RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254781039|ref|YP_003065452.1| putative glycerol-3-phosphate dehydrogenase [Candidatus Liberibacter asiaticus str. psy62] (329 letters) >gnl|CDD|30589 COG0240, GpsA, Glycerol-3-phosphate dehydrogenase [Energy production and conversion]. Length = 329 Score = 302 bits (774), Expect = 1e-82 Identities = 136/331 (41%), Positives = 204/331 (61%), Gaps = 9/331 (2%) Query: 5 STIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLN 64 I VIGAG++GTAL+ V+A G V L GR E ++ ++ +TR N K LPGI L P L Sbjct: 2 MKIAVIGAGSWGTALAKVLARNG-HEVRLWGRDEEIVAEINETRENPKYLPGILLPPNLK 60 Query: 65 FSSDHT-LLQNADIVLFATSSKGYGEALNFYSNWLKESAEIIICSKGFEYNSGMLLSSYS 123 ++D L ADI++ A S+ E L L + A I+ +KG E +G LLS Sbjct: 61 ATTDLAEALDGADIIVIAVPSQALREVLRQLKPLLLKDAIIVSATKGLEPETGRLLSEII 120 Query: 124 EKVLPSHSISVLSGPGFARDIAQGLPVGVILSSKNIDISRRLSKILTTDSFRVYCSDDRI 183 E+ LP + I+VLSGP FA+++AQGLP V+++S + + + ++ + ++ FRVY S D I Sbjct: 121 EEELPDNPIAVLSGPSFAKEVAQGLPTAVVVASNDQEAAEKVQALFSSPYFRVYTSTDVI 180 Query: 184 GVQIGGALKNVIAIASGILKGRGCGDSARAIVMVQGLSEIMKLTEAMNGRADTILRLSGV 243 GV+IGGALKNVIAIA+GI G G GD+A+A ++ +GL+E+ +L A+ + +T + LSG+ Sbjct: 181 GVEIGGALKNVIAIAAGIADGLGLGDNAKAALITRGLAEMTRLGVALGAKPETFMGLSGL 240 Query: 244 GDLILTATSEQSRNFCFGIALGRGEKQNPDQI-----QLVEGAIAVSCVINISKKMGLKL 298 GDLILT TS SRN FG+ LG+G D+ Q+VEG V ++KK+G+++ Sbjct: 241 GDLILTCTSPLSRNRRFGLLLGQGLS--LDEALEEIGQVVEGVRTAKAVYELAKKLGIEM 298 Query: 299 PIFQAISDVMMNHISVDEALSILLNHSSEEQ 329 PI +A+ V+ + EA+ L+ + + Sbjct: 299 PITEAVYRVLYEGLDPKEAIEELMGRDLKPE 329 >gnl|CDD|37922 KOG2711, KOG2711, KOG2711, Glycerol-3-phosphate dehydrogenase/dihydroxyacetone 3-phosphate reductase [Energy production and conversion]. Length = 372 Score = 153 bits (387), Expect = 7e-38 Identities = 87/346 (25%), Positives = 141/346 (40%), Gaps = 28/346 (8%) Query: 7 IFVIGAGAFGTALSSVIAS------RGLANVTLLGRKEI-------LMQQLEDTRINAKA 53 + ++G+G +G+A++ ++ V + +E L + + N K Sbjct: 24 VCIVGSGNWGSAIAKIVGENVKEFPIFDPQVRMWVFEEEINGEAEKLTEIINSRHENVKY 83 Query: 54 LPGIKLSPLLNFSSD-HTLLQNADIVLFATSSKGYGEALNFYSNWLKESAEIIICSKGFE 112 LPGIKL + D ++ADI++F + ++K A I KG E Sbjct: 84 LPGIKLPENVVAVPDLVEAAKDADILVFVVPHQFIPRICEQLKGYVKPGATAISLIKGVE 143 Query: 113 YNSG----MLLSSYSEKVLPSHSISVLSGPGFARDIAQGLPV-GVILSSKNIDISRRLSK 167 L+S + L SVL G A ++A I + L K Sbjct: 144 VGEEGPGIRLISQIIHRAL-GIPCSVLMGANIASEVANEKFCETTIGYKDKKEAGILLKK 202 Query: 168 ILTTDSFRVYCSDDRIGVQIGGALKNVIAIASGILKGRGCGDSARAIVMVQGLSEIMKLT 227 + T FRV +D GV+I GALKNV+AIA+G + G G G++ +A ++ GL E++K Sbjct: 203 LFRTPYFRVVVVEDADGVEICGALKNVVAIAAGFVDGLGLGNNTKAAIIRLGLLEMIKFA 262 Query: 228 EAMNG--RADTILRLSGVGDLILTATSEQSRNFCFGIALGRGEKQNPDQI----QLVEGA 281 + T GV DLI T ++R A + ++ Q ++G Sbjct: 263 THFYPGSKPTTFFESCGVADLITTCYGGRNRKVAEAFAKTGKSLEELEKELLNGQKLQGP 322 Query: 282 IAVSCVINISKKMGL--KLPIFQAISDVMMNHISVDEALSILLNHS 325 V + +K GL K P+F A+ + + L L NH Sbjct: 323 ATAKEVYELLQKKGLVEKFPLFTAVYKICYERLPPQALLECLRNHP 