RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12402
(375 letters)
>gnl|CDD|211335 cd02568, 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 = 323 bits (829), Expect = e-110
Identities = 127/269 (47%), Positives = 166/269 (61%), Gaps = 36/269 (13%)
Query: 3 MMFAYSGVGYFGLQSKYLFFLIFCRNQGM-KTIEGDIMEALFKAGFVTEDSFNTPQNIQF 61
++F Y G GY G+Q N G KTIEG++ ALFKAG ++E + P+ I F
Sbjct: 1 LLFGYCGTGYHGMQ----------YNPGAYKTIEGELERALFKAGAISESNAGDPKKIGF 50
Query: 62 QRAARTDKGVSALKQIVSLKLP---------EEANKEAINEHLPEQIRILSIKRVTKGFN 112
RAARTDKGV A + +VSLK+ E E +N HLP IR+ I RVTK FN
Sbjct: 51 SRAARTDKGVHAARNVVSLKVIIDDPEGLGILEDLVEKLNSHLPSDIRVFGITRVTKSFN 110
Query: 113 SKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRK 172
++ C++RTY Y PT+A T Q +LK+Y GTHNFHNFT K+K
Sbjct: 111 ARKACDSRTYEYLLPTFALETLQR--------------FNEILKEYVGTHNFHNFTVKKK 156
Query: 173 PLDPSCSRYIMSFDCEQPFV-KDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKD 231
DPS +R+I SF +PFV ++GLE I++KI GQSFMLHQIRKM+G+A+AI RG +
Sbjct: 157 FEDPSANRFIKSFYVSEPFVIEEGLEWISIKIHGQSFMLHQIRKMIGLAIAIVRGGAPES 216
Query: 232 LIEKTFGLDQFD-LPMAPGLGLLLEQVHY 259
LIE +F D+ +P+APGLGLLLE+ H+
Sbjct: 217 LIELSFNKDKIIIIPLAPGLGLLLERPHF 245
>gnl|CDD|223179 COG0101, TruA, Pseudouridylate synthase [Translation, ribosomal
structure and biogenesis].
Length = 266
Score = 184 bits (470), Expect = 3e-56
Identities = 76/275 (27%), Positives = 119/275 (43%), Gaps = 42/275 (15%)
Query: 2 AMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQF 61
A+ AY G + G Q R ++T++G++ +AL K G + ++
Sbjct: 5 ALKIAYDGTRFHGWQ----------RQPNVRTVQGELEKALSKIGGES---------VRV 45
Query: 62 QRAARTDKGVSALKQIVSLKLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNC 117
A RTD GV AL Q+V P E A+N LP IR+L + V F+++ +
Sbjct: 46 IGAGRTDAGVHALGQVVHFDTPADRPLEKLVRALNALLPPDIRVLDVAEVPDDFHARFSA 105
Query: 118 NARTYSYTCPTYAFATPQDTKDDFRL-TPDQFNFLQALLKQYEGTHNFHNFTS---KRKP 173
+RTY Y P + + P + ++ K GTH+F +F + K
Sbjct: 106 KSRTYRYIIYNAPLRPPFLANYVWHVPYPLDLDAMREAAKLLLGTHDFTSFRKAGCQSK- 164
Query: 174 LDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLI 233
S R I D +DG +LI + I G SF+ H +R +VG + + RG + I
Sbjct: 165 ---SPVRTIYRIDV----SRDG-DLIVIDISGNSFLWHMVRNIVGALLLVGRGKRPVEWI 216
Query: 234 EKTFGLDQFD----LPMAPGLGLLLEQVHYDLYNQ 264
++ L+ D P AP GL L +V Y +
Sbjct: 217 KEL--LEAKDRKLAGPTAPAEGLYLVRVDYPEDFE 249
>gnl|CDD|232810 TIGR00071, hisT_truA, tRNA pseudouridine(38-40) synthase. Members
of this family are the tRNA modification enzyme TruA,
tRNA pseudouridine(38-40) synthase. In a few species
(e.g. Bacillus anthracis), TruA is represented by two
paralogs [Protein synthesis, tRNA and rRNA base
modification].
