal protein L4 {ECO:0000256|HAMAP-Rule:MF_01328}; TaxID=438753 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Azorhizobium.;" source="Azorhizobium caulinodans (strain ATCC 43989 / DSM 5975 / JCM 20966 /; NBRC 14845 / NCIMB 13405 / ORS 571).;"
berkeley_reactor_200306_biofilm_scaffold_44015_5
Microvirga aerilata, Microvirga, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


1899..2198
DNA (300bp) protein (100aa)
50S ribosomal protein L23 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI00031FE879
50S ribosomal protein L23 {ECO:0000256|HAMAP-Rule:MF_01369, ECO:0000256|RuleBase:RU003935}; TaxID=670292 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Microvirga.;" source="Microvirga aerilata.;"
rplW; 50S ribosomal protein L23
berkeley_reactor_200306_biofilm_scaffold_44015_6
Azorhizobium caulinodans, Azorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


2223..3056
DNA (834bp) protein (278aa)
50S ribosomal protein L2 n=1 Tax=Methylosinus sp. LW4 RepID=UPI00037D8F34
rplB; 50S ribosomal protein L2
50S ribosomal protein L2 {ECO:0000255|HAMAP-Rule:MF_01320}; TaxID=438753 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Azorhizobium.;" source="Azorhizobium caulinodans (strain ATCC 43989 / DSM 5975 / JCM 20966 /; NBRC 14845 / NCIMB 13405 / ORS 571).;"
berkeley_reactor_200306_biofilm_scaffold_44015_7
Chelativorans sp. BNC1, Chelativorans, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

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3068..3346
DNA (279bp) protein (93aa)
30S ribosomal protein S19 n=1 Tax=Methylopila sp. M107 RepID=UPI000363D48F
30S ribosomal protein S19
30S ribosomal protein S19 {ECO:0000255|HAMAP-Rule:MF_00531}; TaxID=266779 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Phyllobacteriaceae; Chelativorans.;" source="Chelativorans sp. (strain BNC1).;"
berkeley_reactor_200306_biofilm_scaffold_44015_8
Polymorphum gilvum, Polymorphum, Alphaproteobacteria, Proteobacteria, Bacteria

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3350..3730
DNA (381bp) protein (127aa)
50S ribosomal protein L22 n=1 Tax=Pannonibacter phragmitetus RepID=UPI00035D770E
rplV; 50S ribosomal protein L22
50S ribosomal protein L22 {ECO:0000256|HAMAP-Rule:MF_01331, ECO:0000256|RuleBase:RU004008}; TaxID=991905 species="Bacteria; Proteobacteria; Alphaproteobacteria; Polymorphum.;" source="Polymorphum gilvum (strain LMG 25793 / CGMCC 1.9160 / SL003B-26A1).;"
berkeley_reactor_200306_biofilm_scaffold_44015_9
Afipia sp. P52-10, Afipia, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

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3741..4445
DNA (705bp) protein (235aa)
30S ribosomal protein S3 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI0002F71D98
30S ribosomal protein S3 {ECO:0000256|HAMAP-Rule:MF_01309}; TaxID=1429916 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Afipia.;" source="Afipia sp. P52-10.;"
rpsC; 30S ribosomal protein S3
berkeley_reactor_200306_biofilm_scaffold_44015_10
Azorhizobium caulinodans, Azorhizobium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


4482..4895
DNA (414bp) protein (138aa)
50S ribosomal protein L16 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI0002F4A476
rplP; 50S ribosomal protein L16
50S ribosomal protein L16 {ECO:0000255|HAMAP-Rule:MF_01342}; TaxID=438753 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Azorhizobium.;" source="Azorhizobium caulinodans (strain ATCC 43989 / DSM 5975 / JCM 20966 /; NBRC 14845 / NCIMB 13405 / ORS 571).;"
berkeley_reactor_200306_biofilm_scaffold_44015_11
Starkeya novella, Starkeya, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


