Annotation: FitnessBrowser__pseudo5_N2C3_1:AO356_28210
Length: 10307 amino acids
Source: pseudo5_N2C3_1 in FitnessBrowser
| Pathway | Step | Score | Similar to | Id. | Cov. | Bits | Other hit | Other id. | Other bits |
|---|---|---|---|---|---|---|---|---|---|
| L-lysine catabolism | amaB | lo | L-2-aminoadipate reductase; Alpha-aminoadipate reductase; Alpha-AR; L-aminoadipate-semialdehyde dehydrogenase; EC 1.2.1.31; EC 1.2.1.95 (characterized) | 31% | 51% | 261.9 |
View AO356_28210 at FitnessBrowser
Find papers: PaperBLAST
Find functional residues: SitesBLAST
Search for conserved domains
Find the best match in UniProt
Compare to protein structures
Predict transmenbrane helices: Phobius
Predict protein localization: PSORTb
Find homologs in fast.genomics
Fitness BLAST: loading...
MQFSELMAALSQHPIRLQQDGDNLVILGDDERMDHALWESLTVHKQELLDLVERNGGDWL SPAFRITPDMLPLADLTQEEIDRIVDTVPGGAGNVQDIYPLAPLQEGILYHHLAAEQGDP YVLQSLFGADRRTRLDDFAQALQGVIDRHDILRTSVVWEGLDEPVQVVWHEATLALEEVV LDPAAGDAVWQLQQRFDTRHHRLDVGQAPLMRLICAQDRDNDRWVAILLFHHMAIDHTAL ELVQGEMQAFLLGQAHQLPDPVPYRNYVAQVRLGVGGDSHEGFFREMLADVDEPTLPLGF AEVPEGQSVIEEAHLPIDASLSRRLRAQARQLGVSAASLHHLAWARVVGGLSGKQDVVFG TVLMGRMQGGDGADRALGMFINTLPLRVKLAGHGAREGVKNTHASLTALLGHEHASLALA QRCSGVAAPAPLFGALLNYRHSSTAQALSSQTLEAWEGLHALGGAEGTNYPLTLSVDDLG EGFSLSVLALAGMGAQRIAGYMRQALENLVWMLEQQPDMPLQRLSILPASEREQLLVTFN ATEADYPRQQTVHGLFEEQVQRTPDAVAVIRGEQRLSYRELNERANRQAHYLRKQGVEPD SRVAICVERSIDMVVGLLAILKAGGGYVPLDPAYPLDRIAYMLEDSAPAAVLTQTATLEL LAAASMPVINLESGDWQDESVQNPEVTELTSSHLAYVIYTSGSTGLPKGVMIEHRNTVNF LTWAHRSFDAQTLSKTLFSTSLNFDLAVYECFAPLTSGGSIEVVTNVLELQQGEHDITLI NTVPSALKALLESGGLGEGVDTVNVAGEALKRSLVETLFEQTQVKRLCNLYGPSETTTYS SWVSMAREDGFAAHIGKPVANTQFYLLDEHKQPVPLGVPGEIYIGGAGVARGYLNRDDLT AERFLKDPFSTAPNARMYRTGDLGRYLPDGNIEYLGRNDDQVKIRGFRIELGEIEAKLSQ HDALKEAVVVAREDVPGDKRLVAYFTQHSPVDIETLRTHLQAQLPAYMVPVAYVRLEALP LTPNGKLDRKALPAPDLDAVITRGYEAPQGETETTLAQIWQDLLKVERVGRHDHFFELGG HSLLAVTLIERMRQAGLSADVRVLFGQPTLAALAAAVGSGKEISVPANLIALDCERITPE LLPLANLSQTTIDRLVATVPGGVRNVQDIYPLAPLQEGILYHHLAAEQGDPYVLQSQFAF DNREHLDAFIGALQVVIDRHDILRTSIVWEGLDEPMQVVRREARLHLETLDLDPVAGDVA EQLRQRFDSRHYRLDIAQAPLMRLAYGRDEANHRLVATLLFHHLALDHTALEVVQHEMQA