RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780295|ref|YP_003064708.1| tRNA pseudouridine synthase A
[Candidatus Liberibacter asiaticus str. psy62]
(247 letters)
>gnl|CDD|30020 cd02570, PseudoU_synth_EcTruA, PseudoU_synth_EcTruA: Pseudouridine
synthase, Escherichia coli TruA like. This group
consists of eukaryotic and bacterial pseudouridine
synthases similar to E. coli TruA, Pseudomonas
aeruginosa truA and human pseudouridine synthase-like 1
(PUSL1). Pseudouridine synthases catalyze the
isomerization of specific uridines in an RNA molecule to
pseudouridines (5-ribosyluracil, psi). No cofactors are
required. E. coli TruA makes psi38/39 and/or 40 in tRNA.
psi38 and psi39 in tRNAs are highly phylogenetically
conserved. P. aeruginosa truA is required for induction
of type III secretory genes and may act through
modifying tRNAs critical for the expression of type III
genes or their regulators..
Length = 239
Score = 310 bits (797), Expect = 2e-85
Identities = 113/241 (46%), Positives = 151/241 (62%), Gaps = 2/241 (0%)
Query: 6 MIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHGAGRTDSGVHALRQVAHFD 65
+ IEY+G+ + GWQRQ NG ++QG +EKA+ + GE V V GAGRTD+GVHAL QVAHFD
Sbjct: 1 LTIEYDGTNFSGWQRQPNGRTVQGELEKALSKIAGEPVRVIGAGRTDAGVHALGQVAHFD 60
Query: 66 LVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPLAL 125
E L KALN+ L I +L+ V FHARFSA R+Y YRI+ R P
Sbjct: 61 TPSEIPLEKLIKALNSLLP--PDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRPVPSPF 118
Query: 126 EKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSFGNLIE 185
+ W +P+ LD E M+ AA+ L+G HDF++FR+ CQ+ S +RTI DV G+LI
Sbjct: 119 LRRYVWHVPRPLDIEAMQEAAKLLLGTHDFSSFRAAGCQSKSTVRTIYRADVYREGDLIV 178
Query: 186 IRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLYFDSVE 245
+ A FL+ +R+ VG+L VG GK + D+++ L+A+DR GP AP GLY VE
Sbjct: 179 FEIRANGFLYHMVRNIVGTLLEVGRGKLSPEDIKEILEAKDRTAAGPTAPAHGLYLVKVE 238
Query: 246 Y 246
Y
Sbjct: 239 Y 239
>gnl|CDD|30450 COG0101, TruA, Pseudouridylate synthase [Translation, ribosomal
structure and biogenesis].
Length = 266
Score = 290 bits (743), Expect = 3e-79
Identities = 112/246 (45%), Positives = 148/246 (60%), Gaps = 2/246 (0%)
Query: 1 MIRYCMIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHGAGRTDSGVHALRQ 60
M R + I Y+G+ + GWQRQ N ++QG +EKA+ + GE V V GAGRTD+GVHAL Q
Sbjct: 1 MKRIALKIAYDGTRFHGWQRQPNVRTVQGELEKALSKIGGESVRVIGAGRTDAGVHALGQ 60
Query: 61 VAHFDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQ 120
V HFD + L +ALNA L I +L+++ V FHARFSA R+Y Y I
Sbjct: 61 VVHFDTPADRPLEKLVRALNALLP--PDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAP 118
Query: 121 APLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSF 180
W +P LD + MR AA+ L+G HDFT+FR CQ+ SP+RTI DV+
Sbjct: 119 LRPPFLANYVWHVPYPLDLDAMREAAKLLLGTHDFTSFRKAGCQSKSPVRTIYRIDVSRD 178
Query: 181 GNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLY 240
G+LI I + SFL +R+ VG+L LVG GK +++ L+A+DRK GP AP EGLY
Sbjct: 179 GDLIVIDISGNSFLWHMVRNIVGALLLVGRGKRPVEWIKELLEAKDRKLAGPTAPAEGLY 238
Query: 241 FDSVEY 246
V+Y
Sbjct: 239 LVRVDY 244
>gnl|CDD|30005 cd00497, PseudoU_synth_TruA_like, PseudoU_synth_TruA: Pseudouridine
synthase, TruA family. This group consists of
eukaryotic, bacterial and archeal pseudouridine
synthases similar to Escherichia coli TruA,
Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p
Caenorhabditis elegans Pus1p and human PUS1.
