| LUAcid_KM3_B8D2_36 | 45354 | 43354 | | | hypothetical protein | | 1 | R | ADDED | | | | - outer membran autotransporter barrel domain - Autotransporter-associated beta strand repeat - lenth to matches very different | PROTEIN | COG3468 Type V secretory pathway, adhesin AidA | M Cell wall/membrane/envelope biogenesis | Good | | 82.227.62.180 | 26/09/07 07:27:50 | - low matches in both acidobacterial genomes with different length | |
| LUAcid_KM3_B8D2_34 | 42744 | 43337 | | | Holliday junction DNA helicase RuvA | | 1 | D | ADDED | | | | - IPR000085 Bacterial DNA recombination protein RuvA - also COG0022 | PROTEIN | COG0632 Holliday junction resolvasome, DNA-binding subunit | L Replication, recombination and repair | Good | B | 82.227.62.180 | 26/09/07 07:32:19 | - match to AD106_G4_452 (66% id) and one in both genomes - environment conserved in Acidobacteria? - to be verified | |
| LUAcid_KM3_B8D2_33 | 42177 | 42728 | | | crossover junction endodeoxyribonuclease RuvC | | 1 | D | ADDED | | | | - IPR002176 Crossover junction endodeoxyribonuclease RuvC | PROTEIN | COG0817 Holliday junction resolvasome, endonuclease subunit | L Replication, recombination and repair | Good but overlapping | B | 82.227.62.180 | 26/09/07 07:34:59 | - match to AD106_G4_447 (58% id) and one in both genomes - environment conserved in Acidobacteria? - to be verified | |
| LUAcid_KM3_B8D2_32 | 41416 | 42177 | | | protein of unknown function DUF28 | | 1 | D | ADDED | | | | DUF28 domain in B and E, rare in A | PROTEIN | COG0217 Uncharacterized conserved protein | S Function unknown | Good | | 82.227.62.180 | 26/09/07 07:38:44 | - match to AD106_G4__439 (77% id) and one in both genomes - environment conserved in Acidobacteria? - to be verified | |
| LUAcid_KM3_B8D2_31 | 40510 | 41265 | | | Methyltransferase type 11 | | 1 | D | ADDED | | | | - no COG - best match Cloroflexus only 27% id - low match to COG2226, UbiE, Methylase involved in ubiquinone/menaquinone biosynthesis - IPR013216 Methyltransferase type 11 - matches to Crenarcheae | PROTEIN | | | Good | | 82.227.62.180 | 26/09/07 07:48:31 | - match to AD106_G4_433 (N-terminal) and 430 (C-terminal); probable frameshift between 433 and 430 - no matches in both genomes - environment conserved in AD106_G4 | |
| LUAcid_KM3_B8D2_30 | 40391 | 39888 | | | hypothetical membrane proteine | | 1 | R | ADDED | | | | - best match to hypothetical protein SRU_0577 Salinibacter ruber DSM 13855 (36% id) - no COG - low match to COG4244, COG4244, Predicted membrane protein [Function unknown]. - no interPro family | PROTEIN | | | Good | | 82.227.62.180 | 26/09/07 07:58:10 | - match to AD106_G4_424 (42% id) - no match in both acidobacterial genomes - environment conserved in clones? - to be verified | |
| LUAcid_KM3_B8D2_29 | 39888 | 37786 | | | quinoprotein glucose dehydrogenase | | 1 | R | ADDED | | | | - best match to quinate/shikimate dehydrogenase, putative marine gamma proteobacterium HTCC2143 (41% id) - orthologs affiliated to proteobacteria and few other bacteria - IPR011047 Quinonprotein alcohol dehydrogenase-like: Quinoprotein alcohol dehydrogenases are a family of proteins found in methylotrophic or autotrophic bacteria - large family in B, A and E | PROTEIN | COG4993 Glucose dehydrogenase | G Carbohydrate transport and metabolism | Good | B | 82.227.62.180 | 26/09/07 08:08:48 | - several matches to Solibacter (best 42% id), not to Ellin345 strain - high number of matches in Solibacter, but only some in other bacterial genomes - match to KM3_25_B4_257 and