YLLGEAGQLAEAVPYRNYVAQARLGVNREEHEAFFRDMLGDIDEPTLPFNLQDVQAGGHD IEEAHQALDDALDQRLRAQARQLGVSAASLVHLAWAQVLAKVSGKQEVVFGTVLMGRMQG GEGADRALGMFINTLPLRVTLGEQGVKAGVKAVHGQLTALLGHEHASLALAQRCSGVAAP LPLFSALLNYRHAATTTSNEVSSAWSGMQALGGEERTNYPLTLNVDDLGTGFNLTVLVGQ EIGAQRICAYMHAALQTLVLALEQTPQAALHRLSILPAAEIEQLLVTFNATEADYPQQQT IHGLFEEQVQRTPEAVAVIRGEQRLSYGELNERANRLAHYLRKQGVKPDSRVAICVERGI DMVVGLLAILKAGGGYVPLDPAYPLDRIAYMLEDSAPAAVLAQDATVGLLSDASMAVINL DSGDWQDESVQNPEVTELTSSHLAYVIYTSGSTGLPKGVMIEHRNTVNFLTWAHRSFDSQ TLAKTLFSTSLNFDLAVYECFAPLTSGGSIEVVTNVLELQQGEHDITLINTVPSALKALL ESGGLGEGVDTVNVAGEALKRSLVETLFEQTQVKRLCNLYGPSETTTYSSWVSMAREDGF AAHIGKPVANTQFYLLDEHKQPVPLGVPGEIYIGGAGVARGYLNRDDLTAERFLKDPFST APNARMYKTGDLGRYLPDGNIEYLGRNDDQVKIRGFRIELGEIEAKLAQAPNIKETVVLA REDVPGDKRLVAYFTQHSPVDIEALRTHLQAQLPAYMVPVAYVRLEALPLTPNGKLDRKA LPAPDLDAVITRGYEAPQGEVEISLAQIWQDLLKVERVGRHDHFFELGGHSLLAVSLIGR MRQLGLSADVRVLFSQPTLAALAAAVGSGGEVVVPDNGILLGCTRITPSMLPLVALDQQD IDRLVETVPGGARNVQDIYPLAPLQEGILYHHIAAHTGDPYVLQATFTVADRERLEAFAQ ALQGVIDRHDILRTSVVWEGLDEPVQVVWRKAQLAVEELVLSAEAGDIAGQLRERFDTLH YRLDMQQAPLMRIAFAHDPANQRWVAMLLFHHMVLDHTALEVVQHEMQAHLLGQADQLGQ AVPFRNYVAQARLGVSREEHEGFFRDMLSDVDEPTLPFGLLDVRGDGSDIEEAGLSLPAD LSRRLRAQARQLGVSAASLHHLAWAQVLGQVSGKQDVVFGTVLMGRMQGGDGAEHALGMF INTLPLRVGVGAQGVRDGVKATHARLTGLLGHEHASLALAQRCSGVVAPMPLFNALLNYR HSAAGVASNEALVAWDGIQLLSNEERTNYPLTLSVDDLGEAFHLSALAVPQVGAQRICAY MNIALEHLVEALEQAPQTPLHSLSILPPAERRQLLVDFNATTRSYPQDRTVHGLFEARAK ELPEATAVVHNGHSLTYAELNRRANCLTRHLIGLGVQPGDRVAILLERSVGLLVSQLAIL KCAAVYVPLDVSAPLERQDFMVRDSGARTLLTLSAMAVPEGIARVDLDSVVLETEADHDL RLIQSTESVAYIMYTSGSTGTPKGVLVPHRAINRLVINNGYAEFNAQDRVAFASNPAFDA STLDVWAPLLNGGCVVVVDQDVLLTQERFAALLQEQSVSVLWMTAGLFHQYAAGLMSVFA QLRYLIVGGDVLDPAVIGRVLKEGAPQHLLNGYGPTEATTFTTTHEIKSVGEGGIPIGRP IGNTRVYVLDANRQPVPIGVAGELYIGGDGVAKGYLNRPELSAEKFVADPFNADPGALLY RTGDLARWRADGAVDYLGRNDDQVKIRGFRIELGEIEARLGECPGVKDAVVLARQDDAGP KRLVGYVIPEPGVTLSVHALREQLSSVLADYMLPSAFVVLPAFPLTANGKLDRRELPAPD AEAYASREYEAPLGKVEQTLAQIWADVLKVEQVGRHDHFFELGGHSLLAVTLIERMRQAG LSADVRVLFSQPTLAALAAAIGSGREVSVPPNLIPLHCEHITPDLLPLINLSQDAIDRLV ATVPGGARNVQDIYPLAPLQEGILYHHLAAEQGDPYVLQSQFAFDNRERLDAFIGALQMV IDRHDILRTSVLWEGLDEPVQVVWRQVLLESQCIVPDATAGDVATQLANRFDARHYRLDL