Pseudouridine synthases catalyze the isomerization of
specific uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). No cofactors are required. S.
cerevisiae PUS1 catalyzes the formation of psi34 and
psi36 in the intron containing tRNAIle, psi35 in the
intron containing tRNATyr, psi27 and/or psi28 in several
yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear
RNA (U2 snRNA). The presence of the intron is required
for the formation of psi 34, 35 and 36. In addition S.
cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans
Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae
Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA
and, psi38 and psi39 in tRNAs are highly
phylogenetically conserved. Psi 26,27,28,34,35,36,65
and 67 in tRNAs are less highly conserved. Mouse Pus1p
regulates nuclear receptor activity through
pseudouridylation of Steroid Receptor RNA Activator.
Missense mutation in human PUS1 causes mitochondrial
myopathy and sideroblastic anemia (MLASA)..
Length = 224
Score = 156 bits (397), Expect = 4e-39
Identities = 76/244 (31%), Positives = 110/244 (45%), Gaps = 25/244 (10%)
Query: 8 IEYNGSGYFGWQRQKNGSSIQGSIEKAI----FLVTGEIVVVHGAGRTDSGVHALRQVAH 63
I Y+G Y G+QRQ + +++G + KA+ + + + AGRTD GV AL QV
Sbjct: 1 IAYDGWKYHGFQRQPDVPTVEGELFKALLKTGLIESPKPSNYSRAGRTDKGVSALGQVVS 60
Query: 64 FDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPL 123
+ R + LN L I +L + V + FHARFS + R+Y Y
Sbjct: 61 LE-TRSKLK-PYPDILNGLLP--KDIRVLAWAPVPEDFHARFSCVSRTYRY--------- 107
Query: 124 ALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSFGNL 183
+ LD E MR AA+ L+G HDF F + +P+RTI +V +
Sbjct: 108 -------YFPGGDLDIEAMREAAKLLLGTHDFRNFCKKDGRKKNPVRTIISAEVEEVDDF 160
Query: 184 IEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGP-LAPPEGLYFD 242
V +SFL Q+R V +L LVG G + + + L + R APPE L
Sbjct: 161 YVFEVKGKSFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKRPSKPQYPAPPEPLVLW 220
Query: 243 SVEY 246
+Y
Sbjct: 221 DCKY 224
>gnl|CDD|39594 KOG4393, KOG4393, KOG4393, Predicted pseudouridylate synthase [RNA
processing and modification, Translation, ribosomal
structure and biogenesis].
Length = 295
Score = 142 bits (358), Expect = 1e-34
Identities = 77/271 (28%), Positives = 119/271 (43%), Gaps = 27/271 (9%)
Query: 3 RYCMIIEYNGSGYFGWQRQ--KNGSSIQGSIEKAIFLVTG-EIVVVHGAGRTDSGVHALR 59
RY + I Y+G+ + + K +IQG +E+A TG + + + + RTD+GVHA
Sbjct: 6 RYLLKIPYDGTAFEESAERLSKVARTIQGFLEEASEEQTGLDRLDLESSSRTDAGVHAYL 65
Query: 60 QVAHFDLVREWV--PVILCKALNAYLKISD-TISILNLSIVDKQFHARFSAIRRSYLYRI 116
AH+ + R +A+N L+ D I ++++ V FHAR+SA R+Y YR+
Sbjct: 66 NAAHYIVPRFSGSQQQAKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRL 125
Query: 117 ITRQAPLA-LEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHF 175
+ PL+ E+ R W +P+ L+ M+ AA G HDF+ F P T
Sbjct: 126 ASGSDPLSIFERDRCWHLPEELNARKMQEAAPLFEGSHDFSAFTEATSTVYFPSITERRL 185
Query: 176 DV----------------NSFGNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLE 219
V N+ + FL+ Q+R L G +
Sbjct: 186 SVLNNGDPLACSNQPETEGVTTNVGNVEGETEGFLYRQVRRMRAYLVTAGSRALLYHQVL 245
Query: 220 KALQAQDR----KECGPLAPPEGLYFDSVEY 246
L+ +D K G +APP GL+ SVEY
Sbjct: 246 YILEVRDIVGLLKCVGTVAPPHGLFLSSVEY 276
>gnl|CDD|30026 cd02866, PseudoU_synth_TruA_Archea, PseudoU_synth_archea:
Pseudouridine synthase,. This group consists of
archealpseudouridine synthases.Pseudouridine synthases
catalyze the isomerization of specific uridines in an
RNA molecule to pseudouridines (5-ribosyluracil, psi).
