RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780595|ref|YP_003065008.1| nucleoside-diphosphate-sugar epimerase protein [Candidatus Liberibacter asiaticus str. psy62] (289 letters) >gnl|CDD|35966 KOG0747, KOG0747, KOG0747, Putative NAD+-dependent epimerases [Carbohydrate transport and metabolism]. Length = 331 Score = 77.3 bits (190), Expect = 4e-15 Identities = 40/197 (20%), Positives = 82/197 (41%), Gaps = 25/197 (12%) Query: 94 PHVKWIGYLSSTSIYGNREGQW-VDEHSFVHPISCVATQRFNAEKEWLAITKKLNIKLAV 152 +++ ++S+ +YG+ + V E S ++P + A + AE + + + + Sbjct: 122 GNIRRFVHVSTDEVYGDSDEDAVVGEASLLNPTNPYAASKAAAEMLVRSYGRSYGLPVVT 181 Query: 153 LRLSGIYGPKRNP------FIKIRQKNSLRLVKKN--QVFNRIRVEDVARCV-IFLMTHH 203 R++ +YGP + P FIK+ + + + Q + + VEDV+ L Sbjct: 182 TRMNNVYGPNQYPEKLIPKFIKLAMRGKEYPIHGDGLQTRSYLYVEDVSEAFKAVLEKGE 241 Query: 204 LGGIFNLSDDEPAPPQNVIMEAASLMKITPPLEQCFDTANISPFTRFFYADN-------K 256 LG I+N+ D+ ++ + L + P NI F+ ++ Sbjct: 242 LGEIYNIGTDDEMRVIDLAKDICELFEKRLP--------NIDTEPFIFFVEDRPYNDLRY 293 Query: 257 RISNAKIKSLGFQLLYP 273 + + KIK LG++ P Sbjct: 294 FLDDEKIKKLGWRPTTP 310 >gnl|CDD|30800 COG0451, WcaG, Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]. Length = 314 Score = 74.6 bits (182), Expect = 3e-14 Identities = 56/306 (18%), Positives = 104/306 (33%), Gaps = 43/306 (14%) Query: 1 MHLMIFG-AGYTGKFIADAALKVGVYTCGTTRSVSNLLTLKHKGISPFLFADQKINNLLR 59 M +++ G AG+ G + + L G G R L L F+ D +L+ Sbjct: 1 MRILVTGGAGFIGSHLVERLLAAGHDVRGLDRLRDGLDPLL--SGVEFVVLDLTDRDLVD 58 Query: 60 EKL-YFTTHIVQCIKPSSEGDPCIISMSKDFYKFMPH----------------VKWIGYL 102 E ++ SS S + D +F+ VK + Sbjct: 59 ELAKGVPDAVIHLAAQSSV----PDSNASDPAEFLDVNVDGTLNLLEAARAAGVKRFVFA 114 Query: 103 SSTS-IYGNREGQWVDE-HSFVHPISCVATQRFNAEKEWLAITKKLNIKLAVLRLSGIYG 160 SS S +YG+ +DE P++ + AE+ A + + + +LR +YG Sbjct: 115 SSVSVVYGDPPPLPIDEDLGPPRPLNPYGVSKLAAEQLLRAYARLYGLPVVILRPFNVYG 174 Query: 161 PKRNP----------FIKIRQKNSLRLVKKNQVFNR--IRVEDVARCVIFLMTHHLGGIF 208 P P ++ + + ++ + R + V+DVA ++ + + GG+F Sbjct: 175 PGDKPDLSSGVVSAFIRQLLKGEPIIVIGGDGSQTRDFVYVDDVADALLLALENPDGGVF 234 Query: 209 NLSDDEPAPPQNVIMEA-ASLMKITPPLEQCFDTANISPFTRFFYADNKRISNAKIKSLG 267 N+ + EA A + PL D + +LG Sbjct: 235 NIGSGTAEITVRELAEAVAEAVGSKAPLIVYIPLGRRGDLREGKLLDISK----ARAALG 290 Query: 268 FQLLYP 273 ++ Sbjct: 291 WEPKVS 296 >gnl|CDD|31288 COG1091, RfbD, dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]. Length = 281 Score = 46.4 bits (110), Expect = 8e-06 Identities = 40/198 (20%), Positives = 78/198 (39%), Gaps = 26/198 (13%) Query: 101 YLSSTSIY-GNREGQWVDEHSFVHPISCVATQRFNAEKEWLAITKKLNIKLAVLRLSGIY 159 ++S+ ++ G + G + E +P++ + E+ + + +LR S +Y Sbjct: 97 HISTDYVFDGEKGGPYK-ETDTPNPLNVYGRSKLAGEEA----VRAAGPRHLILRTSWVY 151 Query: 160 GPKRNPFIKI-----RQKNSLRLVKKNQVFNRIRVEDVARCVI-FLMTHHLGGIFNLSDD 213 G N F+K ++ L++V +Q + ED+A ++ L GG+++L + Sbjct: 152 GEYGNNFVKTMLRLAKEGKELKVV-DDQYGSPTYTEDLADAILELLEKEKEGGVYHLVNS 