GRAPLLQLAYARDEAQDRWVAILLFHHMALDHTALDVMQHEMQMHLLGQGEQLGAAMPYR NYVAQARLGTSEQEHETFFREMLGDIDEPTLPFGLQDVQGEGHGIDEDRQPVDLALSRRL RVQARHLGVSAASLVHLAWAQVLGKVSGKQEVVFGTVLLGRMQGGDGADRALGMFINTLP LRVDVGTQDVRSGVKATHGRLTALLGHEHASLALAQRCSGVVAPTPLFSALLNYRHSAVQ VTQDALSAWSGINALGGDERTNYPLTLNVDDLGDGFFLTVMVDTAIGAQRICGYMQVALE NLVMALEQAPQTPLHALAILPSAERRQLLETWNTTDVTYADDALIHRQFEGWAASQPDTV AVVHEEQALTYGELNARANQLAHSLVALGVRPDDRVAICVERGLDMIIGLLGILKAGAGY VPLDPTYPPERIAYMLHDSSPVAVVTQSQWRDSLPVLPVPTLVLDPTDAGEMNQQPRHNP DVADLNASHLAYVIYTSGSTGLPKGVMVEHRNVARLFSATQPWFEFGPQDVWALFHSFAF DFSVWEIWGALTHGGRLLVVPQLVSRSPQYCYALLCEAGVTILNQTPSAFRQLIAAQGES DLSHSLRQVIFGGEALETGILKPWYARQANARTQLVNMYGITETTVHVTYRPLDAADAQL AGVSPIGKRIPDLQLYVLDTQREPVPVGVTGEMYVGGGGVSRGYLNRDELTAERFLDNPF SPEPNARMYRTGDLGRWLADGSIEYLGRNDDQVKIRGFRIELGEIEAKLAACNGVREAVV VARQDTPGDQRLVAYVIAEEGEPPSAAELRDELLGSLAEYMVPSAFVMLTVFPLTTNGKL DRKALPVPDQSSVVTREYEAPQGEVEIAIARIWQDLLHVERVGRHDHFFEMGGHSLLAVK LVERMRQIDLAADVRVLFGQPTLAALAAAVGGCQEVQVPANLIPDDCSRITPDLLPLATL SQDEIDRVVATVPGGVGNVQDIYALTPLQEGILYHHVAAAKGDPYLQYILFAFDSRARLD LFAKALQSTVSRHDILRTGVVWEGIDEPVQVVWREARLGFDEIMLDPAAGDIARQLRERL DPRHYRLDIRQAPMMRIGYAQDVANDRWVGMLLFHHMVDDATSLAMLAAEIGAHMSGGEQ ALAASVPYRNFVAQARLGVSREEHEAFFHEMLGDVAEPTLPFGLQDVQGDGHDIEEVRQR VDAELGQRLRVQARQLGVSAASLYHLAWALVLGKVSGKEDVVFGTVLLGRMQGGEGADRA LGMFINTLPLRVSLGAQGVRAAVKSTHARLTALLGHEHASLVLAQRCSGVAAPTPLFSAL LNYRHLGAQAPSSEVIAAWEGIQTLEGEERTNYPLTLSVDDLGEGFNLTVMAQAPIGAER VCNYVQCVVENLVQALEQSPLAPLSGLKILPPAERRQLLESWNGTGVAFAQDALIHAQFE VWAAAQPEAMAVMFEERTLTYSELNARANQVAHRLLAQGIRPDDRVAICVERGLDMIVGL LGILKAGAGYVPVDPAYPTERIAYMLRDSMPVALLAHAATHRLLAGVSMPVLQLDDGSWQ DESVANPQVPGLDSSHLAYVIYTSGSTGLPKGVMVEHRNVARLFSATQPWFDFGQQDVWA LFHSFAFDFSVWEIWGALTHGGRLLVVPQLVSRSPQDCYALLCETGVTVLNQTPSAFRQL IVAQGESDLRHSLRQVIFGGEALETGMLKPWYARVGNAGTQLVNMYGITETTVHVTYRAL EAADAQSTGVSPIGKRIPDLQLYVLDAQREPAPVGVVGEMYVGGAGVSRGYLNRDELTAE RFLDNPFSPEPNARMYRTGDLGRWLADGSIEYLGRNDDQVKIRGFRIELGEIEATLAACE GVSEAVVIAREDEPGDKRLVAYVIATEGAQPSAVDLRTQLLRSLAEHMVPSAFVILDAFP LTTNGKLDRKALPAPDQSAVISREYEAPQGEVETTIARIWQDLLKLGRVGRHDNFFELGG HSLLAVKLIERMRQVDLAADVRVLFGQPTLAALAAAVGGVREVVVPGNAIADGCTRITPD MLPLADLDQDAIDRIVATVQGGVTNVQDIYALAPLQEGILYHHLAAEQGDPYVLQVLFGF