Length = 227
Score = 150 bits (382), Expect = 8e-44
Identities = 73/260 (28%), Positives = 110/260 (42%), Gaps = 43/260 (16%)
Query: 2 AMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQF 61
A+ AY G Y G Q R +T++G++ +AL G + I
Sbjct: 4 ALKIAYDGSNYHGWQ----------RQPNKRTVQGELEKALEAIGK---------KKITI 44
Query: 62 QRAARTDKGVSALKQIVSLKLPEEAN----KEAINEHLPEQIRILSIKRVTKGFNSKNNC 117
A RTDKGV A+ Q++S P+E +N LP IR+ ++ V F+++ +
Sbjct: 45 MSAGRTDKGVHAMGQVISFDTPKEIPDNKLNAKLNALLPPDIRVKALAPVNDNFHARFSA 104
Query: 118 NARTYSYTCPT-YAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDP 176
+ R Y Y + +P D + ++A KQ G H+F NF SK K
Sbjct: 105 SKRHYRYILYNHRHYYSPLDLEK-----------MRAAAKQLLGKHDFSNF-SKAKSKSR 152
Query: 177 SCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKT 236
S R I V + E I I G SF+ H +RK+VG + + RG + + K
Sbjct: 153 SPIRTISDIK-----VSESGEYIIFDIIGNSFLWHMVRKIVGALVLVGRGKLPPEWVAKL 207
Query: 237 FGLDQFDL--PMAPGLGLLL 254
+ +L AP GL L
Sbjct: 208 LDAKKRNLAPTTAPANGLYL 227
>gnl|CDD|211322 cd00497, PseudoU_synth_TruA_like, 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 = 215
Score = 146 bits (370), Expect = 3e-42
Identities = 79/257 (30%), Positives = 121/257 (47%), Gaps = 44/257 (17%)
Query: 5 FAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRA 64
F Y G Y G Q R + T+EG+++ AL KAG + + A
Sbjct: 1 FGYDGTKYHGFQ----------RQNDVPTVEGELIIALLKAGNIP---------YFIKAA 41
Query: 65 ARTDKGVSALKQIVSLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSY 124
ARTD+GVSAL Q+V+++ EA+N LP IR+ ++ V F++ C+ RTY Y
Sbjct: 42 ARTDRGVSALGQVVAIETERRLTPEALNGILPGDIRVFAVHSVPPDFHAPRYCDHRTYRY 101
Query: 125 TCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMS 184
P+ F L ++ L++ ++ GTH+F NF+ K + R I+S
Sbjct: 102 YIPS------------FPLDDER---LKSAASRFLGTHDFTNFSKKDT---RNTVRTIIS 143
Query: 185 FDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFDL 244
+C KD + ++ K +SF+ HQ+R+MVG M + G S + + +
Sbjct: 144 IEC-----KDLNPFVVVEFKAKSFLWHQVRRMVGFLMLVGEGLHSPSSVSRLLAGPAPPI 198
Query: 245 P--MAPGLGLLLEQVHY 259
P AP GLLL V Y
Sbjct: 199 PMVPAPAEGLLLVDVKY 215
>gnl|CDD|234577 PRK00021, truA, tRNA pseudouridine synthase A; Validated.
Length = 244
Score = 114 bits (289), Expect = 6e-30
Identities = 62/270 (22%), Positives = 102/270 (37%), Gaps = 39/270 (14%)
Query: 3 MM-----FAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQ 57
MM Y G + G Q R +T++G++ +AL K +
Sbjct: 1 MMRIALTIEYDGTNFHGWQ----------RQPNGRTVQGELEKALSKL---------AGE 41
Query: 58 NIQFQRAARTDKGVSALKQIVSLKLPEEANKE----AINEHLPEQIRILSIKRVTKGFNS 113
++ A RTD GV AL Q+ P E A+N LP+ I +L + V F++
Sbjct: 42 PVRVIGAGRTDAGVHALGQVAHFDTPAPRPPEKWRRALNALLPDDIAVLWAEEVPDDFHA 101
Query: 114 KNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNF--LQALLKQYEGTHNFHNFTSKR 171
+ + AR Y Y P + P + + + G H+F +F +
Sbjct: 102 RFSAKARRYRYRIYNRPARPPFLRGYVWHY-PYPLDVDAMNEAAQYLLGEHDFTSFRASG 160
Query: 172 KPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKD 231
S R I D ++G + I I F+ + +R +VG + + +G +
Sbjct: 161 CQ-SKSPVRTIYEADVT----REG-DFIVFDISANGFLHNMVRNIVGTLLEVGKGKRPPE 214
Query: 232 LIEKTFGLD--QFDLPMAPGLGLLLEQVHY 259
I++ P AP GL L +V Y
Sbjct: 215 DIKELLEAKDRTLAGPTAPAEGLYLVEVDY 244
>gnl|CDD|211337 cd02570, PseudoU_synth_EcTruA, Eukaryotic and bacterial
pseudouridine synthases similar to E. coli TruA. 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 = 113 bits (286), Expect = 1e-29
Identities = 71/267 (26%), Positives = 107/267 (40%), Gaps = 42/267 (15%)