210 Query: 214 EPAPP---QNVIMEAASLMK--ITPPLEQCFDTANISPFTRFFYADNKRISNAKIKSLGF 268 I E A + I P + T P N + K++ Sbjct: 211 GECSWYEFAKAIFEEAGVDGEVIEPIASAEYPTPAKRPA-------NSSLDTKKLEKAFG 263 Query: 269 QLLYPNYRISLKQLWKEI 286 L P +R +LK L E+ Sbjct: 264 LSL-PEWREALKALLDEL 280 >gnl|CDD|144821 pfam01370, Epimerase, NAD dependent epimerase/dehydratase family. This family of proteins utilize NAD as a cofactor. The proteins in this family use nucleotide-sugar substrates for a variety of chemical reactions. Length = 235 Score = 45.0 bits (107), Expect = 3e-05 Identities = 30/123 (24%), Positives = 58/123 (47%), Gaps = 13/123 (10%) Query: 101 YLSSTSIYGNREGQWVDEHSFVHPISCVATQRFNAEKEWLAITKKLNIKLAVLRLSGIYG 160 + SS+ +YG+ + E + + P+S A + E+ LA + ++ +LRL +YG Sbjct: 113 FASSSEVYGDVADPPITEDTPLGPLSPYAAAKLAGERLVLAYARAYGLRAVILRLFNVYG 172 Query: 161 PKRNP-----FI-----KIRQKNSLRLVKKN--QVFNRIRVEDVARCVIFLMTHH-LGGI 207 P N I +I + L+ + Q + + V+DVAR ++ + H G + Sbjct: 173 PGDNDTFVTHVIPALIRRILEGKPEILLLGDGTQRRDFLYVDDVARAILLALEHPDGGEV 232 Query: 208 FNL 210 +N+ Sbjct: 233 YNI 235 >gnl|CDD|31287 COG1090, COG1090, Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]. Length = 297 Score = 39.0 bits (91), Expect = 0.001 Identities = 32/128 (25%), Positives = 54/128 (42%), Gaps = 19/128 (14%) Query: 103 SSTSIYGNREGQWVDEHSFVHPISCVATQRFNAE--KEWLAIT---KKLNIKLAVLRLSG 157 S+ YG+ + V E S F A+ ++W ++L ++ +LR Sbjct: 110 SAVGYYGHSGDRVVTEES-------PPGDDFLAQLCQDWEEEALQAQQLGTRVVLLRTGV 162 Query: 158 IYGPKRNPFIKIRQKNSLRLVKK----NQVFNRIRVEDVARCVIFLMTHH-LGGIFNLSD 212 + P K+ L L K Q F+ I +ED+ ++FL+ + L G FNL+ Sbjct: 163 VLSPDGGALGKMLPLFKLGLGGKLGSGRQWFSWIHIEDLVNAILFLLENEQLSGPFNLT- 221 Query: 213 DEPAPPQN 220 P P +N Sbjct: 222 -APNPVRN 228 >gnl|CDD|36715 KOG1502, KOG1502, KOG1502, Flavonol reductase/cinnamoyl-CoA reductase [Defense mechanisms]. Length = 327 Score = 37.2 bits (86), Expect = 0.005 Identities = 40/223 (17%), Positives = 73/223 (32%), Gaps = 30/223 (13%) Query: 69 VQCIKPSSEGDPCIISMSKDFYKFMPHVKWIGYLSSTSIYGNREGQW-----VDEHSFVH 123 + I P+ +G ++ K VK + Y SST+ VDE S+ Sbjct: 98 KELIDPAVKGTKNVLEACKKT----KSVKRVVYTSSTAAVRYNGPNIGENSVVDEESWSD 153 Query: 124 PISCVATQRFN------AEKEWLAITKKLNIKLAVLRLSGIYGP------KRNPFIKIRQ 171 C + + AEK K+ + L + ++GP + ++ Sbjct: 154 LDFCRCKKLWYALSKTLAEKAAWEFAKENGLDLVTINPGLVFGPGLQPSLNSSLNALLKL 213 Query: 172 KNSLRLVKKNQVFNRIRVEDVARCVIFLMTH-HLGGIFNLSDDEPAPPQNVIMEAASLMK 230 L N + V DVA + + G + I E A +++ Sbjct: 214 IKGLAETYPNFWLAFVDVRDVALAHVLALEKPSAKGRYICVG-----EVVSIKEIADILR 268 Query: 231 ITPPLEQCFDTANISPFTRFFYADNKRISNAKIKSLGFQLLYP 273 P + + + + ++S+ K+KSLG P Sbjct: 269 ELFPD---YPIPKKNAEEHEGFLTSFKVSSEKLKSLGGFKFRP 308 >gnl|CDD|36643 KOG1430, KOG1430, KOG1430, C-3 sterol dehydrogenase/3-beta-hydroxysteroid dehydrogenase and related dehydrogenases [Lipid transport and metabolism, Amino acid transport and metabolism]. Length = 361 Score = 34.9 bits (80), Expect = 0.029 Identities = 32/139 (23%), Positives = 47/139 (33%), Gaps = 22/139 (15%) Query: 96 VKWIGYLSSTSIYG------NREGQWVDEHSFVHPISCVATQRFNAEKEWLAITKKLNIK 149 VK + Y SS + N + + P AEK L ++ Sbjct: 118 VKRLIYTSSAYVVFGGEPIINGDESLPYPLKHIDPYGESKAL---AEKLVLEANGSDDLY 174 Query: 150 LAVLRLSGIYGP---KRNPFIKIRQKNSLRLVKK---NQVFNRIRVEDVA-------RCV 196 LR GIYGP + P I KN L K + + E+VA R + Sbjct: 175 TCALRPPGIYGPGDKRLLPKIVEALKNGGFLFKIGDGENLNDFTYGENVAWAHILAARAL 234 Query: 197 IFLMTHHLGGIFNLSDDEP 215 + G + ++DD P Sbjct: 235 LDKSPSVNGQFYFITDDTP 253 >gnl|CDD|31521 COG1330, RecC, Exonuclease V gamma subunit [DNA replication, recombination, and repair]. Length = 1078 Score = 33.0 bits (75), Expect = 0.088 Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 1/74 (1%) Query: 210 LSDDEPAPPQNVIMEAASLMKITPPLEQCFDTANISPFTRFFYADNKRISNAKIKSLGFQ 269 L +D P+++++ + TP +E F A I + +D + + Sbjct: 364 LEEDPTLQPRDIVVLVPDIDSYTPYIEAVFGQAPIERHLPYSLSDRSLSQTEPLLNAFLL 423 Query: 270 LL-YPNYRISLKQL 282 LL P R S +++ Sbjct: 424 LLDLPESRFSAEEV 437 >gnl|CDD|113104 pfam04321, RmlD_sub_bind, RmlD substrate binding domain. L-rhamnose is a saccharide required for the virulence of some bacteria. Its precursor, dTDP-L-rhamnose, is synthesized by four different enzymes the final one of which is RmlD. The RmlD substrate binding domain is responsible for binding a sugar nucleotide. Length = 284 Score = 32.2 bits (74), Expect = 0.16 Identities = 17/71 (23%), Positives = 35/71 (49%), Gaps = 11/71 (15%) Query: 151 AVLRLSGIYGPKRNPFIK-----IRQKNSLRLVKKNQVFNRIRVEDVARCVIFLMTH--- 202 +LR + +YG N F+K +++ LR+V +Q+ + D+A ++ L+ Sbjct: 142 LILRTAWVYGEYGNNFVKTMLRLAAERDELRVV-DDQLGSPTSARDLADALLALIRKRLR 200 Query: 203 --HLGGIFNLS 211 L G ++L+ Sbjct: 201 GPALAGTYHLA 211 >gnl|CDD|144605 pfam01073, 3Beta_HSD, 3-beta hydroxysteroid dehydrogenase/isomerase family. The enzyme 3 beta-hydroxysteroid dehydrogenase/5-ene-4-ene isomerase (3 beta-HSD) catalyses the oxidation and isomerisation of 5-ene-3 beta-hydroxypregnene and 5-ene-hydroxyandrostene steroid precursors into the corresponding 4-ene-ketosteroids necessary for the formation of all classes of steroid hormones. Length = 280 Score = 32.3 bits (74), Expect = 0.18 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 8/48 (16%) Query: 153 LRLSGIYGPKRNPFIKIRQKNSL-------RLVKKNQVFNRIRVEDVA 193 LR +GI+G +PF+ L R KN + +R+ V +VA Sbjct: 176 LRPAGIFGEG-DPFLFPFLVRLLKNGLAKFRTGDKNVLSDRVYVGNVA 222 >gnl|CDD|33266 COG3463, COG3463, Predicted membrane protein [Function unknown]. Length = 458 Score = 28.7 bits (64), Expect = 1.8 Identities = 22/96 (22%), Positives = 36/96 (37%), Gaps = 14/96 (14%) Query: 49 FADQKINNLLREKLYFTTHIVQCIKPSSEGDPCIISMSKDFYKFMPHVKWIGYLSSTSIY 108 Q + KL++ T Q P I+ + FYK P + + + + +I Sbjct: 41 IFSQSLYTTSHGKLFYNTVEFQLTHFGVHFQP-ILFLLYPFYKLFPSPETLLLIQAIAI- 98 Query: 