DNRERLQAFAQALQSVVSRNDILRTSMVWQGLEAPVQVVWRHATLGLEEIEVDPAGGEVV QQLHGRFDPRHYRLDIAQAPLMRFAFAQDVANQRWVGMLLFHHMALDHTALEVVVHEMQA SLLGQAHLLSPAVPYRNHVAQARLGVSREQHEAFFREMLGDIDEPTLPFGLQDVQGDGSG IEEAHQDVDAALAQRLRAQARQLGVSAASLVHLAWGHVVGRVSGREEVVFGTVLMGRMQG GDGADRALGMFINTLPLRVSVGAQGARAGVKATHGRLSALLGHEHASLSLAQRCSGVPTS LPLFSTLLNYRHSAAEAVSDQAISAWQGMQTLHMEERTNYPLCLNVDDLGEGFRFTAQAV VEVGAQRVCGYMHTALESLVAALEQTPERALRELPIVPAAEREQLLVDFNATHADYPQEQ TIHGLFEAQVLRTPDAVAVRHGRHQLNYRELNGLSNRLAHYLRKQGVEPDSRVAICVERG IEMVVGLLAILKAGGGYVPLDPAYPLDRIAYMLEDSAPAAILVQGTTRNLLGETAIPVID LDKGIWQDEAAPNPQVPGLSSSHLAYVIYTSGSTGLPKGVMIEHRNTVNFLTWAHRSFDA QILSKTLFSTSLNFDLAVYECFAPLTSGGSIEVVTNVLELQQGEHDITLINTVPSALKAL LESGGLGEGVDTVNVAGEALKRSLVETLFEQTQVKRLCNLYGPSETTTYSSWVSMAREDG FAAHIGKPVANTQFYLLDEHKQPVPLGVPGEIYIGGAGVARGYLNRDDLTAERFLKNPFS TAPNARMYRTGDLGRYLPDGNIEYLGRNDDQVKIRGFRIELGEIEAKLAQHDALKEAVVV AREDVPGDKRLVAYFTQHSPDETVEIEALRTHLQTQLPAYMVPAVYVRLDALPLTPNGKL DRKALPAPDLDAVISRGYEAPQGEVETTLAQIWQDLLDLQQVGRHDQFFELGGHSLLAIQ LISQVRLRLGVELGLTELFAQPQLMGLAQAVALAGRSTLPEIVRVSRKDDLPLSFAQQRL WFLAQMEGASAAYHIPAGLRLRGVLDRLALQRALDRIVARHEALRTTFVQVRGQEARQCI APVDVGFALLHHDFCGLADAEGQLHALAAQEATDTFSLEQGPLIRGRLVRLGSEDHVLLL TMHHIVSDGWSIGVLIKELTALYEAFRHDLDDPLPALTVQYSDYAVWQRRWLSGEVLQTQ SDYWRQALADAPALLMLPTDRARPAQQDYAGATLPVVFDADLTASLKALSQRHGVTLYMT MMAAWGALLSRLSGQDEVVIGSPVANRTRSEVEGLIGFFVNTLAVRIDLSGAPTVETLLA RVKAQALGAQAHQDLPFEQVVEVLKPVRSLAHSPLFQAMLSWQTHDNTELVLGDLKLEGL GAASNVAKFDVSLELSEIQGQMFGALEYATALFDEGTVQRYLGYFQRLLRAMVASDQTRI ERIALLDNAEREHLLAGLNATQAAYPREQTIHQLFEAQVEARPDAIAVAFGDERLSYAEL NRQANQMAHHLIGLGIRPDDRVAICVERGADMLIGLLAILKAGAGYVPLDPAFPAERLAY MLADSAPVALLSQGELLDRLPAFTVPVVLLDRAERVRCGIAAGRDDNPLVASLGVRHLAY VIYTSGSTGNPKGVMIEHRGLVNYCVDAVRLFGLTPDDTVLQQNTLNFDLSVEEIFPALL AGATLAPTRQLFGSAELQQNGDIRPTFLHLTAAHWHTLAAEWHNSPAQARDYLRDVRLIN VTGDALSTQKLQMWDAVRPAHTRLVNTYGPTEATVSCTAAYMEHDAVDGILGNASIGRPM ANTRIYLLDAHRQPVPFGVAGEIFIGGDGVARGYLNLDAINAERFLADPFSDQPDARLYK TGDLARYRPDGRLEYLGRNDFQVKVRGFRIELGEIEARLGDCAGVKEAAVIVREDTPGDK RLVAYVVPQAGVNLNAASLRAQLAVQLAEYMLPGAFVSLAALPLTPNRKLDRQALPAPDA EAYASRTHEAPQGHTEIVLAQIWQSLLKVESVGRHDHFFELGGHSLLVMRLIAQVREQLG VELNLRDVFAQPQLSALAQVLSQAAHSTRPGIVPVSREQALPLSFAQQRLWFLAQLDGTS