368 >gnl|CDD|110228 pfam01210, NAD_Gly3P_dh_N, NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus. NAD-dependent glycerol-3-phosphate dehydrogenase (GPDH) catalyses the interconversion of dihydroxyacetone phosphate and L-glycerol-3-phosphate. This family represents the N-terminal NAD-binding domain. Length = 159 Score = 126 bits (319), Expect = 8e-30 Identities = 60/157 (38%), Positives = 90/157 (57%), Gaps = 2/157 (1%) Query: 5 STIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLN 64 I V+GAG++GTAL+ V+A G V L GR E L++++ TR N K LPGIKL L Sbjct: 1 KKIAVLGAGSWGTALAKVLARNG-HEVRLWGRDEELIEEINTTRENVKYLPGIKLPDNLR 59 Query: 65 FSSD-HTLLQNADIVLFATSSKGYGEALNFYSNWLKESAEIIICSKGFEYNSGMLLSSYS 123 ++D ++ ADI++ A S+ E L L A ++ +KG E + LLS Sbjct: 60 ATTDLEEAIKGADIIVLAVPSQALREVLKQLKGLLSPGAILVSLTKGIEPGTLKLLSEII 119 Query: 124 EKVLPSHSISVLSGPGFARDIAQGLPVGVILSSKNID 160 E+ LP + I+VLSGP A ++A GLP +++S++ Sbjct: 120 EEELPINPIAVLSGPSHAEEVALGLPTATVVASEDQQ 156 >gnl|CDD|133452 cd05213, NAD_bind_Glutamyl_tRNA_reduct, NADP-binding domain of glutamyl-tRNA reductase. Glutamyl-tRNA reductase catalyzes the conversion of glutamyl-tRNA to glutamate-1-semialdehyde, initiating the synthesis of tetrapyrrole. Whereas tRNAs are generally associated with peptide bond formation in protein translation, here the tRNA activates glutamate in the initiation of tetrapyrrole biosynthesis in archaea, plants and many bacteria. In the first step, activated glutamate is reduced to glutamate-1-semi-aldehyde via the NADPH dependent glutamyl-tRNA reductase. Glutamyl-tRNA reductase forms a V-shaped dimer. Each monomer has 3 domains: an N-terminal catalytic domain, a classic nucleotide binding domain, and a C-terminal dimerization domain. Although the representative structure 1GPJ lacks a bound NADPH, a theoretical binding pocket has been described. (PMID 11172694). Amino acid dehydrogenase (DH)-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH/cyclohydrolase, Shikimate DH-like proteins, malate oxidoreductases, and glutamyl tRNA reductase. Amino acid DHs catalyze the deamination of amino acids to keto acids with NAD(P)+ as a cofactor. The NAD(P)-binding Rossmann fold superfamily includes a wide variety of protein families including NAD(P)- binding domains of alcohol DHs, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate DH, lactate/malate DHs, formate/glycerate DHs, siroheme synthases, 6-phosphogluconate DH, amino acid DHs, repressor rex, NAD-binding potassium channel domain, CoA-binding, and ornithine cyclodeaminase-like domains. These domains have an alpha-beta-alpha configuration. NAD binding involves numerous hydrogen and van der Waals contacts. Length = 311 Score = 41.5 bits (98), Expect = 3e-04 Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 10/82 (12%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLNF 65 + VIGAG G + +A++G+A +T+ R ++L + A+P