109 GNREGQWVDEHSF-VHPISCVATQRFNAEKEWLAIT 143 + PI +A + N EKE LAI+ Sbjct: 99 -----------ALSSLPIYLLAKEILNGEKEALAIS 123 >gnl|CDD|37938 KOG2727, KOG2727, KOG2727, Rab3 GTPase-activating protein, non-catalytic subunit [Intracellular trafficking, secretion, and vesicular transport]. Length = 1244 Score = 28.5 bits (63), Expect = 2.2 Identities = 11/32 (34%), Positives = 13/32 (40%) Query: 226 ASLMKITPPLEQCFDTANISPFTRFFYADNKR 257 +L K +PP T PF FF A R Sbjct: 231 LALQKPSPPRYSQAVTIGEDPFIGFFRASEGR 262 >gnl|CDD|33079 COG3268, COG3268, Uncharacterized conserved protein [Function unknown]. Length = 382 Score = 28.4 bits (63), Expect = 2.4 Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 1/39 (2%) Query: 2 HLMIFGA-GYTGKFIADAALKVGVYTCGTTRSVSNLLTL 39 ++I+GA GY G +A+ + G+ RS + L L Sbjct: 8 DIIIYGATGYAGGLVAEYLAREGLTAALAGRSSAKLDAL 46 >gnl|CDD|35522 KOG0301, KOG0301, KOG0301, Phospholipase A2-activating protein (contains WD40 repeats) [Lipid transport and metabolism]. Length = 745 Score = 28.4 bits (63), Expect = 2.5 Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 14/50 (28%) Query: 81 CIISMSKDFYKFMPHVKWIGYLSSTSIYGNREGQWVDEHSFVHPISCVAT 130 CIIS S+D + ++ + Q+++ H+F P +A Sbjct: 27 CIISGSRD--------------GTVKVWAKKGKQYLETHAFEGPKGFIAN 62 >gnl|CDD|99803 cd06207, CyPoR_like, NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form FADH2 which then transfers two electrons and a proton to NADP+ to form NADPH.. Length = 382 Score = 28.4 bits (64), Expect = 2.6 Identities = 14/49 (28%), Positives = 18/49 (36%), Gaps = 8/49 (16%) Query: 24 VYTCGTT----RSVSNLL---TLKHKGISPFLFADQKINNLLREKLYFT 65 +Y CG+T V KH G L A++KI L Y Sbjct: 332 IYVCGSTWKMPPDVQEAFEEILKKHGGGDEEL-AEKKIEELEERGRYVV 379 >gnl|CDD|145042 pfam01686, Adeno_Penton_B, Adenovirus penton base protein. This family consists of various adenovirus penton base proteins, from both the Mastadenoviradae having mammalian hosts and the Aviadenoviradae having avian hosts. The penton base is a major structural protein forming part of the penton which consists of a base and a fibre, the pentons hold a morphologically prominent position at the vertex capsomer in the adenovirus particle. In mammalian adenovirus there is only one tail on each base where as in avian adenovirus there are two. Length = 454 Score = 28.1 bits (63), Expect = 3.2 Identities = 16/70 (22%), Positives = 27/70 (38%), Gaps = 10/70 (14%) Query: 213 DEPAPPQNVIMEAASLMKIT-PPLEQCFDTANISPFTRFFYADNKRISNAKIKSLGFQLL 271 + P P + I L DT T+ + DNK ++ I SL +Q Sbjct: 2 EPPVVPPRYLAPTEGRNSIRYSNLAPLQDT------TKLYLIDNK---SSDIASLNYQND 52 Query: 272 YPNYRISLKQ 281 + N+ ++ Q Sbjct: 53 HSNFLTTVIQ 62 >gnl|CDD|37944 KOG2733, KOG2733, KOG2733, Uncharacterized membrane protein [Function unknown]. Length = 423 Score = 27.6 bits (61), Expect = 4.3 Identities = 10/26 (38%), Positives = 18/26 (69%), Gaps = 1/26 (3%) Query: 2 