| name | startcoord | endcoord | * | * | de | intron | start1 | direction | status | gn | ec | gp | cc | type1 | kognum | kog | glimmer | dompat | auth | 10/10/03 00:00:00 | More Comments | |
| | | | | | | | | | | | | | | | | | | | | 10/10/03 00:00:00 | | |
| LUAcid_KM3_G1_01 | 358 | 1194 | | | beta-lactamase-like protein | | 19 | D | ADDED | | | | - best match euryarchaeote: eta-lactamase domain protein, Candidatus Methanoregula boonei 6A8 (39% id), then bacteria - also COG0324 - seems to be part of purin operon - start codon changed to 19aa | PROTEIN | COG1234 Metal-dependent hydrolases of the beta-lactamase superfamily III | R General function prediction only | Good | BE | 82.227.62.180 | 18/09/07 11:01:17 | - paralogs on different clones LUAcid_KM3_G1_01 LUAcid_KM3_D9_13 LUAcid_AD106_G4_08 L35498_AD55_D2_360 LUAcid_KM4_H7_24 | |
| LUAcid_KM3_G1_02 | 1206 | 2516 | | | adenylosuccinate lyase (PurB) | | 1 | D | ADDED | | | | - best match to KM3_205_D9_282 (80% id) - next match 41b15 (69% id) - purine ribonucleotide biosynthetic process | PROTEIN | COG0015 Adenylosuccinate lyase | F Nucleotide transport and metabolism | Good | ABE | 82.227.62.180 | 18/09/07 11:34:00 | - orthologs found in other clones: LUAcid_KM3_G1_02 LUAcid_KM3_D9_14 L35498_AD55_D2_353 LUAcid_AD106_G4_09 LUAcid_KM4_H7_25 23k22_016 PurB (AY281356 soil clone) 41b15_012 PurB (AY281352 soil clone) | |
| LUAcid_KM3_G1_03 | 2516 | 2752 | | | phosphoribosylformylglycinamidine synthase I (PurS) | | 1 | D | ADDED | | | | - best match to AD55_D2_340 (69% id) - purin biosynthesis pathway | PROTEIN | COG1828 Phosphoribosylformylglycinamidine (FGAM) synthase, PurS component | F Nucleotide transport and metabolism | - | AB | 82.227.62.180 | 18/09/07 11:49:06 | - orthologs on other acidobacterial clones: LUAcid_KM3_G1_03 L35498_AD55_D2_340 LUAcid_KM3_D9_15 LUAcid_AD106_G4_10 LUAcid_KM4_H7_26 23k22_011 PurS AY281352 41b15_015 PurS AY281356 | |
| LUAcid_KM3_G1_04 | 2752 | 3468 | | | phosphoribosylformylglycinamidine synthase I (PurQ) | | 1 | D | ADDED | | | | best match to KM3_205_D9_262 (84% id) - Purin biosynthesis operon | PROTEIN | COG0047 Phosphoribosylformylglycinamidine (FGAM) synthase, glutamine amidotransferase domain | F Nucleotide transport and metabolism | Good | AB | 82.227.62.180 | 18/09/07 13:10:46 | - several orthologs in Acidobacteria LUAcid_KM3_G1_04 LUAcid_KM3_D9_16 L35498_AD55_D2_336 LUAcid_AD106_G4_11 LUAcid_KM4_H7_27 41b15_014 PurQ AY281356 23k22_010 PurQ AY281352 Acid345_2235 Acid_5943 | |
| LUAcid_KM3_G1_05 | 3488 | 3694 | | | hypothetical protein | | 19 | D | ADDED | | | | no hits | PROTEIN | | | Good | | 82.227.62.180 | 18/09/07 13:42:47 | | |
| LUAcid_KM3_G1_06 | 3694 | 5910 | | | phosphoribosylformylglycinamidine synthase II (PurL) | | 1 | D | ADDED | | 6.3.5.3 | | best match to KM3_205_D9_254 (77% id) - purin biosynthesis operon - AIR synthase related protein - ’de novo’ IMP biosynthetic process - hosphoribosylformylglycinamidine synthase is a single, long polypeptide in most bacteria. Three proteins are required in Bacillus subtilis and many other species. This is the longest of the three and is designated PurL, phosphoribosylformylglycinamidine synthase II, or FGAM synthase II. | PROTEIN | COG0046 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain | F Nucleotide transport and metabolism | Good | AB | 82.227.62.180 | 18/09/07 14:08:01 | several orthologs in Acidobacteria: LUAcid_KM3_G1_06 LUAcid_KM3_D9_17 L35498_AD55_D2_328 LUAcid_AD106_G4_12 LUAcid_KM4_H7_28 L35511_KM3_47_B8_428 23k22_009 PurL AY281352 41b15_013 PurL AY281356 Acid_5944 Acid345_4622 | |
| LUAcid_KM3_G1_21 | 29229 | 28543 | | | lipolytic secreted GDSL family protein | | 1 | R | ADDED | | 3.1 | | - best match to Planctomyces maris DSM 8797 (44% id) - A variety of lipolytic enzymes with serine as part of the active site have been identified [1]. Members of this family include; Aeromonas hydrophila lipase, Vibrio mimicus arylesterase, Vibrio parahaemolyticus thermolabile hemolysin, rabbit phospholipase (AdRab-B), and Brassica napus anter-specific proline-rich protein. - also in some Archaea | PROTEIN | COG2755 Lysophospholipase L1 and related esterases | E Amino acid transport and metabolism | Good | BE | 82.227.62.180 | 18/09/07 15:08:33 | - 3 matches in Solibacter (Acid_7819, Acid_2072 - no matches in other clones | |