AAYHIPTGLRLRGALDTSALTRALDRIVARHEALRTTFVQAQGQEVEQRIAPVDVGFALR LQALAGRADAETELMALAEEEARQAFDLAHGPLVRGRLVRMADDDHVLVVTLHHIVSDGW SADLLTHELGVLYEAFRQGQDDPLPALPIQYADYALWQRRWLTGEVLDQQERFWRQTLAD APALLTLPTDRPRPAQQDHAGAAVGIVLDETLTQGLKALSQRHGATLFMTVMAAWATVLS RLSGQHDVVIGTPVANRMQAEVEGLIGLFVNTLALRVDVADELTVQALLQQVKVRTLDAQ AHQDLPFEQVVEVVRPLRSLSHSPVFQAMLSWQNNEATGLELGDMSLQGLGVTSRTAKFD VLLDMALIDGRLFGALEYATALFDSATMERYLGYLESVLRAMVADEQTLVAQIPLLGDNE RQNLLETLNATAVDYPQGLTLHGLFEARVVASPDAVAVVSGEAQLSYAQLNERANQIAHR LLELGIRPDDRVAICADRSLDMVAGLLGILKAGAAYVPLDPDYPHERLAYMLENSAPMVV LTQRALQASLPATQARTLLLDEAQGFSTQPTDNPQVEGLHAHHLAYVIYTSGSTGLPKGV MNEHGGVVNRLLWMQDEYGLTATDAVLQKTPFSFDVSVWEFFWPLFSGARLVMARPGGHR DPAYLREVIQAQGITTLHFVPSMLDVFLAHGEASQCAGLVRVMCSGEALPGHLVRRFKAQ LPHTGLYNLYGPTEAAVDVTAWDCAGTDTPDSTPIGKPIANTRIYLLDGHQQPVPMGVAG EIYIGGVQVARGYLNRPELTVERFLRDLFSRAANARMYRTGDLGRYLPDGNIEYLGRNDD QVKIRGFRIELGEIEAKLAQHEAIKEAVVLALEDVPGAKRLVAYFTVHGDEHSVEIENLR TQLQAQLPEYMVPAAYVRLQALPLTPNGKLDRKALPAPDLASVITREYEAPQGAVETTLA QLWAELLKVEKVGRHDHFFELGGHSLLAVTLIERMRQAGLSADVRVLFGQPTLAALAAAV GGTTEIVVPDNGIVPGCERITPQMLPLADLTQQEVDAIVAWVPGGVSNVQDIYALAPLQE GILYHHLVSSQGDLYVQQAMFNLEDRARLDAFVSALQGVIDRHDILRTAVLWEGLREPVQ VVLREAPLAVQTCTVEPGEDVATQLRERFDPRHSRLDVRQAPMMRLACAYDDEHQRWVAL LLFHHIALDHTALEVIQHDMQAYLLGQQAQLGDAVPYRNYVAQARLGVTQSAHEAFFRDM LQDIQEPTLPFGLQDVQGDSHVIEQARLGVDDSLNRRLRTQSRLLGVSAASLHHLAWARV VGAVSGRENVVFGTVLMGRMQGGEGADRALGLFINTLPLRVDVGVDGARAGVKATHARLT ALLGHEHASLALAQRCSGVATSTPLFSALLNYRHTATQVTEEAQSAWNGIEGLGGEEWSN YPLSLNIDDLGEAFVLTALAESRIGAERICGYMHTALESLVDALERTPEAPVRELAILPA AERRQLLVDFNATDTVYPREETVHGLFEAQVRARPDAIALQHGAQQLTYRELHERANHLA HCLLERGVQPGSRVAIMLNRSFELIISELAILKCAAVYVPLDHHAPEERQRFMLQDSAAV LVLTTRDRALPEDMPRLDLDTLQLIQAARPAVFPGQTSDTPAYIMYTSGSTGHPKGVIVP HLAIGRLAINNGYADFGVQDRVAFASNPAFDASTMEVWGALLNGGRVVIIDHETLLSPTQ FAQALTEAEVSVLFVTTAMFNQYLVLIPDALAGLRILLCGGERGDPASFRRLLAHAPSLR LVHCYGPTETTTFATTHVVSAVPHGATSVPIGRPIANTRVYILDAARQPVPVGVAGEIHI GGVGVALGYLNRPDLTEERFIADPFSDSGSARLYRSGDLGRWLPDGTIEYLDRNDGQVKI RGFRIELGEIEARLHECHGVREALVVAREDSPGDKCLIAYYTEHENGGDLDADVLRAQLR SVLPEYMIPAAYVRLTALPLTLNGKVNTGALPVPEMHAYGSQDYEAPQGDLEVTLAGLWA DVLKLEQIGRHDNFFELGGHSLLAIRLVGLLAQANLTVSLAELFQHESVASMASMLLART