Current Annotation for L35509_KM3_25_B4 20/09/17

namestartcoordendcoord**deintronstart1directionstatusgnecgpcctype1kognumkogglimmerdompatauth10/10/03 00:00:00More Comments 
                    10/10/03 00:00:00  
LUAcid_KM3_B4_223215533651  Glucose-methanol-choline oxidoreductase family protein 11DADDED   - best match to Nitrobacter hamburgensis X14 (33% id) - start change to 11aa - truncated C-terminal of approximately 70aa - gluconate DHPROTEINCOG2303 Choline dehydrogenase and related flavoproteinsE Amino acid transport and metabolismGoodB82.227.62.18015/09/07 09:00:39- 7 matches to Solibacter - one match to Acid345 - one match to AD370_D1_227 
LUAcid_KM3_B4_213143432162  hypothetical protein 47DADDED   - best match Ralstonia metallidurans CH34 (29% id) - start to 47aa after length comparison and overlap considerationPROTEIN  Good but overlappingBE82.227.62.18015/09/07 09:12:41- low matches in acidobacterial genomes - very low match to AD370_D1_209 - environment conserved with gluconate DH in several bacteria (Ralstonia...) 
LUAcid_KM3_B4_203086031387  phosphatidylethanolamine-binding protein 21DADDED   - best match to Syntrophus aciditrophicus (39% id) - start to 21aa, after length comparisonPROTEINCOG1881 Phospholipid-binding proteinR General function prediction onlyGoodABE82.227.62.18015/09/07 16:09:06- low match to Acid_4841 
LUAcid_KM3_B4_193055629645  on Willebrand factor, type A 1RADDED   - best match to Solibacter usitatus Ellin6076 (30% id) - length OK - IPR002035 von Willebrand factor, type A family - general prediction only; very big family - no COGPROTEIN  GoodAB82.227.62.18015/09/07 16:14:18- several matches in both genomes 
LUAcid_KM3_B4_182947928742  hypothetical protein 42RADDED   - best match to formiate DH gamma subunit ( - very low COG hits Delftia acidovorans (28% ID) - start to 42, overlap and lenght to matches - PROTEIN  GoodB82.227.62.18015/09/07 16:20:58- no matches in genomes and clones 
LUAcid_KM3_B4_172878228534  hypothetical protein (perhaps not a protein) 1RADDED   - no match - no COGPROTEIN  - 82.227.62.18015/09/07 16:23:38- not match in genomes and clones 
LUAcid_KM3_B4_162727628727  membrane bound O-acyl transferase, MBOAT family protein 1DADDED   - best match to Rhodopseudomonas palustris (36% id) - also COG0057 - pfam03062, MBOAT, MBOAT family - lenght OKPROTEINCOG1696 Predicted membrane protein involved in D-alanine exportM Cell wall/membrane/envelope biogenesisGoodB82.227.62.18015/09/07 16:30:14- two matches in both genomes - no match in clones 
LUAcid_KM3_B4_152703826292  coenzyme PQQ synthesis protein C 1RADDED   - best match to Chlamydophila felis Fe/C-56 (39% id) - IPR004305 TENA/THI-4 protein: proteins containing this domain are found in all the three major phyla of life: archaebacteria, eubacteria, and eukaryotes. In Bacillus subtilis, TENA is one of a number of proteins that enhance the expression of extracellular enzymes, such as alkaline protease, neutral protease and levansucrasePROTEINCOG5424 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein CH Coenzyme transport and metabolismGoodABE82.227.62.18015/09/07 16:35:21- single match to Acid345_0078 (38% id) in acidos 
