RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780180|ref|YP_003064593.1| S-adenosylmethionine:tRNA
ribosyltransferase-isomerase [Candidatus Liberibacter asiaticus str.
psy62]
(360 letters)
>gnl|CDD|178900 PRK00147, queA, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase; Provisional.
Length = 342
Score = 496 bits (1280), Expect = e-141
Identities = 173/359 (48%), Positives = 230/359 (64%), Gaps = 19/359 (5%)
Query: 1 MMVKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIV 60
M + +FDFDLP IA P+ PRD++RL+V+ I DLP +LN D +V
Sbjct: 1 MKLSDFDFDLPEELIAQYPLEPRDASRLLVLDRKTG---EIEHRHFRDLPDYLNPGDLLV 57
Query: 61 FNNTKVITAQLNGVRFCHINRREKE--ISCTLHMRVSPNSWSVYARPSKVIKKGDILHFF 118
FN+T+VI A+L G ++E I L R+ + W RP+K K G L+F
Sbjct: 58 FNDTRVIPARLFG------RKKETGGKIEVLLLRRLDEDRWLALVRPAKRPKPGTKLYF- 110
Query: 119 SQDGQSRLEATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARDYV 178
DG L+A V+++ G +L F GI LE + +G +PLPPYI KRP + D
Sbjct: 111 -GDG---LKAEVLERLEDGGRILRFLYEGIFLEL-LEELGHMPLPPYI--KRPDEDADRE 163
Query: 179 DYQTTYAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTDDH 238
YQT YAK G+VAAPTAGLHFT LL +L + G+++ FVTLHVGAGTF PV+VED ++H
Sbjct: 164 RYQTVYAKEPGAVAAPTAGLHFTEELLEKLKAKGVEIAFVTLHVGAGTFRPVRVEDIEEH 223
Query: 239 IMHSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSGFTNIFIT 298
MHSE + TA A+N+ K+RGGR+++VGTTS+R LE+A G + P+SG+T+IFI
Sbjct: 224 KMHSEWYEVPQETADAINAAKARGGRVIAVGTTSVRTLESAARAGGELKPFSGWTDIFIY 283
Query: 299 PGYRFRAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLLF 357
PGYRF+ VD L++NFHLPKSTLLMLVSAF G E Y+HA++ YRF+SYGD L+
Sbjct: 284 PGYRFKVVDALITNFHLPKSTLLMLVSAFAGRERILAAYKHAVAEKYRFFSYGDAMLIL 342
>gnl|CDD|161715 TIGR00113, queA, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase. This model describes the
enzyme for S-adenosylmethionine:tRNA
ribosyltransferase-isomerase (QueA). QueA synthesizes
Queuosine which is usually in the first position of the
anticodon of tRNAs specific for asparagine, aspartate,
histidine, and tyrosine.
Length = 344
Score = 331 bits (851), Expect = 2e-91
Identities = 155/359 (43%), Positives = 208/359 (57%), Gaps = 22/359 (6%)
Query: 3 VKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIVFN 62
V FDF+LP S IA P PRDS+RL+V+ I+ D+ F N D +V N
Sbjct: 2 VSSFDFELPESLIAQYPSEPRDSSRLLVLDKQ---TGKITHKTFVDVLDFFNEGDLLVLN 58
Query: 63 NTKVITAQLNGVRFCHINRREKEISCT----LHMRVSPNSWSVYARPSKVIKKGDILHFF 118
NTKVI A+L G KE L + N W +PSK K G + F
Sbjct: 59 NTKVIPARLFG---------RKESGGKVEVLLLRMLDENRWLALIKPSKKPKIGAKVKFG 109
Query: 119 SQDGQSRLEATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPIDARDYV 178
G+ + + N F+ + L + G +PLPPYI KRP + D
Sbjct: 110 EGYGEKIM--AEMLAHNGRLFEFEFNDPNV-LLDVLESYGHMPLPPYI--KRPDEKADEE 164
Query: 179 DYQTTYAKIQGSVAAPTAGLHFTSNLLSRLISIGIKVYFVTLHVGAGTFMPVKVEDTDDH 238
YQT Y+K G+VAAPTAGLHF+ LL +L + G++ F+TLHVGAGTF PV+ ++ +DH
Sbjct: 165 RYQTVYSKKPGAVAAPTAGLHFSEELLEKLKAKGVQYAFITLHVGAGTFRPVEADNIEDH 224
Query: 239 IMHSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLET-ATTEDGIINPWSGFTNIFI 297
+MH+E + T +ALN + GGRI++VGTTS+R LE+ A DG+I P+ G T+IFI
Sbjct: 225 VMHAEYYEVPQETVEALNKTRENGGRIIAVGTTSVRSLESAAQEADGLIEPFFGDTSIFI 284
Query: 298 TPGYRFRAVDILMSNFHLPKSTLLMLVSAFCGIEETKKMYQHAISHAYRFYSYGDTSLL 356
PGY+F+ VD L++NFHLPKS+L+MLVSA G E T Y+HA+ YRF+SYGD L+
Sbjct: 285 YPGYQFKVVDGLITNFHLPKSSLIMLVSALAGRENTMNAYKHAVEEKYRFFSYGDAMLI 343
>gnl|CDD|134556 PRK01424, PRK01424, S-adenosylmethionine:tRNA
ribosyltransferase-isomerase; Provisional.