Query: 5 FAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRA 64
Y G + G Q R +T++G++ +AL K + ++ A
Sbjct: 3 IEYDGTNFSGWQ----------RQPNGRTVQGELEKALSKI---------AGEPVRVIGA 43
Query: 65 ARTDKGVSALKQIVSLKLP----EEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNAR 120
RTD GV AL Q+ P E +A+N LP IR+LS + V F+++ + +R
Sbjct: 44 GRTDAGVHALGQVAHFDTPSEIPLEKLIKALNSLLPPDIRVLSAEEVPDDFHARFSAKSR 103
Query: 121 TYSYT----CPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDP 176
TY Y F L +Q K GTH+F +F
Sbjct: 104 TYRYRILNRPVPSPFLRRYVWHVPRPL---DIEAMQEAAKLLLGTHDFSSF-RAAGCQSK 159
Query: 177 SCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKT 236
S R I D V +LI +I+ F+ H +R +VG + + RG S + I++
Sbjct: 160 STVRTIYRAD-----VYREGDLIVFEIRANGFLYHMVRNIVGTLLEVGRGKLSPEDIKEI 214
Query: 237 FGLDQFD----LPMAPGLGLLLEQVHY 259
L+ D P AP GL L +V Y
Sbjct: 215 --LEAKDRTAAGPTAPAHGLYLVKVEY 239
>gnl|CDD|211336 cd02569, PseudoU_synth_ScPus3, 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 = 113 bits (286), Expect = 2e-29
Identities = 74/289 (25%), Positives = 112/289 (38%), Gaps = 69/289 (23%)
Query: 5 FAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRA 64
FAY G Y G + + T+E + EAL K + + Q + R
Sbjct: 3 FAYLGWNYNGFA---------VQEETTNTVEETLFEALEKTRLIEDR-----QTSNYSRC 48
Query: 65 ARTDKGVSALKQIVSL----KLPEE----------ANKEA--------INEHLPEQIRIL 102
RTDKGVSA Q++SL L E + + +N LP IRIL
Sbjct: 49 GRTDKGVSAFGQVISLDVRSNLKPEDGLDPSTDVKSTADEEELPYCKILNRVLPPDIRIL 108
Query: 103 SIKRVTKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTH 162
+ V F+++ +C +RTY Y F D L + L G H
Sbjct: 109 AWAPVPPDFSARFSCVSRTYRY------FFPKGD------LDIELMRKAAKL---LLGEH 153
Query: 163 NFHNFTSKRKPLDPS-----CSRYIMSFDCEQ-PFVKDGLELITLKIKGQSFMLHQIRKM 216
+F NF +D + R ++S + E DG L +++G +F+ HQ+R M
Sbjct: 154 DFRNFCK----MDVANQVTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSAFLWHQVRCM 209
Query: 217 VGVAMAIARGFTSKDLI------EKTFGLDQFDLPMAPGLGLLLEQVHY 259
+ V I +G +I EK Q+ MA + L+L +
Sbjct: 210 MAVLFLIGQGLEPPSVISQLLDVEKNPRKPQYT--MASEVPLVLYDCGF 256
>gnl|CDD|215562 PLN03078, PLN03078, Putative tRNA pseudouridine synthase;
Provisional.
Length = 513
Score = 101 bits (254), Expect = 1e-23
Identities = 63/191 (32%), Positives = 97/191 (50%), Gaps = 36/191 (18%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQG-MKTIEGDIMEALFKAGFVTEDSFNTPQNI 59
+ + Y G Y GLQ + R+ + TIEG++ A+FKAG + E ++ I
Sbjct: 73 VVLRVGYVGTDYRGLQKQ--------RDLSSLSTIEGELETAIFKAGGIRESNYGNLHKI 124
Query: 60 QFQRAARTDKGVSALKQIVSLKL--PEEANKE---------AINEHLPEQIRILSIKRVT 108
+ R++RTDKGV +L ++SLK+ PE A K+ IN HLP+ IR+ SI
Sbjct: 125 GWARSSRTDKGVHSLATMISLKMEIPENAWKDDPDGIALAKFINSHLPDNIRVFSILPAQ 184
Query: 109 KGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQ-------FNFLQALLKQYEGT 161
+ F+ + C+ R YSY P A K F + ++ FN ++L +EG
Sbjct: 185 RSFDPRRECDLRKYSYLLP----AEVIGIKSGF--SSEEIDEHISEFN---SILNGFEGE 235
Query: 162 HNFHNFTSKRK 172
H FHN+T++ K
Sbjct: 236 HPFHNYTARSK 246
Score = 79.2 bits (195), Expect = 4e-16
Identities = 49/143 (34%), Positives = 70/143 (48%), Gaps = 14/143 (9%)
Query: 180 RYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGL 239
R I C + G + + L I G+SFMLHQIRKMVG A+A+ R +D+I L
Sbjct: 338 RKIFRCSCGKLEKSLGFDFVELSIWGESFMLHQIRKMVGTAVAVKRELLPRDII--RLSL 395
Query: 240 DQFD---LPMAPGLGLLLEQVHYDLYNQ-----KYGQDGMHESLHFHEVDKEVNEFRHKF 291
+F LP+AP L+L + + + + G + M+ES E+ K V EF
