RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780603|ref|YP_003065016.1| tRNA/rRNA methyltransferase
protein [Candidatus Liberibacter asiaticus str. psy62]
(282 letters)
>gnl|CDD|129290 TIGR00186, rRNA_methyl_3, rRNA methylase, putative, group 3. this
is part of the trmH (spoU) family of rRNA methylases.
Length = 237
Score = 155 bits (393), Expect = 1e-38
Identities = 76/244 (31%), Positives = 125/244 (51%), Gaps = 34/244 (13%)
Query: 50 FLYGVHTVSAALNNPSR-------------KIFQLLATKNALARLDWDANLPHPFPVKTV 96
+LYG + V AL N R K+ QL + ++ V
Sbjct: 3 YLYGKNAVLEALLNQQRVFILKGLESKRLKKLIQLAKKQGI--------------NIQLV 48
Query: 97 PPQTIDKIVGKEAVHQGLALETAPLLSPTLDAV------RNSQLLMVLDHVNDPHNIGAI 150
Q +D++ K HQG+A + P+L L+ + + L++LD + DPHN+GAI
Sbjct: 49 DRQKLDQLT-KGGNHQGIAAKVKPILYKDLNDLYKTAKSKKQPFLLILDEITDPHNLGAI 107
Query: 151 LRSAVAFSCDGIITTKRYSPSESAVLAKSASGALEHIPYIRISNLTDALQKMHSWGFQTI 210
LR+A AF DG+I KR S ++ + K++SGA+E++P R++NL+ + K+ GF T+
Sbjct: 108 LRTAEAFGVDGVILPKRRSAPLNSTVVKTSSGAVEYVPLARVTNLSRTITKLKESGFWTV 167
Query: 211 GLSSDSKKPLEQEIKNDKIALILGAEGKGLRPKTQETATSMAHLHMPGIIKALNVSNAAA 270
G D++ L Q +AL++G EG+G+ +E + + M G + +LNVS AA
Sbjct: 168 GTDLDAQDTLYQVKLTKPLALVVGNEGEGVSRLIKENCDFLIKIPMAGKVDSLNVSVAAG 227
Query: 271 VALY 274
+ L+
Sbjct: 228 ILLF 231
>gnl|CDD|183021 PRK11181, PRK11181, 23S rRNA (guanosine-2'-O-)-methyltransferase;
Provisional.
Length = 244
Score = 113 bits (284), Expect = 6e-26
Identities = 71/242 (29%), Positives = 110/242 (45%), Gaps = 26/242 (10%)
Query: 50 FLYGVHTVSAALNNPSRKIFQLLATK-----------NALARLDWDANLPHPFPVKTVPP 98
+YG+H V A L + ++ K N L ++
Sbjct: 4 IIYGIHAVQALLERAPERFIEVFVLKGREDKRLLPLINELEAQG--------IVIQLANR 55
Query: 99 QTIDKIVGKEAVHQGLALETAP---LLSPTLDAVRNSQ---LLMVLDHVNDPHNIGAILR 152
QT+D+ + AVHQG+ P L L + S L++LD V DPHN+GA LR
Sbjct: 56 QTLDEKA-EGAVHQGIIARVKPGRQLQENDLPDLLASLEQPFLLILDGVTDPHNLGACLR 114
Query: 153 SAVAFSCDGIITTKRYSPSESAVLAKSASGALEHIPYIRISNLTDALQKMHSWGFQTIGL 212
SA A +I K S +A K A GA E +P IR++NL ++ + +G
Sbjct: 115 SADAAGVHAVIVPKDRSAQLNATAKKVACGAAETVPLIRVTNLARTMRMLQEKNIWIVGT 174
Query: 213 SSDSKKPLEQEIKNDKIALILGAEGKGLRPKTQETATSMAHLHMPGIIKALNVSNAAAVA 272
+ ++ L Q +AL++GAEG+G+R T+E + + M G + +LNVS A +
Sbjct: 175 AGEADHTLYQSKLTGPLALVMGAEGEGMRRLTREHCDELISIPMAGSVSSLNVSVATGIC 234
Query: 273 LY 274
L+
Sbjct: 235 LF 236
>gnl|CDD|182790 PRK10864, PRK10864, putative methyltransferase; Provisional.
Length = 346
Score = 81.0 bits (200), Expect = 3e-16
Identities = 42/147 (28%), Positives = 67/147 (45%), Gaps = 3/147 (2%)
Query: 135 LMVLDHVNDPHNIGAILRSAVAFSCDGIITTKRYSPSESAVLAKSASGALEHIPYIRISN 194
++ L+ V +PHN+G I+RS F G++ + ES ++A G EH+ I +
Sbjct: 200 VLALEDVGNPHNLGGIMRSCAHFGVKGVVVQDA-ALLESGAAIRTAEGGAEHVQPITGDS 258
Query: 195 LTDALQKMHSWGFQTIGLSSDSKKPLEQEIKNDKIALILGAEGKGLRPKTQETATSMAHL 254
D L G+ + SS PL + K+ L+LG E GL ++ +
Sbjct: 259 FVDVLDDFRQAGYTIVTTSSHKGTPLFKASLPAKMVLVLGQEYDGLSDAARQQGDLSVSI 318
Query: 255 HMPGIIKALNVSNAAAVAL--YITQNH 279
G +++LNVS A V L + QN
Sbjct: 319 DGTGNVESLNVSVATGVLLAEWWRQNK 345
>gnl|CDD|182949 PRK11081, PRK11081, tRNA guanosine-2'-O-methyltransferase;
Provisional.