LUAcid_KM3_B4_142463126178  conserved hypothetical protein 1DADDED   - best match to Acid_3771 - no COG - two types of proteins with similarities, but different in length (400 aa and 600aa) - similarities to different Planctomyces... - low match to cytochrom c region family IPR012282 Cytochrome c region PROTEIN  Good 82.227.62.18017/09/07 08:31:21- paralog in same clone KM3_25_B4_210 (53% id) - several orthologs in Solibacter but only one in Ellin6706 - similarity to Cytochrome c family ORF5 on aplysina clone pAPKS18 (Fieseler 2007) 
LUAcid_KM3_B4_132160224304  - conserved outermembrane protein 44DADDED   - best match to secreted protein Gramella forsetii (32% id) - best matches to CFB group bacteria - no COG - start codon to 44aa - low match to PR008960 Carbohydrate-binding family 9/cellobiose dehydrogenase, cytochrome - OMPA-like superfamily; transmembrane and subsurface protein family - DAS ”transmembrane prediction”: 3 transmembrane regions --> from 86aa to 944 outside - secreted proteinPROTEIN  GoodB82.227.62.18017/09/07 08:59:45- best match to Acid345_0818 (33% id) - no other matches in Acidobacteria - not on clones 
LUAcid_KM3_B4_121975421385  Pyrrolo-quinoline quinone like protein 1DADDED   - best match to Solibacter (46% id) - good match to IPR002372 Pyrrolo-quinoline quinone: Pyrrolo-quinoline quinone (PQQ) is a redox coenzyme, which serves as a cofactor for a number of enzymes (quinoproteins) and particularly for some bacterial dehydrogenases [1, 2]. A number of bacterial quinoproteins belong to this family. - Beta-propeller repeat occurring in enzymes with pyrrolo-quinoline quinone (PQQ) as cofactor, in Ire1p-like Ser/Thr kinases, and in prokaryotic dehydrogenases. - length OKPROTEINCOG4833 Predicted glycosyl hydrolaseG Carbohydrate transport and metabolismGoodB82.227.62.18017/09/07 09:12:36- several paralogs in Solibacter, best Acid_4577 (46% id) - no matches in other Acidobacteria - good match to uncultured bacterium 582 (Delong) 
LUAcid_KM3_B4_111894919734  putative heme-binding protein 1DADDED   - matches only to Solibacter (Acid_3123, 31% id, and 4576) with similar length - matches also to other proteins very much longer - no COGPROTEIN  Goodunique82.227.62.18017/09/07 09:23:06- conserved with adjacent outermembrane protein at least in Solibacter (2 times) and here 
LUAcid_KM3_B4_101884318328  Cupin 2, conserved barrel protein 1RADDED   - best match to Rubrobacter xylanophilus (43% id), but here approximately 40aa too long - length ?PROTEINCOG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domainS Function unknownGoodB82.227.62.18017/09/07 09:30:51- low match to Acid_2912 which is longer 
LUAcid_KM3_B4_091696918207  amidohydrolase family protein 1DADDED   - best match to Mycobacterium smegmatis (29% id) - length OK - very big family: This group of enzymes represents a large metal dependent hydrolase superfamily - in B plus 2 matches in AspergillusPROTEINCOG1228 Imidazolonepropionase and related amidohydrolasesQ Secondary metabolites biosynthesis, transport and catabolismGoodB82.227.62.18017/09/07 09:46:17- several matches to amidohydrolase in both genomes - not on other clones - enviironment not conserved 
LUAcid_KM3_B4_081585916857  hypothetical protein 1DADDED   - no matches - no COGPROTEIN  Goodunique82.227.62.18017/09/07 09:48:28  
LUAcid_KM3_B4_071434515859  Cytochrome c domain protein 1DADDED   - best match to putative thiol-disulfide isomerase or thioredoxin (Solibacter, 30% id) - no COG - several matches in Planctomycetes PROTEIN  GoodBE82.227.62.18017/09/07 09:59:34- paralog on clone: high similarity to KM3_25_B4_095 (54% id) - several matches in Solibacter, one match in Ellin6706 - environment on clone not conserved 