Sbjct: 396 TKFSRIVLPLAPSEVLILRGNSFSVRKKPGNIKRPGMETMNES---EEILKGVEEFYRAV 452
Query: 292 ILPYLVKTEITEKPMLA-WLELL 313
+LP + K KP W+E L
Sbjct: 453 MLPQVSKFLDPSKPPWKEWVENL 475
>gnl|CDD|211343 cd02866, PseudoU_synth_TruA_Archea, Archeal pseudouridine
synthases. This group consists of archeal pseudouridine
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 = 219
Score = 92.8 bits (231), Expect = 5e-22
Identities = 66/256 (25%), Positives = 111/256 (43%), Gaps = 42/256 (16%)
Query: 6 AYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQFQRAA 65
AY G + G Q R ++T+EG++++AL + G +S + A
Sbjct: 4 AYDGTNFHGFQ----------RQPDVRTVEGELIKALEELGI--IESRA-----RLYSAG 46
Query: 66 RTDKGVSALKQIVSLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNARTYSYT 125
RTD+GV AL +V + +E IN LP+ I +L+ +V + F+ + Y
Sbjct: 47 RTDRGVHALGNVVVFETEKEPIPPMINAKLPKDIWVLAGAKVPEDFDPR---RWAHRKYY 103
Query: 126 CPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSF 185
D+ + ++ K+ GTH+F NF SKR R I
Sbjct: 104 RYNLG--------SDYDVEA-----MKEAAKKLIGTHDFSNF-SKRDG-RKDPVRTI--E 146
Query: 186 DCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTFGLDQFD-- 243
E + + E IT+ + G+SF+ + +R++VG + +G + +EK +
Sbjct: 147 RIE---ISENGEFITIDVVGESFLWNMVRRIVGALSEVGKGKRENEWVEKLLDGEFRPEG 203
Query: 244 LPMAPGLGLLLEQVHY 259
+P AP GL+L V Y
Sbjct: 204 VPPAPPEGLILVDVKY 219
>gnl|CDD|237759 PRK14589, PRK14589, tRNA pseudouridine synthase ACD; Provisional.
Length = 265
Score = 87.5 bits (217), Expect = 1e-19
Identities = 70/264 (26%), Positives = 108/264 (40%), Gaps = 42/264 (15%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A +Y G +FG Q + +T+EG+ + A + G F+ +
Sbjct: 3 LAFRISYIGTRFFGSQYQ----------PDQRTVEGEFIAACRRLGL-----FSDWREAG 47
Query: 61 FQRAARTDKGVSALKQIVSL--KLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCN 118
F A RTD+GV A Q+++ PE A EA+N LP I V + F+ + +
Sbjct: 48 FALAGRTDRGVHARGQVLAFSTHKPERA-VEALNGQLPPDIWCTGWAEVPESFHPRYDAI 106
Query: 119 ARTYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKRKPLDPSC 178
+RTY Y F+ P P N ++ ++ GTH+F F S
Sbjct: 107 SRTYRYY-----FSRP----------PSDINAMRDAAGEFIGTHDFSCFARVE---GKSP 148
Query: 179 SRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIEKTF- 237
R I+ F G + ++ QSF+ H +R M G + I G D IE+
Sbjct: 149 VRTILRIRV---FSDGGFPV--FEVTAQSFLWHMVRCMAGALLQIGEGEMEPDDIERLLS 203
Query: 238 GLDQFDLPMAPGLGLLLEQVHYDL 261
G + + AP GL+L V L
Sbjct: 204 GPCKRKVKPAPAEGLVLWDVDCGL 227
>gnl|CDD|216487 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 = 72.5 bits (178), Expect = 7e-16
Identities = 35/109 (32%), Positives = 52/109 (47%), Gaps = 8/109 (7%)
Query: 154 LLKQYEGTHNFHNFTSKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQI 213
K Y+GTH+F F K++ + S R I S ++ EL+ +IKG F+ HQ+
Sbjct: 1 AAKLYDGTHDFSGFQ-KQRTVQKSLIRTIESIG-----IERDGELLVFEIKGNGFLYHQV 54
Query: 214 RKMVGVAMAIARGFTSKDLIEKTF--GLDQFDLPMAPGLGLLLEQVHYD 260
R MVG + +G + + + L P AP +GL L V YD
Sbjct: 55 RIMVGALLRTGKGVHALEQVVSLLNSKLRPRAPPTAPAVGLYLFHVRYD 103
Score = 37.0 bits (86), Expect = 0.002
Identities = 19/87 (21%), Positives = 32/87 (36%), Gaps = 24/87 (27%)
Query: 25 FCRNQGMKTIEGDIMEALFKAGFVTE----------DSFNTPQN-IQFQRAARTDKGVSA 73
F + +T++ ++ + G + + F Q I RT KGV A
Sbjct: 14 FQKQ---RTVQKSLIRTIESIGIERDGELLVFEIKGNGFLYHQVRIMVGALLRTGKGVHA 70
Query: 74 LKQIVSLKLPEEANKEAINEHLPEQIR 100
L+Q+VSL +N L +
Sbjct: 71 LEQVVSL----------LNSKLRPRAP 87
>gnl|CDD|173052 PRK14588, PRK14588, tRNA pseudouridine synthase ACD; Provisional.