Sbjct: 180 KVLVIGAGEMGELAAKHLAAKGVAEITIANRTYERAEELAK-ELGGNAVP---------L 229 Query: 66 SSDHTLLQNADIVLFATSSKGY 87 LL AD+V+ AT + Y Sbjct: 230 DELLELLNEADVVISATGAPHY 251 >gnl|CDD|30722 COG0373, HemA, Glutamyl-tRNA reductase [Coenzyme metabolism]. Length = 414 Score = 41.0 bits (96), Expect = 5e-04 Identities = 19/84 (22%), Positives = 34/84 (40%), Gaps = 10/84 (11%) Query: 4 YSTIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLL 63 + VIGAG G ++ +A +G+ +T+ R T A+ L + + Sbjct: 178 DKKVLVIGAGEMGELVAKHLAEKGVKKITIANR----------TLERAEELAKKLGAEAV 227 Query: 64 NFSSDHTLLQNADIVLFATSSKGY 87 L AD+V+ +TS+ Sbjct: 228 ALEELLEALAEADVVISSTSAPHP 251 >gnl|CDD|32077 COG1893, ApbA, Ketopantoate reductase [Coenzyme metabolism]. Length = 307 Score = 39.5 bits (92), Expect = 0.001 Identities = 40/183 (21%), Positives = 64/183 (34%), Gaps = 15/183 (8%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLNF 65 I ++GAGA G+ L + +A G +VTLL R L + K L Sbjct: 2 KILILGAGAIGSLLGARLAKAG-HDVTLLVRSRRLE------ALKKKGLRIEDEGGNFTT 54 Query: 66 SSDHTL----LQNADIVLFATSSKGYGEALNFYSNWLKESAEIIICSKGFEYNSGMLLSS 121 L AD+V+ + EAL + L + ++ G + + Sbjct: 55 PVVAATDAEALGPADLVIVTVKAYQLEEALPSLAPLLGPNTVVLFLQNGLGHEEELRKIL 114 Query: 122 YSEKVLP---SHSISVLSGPGFARDIAQGLPVGVILSSKNIDISRRLSKILTTDSFRVYC 178 E VL +H +V GPG G V L ++ + L+++ V Sbjct: 115 PKETVLGGVTTHG-AVREGPGHVVHTGLGDTVIGELRGGRDELVKALAELFKEAGLEVEL 173 Query: 179 SDD 181 D Sbjct: 174 HPD 176 >gnl|CDD|144908 pfam01488, Shikimate_DH, Shikimate / quinate 5-dehydrogenase. This family contains both shikimate and quinate dehydrogenases. Shikimate 5-dehydrogenase catalyses the conversion of shikimate to 5-dehydroshikimate. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites 3-dehydroquinate and dehydroshikimate. Length = 134 Score = 37.7 bits (88), Expect = 0.005 Identities = 23/85 (27%), Positives = 33/85 (38%), Gaps = 13/85 (15%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALP---GIKLSPL 62 + +IGAG + + S+G +T+ R T AK L G + Sbjct: 14 KVLLIGAGEMARLAAKHLLSKGAKKITIANR----------TLEKAKELAEEFGGEEVEA 63 Query: 63 LNFSSDHTLLQNADIVLFATSSKGY 87 L LL ADIV+ ATS+ Sbjct: 64 LPLDELEELLAEADIVISATSAPTP 88 >gnl|CDD|145605 pfam02558, ApbA, Ketopantoate reductase PanE/ApbA. This is a family of 2-dehydropantoate 2-reductases also known as ketopantoate reductases, EC:1.1.1.169. The reaction catalysed by this enzyme is: (R)-pantoate + NADP(+) <=> 2-dehydropantoate + NADPH. AbpA catalyses the NADPH reduction of ketopantoic acid to pantoic acid in the alternative pyrimidine biosynthetic (APB) pathway. ApbA and PanE are allelic. ApbA, the ketopantoate reductase enzyme is required for the synthesis of thiamine via the APB biosynthetic pathway. Length = 150 Score = 33.4 bits (77), Expect = 0.099 Identities = 24/101 (23%), Positives = 47/101 (46%), Gaps = 2/101 (1%) Query: 7 IFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLNFS 66 I ++GAGA G+ + +A R +VTL+ R ++ + + + + G + P + Sbjct: 1 IAILGAGAVGSLYGARLA-RAGHDVTLIARGR-HLEAIRENGLRITSPGGERTVPPPVAT 58 Query: 67 SDHTLLQNADIVLFATSSKGYGEALNFYSNWLKESAEIIIC 107 S L AD+V+ A + EAL + L + +++ Sbjct: 59 SASEELGPADLVIVAVKAYQTAEALEDLAPLLGPNTVVLLL 99 >gnl|CDD|32552 COG2423, COG2423, Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]. Length = 330 Score = 33.0 bits (75), Expect = 0.11 Identities = 28/105 (26%), Positives = 44/105 (41%), Gaps = 11/105 (10%) Query: 2 KNYSTIFVIGAGAFG-TALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLS 60 K+ ST+ +IGAGA T L ++ A R + + + R + E + G + Sbjct: 128 KDASTLAIIGAGAQARTQLEALKAVRDIREIRVYSRDP---EAAEAFAARLRKRGGEAVG 184 Query: 61 PLLNFSSDHTLLQNADIVLFATSSKGYGEALNFYSNWLKESAEII 105 S ++ ADIV+ AT S E + + WLK I Sbjct: 185 AA---DSAEEAVEGADIVVTATPST---EPV-LKAEWLKPGTHIN 222 >gnl|CDD|111613 pfam02737, 3HCDH_N, 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain. This family also includes lambda crystallin. Length = 180 Score = 32.5 bits (75), Expect = 0.15 Identities = 19/83 (22%), Positives = 33/83 (39%), Gaps = 11/83 (13%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRK----EILMQQLEDTRINAKALPGIKLSP 61 + VIGAG G ++ V A GL V L+ E ++E + + Sbjct: 1 KVAVIGAGTMGAGIAQVFARAGL-EVVLVDISEEALEKARARIEKSLARLVEKGRLTEED 59 Query: 62 ------LLNFSSDHTLLQNADIV 78 ++F++D +AD+V Sbjct: 60 VDAVLARISFTTDLADAVDADLV 82 >gnl|CDD|133443 cd01065, NAD_bind_Shikimate_DH, NAD(P) binding domain of Shikimate dehydrogenase. Shikimate dehydrogenase (DH) is an amino acid DH family member. Shikimate pathway links metabolism of carbohydrates to de novo biosynthesis of aromatic amino acids, quinones and folate. It is essential in plants, bacteria, and fungi but absent in mammals, thus making enzymes involved in this pathway ideal targets for broad spectrum antibiotics and herbicides. Shikimate DH catalyzes the reduction of 3-hydroshikimate to shikimate using the cofactor NADH. Amino acid DH-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH/cyclohydrolase, Shikimate DH-like proteins, malate oxidoreductases, and glutamyl tRNA reductase. Amino acid DHs catalyze the deamination of amino acids to keto acids with NAD(P)+ as a cofactor. The NAD(P)-binding Rossmann fold superfamily includes a wide variety of protein families including NAD(P)- binding domains of alcohol DHs, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate DH, lactate/malate DHs, formate/glycerate DHs, siroheme synthases, 6-phosphogluconate DHs, amino acid DHs, repressor rex, NAD-binding potassium channel domain, CoA-binding, and ornithine cyclodeaminase-like domains. These domains have an alpha-beta-alpha configuration. NAD binding involves numerous hydrogen and van der Waals contacts. Length = 155 Score = 31.9 bits (73), Expect = 0.27 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 12/80 (15%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGI--KLSPLL 63 + ++GAG