LUAcid_KM3_B4_061412713603  hypothetical outermembrane protein 1RADDED   - best match to probable secreted glycosyl hydrolase Planctomyces maris, (26% id), low similarity - no COG - one transmembrane domain - probable outermembrane protein - length OKPROTEIN  Good 82.227.62.18017/09/07 10:31:02- one low match to Acid_4894 protein of unknown function DUF44 - no match in other Acidobacteria 
LUAcid_KM3_B4_051233313586  predicted transporter component 1DADDED   - best match to COG2391: Predicted transporter component Burkholderia dolosa (58% id) - large family - IPR007272 Protein of unknown function DUF395, YeeE/YedE: transmembrane protein of unknown function - length OKPROTEINCOG2391 Predicted transporter componentR General function prediction onlyGood 82.227.62.18017/09/07 12:07:35- no hits to acidobacteria - environment not conserved 
LUAcid_KM3_B4_041045612318  Pyrrolo-quinoline quinone (Quinoprotein alcohol dehydrogenase-like) 1DADDED   - best match to Quinoprotein glucose dehydrogenase Solibacter usitatus Ellin6076 (42% id)PROTEINCOG4993 Glucose dehydrogenaseG Carbohydrate transport and metabolismGoodB82.227.62.18017/09/07 12:17:32- similarity on same clone KM3_25_B4_153 (29% id) and KM3_47_B8_099 (29% id) - high number of matches to Solibacter, not to Ellin6706 
LUAcid_KM3_B4_03788310234  glucose/sorbosone DH fused to 4-carboxymuconolactone decarboxylase domain protein 1DADDED   - fused protein: glucose/sorbosone DH (Azoarcus, 43% id) fused to carboxymuconolactone decarboxylase (marine gamma proteobacterium, 35% id) - best match to predicted glucose/sorbosone dehydrogenase [Azoarcus sp. EbN1 (43% id) - also COG2128, function unknown (Carboxymuconolactone decarboxylase - eventually fusion of 3 proteins: pfam02627, CMD, Carboxymuconolactone decarboxylase family. Carboxymuconolactone decarb... 79934 No 0.007 pfam02627, CMD, Carboxymuconolactone decarboxylase family. Carboxymuconolactone decarboxylase (CMD) EC:4.1.1.44 is involved in protocatechuate catabolism. In some bacteria a gene fusion event leads to expression of CMD with a hydrolase involved in the same pathway. In these bifunctional proteins CMD represents the C-terminal domain, pfam00561 represents the N-terminal domain..PROTEINCOG2133 Glucose/sorbosone dehydrogenasesG Carbohydrate transport and metabolismGoodunique82.227.62.18017/09/07 13:15:46- matches in both acidobacterial genomes - not on other clones 
LUAcid_KM3_B4_0272067685  RmlC-like cupin region protein 3DADDED   - best match to Acid345_0092 (42%) - no COG - Cupin region; RmlC-like cupins: RmlC (dTDP (deoxythimodone diphosphates)-4-dehydrorhamnose 3,5-epimerase; EC:5.1.3.13) is a dTDP-sugar isomerase enzyme involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria [1]. RmlC is a dimer, each monomer being formed from two beta-sheets arranged in a beta-sandwich, where the substrate-binding site is located between the two sheets of both monomers. - start to 3aa (ATG)PROTEIN  -BE82.227.62.18017/09/07 13:27:35- two matches to Acid345, but not Solibacter 
LUAcid_KM3_B4_01471267  tyrosyl-tRNA synthetase 1DADDED 6.1.1.1 - best match to soil clone 23k22 (60% id)PROTEINCOG0162 Tyrosyl-tRNA synthetaseJ Translation, ribosomal structure and biogenesisGoodABE82.227.62.18021/09/07 09:15:22- matches in other clones - matches in soil clones - environment conserved in Acidobacteria? - to be verified 