Length = 272
Score = 74.5 bits (183), Expect = 3e-15
Identities = 63/268 (23%), Positives = 104/268 (38%), Gaps = 31/268 (11%)
Query: 1 MAMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEALFKAGFVTEDSFNTPQNIQ 60
+A++ Y G + G Q + +T++G + EA ++A T + +
Sbjct: 4 IALLLEYDGTDFAGSQWQ----------TDGRTVQGAL-EAAWQA--------LTQERRR 44
Query: 61 FQRAARTDKGVSALKQIVSLKLPEEANKE----AINEHLPEQIRILSIKRVTKGFNSKNN 116
A RTD GV A Q+ ++ + +N HLPE I + + F+++ +
Sbjct: 45 IVLAGRTDAGVHARGQVAHVQTDTRHSLATIWRGLNAHLPEDIGVQNAWEAPPDFHARFS 104
Query: 117 CNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNF--LQALLKQYEGTHNFHNFTSKRKPL 174
R Y Y +PQ + + A LK GTH+F FT+ P
Sbjct: 105 AIQREYRYVIDCAPAPSPQLRHQVLHY-AGTLDVAAMDAALKLLIGTHDFAAFTT--APQ 161
Query: 175 DPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSKDLIE 234
+ S R C G L+ +++ +F+ H +R +VG + + RG + D
Sbjct: 162 EGSTVRTCYWARC-TDTEWFGRPLLAIEVAANAFLQHMVRNIVGTLLLVGRGRMTVDQFG 220
Query: 235 KTFGLDQFDL--PMAPGLGLLLEQVHYD 260
L P AP GL L V Y
Sbjct: 221 AVLASRDRRLAGPTAPAHGLYLTAVRYP 248
>gnl|CDD|171495 PRK12434, PRK12434, tRNA pseudouridine synthase A; Reviewed.
Length = 245
Score = 73.3 bits (180), Expect = 7e-15
Identities = 57/218 (26%), Positives = 102/218 (46%), Gaps = 25/218 (11%)
Query: 55 TPQNIQFQRAARTDKGVSALKQIVSLK----LPEEANKEAINEHLPEQIRILSIKRVTKG 110
T + I+ RTD GV AL Q+ + + L E+ K+ +NE+LP I + +++ V +
Sbjct: 40 TGEEIEIIGCGRTDAGVHALNQVANFQTDEKLSEDKIKKYLNEYLPNDIVVTNVEEVDER 99
Query: 111 FNSKNNCNARTYSYTCPTYAFATPQDTKDDFRLTPDQFNF--LQALLKQYEGTHNFHNFT 168
F+++ N ++TY Y F K + ++ + ++ K G+H+F +FT
Sbjct: 100 FHARYNVKSKTYLYKIWNEKFHNVFMRKYSMHV-NEKLDVKAMKEAAKYLVGSHDFTSFT 158
Query: 169 ---SKRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIAR 225
SK+K S R I S D + + + +++ G F+ + +R +VG + +
Sbjct: 159 NAKSKKK----STVREIYSID-----IMEEDGFVQIRVSGNGFLHNMVRIIVGALIEVGL 209
Query: 226 GFTSKDLIEKTFGLDQFDL----PMAPGLGLLLEQVHY 259
G + I++ L+ D AP GL LE V Y
Sbjct: 210 GQLKAEDIKQI--LEAKDRNQANCTAPASGLYLENVEY 245
>gnl|CDD|173050 PRK14586, PRK14586, tRNA pseudouridine synthase ACD; Provisional.
Length = 245
Score = 72.1 bits (177), Expect = 2e-14
Identities = 70/276 (25%), Positives = 116/276 (42%), Gaps = 57/276 (20%)
Query: 2 AMMFAYSGVGYFGLQSKYLFFLIFCRNQGMKTIEGDIMEAL---FKAGFVTEDSFNTPQN 58
A + +Y G +FG Q + ++T++G +AL FK Q
Sbjct: 5 AAVVSYDGSNFFGYQGQ----------PDVRTVQGVFEDALERIFK------------QR 42
Query: 59 IQFQRAARTDKGVSALKQIVSLKLP-----EEANKEAINEHLPEQIRILSIKRVTKGFNS 113
I Q A RTD GV A Q+++ P EE K A+N +LP+ I + + V K F+
Sbjct: 43 IYTQAAGRTDTGVHANGQVIAFNCPNDRMTEEDIKNAMNANLPDDIYVKKVFEVPKNFHP 102
Query: 114 KNNCNARTYSYTCPTYAFATPQDTKDDFRLT-----PDQFNF--LQALLKQYEGTHNFHN 166
+ + R Y Y F K+ F P + + ++ K EG H+F +
Sbjct: 103 RFDAKKRIYHY------FILTSKEKNVFLRKYVWWFPYELDLEAMRKAAKYLEGEHDFTS 156
Query: 167 FTS---KRKPLDPSCSRYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAI 223
F + +R P+ I+ +K L LI +++G+SF+ +R +VG + +
Sbjct: 157 FKTGSDERNPVRTIYRIRILR-------LKKDLILI--RVEGRSFLRRMVRNIVGALVKV 207
Query: 224 ARG-FTSKDLIEKTFGLDQFDLP-MAPGLGLLLEQV 257
G + + + E D+ AP GL L +V
Sbjct: 208 GLGQWEPEKIKEVLEARDRSKAAGTAPAHGLYLYKV 243
>gnl|CDD|173051 PRK14587, PRK14587, tRNA pseudouridine synthase ACD; Provisional.