KM3_25_B4_153 - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_28 | 37235 | 37783 | | | acetyltransferase (GNAT) family protein | | 26 | D | ADDED | | | | - best match to acetyltransferase (GNAT) family protein Desulfovibrio desulfuricans G20 (41% id) | PROTEIN | COG0454 Histone acetyltransferase HPA2 and related acetyltransferases | K Transcription | Good | AB | 82.227.62.180 | 26/09/07 08:16:46 | - no matches to acidobacterial genomes - match to KM3_25_B4_414 - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_27 | 36786 | 37271 | | | hypothetical protein | | 20 | D | ADDED | | | | - no COG - IPR003219 Cytochrome c, alcohol dehydrogenase-like subunit - best match to uncultured bacterium BAC10-10 (44% id) | PROTEIN | | | Good but overlapping | B | 82.227.62.180 | 26/09/07 08:26:14 | - low matches to acidobacterial genomes - match to KM3_187_G1_367 (64% id - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_26 | 36353 | 36856 | | | hypothetical protein | | 1 | D | ADDED | | | | - no matches - specific to Acidobacteria - no COG - no family | PROTEIN | | | Good | unique | 82.227.62.180 | 26/09/07 08:50:05 | - best match to KM3_187_G1_360 (57% id) - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_25 | 34356 | 36341 | | | thiamine pyrophosphate-requiring enzyme | | 1 | D | ADDED | | | | - IPR000399 TPP-binding enzymes - Thiamine diphosphate-dependent enzyme, acetolactate synthase type domain: A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor - no COG - best matches with different length - start codon? - large family | PROTEIN | | | Good | ABE | 82.227.62.180 | 26/09/07 08:58:42 | - best match to KM3_187_G1_355 (82% id) - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_24 | 33347 | 34231 | | | protein of unknown function DUF323 | | 11 | D | ADDED | | | | - conserved hypothetical protein | PROTEIN | COG1262 Uncharacterized conserved protein | S Function unknown | Good | | 82.227.62.180 | 26/09/07 09:07:41 | - best match to KM3_187_G1_318 (72% id) - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_23 | 31462 | 33384 | | | gamma-glutamyltransferase | | 1 | D | ADDED | | | | - also COG0075 | PROTEIN | COG0405 Gamma-glutamyltransferase | E Amino acid transport and metabolism | Good | | 82.227.62.180 | 26/09/07 09:10:58 | - matches on different acidobacterial clones - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_22 | 30955 | 31446 | | | Endoribonuclease L-PSP | | 9 | D | ADDED | | | | - also COG0251 - best match to Ellin345 | PROTEIN | COG0024 Methionine aminopeptidase | J Translation, ribosomal structure and biogenesis | Good | | 82.227.62.180 | 26/09/07 09:32:46 | - matches on different acidobacterial clones - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_21 | 29973 | 30950 | | | Alcohol dehydrogenase superfamily, zinc-containing | | 1 | D | ADDED | | | | - best match to Alcohol dehydrogenase, zinc-binding domain protein Alkalilimnicola ehrlichei MLHE-1 (60% id) - large and conserved family | PROTEIN | COG0604 NADPH:quinone reductase and related Zn-dependent oxidoreductases | C Energy production and conversion | Good | B | 82.227.62.180 | 26/09/07 10:04:25 | - several matches on acidobacterial clones and genomes - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_20 | 29958 | 28591 | | | glycolate oxidase, iron-sulphur subunit family protein | | 1 | R | ADDED | | | | - IPR012257 Glycolate oxidase, iron-sulphur subunit - best match 57% id | PROTEIN | COG0247 Fe-S oxidoreductase | C Energy production and conversion | Good | B | 82.227.62.180 | 27/09/07 08:09:13 | - several matches to acidobacteria clones - one match to Solibacter - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_19 | 27301 | 28566 | | | FAD linked oxidase-like protein | | 1 | D | ADDED | | | | - IPR004113 FAD linked oxidase, C-terminal and IPR006094 FAD linked oxidase, N-terminal - best match 37% id - one match to A | PROTEIN | COG0277 FAD/FMN-containing dehydrogenases | C Energy production and conversion | Good | B | 82.227.62.180 | 27/09/07 08:13:38 | - several matches to acidobacteria clones - two matches on the same clone, paralog? - two matches to Solibacter - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_18 | 25843 | 27291 | | | FAD linked oxidase-like protein | | 1 | D | ADDED | | | | - IPR004113 FAD linked oxidase, C-terminal and IPR006094 FAD linked oxidase, N-terminal - several domain matches - IPR004490 Glycolate oxidase subunit GlcD - best match 55% id - interestin study: Succession and diel transcriptional response of the glycolate-utilizing component of the bacterial community during a spring phytoplankton bloom | PROTEIN | COG0277 FAD/FMN-containing dehydrogenases | C Energy production and conversion | Good | B | 82.227.62.180 | 27/09/07 08:21:04 | - several matches to acidobacteria clones - two matches on the same clone, adjacent paralog? - matches to Solibacter and Ellin345 - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_17 | 24303 | 25802 | | | conserved hypothetical | | 1 | D | ADDED | | | | - IPR006025 Peptidase M, neutral zinc metallopeptidases, zinc-binding site | PROTEIN | | | Good | ABE | 82.227.62.180 | 27/09/07 08:43:47 | - several matches to acidobacteria clones - one matche to each Solibacter and Ellin345 - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_16 | 24201 | 23215 | | | Alcohol dehydrogenase GroES domain protein | | 1 | R | ADDED | | | | - IPR002085 family Alcohol dehydrogenase superfamily, zinc-containing - best match Archaea - best match to Alcohol dehydrogenase GroES domain protein Candidatus Nitrosopumilus maritimus SCM1 (50% id) - GroES (chaperonin 10) is an oligomeric molecular chaperone, which functions in protein folding and possibly in intercellular signalling, being found on the surface of various prokaryotic and eukaryotic cells, as well as being released from cells - high of domains found also in E | PROTEIN | COG1063 Threonine dehydrogenase and related Zn-dependent dehydrogenases | E Amino acid transport and metabolism | Good | AB | 82.227.62.180 | 27/09/07 09:24:14 | - one match in KM3_205_D9 (64% id) - several matches in acidobacterial genimes - environment conserved? - to be verified | |
| luAcid_KM3_B8D2_23SRNA | 18986 | 21859 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG - only one single match: Ellin345_1727 (54% id) - unique Acidobacteria | PROTEIN | | | | unique | 82.227.62.180 | 27/09/07 09:28:44 | - several matches in acidobacterial clones - one match in Ellin345, not in Solibacter - environment conserved? - to be verified | |
| LUAcid_KM3_B8D2_14 | 15225 | 16442 | | | tyrosyl-tRNA synthetase (TyrS) | | 1 | D | ADDED | | 6.1.1.1 | | - best match Ellin345 (62% id) - also found in A and E | PROTEIN | COG0162 Tyrosyl-tRNA synthetase | J Translation, ribosomal structure and biogenesis | Good | B | 82.227.62.180 | 27/09/07 09:36:41 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_13 | 14565 | 15179 | | | phosphoribosylglycinamide formyltransferase (PurN) | | 1 | D | ADDED | | 2.1.2.2 | | - also COG0788 - purin biosynthesis operon | PROTEIN | COG0299 