Length = 366
Score = 287 bits (735), Expect = 4e-78
Identities = 148/387 (38%), Positives = 224/387 (57%), Gaps = 50/387 (12%)
Query: 1 MMVKEFDFDLPPSRIALRPVFPRDSARLMVVHPNLSCPLVISDHLVSDLPAFLNSNDAIV 60
M + +FDFDLP IA P RD++ L++ ++ P+ + + D +L D +V
Sbjct: 1 MKLSDFDFDLPSELIAQYPSSERDNSDLLIA---VTPPIKTKFYNIID---YLKEGDLLV 54
Query: 61 FNNTKVITAQLNGVRFCHINRREKEISCTLHMRVSPNSWSVYARPSKVIKKGDILHFFSQ 120
FNN+KVI A+LN K I+ L+ ++S +SWS +A+P++ + GD +F +
Sbjct: 55 FNNSKVIKAKLN---------LGKNITINLNQKLSDDSWSAFAKPARKLHVGDEFYFDNH 105
Query: 121 DGQSRLEATVIDKWNTGEILLVFSISGIELERQISLVGTIPLPPYIARKRPI-------- 172
+ + +K GEI + F ++ I + + G +PLP YI R +
Sbjct: 106 ------KVIITEKLAMGEIKVKFELNNISVFEFLDKYGEMPLPVYIRRSHSLCHPVATTT 159
Query: 173 --------------------DARDYVDYQTTYAKIQGSVAAPTAGLHFTSNLLSRLISIG 212
D YQT Y++I+GSVAAPTAGLHFT ++L +L + G
Sbjct: 160 GSKTYLNNDWIPWSNHGMTNTKNDNDRYQTVYSQIEGSVAAPTAGLHFTKDILDKLKAKG 219
Query: 213 IKVYFVTLHVGAGTFMPVKVEDTDDHIMHSEIGFIDAPTAQALNSVKSRGGRIVSVGTTS 272
I+ F+TLHVGAGTF+PVK E+ +H MH+E I TA+ +N K G RI++VGTT+
Sbjct: 220 IQTAFLTLHVGAGTFLPVKTENIHEHKMHTEYCSITPETAEIINKAKQEGRRIIAVGTTT 279
Query: 273 LRLLETATTEDGIINPWSGFTNIFITPGYRFRAVDILMSNFHLPKSTLLMLVSAFCGIEE 332
LR LE++ +GI+ S T+IFITPG++F+ D+L++NFH PKSTL ML+ AF G +E
Sbjct: 280 LRTLESSCN-NGIVKAGSFETDIFITPGFKFQTADMLLTNFHFPKSTLFMLICAFAGFKE 338
Query: 333 TKKMYQHAISHAYRFYSYGDTSLLFQK 359
++Y++AI RF+SYGD +LL++K
Sbjct: 339 MHELYKYAIKEKMRFFSYGDATLLYRK 365
>gnl|CDD|178141 PLN02526, PLN02526, acyl-coenzyme A oxidase.
Length = 412
Score = 31.7 bits (72), Expect = 0.32
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 306 VDILMSNFHLPKSTLLMLVSAFCGIEETKKMY 337
VD S F L S+L ML A CG E K+ Y
Sbjct: 102 VDASCSTFILVHSSLAMLTIALCGSEAQKQKY 133
>gnl|CDD|129394 TIGR00293, TIGR00293, prefoldin, archaeal alpha subunit/eukaryotic
subunit 5. This model finds a set of small proteins
from the Archaea and from Aquifex aeolicus that may
represent two orthologous groups. The proteins are
predicted to be mostly coiled coil, and may hit large
numbers of proteins that contain coiled coil regions.