A++ +A G A + ++ R T AKAL +L + Sbjct: 21 KVLILGAGGAARAVAYALAELGAAKIVIVNR----------TLEKAKALAERFGELGIAI 70 Query: 64 NFSSDHTLLQNADIVLFATS 83 + LL AD+++ T Sbjct: 71 AYLDLEELLAEADLIINTTP 90 >gnl|CDD|30518 COG0169, AroE, Shikimate 5-dehydrogenase [Amino acid transport and metabolism]. Length = 283 Score = 29.9 bits (67), Expect = 0.97 Identities = 16/78 (20%), Positives = 34/78 (43%), Gaps = 6/78 (7%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLNF 65 + ++GAG A++ +A G +T++ R ++L A + + Sbjct: 128 RVLILGAGGAARAVAFALAEAGAKRITVVNRTRERAEEL------ADLFGELGAAVEAAA 181 Query: 66 SSDHTLLQNADIVLFATS 83 +D L+ AD+++ AT Sbjct: 182 LADLEGLEEADLLINATP 199 >gnl|CDD|31442 COG1250, FadB, 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]. Length = 307 Score = 29.1 bits (65), Expect = 1.7 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 15/88 (17%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLL---------GRKEI---LMQQLEDTRINAKA 53 + VIGAG G +++V A G +V L I L + +E ++ + Sbjct: 5 KVAVIGAGVMGAGIAAVFALAGY-DVVLKDISPEALERALAYIEKNLEKLVEKGKLTEEE 63 Query: 54 LPGIKLSPLLNFSSDHTLLQNADIVLFA 81 L+ + ++D L++AD+V+ A Sbjct: 64 -ADAALA-RITPTTDLAALKDADLVIEA 89 >gnl|CDD|31364 COG1171, IlvA, Threonine dehydratase [Amino acid transport and metabolism]. Length = 347 Score = 29.0 bits (65), Expect = 1.7 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 3/63 (4%) Query: 103 EIIICSKGFEYNSGMLLSSYSEKVL--PSHSISVLSGPGFARDIAQGLPVGVILSSKNID 160 +I++ + E + M K++ P+ ++++ + + QG V VILS NID Sbjct: 258 DIVLVDED-EICAAMRDLFERTKIIAEPAGALALAALLAGKIEPLQGKTVVVILSGGNID 316 Query: 161 ISR 163 R Sbjct: 317 FER 319 >gnl|CDD|133453 cd05311, NAD_bind_2_malic_enz, NAD(P) binding domain of malic enzyme (ME), subgroup 2. Malic enzyme (ME), a member of the amino acid dehydrogenase (DH)-like domain family, catalyzes the oxidative decarboxylation of L-malate to pyruvate in the presence of cations (typically Mg++ or Mn++) with the concomitant reduction of cofactor NAD+ or NADP+. ME has been found in all organisms, and plays important roles in diverse metabolic pathways such as photosynthesis and lipogenesis. This enzyme generally forms homotetramers. The conversion of malate to pyruvate by ME typically involves oxidation of malate to produce oxaloacetate, followed by decarboxylation of oxaloacetate to produce pyruvate and CO2. This subfamily consists primarily of archaeal and bacterial ME. Amino acid DH-like NAD(P)-binding domains are members of the Rossmann fold superfamily and include glutamate, leucine, and phenylalanine DHs, methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH/cyclohydrolase, Shikimate DH-like proteins, malate oxidoreductases, and glutamyl tRNA reductase. Amino acid DHs catalyze the deamination of amino acids to keto acids with NAD(P)+ as a cofactor. The NAD(P)-binding Rossmann fold superfamily includes a wide variety of protein families including NAD(P)- binding