No cofactors are required. This group of proteins make
Psedouridine in tRNAs..
Length = 221
Score = 136 bits (343), Expect = 7e-33
Identities = 81/243 (33%), Positives = 121/243 (49%), Gaps = 28/243 (11%)
Query: 8 IEYNGSGYFGWQRQKNGSSIQGSIEKAI----FLVTGEIVVVHGAGRTDSGVHALRQVAH 63
+ Y+G+ Y G+QRQ + +++G + KA+ + + + ++ AGRTD+GV AL V
Sbjct: 3 VAYDGTPYHGFQRQPDVRTVEGELIKALRRLGIIESPKRPRLYSAGRTDAGVSALGNVVA 62
Query: 64 FDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSYLYRIITRQAPL 123
F+ +E P A+N L I + + V + FH R A RR Y Y
Sbjct: 63 FETEKELTP----PAINNALP--KDIRVWAWAKVPEDFHPRRDARRRYYRY--------- 107
Query: 124 ALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSFGNL 183
+L + D E M AA+ L+G HDF+ F P+RTI+ ++ G
Sbjct: 108 -------YLGAEDYDVEAMAEAAKKLIGTHDFSNFSKR--DGRDPVRTIERIEIRENGEF 158
Query: 184 IEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLYFDS 243
+ I VV SFL +R VG+L LVG GK + ++K L + RK+ G APPEGL
Sbjct: 159 LVIDVVGESFLWNMVRRIVGALSLVGKGKRENEWVDKLLDGEFRKKDGVPAPPEGLILVD 218
Query: 244 VEY 246
V+Y
Sbjct: 219 VKY 221
>gnl|CDD|73314 cd02568, PseudoU_synth_PUS1_PUS2, PseudoU_synth_PUS1_PUS2:
Pseudouridine synthase, PUS1/ PUS2 like. This group
consists of eukaryotic pseudouridine synthases similar
to Saccharomyces cerevisiae Pus1p, S. cerevisiae
Pus2p, Caenorhabditis elegans Pus1p and human PUS1.
Pseudouridine synthases catalyze the isomerization of
specific uridines in an RNA molecule to pseudouridines
(5-ribosyluracil, psi). No cofactors are required. S.
cerevisiae Pus1p catalyzes the formation of psi34 and
psi36 in the intron-containing tRNAIle, psi35 in the
intron-containing tRNATyr, psi27 and/or psi28 in several
yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear
RNA (U2 snRNA). The presence of the intron is required
for the formation of psi 34, 35 and 36. In addition S.
cerevisiae PUS1 makes are psi 26, 65 and 67. C. elegans
Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p
makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle,
psi 34/36 in tRNAIle and, psi 32 and potentially 67 in
tRNAVal. Psi44 in U2 snRNA and psi32 in tRNAs are
highly phylogenetically conserved. Psi
26,27,28,34,35,36,65 and 67 in tRNAs are less highly
conserved. Mouse Pus1p regulates nuclear receptor
activity through pseudouridylation of Steroid Receptor
RNA Activator. Missense mutation in human PUS1 causes
mitochondrial myopathy and sideroblastic anemia
(MLASA)..