Folate-dependent phosphoribosylglycinamide formyltransferase PurN | F Nucleotide transport and metabolism | Good | ABE | 82.227.62.180 | 27/09/07 09:40:16 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_12 | 13487 | 14536 | | | phosphoribosylformylglycinamidine cyclo ligase (PurM) | | 1 | D | ADDED | | 6.3.3.1 | | - also COG0788 - purin biosynthesis operon - also present in A and E | PROTEIN | COG0150 Phosphoribosylaminoimidazole (AIR) synthetase | F Nucleotide transport and metabolism | Good | B | 82.227.62.180 | 27/09/07 09:42:54 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_11 | 12276 | 13463 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG1413 low match - IPR011989 Armadillo-like helical - length and matches only Acidobacteria | PROTEIN | COG1413 FOG: HEAT repeat | C Energy production and conversion | Good | unique | 82.227.62.180 | 27/09/07 09:47:41 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_10 | 10819 | 12276 | | | amidophosphoribosyl transferase (PurF) | | 1 | D | ADDED | | 2.4.2.14 | | - purin biosynthesis operon | PROTEIN | COG0034 Glutamine phosphoribosylpyrophosphate amidotransferase | F Nucleotide transport and metabolism | Good | BE | 82.227.62.180 | 27/09/07 09:54:04 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_09 | 8599 | 10815 | | | putative phosphoribosylformylglycinamidine synthase II | | 1 | D | ADDED | | 6.3.5.3 | | - purin biosynthesis operon - PurL ou PurM? | PROTEIN | COG0046 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain | F Nucleotide transport and metabolism | Good | AB | 82.227.62.180 | 27/09/07 09:59:39 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_08 | 7804 | 8514 | | | phosphoribosylformylglycinamidine synthase I (PurQ) | | 1 | D | ADDED | | 6.3.5.3 | | - purin biosynthesis operon - IPR010075 Phosphoribosylformylglycinamidine synthase I - In some species, phosphoribosylformylglycinamidine synthase is composed of a single polypeptide chain. This entry describes the PurQ protein of Bacillus subtilis (where PurL, PurQ, and PurS are required for phosphoribosylformylglycinamidine synthase activity) and functionally equivalent proteins from other bacteria and archaea. | PROTEIN | COG0047 Phosphoribosylformylglycinamidine (FGAM) synthase, glutamine amidotransferase domain | F Nucleotide transport and metabolism | Good | AB | 82.227.62.180 | 27/09/07 10:04:16 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_07 | 7568 | 7804 | | | phosphoribosylformylglycinamidine synthase I (PurS component) | | 1 | D | ADDED | | 6.3.5.3 | | - purin biosynthesis operon IPR003850 Phosphoribosylformylglycinamidine synthetase PurS Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known | PROTEIN | COG1828 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component | F Nucleotide transport and metabolism | - | AB | 82.227.62.180 | 27/09/07 10:12:08 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_06 | 6258 | 7568 | | | adenylosuccinate lyase (PurB) | | 1 | D | ADDED | | 4.3.2.2 | | - purin biosynthesis operon - IPR004769 Adenylosuccinate lyase | PROTEIN | COG0015 Adenylosuccinate lyase | F Nucleotide transport and metabolism | Good | AB | 82.227.62.180 | 27/09/07 10:14:18 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_B8D2_05 | 5614 | 6231 | | | beta-lactamase-like protein | | 1 | D | ADDED | | | | - matches too short N-terminal - COG domain N-terminal truncated - only match corresponding to length: KM4_9_H7_148 - also COG1235: Metal-dependent hydrolases of the beta-lactamase superfamily I - good match to A | PROTEIN | COG1235 Metal-dependent hydrolases of the beta-lactamase superfamily I | R General function prediction only | Good | | 82.227.62.180 | 27/09/07 10:26:17 | - matches in acidobacterial clones - environment conserved in Acidobacteria? - to be verified | |
