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)