Length = 245
Score = 91.1 bits (226), Expect = 3e-19
Identities = 65/265 (24%), Positives = 109/265 (41%), Gaps = 44/265 (16%)
Query: 6 MIIEYNGSGYFGWQRQ-KNGSSIQGSIEKAIFLVTGEIVVVHG----------AGRTDSG 54
++ Y G+GY G Q N +I+G +E+A+ G I + A RTD G
Sbjct: 1 LLFGYCGTGYHGMQYNPGNYKTIEGELERALV-KAGAISESNAGDPKKIGFSRAARTDKG 59
Query: 55 VHALRQVAHFDLVREWVPVI-----LCKALNAYLKISDTISILNLSIVDKQFHARFSAIR 109
VHA R V ++ + + L + LN++L + I + ++ V K F+AR +
Sbjct: 60 VHAARNVVSLKVIIDDPEGLGIGEDLVEKLNSHL--PEDIRVFGITRVTKSFNARKACDS 117
Query: 110 RSYLYRIITRQAPLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFT--TFRSIHCQASS 167
R+Y Y + T ALE + VG H+F T R S+
Sbjct: 118 RTYEYLLPT----FALETLDR-----------FNEILKLYVGTHNFHNFTVRKKFEDPSA 162
Query: 168 PIRTIDHFDVNSFGNL------IEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKA 221
R I F V+ + + I + +SF+ QIR +G + G + ++ +
Sbjct: 163 -NRFIISFYVSEPFVIEEGLEWVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPESLIDLS 221
Query: 222 LQAQDRKECGPLAPPEGLYFDSVEY 246
+ ++ PLAP GL + +
Sbjct: 222 FN-KAKRIIIPLAPGLGLLLEYPHF 245
>gnl|CDD|144857 pfam01416, PseudoU_synth_1, tRNA pseudouridine synthase. Involved
in the formation of pseudouridine at the anticodon stem
and loop of transfer-RNAs Pseudouridine is an isomer of
uridine (5-(beta-D-ribofuranosyl) uracil, and id the
most abundant modified nucleoside found in all cellular
RNAs. The TruA-like proteins also exhibit a conserved
sequence with a strictly conserved aspartic acid, likely
involved in catalysis.
Length = 103
Score = 90.2 bits (224), Expect = 5e-19
Identities = 33/103 (32%), Positives = 45/103 (43%)
Query: 145 AAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSFGNLIEIRVVARSFLHTQIRSFVGS 204
AA+ G HDF+ F+ S IRTI+ + G L + FL+ Q+R VG+
Sbjct: 1 AAKLYDGTHDFSGFQKQRTVQKSLIRTIEKIGIERDGELYVFEIKGNGFLYHQVRIMVGA 60
Query: 205 LKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLYFDSVEYS 247
L G G + L ++ R P AP GLY V Y
Sbjct: 61 LLRTGKGVHALEQVVSLLNSKLRPPAPPTAPAVGLYLFHVRYD 103
Score = 40.9 bits (96), Expect = 3e-04
Identities = 20/80 (25%), Positives = 32/80 (40%), Gaps = 24/80 (30%)
Query: 6 MIIEYNGSGYF-GWQRQKNGSSIQGSIEKAIFLVTGE------IVVVHG----------- 47
Y+G+ F G+Q+Q+ ++Q S+ + I + E + + G
Sbjct: 1 AAKLYDGTHDFSGFQKQR---TVQKSLIRTIEKIGIERDGELYVFEIKGNGFLYHQVRIM 57
Query: 48 ---AGRTDSGVHALRQVAHF 64
RT GVHAL QV
Sbjct: 58 VGALLRTGKGVHALEQVVSL 77
>gnl|CDD|37765 KOG2554, KOG2554, KOG2554, Pseudouridylate synthase [Translation,
ribosomal structure and biogenesis].
Length = 425
Score = 88.1 bits (218), Expect = 2e-18
Identities = 65/263 (24%), Positives = 96/263 (36%), Gaps = 56/263 (21%)
Query: 15 YFGW-------QRQKNGSSIQGSIEKAIF---LVTG-EIVVVHGAGRTDSGVHALRQVAH 63
Y GW Q N +I+G + +A+ L+ + GRTD GV A QV
Sbjct: 74 YLGWNYQGLAPQEHTNNPTIEGKLFEALKKTRLIESRQTCNYSRCGRTDKGVSAFGQVIS 133
Query: 64 FDLV---------REWVP------VILCKALNAYLKISDTISILNLSIVDKQFHARFSAI 108
L R+ V + LN L I I+ + V F ARFS +
Sbjct: 134 LVLRSRIPMPDSQRDAVATADSEEIPYVHMLNRVL--PPDIRIVAWAPVPPTFSARFSCV 191
Query: 109 RRSYLYRIITRQAPLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTF--RSIHCQAS 166
+R+Y Y + K LD + M AA LVG HDF F + +
Sbjct: 192 QRTYRY----------------YFPKKDLDIDRMSKAASLLVGEHDFRNFCKIDVSNGVT 235
Query: 167 SPIRTIDH---FDVNSFGNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQ 223
+ RTI DV + + + +FL Q+R + L L+G G
Sbjct: 236 NYERTILSAKVEDVGQTPGMYYLDIQGSAFLWHQVRCIMAILFLIGQGL---EQPSLISD 292
Query: 224 AQDRKECGPLAPPEGLYFDSVEY 246
D ++ P + Y + +Y
Sbjct: 293 LLDIEK----NPQKPQYTMASDY 311
>gnl|CDD|30019 cd02569, PseudoU_synth_ScPus3, PseudoU_synth_ScPus3-like:
Pseudouridine synthase, Saccharomyces cerevisiae Pus3
like. This group consists of eukaryotic pseudouridine
synthases similar to S. cerevisiae Pus3p, mouse Pus3p
and, human PUS2. Pseudouridine synthases catalyze the
isomerization of specific uridines in an RNA molecule to
pseudouridines (5-ribosyluracil, psi). No cofactors are
required. S. cerevisiae Pus3p makes psi38 and psi39 in
tRNAs. Mouse Pus3p has been shown to makes psi38 and,
possibly also psi 39, in tRNAs. Psi38 and psi39 are
highly conserved in tRNAs from eubacteria, archea and
eukarya..