domains of alcohol DHs, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate DH, lactate/malate DHs, formate/glycerate DHs, siroheme synthases, 6-phosphogluconate DH, amino acid DHs, repressor rex, NAD-binding potassium channel domain, CoA-binding, and ornithine cyclodeaminase-like domains. These domains have an alpha-beta-alpha configuration. NAD binding involves numerous hydrogen and van der Waals contacts. Length = 226 Score = 28.8 bits (65), Expect = 2.2 Identities = 17/77 (22%), Positives = 35/77 (45%), Gaps = 2/77 (2%) Query: 5 STIFVIGAGAFGTALSSVIASRGL--ANVTLLGRKEILMQQLEDTRINAKALPGIKLSPL 62 I + GAGA G A++ ++ + G N+ ++ K ++ + ED K + +P Sbjct: 26 VKIVINGAGAAGIAIARLLLAAGAKPENIVVVDSKGVIYEGREDDLNPDKNEIAKETNPE 85 Query: 63 LNFSSDHTLLQNADIVL 79 + L+ AD+ + Sbjct: 86 KTGGTLKEALKGADVFI 102 >gnl|CDD|30915 COG0569, TrkA, K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]. Length = 225 Score = 28.3 bits (63), Expect = 3.4 Identities = 19/83 (22%), Positives = 39/83 (46%), Gaps = 12/83 (14%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLNF 65 I +IGAG G +++ ++ G NV L+ R E +++ ++ + G + Sbjct: 2 KIIIIGAGRVGRSVARELSEEG-HNVVLIDRDEERVEEFLADELDTHVVIG-------DA 53 Query: 66 SSDHTL----LQNADIVLFATSS 84 + + L + +AD V+ AT + Sbjct: 54 TDEDVLEEAGIDDADAVVAATGN 76 >gnl|CDD|31934 COG1748, LYS9, Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]. Length = 389 Score = 27.9 bits (62), Expect = 4.1 Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 3/36 (8%) Query: 1 MKNYSTIFVIGAGAFGTALSSVIASRGLANVTLLGR 36 M I VIGAG G+ ++ +A G VT+ R Sbjct: 1 MMK---ILVIGAGGVGSVVAHKLAQNGDGEVTIADR 33 >gnl|CDD|146194 pfam03435, Saccharop_dh, Saccharopine dehydrogenase. This family comprised of three structural domains that can not be separated in the linear sequence. In some organisms this enzyme is found as a bifunctional polypeptide with lysine ketoglutarate reductase. The saccharopine dehydrogenase can also function as a saccharopine reductase. Length = 384 Score = 27.7 bits (62), Expect = 4.8 Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 3/74 (4%) Query: 7 IFVIGAGAFGTALSSVIASRG-LANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLNF 65 + +IGAG G ++ ++A G + +T+ R Q L ++ + + I + N+ Sbjct: 1 VLIIGAGGVGQGVAPLLARHGDVDEITVADRSLEKAQALAAPKLGLRFIA-IAVDA-DNY 58 Query: 66 SSDHTLLQNADIVL 79 + LL+ D+V+ Sbjct: 59 EALAALLKEGDLVI 72 >gnl|CDD|38055 KOG2844, KOG2844, KOG2844, Dimethylglycine dehydrogenase precursor [Amino acid transport and metabolism]. Length = 856 Score = 27.6 bits (61), Expect = 4.9 Identities = 11/39 (28%), Positives = 21/39 (53%) Query: 1 MKNYSTIFVIGAGAFGTALSSVIASRGLANVTLLGRKEI 39 + + + + VIG G+ G + + +A RG+ LL R + Sbjct: 36 LPSTADVVVIGGGSLGCSTAYHLAKRGMKGAVLLERSRL 74 >gnl|CDD|144747 pfam01266, DAO, FAD dependent oxidoreductase. This family includes various FAD dependent oxidoreductases: Glycerol-3-phosphate dehydrogenase EC:1.1.99.5, Sarcosine