LUACID_KM3_B4_16SRNA15563121  16S ribosomal RNA 1DADDED16SrRNA   RNA  - 129.175.105.7529/10/07 17:52:59  
LUACID_KM3_B4_23SRNA37426631  23S ribosomal RNA 1DADDED23SrRNA   RNA  - 129.175.105.7529/10/07 17:53:18  
LUACID_KM3_B4_5SRNA69247048  5S ribosomal RNA 1DADDED5SrRNA   RNA  - 129.175.105.7529/10/07 17:53:37  
LUACID_KM3_B4_TRNA132983371  tRNA-Ile (GAT) 1DADDEDtRNA-Ile   TRNA  - 129.175.105.7529/10/07 17:54:30  
LUACID_KM3_B4_TRNA234633535  tRNA-Ala (TGC) 1DADDEDtRNA-Ala   TRNA  - 129.175.105.7529/10/07 17:55:05  
LUACID_KM3_B4_111894919734  heme-binding protein 1DADDED   - matches only to Solibacter (Acid_3123, 31% id, and 4576) with similar length - matches also to other proteins very much longer - no COGPROTEIN  Goodunique82.227.62.1807/11/07 12:05:47- conserved with adjacent outermembrane protein at least in Solibacter (2 times) and here 
LUACID_KM3_B4_132160224304  conserved outermembrane protein 44DADDED   - best match to secreted protein Gramella forsetii (32% id) - best matches to CFB group bacteria - no COG - start codon to 44aa - low match to PR008960 Carbohydrate-binding family 9/cellobiose dehydrogenase, cytochrome - OMPA-like superfamily; transmembrane and subsurface protein family - DAS itransmembrane predictioni: 3 transmembrane regions --> from 86aa to 944 outside - secreted proteinPROTEIN  GoodB (only bacteria)82.227.62.1807/11/07 12:06:04- best match to Acid345_0818 (33% id) - no other matches in Acidobacteria - not on clones 
LUACID_KM3_B4_142463126178  Cytochrom C domain protein 1DADDED   - best match to Acid_3771 - no COG - two types of proteins with similarities, but different in length (400 aa and 600aa) - similarities to different Planctomyces... - low match to cytochrom c region family IPR012282 Cytochrome c regionPROTEIN  Good 82.227.62.1807/11/07 12:55:33- paralog in same clone KM3_25_B4_210 (53% id) - several orthologs in Solibacter but only one in Ellin6706 - similarity to Cytochrome c family ORF5 on aplysina clone pAPKS18 (Fieseler 2007) 
LUACID_KM3_B4_182947928742  cytochrome B556 subunit-like protein 42RADDED   - best match to formiate DH gamma subunit ( - very low COG hits Delftia acidovorans (28% ID) - start to 42, overlap and lenght to matches -PROTEIN  GoodB (only bacteria)82.227.62.1807/11/07 13:54:23- no matches in genomes and clones 
LUACID_KM3_B4_152703826292  TENA/THI-4 protein 1RADDED   - best match to Chlamydophila felis Fe/C-56 (39% id) -coenzyme PQQ synthesis protein C - IPR004305 TENA/THI-4 protein: proteins containing this domain are found in all the three major phyla of life: archaebacteria, eubacteria, and eukaryotes. In Bacillus subtilis, TENA is one of a number of proteins that enhance the expression of extracellular enzymes, such as alkaline protease, neutral protease and levansucrasePROTEINCOG5424 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein CH Coenzyme transport and metabolismGoodABE82.227.62.1807/11/07 13:58:27- single match to Acid345_0078 (38% id) in acidos 
LUACID_KM3_B4_041045612318  Quinoprotein alcohol dehydrogenase-like 1DADDED   - best match to Quinoprotein glucose dehydrogenase Solibacter usitatus Ellin6076 (42% id)PROTEINCOG4993 Glucose dehydrogenaseG Carbohydrate transport and metabolismGoodB (only bacteria)82.227.62.1807/11/07 14:12:15- similarity on same clone KM3_25_B4_153 (29% id) and KM3_47_B8_099 (29% id) - high number of matches to Solibacter, not to Ellin6706