Length = 126
Score = 30.3 bits (69), Expect = 0.88
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 221 HVGAGTFMPVKVEDTDDHIMH 241
VGAG+F+ KV+DTD ++
Sbjct: 53 PVGAGSFVKAKVKDTDKVLVS 73
>gnl|CDD|178554 PLN02970, PLN02970, serine racemase.
Length = 328
Score = 28.9 bits (65), Expect = 2.2
Identities = 14/30 (46%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 263 GRIVS-VGTTSLRLLETATTEDGIINPWSG 291
GR++S GT +L LE D II P SG
Sbjct: 156 GRVISGQGTIALEFLEQVPELDVIIVPISG 185
>gnl|CDD|148277 pfam06575, DUF1132, Protein of unknown function (DUF1132). This
family consists of several hypothetical proteins from
Neisseria meningitidis. The function of this family is
unknown.
Length = 95
Score = 28.7 bits (64), Expect = 2.2
Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 9/67 (13%)
Query: 61 FNNTKVITAQLNGVRFCHINRRE---KEISCTLHMRVSPNSWSVYARPSKVI------KK 111
F + + AQ F N+ + S L+ R+S N W +Y VI +
Sbjct: 13 FGQSMALIAQSEFEEFVKNNKEYDIIECFSYFLNRRISHNIWKIYFSDESVIFIKKSEEN 72
Query: 112 GDILHFF 118
G +H F
Sbjct: 73 GKEIHEF 79
>gnl|CDD|180063 PRK05415, PRK05415, hypothetical protein; Provisional.
Length = 341
Score = 28.7 bits (65), Expect = 2.3
Identities = 13/73 (17%), Positives = 25/73 (34%), Gaps = 10/73 (13%)
Query: 226 TFMPVKVEDTDDHIMHSEIGFIDAPTAQALNSVKSRGGRIVSVGTTSLRLLETATTEDGI 285
F P ++ ++ E G ++A AL +S +++ G L L +
Sbjct: 35 AFAPAAPDEEEE-----EEGELEAAVEAALRPKRSLWRKLLWGGLGLLGSLVVGQAVQWL 89
Query: 286 I-----NPWSGFT 293
+ W G
Sbjct: 90 RDAFQRSDWLGLG 102
>gnl|CDD|179682 PRK03947, PRK03947, prefoldin subunit alpha; Reviewed.
Length = 140
Score = 28.7 bits (65), Expect = 2.7
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 220 LHVGAGTFMPVKVEDTDDHIMH 241
+ +GAG+F+ KV+D D I+
Sbjct: 60 VPIGAGSFVKAKVKDKDKVIVS 81
>gnl|CDD|171770 PRK12851, groEL, chaperonin GroEL; Reviewed.
Length = 541
Score = 28.2 bits (63), Expect = 3.5
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 252 AQALNSVKSRGGRIVSVGTTSLRLLETATTEDGIINPWSGFTNIFITPGYRFRAVDILMS 311
AQ + V S+ + GTT+ +L A +G +G + + G RAV ++
Sbjct: 71 AQMVREVASKTNDVAGDGTTTATVLAQAIVREGAKAVAAGANPMDLKRGID-RAVAAVVE 129
Query: 312 NFH 314
Sbjct: 130 ELK 132
>gnl|CDD|161900 TIGR00487, IF-2, translation initiation factor IF-2. This model
discriminates eubacterial (and mitochondrial)
translation initiation factor 2 (IF-2), encoded by the
infB gene in bacteria, from similar proteins in the
Archaea and Eukaryotes. In the bacteria and in
organelles, the initiator tRNA is charged with
N-formyl-Met instead of Met. This translation factor
acts in delivering the initator tRNA to the ribosome. It
is one of a number of GTP-binding translation factors
recognized by the pfam model GTP_EFTU.
Length = 587
Score = 28.2 bits (63), Expect = 3.6
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 9/48 (18%)
Query: 218 VTLHVGAGTFMPVKVEDTDDHIMHSEIGFIDAPTAQALNSVKSRGGRI 265
+T H+GA V+ ED I F+D P +A S+++RG ++
Sbjct: 120 ITQHIGAYH---VENEDGK------MITFLDTPGHEAFTSMRARGAKV 158
>gnl|CDD|162813 TIGR02347, chap_CCT_zeta, T-complex protein 1, zeta subunit.