oxidase beta subunit EC:1.5.3.1, D-alanine oxidase EC:1.4.99.1, D-aspartate oxidase EC:1.4.3.1. Length = 309 Score = 27.7 bits (62), Expect = 5.1 Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 5/35 (14%) Query: 7 IFVIGAGAFG--TALSSVIASRGLANVTLLGRKEI 39 + VIG G G TA +A RGL +VTLL R ++ Sbjct: 2 VVVIGGGIVGLSTAYE--LARRGL-SVTLLERGDL 33 >gnl|CDD|133449 cd05191, NAD_bind_amino_acid_DH, NAD(P) binding domain of amino acid dehydrogenase-like proteins. Amino acid dehydrogenase(DH)-like NAD(P)-binding domains are members of the Rossmann fold superfamily and are found in glutamate, leucine, and phenylalanine DHs (DHs), methylene tetrahydrofolate DH, methylene-tetrahydromethanopterin DH, methylene-tetrahydropholate DH/cyclohydrolase, Shikimate DH-like proteins, malate oxidoreductases, and glutamyl tRNA reductase. Amino acid DHs catalyze the deamination of amino acids to keto acids with NAD(P)+ as a cofactor. The NAD(P)-binding Rossmann fold superfamily includes a wide variety of protein families including NAD(P)- binding domains of alcohol DHs, tyrosine-dependent oxidoreductases, glyceraldehyde-3-phosphate DH, lactate/malate DHs, formate/glycerate DHs, siroheme synthases, 6-phosphogluconate DH, amino acid DHs, repressor rex, NAD-binding potassium channel domain, CoA-binding, and ornithine cyclodeaminase-like domains. These domains have an alpha-beta-alpha configuration. NAD binding involves numerous hydrogen and van der Waals contacts. Length = 86 Score = 27.3 bits (61), Expect = 6.1 Identities = 11/31 (35%), Positives = 17/31 (54%) Query: 6 TIFVIGAGAFGTALSSVIASRGLANVTLLGR 36 T+ V+GAG G ++ ++A G V L R Sbjct: 25 TVVVLGAGEVGKGIAKLLADEGGKKVVLCDR 55 >gnl|CDD|31283 COG1086, COG1086, Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]. Length = 588 Score = 27.2 bits (60), Expect = 6.8 Identities = 23/87 (26%), Positives = 33/87 (37%), Gaps = 9/87 (10%) Query: 6 TIFVIGA-GAFGTALSSVIASRGLANVTLLGRKEILMQQLEDTRINAKALPGIKLSPLLN 64 T+ V G G+ G+ L I + L R E L D + K P +KL + Sbjct: 252 TVLVTGGGGSIGSELCRQILKFNPKEIILFSRDE-YKLYLIDMELREK-FPELKLRFYIG 309 Query: 65 FSSDHTLLQNA------DIVLFATSSK 85 D ++ A DIV A + K Sbjct: 310 DVRDRDRVERAMEGHKVDIVFHAAALK 336 >gnl|CDD|176196 cd08234, threonine_DH_like, L-threonine dehydrogenase. L-threonine dehydrogenase (TDH) catalyzes the zinc-dependent formation of 2-amino-3-ketobutyrate from L-threonine, via NAD(H)-dependent oxidation. THD is a member of the zinc-requiring, medium chain NAD(H)-dependent alcohol dehydrogenase family (MDR). MDRs have a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. NAD(P)(H)-dependent oxidoreductases are the major enzymes in the interconversion of alcohols and aldehydes, or ketones. The N-terminal region typically has an all-beta catalytic domain. These proteins typically form dimers (typically higher plants, mammals) or tetramers (yeast, bacteria), and have 2 tightly bound zinc atoms per