Length = 256
Score = 60.6 bits (147), Expect = 2e-10
Identities = 57/206 (27%), Positives = 88/206 (42%), Gaps = 36/206 (17%)
Query: 63 RAARTDKGVSALKQIV--SLKLPEEANKEAINEHLPEQIRILSIKRVTKGFNSKNNCNAR 120
R +RTD GVSA+ +V S KLP +N LP + ++ V +GFN + R
Sbjct: 38 RGSRTDPGVSAVGNVVMTSQKLP----LGYVNSKLPRGVWAWAVAEVPEGFNPRR-AKRR 92
Query: 121 TYSYTCPTYAFATPQDTKDDFRLTPDQFNFLQALLKQYEGTHNFHNFTSKR-KPLDPSCS 179
Y Y P + +D + LL GTH++ +F +R + P+ +
Sbjct: 93 RYLYVAPHWG----EDV--------EAMREAAELLA---GTHDYSSFIQRRGEKATPTVT 137
Query: 180 RYIMSFDCEQPFVKDGLELITLKIKGQSFMLHQIRKMVGVAMAIARGFTSK----DLIEK 235
+ E +LI L G+ F IRKM +A RG S+ +L+E+
Sbjct: 138 T-VYEIGVELRG-----DLIYLYFVGRGFRNKMIRKMAWAILAAGRGVLSRRDIAELLER 191
Query: 236 TFGLDQFDLPMAPGLGLLLEQVHYDL 261
+P AP GL+L + YD+
Sbjct: 192 P---RPGAVPSAPAEGLVLLDIEYDV 214
>gnl|CDD|234405 TIGR03936, sam_1_link_chp, radical SAM-linked protein. This model
describes an uncharacterized protein encoded adjacent
to, or as a fusion protein with, an uncharacterized
radical SAM protein.
Length = 209
Score = 32.9 bits (76), Expect = 0.17
Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 5/78 (6%)
Query: 70 GVSALKQIVSLKLPEEAN----KEAINEHLPEQIRILSIKRVTKGFNSKNNCNAR-TYSY 124
GV + + + ++L EE + E +N LPE I +L ++ V S Y
Sbjct: 56 GVESEAEYMDIELTEEIDPEEVLERLNAVLPEGIEVLEVEEVPDKAPSLMALIDAADYRI 115
Query: 125 TCPTYAFATPQDTKDDFR 142
T P Q+ + F
Sbjct: 116 TLPLDDEEDLQEAIEAFL 133
>gnl|CDD|220573 pfam10105, DUF2344, Uncharacterized protein conserved in bacteria
(DUF2344). This domain, found in various hypothetical
bacterial proteins and Radical Sam domain proteins, has
no known function.
Length = 186
Score = 32.5 bits (75), Expect = 0.22
Identities = 24/96 (25%), Positives = 40/96 (41%), Gaps = 9/96 (9%)
Query: 53 FNTPQNIQFQRAARTDKGVSALKQIVSLKL-----PEEANKEAINEHLPEQIRILSIKRV 107
F+ I F A GV + + + L+L PEE +E +N LPE + IL ++ +
Sbjct: 41 FHPHPRISFALALPV--GVESEGEYMDLELTEEIDPEEV-RERLNAQLPEGLEILEVEEI 97
Query: 108 -TKGFNSKNNCNARTYSYTCPTYAFATPQDTKDDFR 142
K + A Y T P + ++ + F
Sbjct: 98 PVKAPSLMALIEAAEYRITLPEESPEDLEEAVEAFL 133
>gnl|CDD|235909 PRK07021, fliL, flagellar basal body-associated protein FliL;
Reviewed.
Length = 162
Score = 31.4 bits (72), Expect = 0.40
Identities = 11/26 (42%), Positives = 21/26 (80%), Gaps = 1/26 (3%)
Query: 78 VSLKLPEEANKEAINEHLPE-QIRIL 102
++L+LP+EA +E + ++LPE + R+L
Sbjct: 85 LTLRLPDEATRERLKDYLPEVRSRLL 110
>gnl|CDD|240285 PTZ00135, PTZ00135, 60S acidic ribosomal protein P0; Provisional.
Length = 310
Score = 31.9 bits (73), Expect = 0.50
Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 2/63 (3%)
Query: 290 KFILPYLVKTEITEKPMLAWLELLADHSFETRAAKAALAAANGEELQEVTDGEEEEDEED 349
K + +++ T E LA+ S AA AA AAA EEEE+E+D
Sbjct: 246 KNLAAIGLESGFTFPLAEKIKEALANPSAAAAAAAAAAAAA--AAAAAAPAEEEEEEEDD 303
Query: 350 RGG 352
G
Sbjct: 304 MGF 306
>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P. This model
represents the L12P protein of the large (50S) subunit
of the archaeal ribosome.