4907..5110
DNA (204bp) protein (68aa)
50S ribosomal protein L29 n=1 Tax=Starkeya novella (strain ATCC 8093 / DSM 506 / CCM 1077 / IAM 12100 / NBRC 12443 / NCIB 9113) RepID=D7A961_STAND
50S ribosomal protein L29
50S ribosomal protein L29 {ECO:0000256|HAMAP-Rule:MF_00374}; 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).;"
berkeley_reactor_200306_biofilm_scaffold_44015_12
Xanthobacter autotrophicus, Xanthobacter, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


5121..5369
DNA (249bp) protein (83aa)
30S ribosomal protein S17 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI0002FABD36
rpsQ; 30S ribosomal protein S17
30S ribosomal protein S17 {ECO:0000255|HAMAP-Rule:MF_01345}; TaxID=78245 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Xanthobacter.;" source="Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2).;"
berkeley_reactor_200306_biofilm_scaffold_44015_13
Microvirga lotononidis, Microvirga, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


5615..5983
DNA (369bp) protein (123aa)
50S ribosomal protein L14 n=1 Tax=Microvirga sp. WSM3557 RepID=I4YWB7_9RHIZ
50S ribosomal protein L14 {ECO:0000256|HAMAP-Rule:MF_01367, ECO:0000256|RuleBase:RU003950}; TaxID=864069 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Microvirga.;" source="Microvirga lotononidis.;"
rplN; 50S ribosomal protein L14
berkeley_reactor_200306_biofilm_scaffold_44015_14
Methylobacterium sp. 4-46, Methylobacterium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


5983..6300
DNA (318bp) protein (106aa)
50S ribosomal protein L24 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI0002D25855
50S ribosomal protein L24
50S ribosomal protein L24 {ECO:0000255|HAMAP-Rule:MF_01326}; TaxID=426117 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Methylobacterium.;" source="Methylobacterium sp. (strain 4-46).;"
berkeley_reactor_200306_biofilm_scaffold_44015_15
Starkeya novella, Starkeya, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


6293..6850
DNA (558bp) protein (186aa)
50S ribosomal protein L5 n=1 Tax=Starkeya novella (strain ATCC 8093 / DSM 506 / CCM 1077 / IAM 12100 / NBRC 12443 / NCIB 9113) RepID=D7A965_STAND
50S ribosomal protein L5
50S ribosomal protein L5 {ECO:0000256|HAMAP-Rule:MF_01333, ECO:0000256|RuleBase:RU003931}; 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).;"
berkeley_reactor_200306_biofilm_scaffold_44015_16
Bosea sp. LC85, Bosea, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

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6895..7200
DNA (306bp) protein (102aa)
30S ribosomal protein S14 n=1 Tax=Chelatococcus sp. GW1 RepID=UPI0002FB8A90
30S ribosomal protein S14 {ECO:0000256|HAMAP-Rule:MF_00537}; TaxID=1502851 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Bosea.;" source="Bosea sp. LC85.;"
rpsN; 30S ribosomal protein S14
berkeley_reactor_200306_biofilm_scaffold_44015_17
Xanthobacter autotrophicus, Xanthobacter, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


7213..7611
DNA (399bp) protein (133aa)
30S ribosomal protein S8 n=1 Tax=Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2) RepID=RS8_XANP2
rpsH; 30S ribosomal protein S8
30S ribosomal protein S8 {ECO:0000255|HAMAP-Rule:MF_01302}; TaxID=78245 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Xanthobacter.;" source="Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2).;"
berkeley_reactor_200306_biofilm_scaffold_44015_18
Methylobacterium aquaticum, Methylobacterium, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


7628..8161
DNA (534bp) protein (178aa)
50S ribosomal protein L6 n=1 Tax=Microvirga sp. WSM3557 RepID=I4YWC2_9RHIZ
50S ribosomal protein L6 {ECO:0000256|HAMAP-Rule:MF_01365, ECO:0000256|RuleBase:RU003870}; TaxID=270351 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Methylobacterium.;" source="Methylobacterium aquaticum.;"
rplF; 50S ribosomal protein L6
berkeley_reactor_200306_biofilm_scaffold_44015_19
Starkeya novella, Starkeya, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