| LUAcid_KM3_B8D2_04 | 4097 | 5353 | | | peptidase M16 domain protein | | 1 | D | ADDED | | | | | PROTEIN | COG0612 Predicted Zn-dependent peptidases | R General function prediction only | Good | | 82.227.62.180 | 27/09/07 10:29:32 | - matches to acidobacterial clones - to be verified - near to purin biosynthesis operon? | |
| LUAcid_KM3_B8D2_03 | 3911 | 2835 | | | radical SAM enzyme, Cfr family | | 1 | R | ADDED | | | | - IPR004383 Conserved hypothetical protein 48 - family affiliated to Bacteria | PROTEIN | COG0820 Predicted Fe-S-cluster redox enzyme | R General function prediction only | Good | B | 82.227.62.180 | 27/09/07 10:33:07 | - matches to acidobacterial clones - to be verified - near to purin biosynthesis operon? - near to purin operon? | |
| LUAcid_KM3_B8D2_02 | 1558 | 2832 | | | MiaB-like tRNA modifying enzyme | | 1 | D | ADDED | | | | - also IPR005839 Protein of unknown function UPF0004 - IPR006467 MiaB-like tRNA modifying enzyme | PROTEIN | COG0621 2-methylthioadenine synthetase | J Translation, ribosomal structure and biogenesis | Good | B | 82.227.62.180 | 27/09/07 10:35:58 | - matches to acidobacterial clones - to be verified - near to purin biosynthesis operon? - near to purin operon? | |
| LUAcid_KM3_B8D2_01 | 1360 | 644 | | | Na+/H+ antiporter NhaC | | 1 | R | ADDED | | | | - IPR004770 Na+/H+ antiporter NhaC - also some in A | PROTEIN | COG1757 Na+/H+ antiporter | C Energy production and conversion | Good | B | 82.227.62.180 | 27/09/07 10:38:06 | - matches in acidobacterial clones G4 and D2; match in Solibacter, not in Acid Ellin6076 - environment conserved in acidobacteria - to be verified | |
| LUAcid_KM3_B8D2_15 | 22455 | 23189 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG | PROTEIN | | | Good | | 82.227.62.180 | 27/09/07 10:40:18 | - one match to Acid345_1727 - environment conserved in acidobacterial clones - to be verified | |
| LUAcid_KM3_B8D2_35 | 43354 | 43605 | | | hypothetical partial holliday junction DNA helicase RuvB | | 1 | D | ADDED | | | | - N-terminal RuvB sequence; approximately 25% of the length | PROTEIN | | | - | | 82.227.62.180 | 27/09/07 11:04:07 | | |
| LUACID_KM3_B8D2_16SRNA | 16738 | 18301 | | | 16S ribosomal RNA | | 1 | D | ADDED | 16SrRNA | | | | RNA | | | | | 129.175.105.75 | 29/10/07 18:10:03 | | |
| LUACID_KM3_B8D2_23SRNA | 18986 | 21859 | | | 23S ribosomal RNA | | 1 | D | ADDED | 23SrRNA | | | | RNA | | | | | 129.175.105.75 | 29/10/07 18:10:32 | | |
| LUACID_KM3_B8D2_5SRNA | 22144 | 22270 | | | 5S ribosomal RNA | | 1 | D | ADDED | 5SrRNA | | | | RNA | | | | | 129.175.105.75 | 29/10/07 18:11:11 | | |
| LUACID_KM3_B8D2_TRNA1 | 18451 | 18524 | | | tRNA-Ile (GAT) | | 1 | D | ADDED | tRNA-Ile | | | | TRNA | | | | | 129.175.105.75 | 29/10/07 18:14:12 | | |
| LUACID_KM3_B8D2_TRNA2 | 18718 | 18790 | | | tRNA-Ala (TGC) | | 1 | D | ADDED | tRNA-Ala | | | | TRNA | | | | | 129.175.105.75 | 29/10/07 18:16:36 | | |
| LUACID_KM3_B8D2_35 | 43354 | 43605 | | | hypothetical partial holliday junction DNA helicase RuvB | | 1 | D | ADDED | | | | - N-terminal RuvB sequence; approximately 25% of the length | PROTEIN | COG2255 Holliday junction resolvasome, helicase subunit | L Replication, recombination and repair | - | | 129.175.105.75 | 17/12/07 16:31:46 | |