Length = 105
Score = 29.2 bits (66), Expect = 0.96
Identities = 28/87 (32%), Positives = 41/87 (47%), Gaps = 10/87 (11%)
Query: 272 HESLHFHEVDKEVNEFRHKFILPYLVKTEITE---KPMLAWL------ELLADHSFETRA 322
+ +L H KE+NE K +L E+ E K ++A L E + + A
Sbjct: 5 YAALLLHSAGKEINEENLKAVLE-AAGVEVDEARVKALVAALEGVNIEEAIKKAAAAPVA 63
Query: 323 AKAALAAANGEELQEVTDGEEEEDEED 349
A AA AAA +E + EEEE+EE+
Sbjct: 64 AAAAAAAAAAAAEEEEEEEEEEEEEEE 90
Score = 27.3 bits (61), Expect = 6.0
Identities = 16/28 (57%), Positives = 19/28 (67%)
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEED 349
AA AA AAA EE +E + EEEE+EE
Sbjct: 65 AAAAAAAAAAAEEEEEEEEEEEEEEEES 92
Score = 26.5 bits (59), Expect = 8.5
Identities = 15/28 (53%), Positives = 19/28 (67%)
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEED 349
AA AA AAA E +E + EEEE+EE+
Sbjct: 64 AAAAAAAAAAAAEEEEEEEEEEEEEEEE 91
>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed.
Length = 106
Score = 28.4 bits (64), Expect = 2.3
Identities = 14/28 (50%), Positives = 17/28 (60%)
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEED 349
AA AA AAA E ++ + EEEE EE
Sbjct: 66 AAAAAAAAAAAAEEKKEEEEEEEEKEES 93
Score = 27.2 bits (61), Expect = 5.3
Identities = 28/87 (32%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 272 HESLHFHEVDKEVNEFRHKFILPYLVKTEITE---KPMLAWL------ELLADHSFETRA 322
+ +L H KE+NE K +L E+ E K ++A L E + + A
Sbjct: 5 YAALLLHSAGKEINEDNLKKVLE-AAGVEVDEARVKALVAALEDVNIEEAIKKAAAAPVA 63
Query: 323 AKAALAAANGEELQEVTDGEEEEDEED 349
A AA AAA E EEEE+EE
Sbjct: 64 AAAAAAAAAAAAAAEEKKEEEEEEEEK 90
>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p. This subfamily
includes archaeal L12p, the protein that is functionally
equivalent to L7/L12 in bacteria and the P1 and P2
proteins in eukaryotes. L12p is homologous to P1 and P2
but is not homologous to bacterial L7/L12. It is located
in the L12 stalk, with proteins L10, L11, and 23S rRNA.
L12p is the only protein in the ribosome to occur as
multimers, always appearing as sets of dimers. Recent
data indicate that most archaeal species contain six
copies of L12p (three homodimers), while eukaryotes have
four copies (two heterodimers), and bacteria may have
four or six copies (two or three homodimers), depending
on the species. The organization of proteins within the
stalk has been characterized primarily in bacteria,
where L7/L12 forms either two or three homodimers and
each homodimer binds to the extended C-terminal helix of
L10. L7/L12 is attached to the ribosome through L10 and
is the only ribosomal protein that does not directly
interact with rRNA. Archaeal L12p is believed to
function in a similar fashion. However, hybrid ribosomes
containing the large subunit from E. coli with an
archaeal stalk are able to bind archaeal and eukaryotic
elongation factors but not bacterial elongation factors.
In several mesophilic and thermophilic archaeal species,
the binding of 23S rRNA to protein L11 and to the
L10/L12p pentameric complex was found to be
temperature-dependent and cooperative.
Length = 106
Score = 28.2 bits (63), Expect = 3.0
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 11/87 (12%)
Query: 272 HESLHFHEVDKEVNEFRHKFILPYLVKTEITE---KPMLAWL------ELLADHSFE-TR 321
+ +L H KE+NE K +L E+ E K ++A L E + +
Sbjct: 5 YAALLLHYAGKEINEENLKKVLE-AAGIEVDEARVKALVAALEEVNIDEAIKKAAVAAAA 63
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEE 348
AA AA AAA EE E + E++++EE
Sbjct: 64 AAPAAAAAAAAEEKAEEKEEEKKKEEE 90
>gnl|CDD|185582 PTZ00373, PTZ00373, 60S Acidic ribosomal protein P2; Provisional.