subunit. Sorbitol and aldose reductase are NAD(+) binding proteins of the polyol pathway, which interconverts glucose and fructose. Length = 334 Score = 27.1 bits (61), Expect = 7.6 Identities = 11/38 (28%), Positives = 19/38 (50%) Query: 1 MKNYSTIFVIGAGAFGTALSSVIASRGLANVTLLGRKE 38 +K ++ V GAG G L+ ++ G + VT+ E Sbjct: 157 IKPGDSVLVFGAGPIGLLLAQLLKLNGASRVTVAEPNE 194 >gnl|CDD|173718 cd05629, STKc_NDR_like_fungal, Catalytic domain of Fungal Nuclear Dbf2-Related kinase-like Protein Serine/Threonine Kinases. Serine/Threonine Kinases (STKs), NDR kinase subfamily, fungal NDR-like proteins, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The NDR subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. This group is composed of fungal NDR-like proteins including Saccharomyces cerevisiae CBK1 (or CBK1p), Schizosaccharomyces pombe Orb6 (or Orb6p), Ustilago maydis Ukc1 (or Ukc1p), and Neurospora crassa Cot1. Like NDR kinase, group members contain an N-terminal regulatory (NTR) domain and an insert within the catalytic domain that contains an auto-inhibitory sequence. CBK1 is an essential component in the RAM (regulation of Ace2p activity and cellular morphogenesis) network. CBK1 and Orb6 play similar roles in coordinating cell morphology with cell cycle progression. Ukc1 is involved in morphogenesis, pathogenicity, and pigment formation. Cot1 plays a role in polar tip extension. Length = 377 Score = 27.1 bits (60), Expect = 7.7 Identities = 8/14 (57%), Positives = 11/14 (78%) Query: 3 NYSTIFVIGAGAFG 16 ++ T+ VIG GAFG Sbjct: 2 DFHTVKVIGKGAFG 15 >gnl|CDD|35809 KOG0589, KOG0589, KOG0589, Serine/threonine protein kinase [General function prediction only]. Length = 426 Score = 26.9 bits (59), Expect = 7.7 Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 5/52 (9%) Query: 1 MKNYSTIFVIGAGAFGTALSSVIASRGLANVTLLGRKEILMQQL-EDTRINA 51 M NY + +G GAFG S + R ++ L K+I +++L E R +A Sbjct: 3 MDNYEVLRQVGRGAFG----SALLVRHKSDDKLYVLKKINLEKLTEPERRSA 50 >gnl|CDD|34516 COG4907, COG4907, Predicted membrane protein [Function unknown]. Length = 595 Score = 26.5 bits (58), Expect = 9.5 Identities = 10/34 (29%), Positives = 17/34 (50%) Query: 16 GTALSSVIASRGLANVTLLGRKEILMQQLEDTRI 49 A SV+ + G + L RK++L + ED + Sbjct: 318 FVATKSVLNNEGYITIVDLIRKKVLKLETEDKKT 351 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.319 0.135 0.371 Gapped Lambda K H 0.267 0.0797 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,598,031 Number of extensions: 184118 Number of successful extensions: 593 Number of sequences better than 10.0: 1 Number of HSP's gapped: 578 Number of HSP's successfully gapped: 39 Length of query: 329 Length of database: 6,263,737 Length adjustment: 94 Effective length of query: 235 Effective length of database: 4,232,491 Effective search space: 994635385 Effective search space used: 994635385 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 58 (26.0 bits)