Members of this family, all eukaryotic, are part of the
group II chaperonin complex called CCT (chaperonin
containing TCP-1) or TRiC. The archaeal equivalent group
II chaperonin is often called the thermosome. Both are
somewhat related to the group I chaperonin of bacterial,
GroEL/GroES. This family consists exclusively of the CCT
zeta chain (part of a paralogous family) from animals,
plants, fungi, and other eukaryotes.
Length = 531
Score = 27.8 bits (62), Expect = 4.2
Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 307 DILMSNFHLPKSTLLMLVSAFCGIEETK 334
D+L +N PK TL MLVS I+ TK
Sbjct: 30 DVLKTNLG-PKGTLKMLVSGAGDIKLTK 56
>gnl|CDD|152999 pfam12565, DUF3747, Protein of unknown function (DUF3747). This
family of proteins is found in bacteria. Proteins in
this family are typically between 215 and 413 amino
acids in length. There is a conserved DSNGYS sequence
motif.
Length = 183
Score = 27.6 bits (62), Expect = 4.5
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 8/51 (15%)
Query: 257 SVKSRGGRIVSVGT----TSLRLLETATTEDGIINPWSGFTNIFITPGYRF 303
+ R G +V V T + T G+ N GF I + PG+R
Sbjct: 115 RLVQRNGELVLVATPPRDGGSPEIVIGRT-RGLAN---GFVKIQLEPGWRL 161
>gnl|CDD|173585 PTZ00394, PTZ00394, glucosamine-fructose-6-phosphate
aminotransferase; Provisional.
Length = 670
Score = 27.9 bits (62), Expect = 4.7
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 254 ALNSVKSRGGRIVSVGTTSLRLLETATTE 282
A+ VK+RGG +V T L+ A +E
Sbjct: 594 AVQQVKARGGAVVVFATEVDAELKAAASE 622
>gnl|CDD|115962 pfam07339, DUF1472, Protein of unknown function (DUF1472). This
family consists of several Enterobacterial proteins of
around 125 residues in length and contains 6 highly
conserved cysteine residues. The function of this
family is unknown.
Length = 101
Score = 27.6 bits (61), Expect = 4.7
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 5/33 (15%)
Query: 10 LPPS-----RIALRPVFPRDSARLMVVHPNLSC 37
LPP+ R+ LRPV PR ARL+ H C
Sbjct: 64 LPPAVCVRLRLPLRPVHPRLIARLLWRHGTARC 96
>gnl|CDD|139070 PRK12563, PRK12563, sulfate adenylyltransferase subunit 2;
Provisional.
Length = 312
Score = 27.8 bits (62), Expect = 5.0
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 17/50 (34%)
Query: 137 GEILLVFSISG---------IELERQISLVGTIPLPP-YIARKRPIDARD 176
GE L VF +S I E+ IPL P Y A++RP+ RD
Sbjct: 188 GESLRVFPLSNWTELDVWQYIAREK-------IPLVPLYFAKRRPVVERD 230
>gnl|CDD|140294 PTZ00268, PTZ00268, glycosylphosphatidylinositol-specific
phospholipase C; Provisional.
Length = 380
Score = 26.8 bits (59), Expect = 8.5
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 7/45 (15%)
Query: 22 PRDSARLMVVHPNLSCPLVISDHLVSDLPAFLN----SNDAIVFN 62
P D+ RL + H +S PL ++ D+ AFLN +N+ IV +
Sbjct: 109 PEDANRLYISHTQISVPLA---DVLEDVKAFLNDPSSANEFIVLD 150
>gnl|CDD|150762 pfam10124, Mu-like_gpT, Mu-like prophage major head subunit gpT.
Members of this family of proteins comprise various
caudoviral prophage proteins, including the Mu-like
prophage major head subunit gpT.
Length = 291
Score = 26.8 bits (60), Expect = 9.9
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 11/58 (18%)
Query: 253 QALNSVKSRGGRIVSVGTTSL-----------RLLETATTEDGIINPWSGFTNIFITP 299
A+ ++K GGR + + T+L +LLE E G NPW G + ++P
Sbjct: 232 AAMMAMKGDGGRPLGIRPTTLVVPPSLEGAARKLLERERIEGGASNPWKGTAELVVSP 289
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.323 0.138 0.409
Gapped
Lambda K H
0.267 0.0674 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,948,957
Number of extensions: 383043
Number of successful extensions: 720
Number of sequences better than 10.0: 1
Number of HSP's gapped: 704
Number of HSP's successfully gapped: 20
Length of query: 360
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 265
Effective length of database: 3,941,713
Effective search space: 1044553945
Effective search space used: 1044553945
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.2 bits)