HLMIFGA-GYTGKFIADAALKVGVYT 26 ++I+GA G+TGK+I + A+ V+ Sbjct: 7 DVVIYGASGFTGKYIVEEAVSSQVFE 32 >gnl|CDD|114110 pfam05368, NmrA, NmrA-like family. NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families. Length = 232 Score = 27.2 bits (61), Expect = 4.8 Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 3/42 (7%) Query: 5 IFGA-GYTGKFIADAALKVGVYTCGTTRSVS--NLLTLKHKG 43 +FGA GY G + A+LK G R +LK G Sbjct: 3 VFGATGYQGGSVVRASLKAGHPVRALVRDPKSELAKSLKAAG 44 >gnl|CDD|36294 KOG1078, KOG1078, KOG1078, Vesicle coat complex COPI, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]. Length = 865 Score = 27.2 bits (60), Expect = 5.0 Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 8/61 (13%) Query: 14 FIADAALKVGVYTCGTTRSVSNLLTLKHKGISPFLFADQKINNLLREK--LYFTTHIVQC 71 F++D + + + RS+ KH + FL N+LRE+ F IV Sbjct: 362 FVSDISDEFKIVVVDAIRSLCLKFPRKHTVMMNFLS------NMLREEGGFEFKRAIVDA 415 Query: 72 I 72 I Sbjct: 416 I 416 >gnl|CDD|36642 KOG1429, KOG1429, KOG1429, dTDP-glucose 4-6-dehydratase/UDP-glucuronic acid decarboxylase [Carbohydrate transport and metabolism, Cell wall/membrane/envelope biogenesis]. Length = 350 Score = 26.8 bits (59), Expect = 6.8 Identities = 32/149 (21%), Positives = 57/149 (38%), Gaps = 27/149 (18%) Query: 101 YLSSTSIYG------NREGQWVDEHSFVHPI---SCVATQRFNAEKEWLAITKKLNIKLA 151 S++ +YG E W V+PI SC + AE A K+ I++ Sbjct: 138 LASTSEVYGDPLVHPQVETYW----GNVNPIGPRSCYDEGKRVAETLCYAYHKQEGIEVR 193 Query: 152 VLRLSGIYGPKRN--------PFIK-IRQKNSLRLVKKN-QVFNRIRVEDVARCVIFLMT 201 + R+ YGP+ + FI + L + Q + V D+ ++ LM Sbjct: 194 IARIFNTYGPRMHMDDGRVVSNFIAQALRGEPLTVYGDGKQTRSFQYVSDLVEGLLRLME 253 Query: 202 HHLGGIFNLSDDEPAPPQNVIMEAASLMK 230 G N+ + + ++E A ++K Sbjct: 254 SDYRGPVNIGNPG----EFTMLELAEMVK 278 >gnl|CDD|147276 pfam05011, DBR1, Lariat debranching enzyme, C-terminal domain. This presumed domain is found at the C-terminus of lariat debranching enzyme. This domain is always found in association with pfam00149. Length = 141 Score = 26.5 bits (59), Expect = 9.6 Identities = 11/55 (20%), Positives = 17/55 (30%), Gaps = 17/55 (30%) Query: 137 KEWLAITKKLNIKLAVLRLSGIYGPKRNPFIKIRQKNSLRLVKKNQVFNRIRVED 191 EWLAI + NP + I + K + + R +E Sbjct: 46 PEWLAILRAT-----------------NPLLSIGDPPAPLPADKGEAYERPLIEP 83 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 0.324 0.138 0.423 Gapped Lambda K H 0.267 0.0752 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 3,612,273 Number of extensions: 186246 Number of successful extensions: 506 Number of sequences better than 10.0: 1 Number of HSP's gapped: 499 Number of HSP's successfully gapped: 25 Length of query: 289 Length of database: 6,263,737 Length adjustment: 93 Effective length of query: 196 Effective length of database: 4,254,100 Effective search space: 833803600 Effective search space used: 833803600 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 57 (25.7 bits)