Length = 256
Score = 86.8 bits (215), Expect = 5e-18
Identities = 59/236 (25%), Positives = 90/236 (38%), Gaps = 49/236 (20%)
Query: 8 IEYNGSGYFGWQRQKNG-SSIQGSIEKAI----FLVTGEIVVVHGAGRTDSGVHALRQVA 62
Y G Y G+ Q+ ++++ ++ +A+ + + GRTD GV A QV
Sbjct: 3 FAYLGWNYNGFAVQEETTNTVEETLFEALEKTRLIEDRQTSNYSRCGRTDKGVSAFGQVI 62
Query: 63 HFDL--------------VREWV----PVILCKALNAYLKISDTISILNLSIVDKQFHAR 104
D+ + + CK LN L I IL + V F AR
Sbjct: 63 SLDVRSNLKPEDGLDPSTDVKSTADEEELPYCKILNRVL--PPDIRILAWAPVPPDFSAR 120
Query: 105 FSAIRRSYLYRIITRQAPLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFTTFRSI--H 162
FS + R+Y Y + LD E MR AA+ L+G HDF F +
Sbjct: 121 FSCVSRTYRY----------------FFPKGDLDIELMRKAAKLLLGEHDFRNFCKMDVA 164
Query: 163 CQASSPIRTIDHFDVNSFGN------LIEIRVVARSFLHTQIRSFVGSLKLVGDGK 212
Q ++ +R + +V L V +FL Q+R + L L+G G
Sbjct: 165 NQVTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGL 220
>gnl|CDD|37764 KOG2553, KOG2553, KOG2553, Pseudouridylate synthase [Translation,
ribosomal structure and biogenesis].
Length = 416
Score = 81.9 bits (202), Expect = 1e-16
Identities = 63/299 (21%), Positives = 106/299 (35%), Gaps = 59/299 (19%)
Query: 2 IRYCMIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHG----------AGRT 51
+ +++ Y G+GY G Q +I+G + +A+F G I + A RT
Sbjct: 37 RKVAILLGYCGTGYHGMQYNPPLKTIEGELFEALFKA-GAISESNAGDPKKIGFARAART 95
Query: 52 DSGVHALRQVAHFDLVREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRS 111
D GVHA V L + L + LN L + I + + V K F+ R R+
Sbjct: 96 DKGVHAAGNVISLKLELD--DPELVEKLNEIL--PEQIRVWGVKRVTKSFNPRKQCDSRT 151
Query: 112 YLY-------------RIITRQAPLALEKG------------RAWLIPKSLDCENMRIAA 146
Y Y ++ E R++
Sbjct: 152 YEYLLPTFALAPPKPSSLLEVDIQYDKEFEKEFWNTYPLSAKERLSGQDRKTESGYRLSE 211
Query: 147 QHL----------VGRHDFTTFRSIHCQAS-SPIRTIDHFDVNSFGNL-------IEIRV 188
+ L VG H+F F + S R I F V+ + ++I++
Sbjct: 212 EKLEVFNTILSKYVGTHNFHNFTTGKDFTDPSSNRFIKSFTVSEPFVINDEGVEFVKIKI 271
Query: 189 VARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGPLAPPEGLYFDSVEYS 247
+SF+ QIR VG L+ ++ +++A + + P AP EGL + +
Sbjct: 272 HGQSFMLHQIRKMVGLAVLIVRSGAPASTIQRAFNKEHKINI-PKAPGEGLLLEEPHFE 329
>gnl|CDD|32117 COG1934, COG1934, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 173
Score = 30.7 bits (69), Expect = 0.43
Identities = 12/42 (28%), Positives = 25/42 (59%)
Query: 6 MIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHG 47
+IE NG+ Q+ NG + +G+ ++AI+ + + +V+ G
Sbjct: 80 EVIEANGNPATFSQKVDNGKTQKGTADQAIYDLKNDTIVLTG 121
>gnl|CDD|110528 pfam01531, Glyco_transf_11, Glycosyl transferase family 11. This
family contains several fucosyl transferase enzymes.