| LUAcid_KM3_G1_07 | 5910 | 7337 | | | amidophosphoribosyl transferase (PurF) | | 1 | D | ADDED | | 2.4.2.14 | | - best match to KM3_205_D9_226 (88% id) - purin biosynthesis operon - also COG0449 - Purine nucleotides are synthesised both via the de novo pathway and via the salvage pathway and are vital for cell functions and cell proliferation through DNA and RNA syntheses and ATP energy supply. Amidophosphoribosyltransferase (EC:2.4.2.14) is the rate-limiting enzyme in the de novo pathway of purine ribonucleotide synthesis and is regulated by feedback inhibition by AMP and GMP [1]. | PROTEIN | COG0034 Glutamine phosphoribosylpyrophosphate amidotransferase | F Nucleotide transport and metabolism | Good | ABE | 82.227.62.180 | 18/09/07 15:32:39 | several othologs in Acidobacteria LUAcid_KM3_G1_07 LUAcid_KM3_D9_18 L35511_KM3_47_B8_405 L35498_AD55_D2_302 LUAcid_AD106_G4_13 LUAcid_KM4_H7_29 41b15_012 PurF AY281356 23k22_008 PurF AY281352 Acid345_4621 Acid_5945 | |
| LUAcid_KM3_G1_24 | 32340 | 33149 | | | oxidoreductases of the aldo/keto reductase family-like | | 1 | D | ADDED | | | | best match to Candidatus Desulfococcus oleovorans Hxd3 (30% id) - no COG - InterPro001395 Aldo/keto reductase family - predicted oxidoreductase activity | PROTEIN | | | Good | AB | 82.227.62.180 | 18/09/07 16:39:21 | low matches in both acidobacterial genomes - not in clones | |
| LUAcid_KM3_G1_08 | 7337 | 8536 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 09:22:57 | - best matches to Acidobacteria, also soil clone - environment conserved - to be verified | |
| LUAcid_KM3_G1_09 | 8545 | 9594 | | | phosphoribosylformylglycinamidine cyclo ligase (PurM) | | 1 | D | ADDED | | | | - purin biosynthesis operon | PROTEIN | COG0150 Phosphoribosylaminoimidazole (AIR) synthetase | F Nucleotide transport and metabolism | Good | | 82.227.62.180 | 21/09/07 09:27:38 | - best matches to Acidobacteria, also soil clone - environment conserved - to be verified | |
| LUAcid_KM3_G1_10 | 9615 | 10220 | | | phosphoribosylglycinamide formyltransferase (PurN) | | 1 | D | ADDED | | | | - purin biosynthesis operon | PROTEIN | COG0299 Folate-dependent phosphoribosylglycinamide formyltransferase PurN | F Nucleotide transport and metabolism | Good | | 82.227.62.180 | 21/09/07 09:35:28 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_G1_11 | 10400 | 11614 | | | tyrosyl-tRNA synthetase (TyrS) | | 1 | D | ADDED | | 6.1.1.1 | | | PROTEIN | COG0162 Tyrosyl-tRNA synthetase | J Translation, ribosomal structure and biogenesis | Good | | 82.227.62.180 | 21/09/07 09:39:11 | - environment conserved in Acidobacteria - also in soil clones - to be verified | |
| LUAcid_KM3_G1_12 | 17678 | 18412 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 09:45:19 | - one match to Acid345_1727 - environment conserved in acidobacterial clones - to be verified | |
| LUAcid_KM3_G1_13 | 18440 | 20029 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 09:46:18 | - one match to acidobacterial clones - environment conserved in acidobacterial clones - to be verified | |
| LUAcid_KM3_G1_13 | 18440 | 20029 | | | hypothetical protein | | 1 | D | ADDED | | | | - no COG | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 09:48:10 | - one match to acidobacterial clones - environment conserved in acidobacterial clones - to be verified | |
| LUAcid_KM3_G1_14 | 20032 | 21477 | | | FAD linked oxidase | | 1 | D | ADDED | | | | - best match Rubrobacter xylanophilus - very conserved 56% identity - D-lactat dehydrogenase (cytochrome) - FAD/FMN- containing dehydrogenase (GlcD) | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 09:50:09 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_14 | 20032 | 21477 | | | FAD linked oxidase | | 1 | D | ADDED | | | | - best match Rubrobacter xylanophilus - very conserved 56% identity - D-lactat dehydrogenase (cytochrome) - FAD/FMN- containing dehydrogenase (GlcD) | PROTEIN | COG0277 FAD/FMN-containing dehydrogenases | C Energy production and conversion | Good | | 82.227.62.180 | 21/09/07 09:53:12 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_15 | 