EDARVKEAIVPVRTTGQQNPLFLVHEFSGLDLYFPMLGKHIDPDIPVYGLPAVEWGEPQL QTMECMASRLVGIIRSVQPKGPYRLAGWSFGGVLAYETAIQLIGLDEEVEFVGLIDSYLP RLVDQGRSRWALDEAHKLHLLDRCDVFWRAALPGEEVLAVMLENLADLQGQLDRFDFTGL VQHCRDEALLPAELAVYSAEQLWQYLDREVAHGHALAHYAVYPISVPVHLLVAEERKDDA PEHSGYLGWDAVLPTSKLHCIKVPGNHQSMMQAPHVKALGQAITAALHTAASRPAPSPKS GYQPLLTIQGGRTDRAPIFCVPGAGDSVTGFIGLTDAFGPDWPIHGLQHRGLDGSTEPFS LVETAAQVYLDAIDKVQPEGPVHLLGHSFGGWIVFEMAARLHARGRKVASLTLIDSESPG GNGVVGKPYTATGVLNRLIEAMQLASGKSLGIDATVFGTQDDTAQMRLLHAGMVRAGMLP QRSAVDSMRGPARAFGTALRTVYQPQHRYTGPVRLVLADDPTLDTAGNKREQEQMIEGWR KHIPDLSIWYGPGNHFTILKAPHVHNLAAWWQDGLPMLDEEAASDYV
This GapMind analysis is from Sep 17 2021. The underlying query database was built on Sep 17 2021.
Each pathway is defined by a set of rules based on individual steps or genes. Candidates for each step are identified by using ublast (a fast alternative to protein BLAST) against a database of manually-curated proteins (most of which are experimentally characterized) or by using HMMer with enzyme models (usually from TIGRFam). Ublast hits may be split across two different proteins.
A candidate for a step is "high confidence" if either:
Otherwise, a candidate is "medium confidence" if either:
Other blast hits with at least 50% coverage are "low confidence."
Steps with no high- or medium-confidence candidates may be considered "gaps." For the typical bacterium that can make all 20 amino acids, there are 1-2 gaps in amino acid biosynthesis pathways. For diverse bacteria and archaea that can utilize a carbon source, there is a complete high-confidence catabolic pathway (including a transporter) just 38% of the time, and there is a complete medium-confidence pathway 63% of the time. Gaps may be due to:
GapMind relies on the predicted proteins in the genome and does not search the six-frame translation. In most cases, you can search the six-frame translation by clicking on links to Curated BLAST for each step definition (in the per-step page).
For more information, see:
If you notice any errors or omissions in the step descriptions, or any questionable results, please let us know
by Morgan Price, Arkin group, Lawrence Berkeley National Laboratory