Length = 298
Score = 28.3 bits (63), Expect = 2.1
Identities = 11/34 (32%), Positives = 19/34 (55%)
Query: 81 AYLKISDTISILNLSIVDKQFHARFSAIRRSYLY 114
AYL DTI + N ++ D +F + +A ++Y
Sbjct: 263 AYLTGGDTIYLANFNLPDSEFLKKEAAYLPEWVY 296
>gnl|CDD|38733 KOG3524, KOG3524, KOG3524, Predicted guanine nucleotide exchange
factor (PEBBLE) [Signal transduction mechanisms].
Length = 850
Score = 27.7 bits (61), Expect = 2.7
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 157 TFRSIHCQASSPIRTIDHFDVNSFGNLIEIRVVARS 192
+F S+H + P + ID +N+ ++ +IR +A+
Sbjct: 634 SFASLHSRQRRPYKHIDLIQLNTIRSVFDIREIAKC 669
>gnl|CDD|144201 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A.
Length = 428
Score = 27.1 bits (61), Expect = 4.2
Identities = 17/80 (21%), Positives = 29/80 (36%), Gaps = 7/80 (8%)
Query: 21 QKNGSSIQGSIEKAIFLVTGEIVVVHGAGRTDSGVHALRQVAHFDLVREWVPVILCKALN 80
+ SIE+ + G+I +D GV + +L R P ++ L
Sbjct: 229 GVWTEKLIESIEELVK--NGKIKGSDIRDESDRGVRIV-----IELKRGADPEVVLNKLY 281
Query: 81 AYLKISDTISILNLSIVDKQ 100
K+ + S NL + D
Sbjct: 282 KKTKLQSSFSTNNLVLFDGG 301
>gnl|CDD|31450 COG1258, COG1258, Predicted pseudouridylate synthase [Translation,
ribosomal structure and biogenesis].
Length = 398
Score = 27.2 bits (60), Expect = 4.4
Identities = 24/123 (19%), Positives = 42/123 (34%), Gaps = 25/123 (20%)
Query: 20 RQKNGSSIQGSIEKAIF-LVTGEIVVVHGAGRTDSGVHAL------------RQVAHFDL 66
R+ S++ I++ I G HGAGR D V L + + DL
Sbjct: 186 RELYPESVEELIKQPIKEAFGGLDAKFHGAGREDVDVRMLGTGRPFVLEVKEPRRRNVDL 245
Query: 67 VREWVPVILCKALNAYLKISDTISILNLSIVDKQFHARFSAIRRSY-LYR-IITRQAPLA 124
L + + + +L V ++ R +YR ++ P++
Sbjct: 246 ----------DELEEEINRGGKVEVFDLEFVGREEVEEIKETERHRKVYRALVYSDRPVS 295
Query: 125 LEK 127
EK
Sbjct: 296 DEK 298
>gnl|CDD|34728 COG5127, COG5127, Vacuolar H+-ATPase V1 sector, subunit C [Energy
production and conversion].
Length = 383
Score = 26.5 bits (58), Expect = 6.8
Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 15 YFGWQRQKNGSSIQGSIEKAIFLVTGEIVVVHGAGRT 51
+F W RQ SIEKAI L+ GE + R
Sbjct: 103 FFEWDRQS--FVTNKSIEKAILLIDGEYRRISKDYRE 137
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
0.325 0.138 0.421
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,043,922
Number of extensions: 155850
Number of successful extensions: 416
Number of sequences better than 10.0: 1
Number of HSP's gapped: 388
Number of HSP's successfully gapped: 21
Length of query: 247
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 156
Effective length of database: 4,297,318
Effective search space: 670381608
Effective search space used: 670381608
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 (21.6 bits)
S2: 56 (25.2 bits)