8174..8536
DNA (363bp) protein (121aa)
50S ribosomal protein L18 n=1 Tax=Starkeya novella (strain ATCC 8093 / DSM 506 / CCM 1077 / IAM 12100 / NBRC 12443 / NCIB 9113) RepID=D7A969_STAND
50S ribosomal protein L18
50S ribosomal protein L18 {ECO:0000256|HAMAP-Rule:MF_01337}; 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).;"
berkeley_reactor_200306_biofilm_scaffold_44015_20
Xanthobacter autotrophicus, Xanthobacter, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


8548..9105
DNA (558bp) protein (186aa)
30S ribosomal protein S5 n=1 Tax=Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2) RepID=RS5_XANP2
rpsE; 30S ribosomal protein S5
30S ribosomal protein S5 {ECO:0000255|HAMAP-Rule:MF_01307}; TaxID=78245 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Xanthobacter.;" source="Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2).;"
berkeley_reactor_200306_biofilm_scaffold_44015_21
Lutibaculum baratangense, Lutibaculum, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

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9120..9311
DNA (192bp) protein (64aa)
LSU ribosomal protein L30p (L7e) n=1 Tax=Lutibaculum baratangense AMV1 RepID=V4RTW3_9RHIZ
50S ribosomal protein L30 {ECO:0000256|HAMAP-Rule:MF_01371, ECO:0000256|SAAS:SAAS00082687}; TaxID=631454 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Rhodobiaceae; Lutibaculum.;" source="Lutibaculum baratangense AMV1.;"
rpmD; ribosomal protein L30
berkeley_reactor_200306_biofilm_scaffold_44015_22
Xanthobacter autotrophicus, Xanthobacter, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


9324..9803
DNA (480bp) protein (160aa)
50S ribosomal protein L15 n=1 Tax=Kaistia granuli RepID=UPI000362FC91
rplO; 50S ribosomal protein L15
50S ribosomal protein L15 {ECO:0000255|HAMAP-Rule:MF_01341}; TaxID=78245 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Xanthobacter.;" source="Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2).;"
berkeley_reactor_200306_biofilm_scaffold_44015_23
Xanthobacter autotrophicus, Xanthobacter, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

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9879..11216
DNA (1338bp) protein (446aa)
Protein translocase subunit SecY n=1 Tax=Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2) RepID=A7IPQ0_XANP2
secY; preprotein translocase subunit SecY
Protein translocase subunit SecY {ECO:0000256|HAMAP-Rule:MF_01465}; TaxID=78245 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Xanthobacteraceae; Xanthobacter.;" source="Xanthobacter autotrophicus (strain ATCC BAA-1158 / Py2).;"
berkeley_reactor_200306_biofilm_scaffold_44015_24
Microvirga lotononidis, Microvirga, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

11213..11830
DNA (618bp) protein (206aa)
Adenylate kinase {ECO:0000256|HAMAP-Rule:MF_00235, ECO:0000256|RuleBase:RU003331}; Short=AK {ECO:0000256|HAMAP-Rule:MF_00235};; EC=2.7.4.3 {ECO:0000256|HAMAP-Rule:MF_00235, ECO:0000256|RuleBase:RU003331};; ATP-AMP transphosphorylase {ECO:0000256|HAMAP-Rule:MF_00235}; ATP:AMP phosphotransferase {ECO:0000256|HAMAP-Rule:MF_00235}; Adenylate monophosphate kinase {ECO:0000256|HAMAP-Rule:MF_00235}; TaxID=864069 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Methylobacteriaceae; Microvirga.;" source="Microvirga lotononidis.;"
Adenylate kinase n=1 Tax=Microvirga sp. WSM3557 RepID=I4YWC8_9RHIZ
adk; adenylate kinase
berkeley_reactor_200306_biofilm_scaffold_44015_25
Bosea sp. LC85, Bosea, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