Length = 229
Score = 50.0 bits (120), Expect = 7e-07
Identities = 41/157 (26%), Positives = 75/157 (47%), Gaps = 15/157 (9%)
Query: 128 AVRNSQLLMVLDHVNDPHNIGAILRSAVAFSCDGIITTKRYSPSESAVLAKSASGALEHI 187
A R L + ++ V+ PHN+ AI+R+A A + + S + +A+G+ +
Sbjct: 14 ARRQPDLTVCMEQVHKPHNVSAIIRTADAVGVHEVHAV--WPGSRMRTMGSTAAGSNSWV 71
Query: 188 PYIRISNLTDALQKMHSWGFQTIG--LSSDSKKPLEQEIKNDK-IALILGAEGKGLRPKT 244
+ DA+ + G Q + LS + +EI + +++G E G+ +
Sbjct: 72 QVKTHRTIGDAVAHLKGQGMQILATHLSDTAVD--FREIDYTRPTCILMGQEKTGI---S 126
Query: 245 QETATSMAHLH----MPGIIKALNVSNAAAVALYITQ 277
QE A ++A M G++++LNVS A+A+ LY Q
Sbjct: 127 QE-ALALADQDIIIPMIGMVQSLNVSVASALILYEAQ 162
>gnl|CDD|149230 pfam08032, SpoU_sub_bind, RNA 2'-O ribose methyltransferase
substrate binding. This domain is a RNA 2'-O ribose
methyltransferase substrate binding domain.
Length = 75
Score = 46.5 bits (111), Expect = 9e-06
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 4/74 (5%)
Query: 50 FLYGVHTVSAALNNPSRKIFQLLATKNALARLDWDANLPH--PFPVKTVPPQTIDKIVGK 107
+ G H V AL + +I +L T+ + L V V + +DK+ G
Sbjct: 1 LIEGRHAVEEALKSG-PEIEKLFVTEGRRDKRKELLKLAKKRGIKVIEVSEKVLDKLSGT 59
Query: 108 EAVHQGLALETAPL 121
HQG+ P
Sbjct: 60 -VNHQGVVAVVKPP 72
>gnl|CDD|161752 TIGR00185, rRNA_methyl_2, rRNA methylase, putative, group 2. this
is part of the trmH (spoU) family of rRNA methylases.
Length = 153
Score = 33.9 bits (78), Expect = 0.047
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 5/54 (9%)
Query: 231 LILGAEGKGLRPKT--QETATSMAHLHMPGIIKALNVSNAAAVALY--ITQNHF 280
L+ G E +GL P++ + M +++LN+SN+ A+ +Y Q +
Sbjct: 97 LMFGPETRGL-PQSILDNMMEQKIRIPMTNNVRSLNLSNSVAIVVYEAWRQLGY 149
>gnl|CDD|161682 TIGR00050, rRNA_methyl_1, RNA methyltransferase, TrmH family, group
1. This is part of the trmH (spoU) family of
S-adenosyl-L-methionine (AdoMet)-dependent
methyltransferases, and is now characterized, in E.
coli, as a tRNA:Cm32/Um32 methyltransferase. It may be
named TrMet(Xm32), or TrmJ, according to the
nomenclature style chosen.
Length = 233
Score = 30.1 bits (68), Expect = 0.68
Identities = 37/149 (24%), Positives = 60/149 (40%), Gaps = 29/149 (19%)
Query: 144 PHNIGAILRSAVAFSCDGIITTKRYSP-----SESAVLAKSASGALEHIPYIRISNLTDA 198
NIG+I R+ G+ +P E+ LA A L++ + +L +A
Sbjct: 14 SGNIGSIARAMKNM---GLTELCLVNPKSHLEEEAYALAAGARDILDNAKVVD--DLDEA 68
Query: 199 LQKMHSWGFQTIGLSSDSK---KPLEQ--------EIKNDKIALILGAEGKGLRPKTQET 247
L +G S+ S+ +PL KIA++ G E GL +E
Sbjct: 69 LDDCD----LVVGTSARSRNLQRPLLTPRELAPKLVAYKGKIAIVFGREDSGLT--NEEL 122
Query: 248 ATSMAHLHMPGIIK--ALNVSNAAAVALY 274
+ +P + +LN+S+A AV LY
Sbjct: 123 LKCHVLVSIPTSEEYPSLNLSHAVAVILY 151
>gnl|CDD|130796 TIGR01735, FGAM_synt, phosphoribosylformylglycinamidine synthase,
single chain form. This model represents a
single-molecule form of
phosphoribosylformylglycinamidine synthase, also called
FGAM synthase, an enzyme of purine de novo biosynthesis.