Length = 112
Score = 28.0 bits (62), Expect = 3.3
Identities = 15/30 (50%), Positives = 18/30 (60%)
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEEDRG 351
AA AA A A E +E EEEE+E+D G
Sbjct: 78 AAGAATAGAKAEAKKEEKKEEEEEEEDDLG 107
>gnl|CDD|216138 pfam00823, PPE, PPE family. This family named after a PPE motif
near to the amino terminus of the domain. The PPE family
of proteins all contain an amino-terminal region of
about 180 amino acids. The carboxyl terminus of this
family are variable, and on the basis of this region
fall into at least three groups. The MPTR subgroup has
tandem copies of a motif NXGXGNXG. The second subgroup
contains a conserved motif at about position 350. The
third group are only related in the amino terminal
region. The function of these proteins is uncertain but
it has been suggested that they may be related to
antigenic variation of Mycobacterium tuberculosis.
Length = 159
Score = 28.4 bits (64), Expect = 4.0
Identities = 13/26 (50%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 305 PMLAWLELLADHSFETRAAKAALAAA 330
P LAWL A + E AA+A AAA
Sbjct: 67 PYLAWLSAAAAQA-EQAAAQAEAAAA 91
>gnl|CDD|219990 pfam08726, efhand_Ca_insen, Ca2+ insensitive EF hand. EF hands are
helix-loop-helix binding motifs involved in the
regulation of many cellular processes. EF hands usually
bind to Ca2+ ions which causes a major conformational
change that allows the protein to interact with its
designated targets. This domain corresponds to an EF
hand which has partially or entirely lost its
calcium-binding properties. The calcium insensitive EF
hand is still able to mediate protein-protein
recognition.
Length = 69
Score = 26.5 bits (59), Expect = 5.2
Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 2/26 (7%)
Query: 137 TKDDFR--LTPDQFNFLQALLKQYEG 160
T++D R LTP+Q + A + Y G
Sbjct: 23 TEEDLRRALTPEQAEYCIARMPPYSG 48
>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2
[Translation, ribosomal structure and biogenesis].
Length = 109
Score = 27.4 bits (61), Expect = 5.4
Identities = 14/28 (50%), Positives = 16/28 (57%)
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEED 349
A AA AAA E E + EEEE EE+
Sbjct: 67 AGAAAAAAAGAEAAAEADEAEEEEKEEE 94
Score = 26.6 bits (59), Expect = 8.8
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 322 AAKAALAAANGEELQEVTDGEEEEDEEDRGG 352
AA A AAA +E +E EE E+E D
Sbjct: 73 AAAGAEAAAEADEAEEEEKEEEAEEESDDDM 103
>gnl|CDD|215914 pfam00428, Ribosomal_60s, 60s Acidic ribosomal protein. This
family includes archaebacterial L12, eukaryotic P0, P1
and P2.
Length = 88
Score = 26.8 bits (60), Expect = 5.8
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 290 KFILPYLVKTEITEKPMLAWLELLADHSFETRAAKAALAAANG-----EELQEVTDGEEE 344
K + ++ + EL+A+ S + AA AA AAA +E EEE
Sbjct: 16 KEVEAERLELLVKFLEGKNIKELIANGSAKLSAAAAAAAAAAAAAAAAAAAEEEKKEEEE 75
Query: 345 EDEED 349
E+EED
Sbjct: 76 EEEED 80
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 28.5 bits (64), Expect = 6.4
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 314 ADHSFETRAAKAALAAANGEELQEVTD 340
+F R A+ LAA + E LQ V +
Sbjct: 23 TAEAFARRGARLVLAARDEEALQAVAE 49
>gnl|CDD|212511 cd09015, Ureohydrolase, Ureohydrolase superfamily includes
arginase, formiminoglutamase, agmatinase and
proclavaminate amidinohydrolase (PAH). This family,
also known as arginase-like amidino hydrolase family,
includes Mn-dependent enzymes: arginase (Arg, EC
3.5.3.1), formimidoylglutamase (HutG, EC 3.5.3.8 ),
agmatinase (SpeB, EC 3.5.3.11), guanidinobutyrase (Gbh,
EC=3.5.3.7), proclavaminate amidinohydrolase (PAH, EC
3.5.3.22) and related proteins. These enzymes catalyze
hydrolysis of amide bond. They are involved in control
of cellular levels of arginine and ornithine (both
involved in protein biosynthesis, and production of
creatine, polyamines, proline and nitric acid), in
histidine and arginine degradation, and in clavulanic
acid biosynthesis.
Length = 270
Score = 28.2 bits (63), Expect = 7.2
Identities = 10/59 (16%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 208 FMLHQIRKM-VGVAMAIARGFTSKDLIEKTFGLDQFDLPMAPGL------GLLLEQVHY 259
+ ++ K+ +G + + D + + +D D APG+ GL +
Sbjct: 172 VTMDEVDKLGLGGVLEQLFHYDDGDNVYLSVDVDGLDPADAPGVSTPAAGGLSYREGLP 230
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.135 0.394
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,402,809
Number of extensions: 1892334
Number of successful extensions: 2241
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2163
Number of HSP's successfully gapped: 46
Length of query: 375
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 277
Effective length of database: 6,590,910
Effective search space: 1825682070
Effective search space used: 1825682070
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 (21.8 bits)
S2: 60 (26.8 bits)