12172..12540
DNA (369bp) protein (123aa)
30S ribosomal protein S13 n=1 Tax=Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) RepID=RS13_METPB
30S ribosomal protein S13 {ECO:0000256|HAMAP-Rule:MF_01315}; TaxID=1502851 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Bradyrhizobiaceae; Bosea.;" source="Bosea sp. LC85.;"
rpsM; 30S ribosomal protein S13
berkeley_reactor_200306_biofilm_scaffold_44015_26
Methylocella silvestris, Methylocella, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists


12689..13081
DNA (393bp) protein (131aa)
30S ribosomal protein S11 n=1 Tax=Methylocella silvestris (strain BL2 / DSM 15510 / NCIMB 13906) RepID=RS11_METSB
30S ribosomal protein S11
30S ribosomal protein S11 {ECO:0000255|HAMAP-Rule:MF_01310}; TaxID=395965 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Beijerinckiaceae; Methylocella.;" source="Methylocella silvestris (strain BL2 / DSM 15510 / NCIMB 13906).;"
berkeley_reactor_200306_biofilm_scaffold_44015_27
Beijerinckia indica, Beijerinckia, Rhizobiales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

13168..14184
DNA (1017bp) protein (339aa)
DNA-directed RNA polymerase subunit alpha {ECO:0000255|HAMAP-Rule:MF_00059}; Short=RNAP subunit alpha {ECO:0000255|HAMAP-Rule:MF_00059};; EC=2.7.7.6 {ECO:0000255|HAMAP-Rule:MF_00059};; RNA polymerase subunit alpha {ECO:0000255|HAMAP-Rule:MF_00059}; Transcriptase subunit alpha {ECO:0000255|HAMAP-Rule:MF_00059}; TaxID=395963 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhizobiales; Beijerinckiaceae; Beijerinckia.;" source="Beijerinckia indica subsp. indica (strain ATCC 9039 / DSM 1715 / NCIB; 8712).;"
DNA-directed RNA polymerase subunit alpha n=1 Tax=Beijerinckia indica subsp. indica (strain ATCC 9039 / DSM 1715 / NCIB 8712) RepID=RPOA_BEII9
DNA-directed RNA polymerase subunit alpha
berkeley_reactor_200306_biofilm_scaffold_44015_28
bacterium YEK0313, Bacteria

Not on your lists


14222..14635
DNA (414bp) protein (138aa)
50S ribosomal protein L17 n=1 Tax=Pelagibacterium halotolerans (strain JCM 15775 / CGMCC 1.7692 / B2) RepID=G4RC14_PELHB
50S ribosomal protein L17 {ECO:0000256|HAMAP-Rule:MF_01368, ECO:0000256|RuleBase:RU000661}; TaxID=1522316 species="Bacteria.;" source="bacterium YEK0313.;"
50S ribosomal protein L17
berkeley_reactor_200306_biofilm_scaffold_44015_29
Inquilinus limosus, Inquilinus, Rhodospirillales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

15390..16433
DNA (1044bp) protein (348aa)
ABC transporter substrate-binding protein n=1 Tax=Rhizobium giardinii RepID=UPI00037A6EB3
ABC transporter substrate-binding protein {ECO:0000313|EMBL:KGM31643.1}; TaxID=1398085 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhodospirillales; Rhodospirillaceae; Inquilinus.;" source="Inquilinus limosus MP06.;"
periplasmic binding protein
berkeley_reactor_200306_biofilm_scaffold_44015_30
Inquilinus limosus, Inquilinus, Rhodospirillales, Alphaproteobacteria, Proteobacteria, Bacteria

Not on your lists

16430..17470
DNA (1041bp) protein (347aa)
ABC transporter permease n=1 Tax=Rhizobium giardinii RepID=UPI000374A48A
ABC transporter permease {ECO:0000313|EMBL:KGM31642.1}; TaxID=1398085 species="Bacteria; Proteobacteria; Alphaproteobacteria; Rhodospirillales; Rhodospirillaceae; Inquilinus.;" source="Inquilinus limosus MP06.;"
ferric enterobactin ABC transporter permease protein
Displaying items 1-30 of 123 in total

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