21477 | 22760 | | | FAD linked oxidase-like protein | | 1 | D | ADDED | | | | | PROTEIN | COG0277 FAD/FMN-containing dehydrogenases | C Energy production and conversion | Good | | 82.227.62.180 | 21/09/07 09:59:25 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_16 | 24164 | 22767 | | | protein of unknown function DUF224, cysteine-rich region | | 1 | R | ADDED | | | | | PROTEIN | | C Energy production and conversion | Good | | 82.227.62.180 | 21/09/07 10:02:00 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_17 | 24051 | 25220 | | | NADPH:quinone reductase | | 1 | D | ADDED | | | | - electron transport operon like structure | PROTEIN | COG0604 NADPH:quinone reductase and related Zn-dependent oxidoreductases | C Energy production and conversion | Good | | 82.227.62.180 | 21/09/07 10:04:46 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_19 | 25726 | 27600 | | | gamma-glutamyltranspeptidase | | 1 | D | ADDED | | | | | PROTEIN | COG0405 Gamma-glutamyltransferase | E Amino acid transport and metabolism | Good | | 82.227.62.180 | 21/09/07 10:06:38 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_18 | 25243 | 25719 | | | Endoribonuclease L-PSP | | 1 | D | ADDED | | | | - also COG0024 - length in other variable, but Ok | PROTEIN | COG0251 Putative translation initiation inhibitor, yjgF family | J Translation, ribosomal structure and biogenesis | Good | | 82.227.62.180 | 21/09/07 10:10:45 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_20 | 27637 | 28434 | | | Sulphate-modifying factor-like protein | | 1 | D | ADDED | | | | protein of unknown function DUF323 - best matches to E | PROTEIN | COG1262 Uncharacterized conserved protein | S Function unknown | Good | | 82.227.62.180 | 21/09/07 10:15:12 | - environment conserved in other Acidobacteria - to be verified | |
| LUAcid_KM3_G1_22 | 29420 | 31372 | | | TPP-binding enzymes domain protein | | 1 | D | ADDED | | | | - no COG - IPR000399 TPP-binding enzymes; big group of proteins: A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [1] that some of these enzymes are structurally related | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 10:18:24 | - environment conserved in Acidobacteria - to be verified | |
| LUAcid_KM3_G1_23 | 31845 | 32327 | | | - hypothetical protein | | 1 | D | ADDED | | | | - best match to uncultured bacterium BAC10-10 40% id) - no COG - length Ok, - not very conserved - IPR003219 Cytochrome c, alcohol dehydrogenase-like subunit: Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes [1]. - electron tranfer related? | PROTEIN | | | Good | | 82.227.62.180 | 21/09/07 10:22:22 | - environment conserved in Acidobacteria - to be verified | |
| LUACID_KM3_G1_23 | 31845 | 32327 | | | - hypothetical protein | | 20 | D | ADDED | | | | - best match to uncultured bacterium BAC10-10 40% id) - no COG - length Ok, - not very conserved - IPR003219 Cytochrome c, alcohol dehydrogenase-like subunit: Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes [1]. - electron tranfer related? | PROTEIN | | | Good | | 129.175.107.204 | 10/10/07 17:14:33 | - environment conserved in Acidobacteria - to be verified | |
| LUACID_KM3_G1_16SRNA | 11919 | 13482 | | | 16S ribosomal RNA | | 1 | D | ADDED | 16SrRNA | | | | RNA | | | | | 129.175.105.75 | 29/10/07 17:39:52 | | |
| LUACID_KM3_G1_23SRNA | 14175 | 17054 | | | 23S ribosomal RNA | | 1 | D | ADDED | 23SrRNA | | | | RNA | | | | | 129.175.105.75 | 29/10/07 17:40:08 | | |
| LUACID_KM3_G1_5SRNA | 17323 | 17429 | | | 5S ribosomal RNA | | 1 | D | ADDED | 5SrRNA | | | | RNA | | | | | 129.175.105.75 | 29/10/07 17:40:40 | | |
| LUACID_KM3_G1_TRNA1 | 13595 | 13668 | | | tRNA-Ile (GAT) | | 1 | D | ADDED | tRNA-Ile | | | | TRNA | | | | | 129.175.105.75 | 29/10/07 17:41:26 | | |
| LUACID_KM3_G1_TRNA2 | 13853 | 13925 | | | tRNA-Ala (TGC) | | 1 | D | ADDED | tRNA-Ala | | | | TRNA | | | | | 129.175.105.75 | 29/10/07 17:42:19 | | |
| LUACID_KM3_G1_16 | 24164 | 22767 | | | protein of unknown function DUF224, cysteine-rich region | | 1 | R | ADDED | | | | | PROTEIN | COG0247 Fe-S oxidoreductase | C Energy production and conversion | Good | | 129.175.105.75 | 17/12/07 16:37:59 | - environment conserved in Acidobacteria - to be verified fixed COG -yz |