This form is found mostly in eukaryotes and
Proteobacteria. In Bacillus subtilis PurL (FGAM synthase
II) and PurQ (FGAM synthase I), homologous to different
parts of this model, perform the equivalent function;
the unrelated small protein PurS is also required and
may be a third subunit.
Length = 1310
Score = 29.4 bits (66), Expect = 1.1
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 234 GAEGKGLRPKTQETATSMAHLHMPG 258
GA G+G +PK T +++L++PG
Sbjct: 322 GATGRGAKPKAGLTGFCVSNLNIPG 346
>gnl|CDD|178022 PLN02400, PLN02400, cellulose synthase.
Length = 1085
Score = 29.2 bits (65), Expect = 1.4
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 7/69 (10%)
Query: 36 FNQKSRHTSQPENLFLYGVHTVSAALNNPSRKIFQLLATKNALARLDWDANLP------H 89
+ SRH SQP L +G VS + + + T L + +AN
Sbjct: 133 LSSSSRHESQPIPLLTHG-QPVSGEIPCATPDNQSVRTTSGPLGPAERNANSSPYIDPRQ 191
Query: 90 PFPVKTVPP 98
P PV+ V P
Sbjct: 192 PVPVRIVDP 200
>gnl|CDD|183905 PRK13233, nifH, nitrogenase reductase; Reviewed.
Length = 275
Score = 27.5 bits (61), Expect = 3.9
Identities = 14/28 (50%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 228 KIALILGAEGKGLRPKTQETATSMAHLH 255
KIA I G G G TQ TA +MA+ H
Sbjct: 4 KIA-IYGKGGIGKSTTTQNTAAAMAYFH 30
>gnl|CDD|178235 PLN02628, PLN02628, fructose-1,6-bisphosphatase family protein.
Length = 351
Score = 27.5 bits (61), Expect = 4.7
Identities = 18/65 (27%), Positives = 24/65 (36%), Gaps = 1/65 (1%)
Query: 174 AVLAKSASGALEHIPYIRISNLTDALQKMHSWGFQTIGLSSDSKKPLEQEIKNDKIALIL 233
VL A + I + S L K S G D+ KPL+ + N+ I L
Sbjct: 36 VVLMAHIQAACKRIAALLASPFNSELGKTSSGASGASGSGRDAPKPLD-IVSNEIILSSL 94
Query: 234 GAEGK 238
GK
Sbjct: 95 RNSGK 99
>gnl|CDD|178513 PLN02925, PLN02925, 4-hydroxy-3-methylbut-2-en-1-yl diphosphate
synthase.
Length = 733
Score = 27.0 bits (60), Expect = 6.0
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 98 PQTIDKIVGKEAVHQGLALETA 119
P ID VGKE V +G+A+E A
Sbjct: 691 PGKIDLYVGKEVVKRGIAMEEA 712
>gnl|CDD|177303 PHA00735, PHA00735, hypothetical protein.
Length = 808
Score = 26.4 bits (58), Expect = 8.5
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 113 GLALETAPLLSPTLDAVRNSQLLMVL 138
G L TAP L+PT +V N L VL
Sbjct: 60 GSTLSTAPWLNPTYISVYNKYYLQVL 85
>gnl|CDD|149197 pfam07982, Herpes_UL74, Herpes UL74 glycoproteins. Members of this
family are viral glycoproteins that form part of an
envelope complex.
Length = 457
Score = 26.5 bits (58), Expect = 8.6
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 22 KLRRNHRDYKKMQSFNQKSRHTSQPENLFLYGVHTVSAALN 62
KL+R K+ Q ++KS+ T+ P Y +T S A N
Sbjct: 252 KLKRKQAPVKEPQKKSKKSQSTTTP-----YSSYTTSTAFN 287
>gnl|CDD|181068 PRK07656, PRK07656, long-chain-fatty-acid--CoA ligase; Validated.
Length = 513
Score = 26.0 bits (58), Expect = 10.0
Identities = 24/93 (25%), Positives = 34/93 (36%), Gaps = 17/93 (18%)
Query: 183 ALEHIPYIRISNLTDALQKMHSW-GFQTIGLSSDSKKPLEQEIKNDKIALILGAEGKGLR 241
ALEH+ +KM ++ F L++ E+ D +A IL G R
Sbjct: 125 ALEHVVICETEEDDPHTEKMKTFTDF----LAAGDPAERAPEVDPDDVADILFTSGTTGR 180
Query: 242 PKTQETATSMAHLHMPGIIKALNVSNAAAVALY 274
PK + H +SNAA A Y
Sbjct: 181 PK----GAMLTH--------RQLLSNAADWAEY 201
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
0.316 0.130 0.369
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 4,403,797
Number of extensions: 271314
Number of successful extensions: 551
Number of sequences better than 10.0: 1
Number of HSP's gapped: 543
Number of HSP's successfully gapped: 21
Length of query: 282
Length of database: 5,994,473
Length adjustment: 92
Effective length of query: 190
Effective length of database: 4,006,537
Effective search space: 761242030
Effective search space used: 761242030
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (25.7 bits)