RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780225|ref|YP_003064638.1| peptidyl-tRNA hydrolase
[Candidatus Liberibacter asiaticus str. psy62]
(189 letters)
>gnl|CDD|180073 PRK05426, PRK05426, peptidyl-tRNA hydrolase; Provisional.
Length = 189
Score = 245 bits (629), Expect = 4e-66
Identities = 90/186 (48%), Positives = 119/186 (63%), Gaps = 4/186 (2%)
Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRI-HSFHFFPAWKKKFHAEISEGQLDGLRTILI 59
M ++ GLGNPG EY RHNIGFM +D + KKKF I+EG+++G + IL+
Sbjct: 2 MKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILL 61
Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119
KPQT+MNLSG+++ + NFYK+P E+ LVIHDDLDL G +RLK GGG GHNGLKSI
Sbjct: 62 KPQTYMNLSGKAVAALANFYKIP-PEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSII 120
Query: 120 EKCG-KNYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKREDV 178
G +++ RLRIGIGR PD ++ +VLG FS E+ L ID A ++ LL +
Sbjct: 121 AHLGTQDFWRLRIGIGR-PDKKKVVDYVLGKFSKEEQELLDKAIDKAADAIELLLEGGFE 179
Query: 179 SFLNHI 184
+N
Sbjct: 180 KAMNKF 185
>gnl|CDD|129539 TIGR00447, pth, peptidyl-tRNA hydrolase. The natural substrate for
this enzyme may be peptidyl-tRNAs that drop off the
ribosome during protein synthesis. Peptidyl-tRNA
hydrolase is a bacterial protein; YHR189W from
Saccharomyces cerevisiae appears to be orthologous and
likely has the same function.
Length = 188
Score = 166 bits (423), Expect = 2e-42
Identities = 70/165 (42%), Positives = 96/165 (58%), Gaps = 3/165 (1%)
Query: 1 MFIVAGLGNPGHEYCENRHNIGFMCIDRIHS-FHFFPAWKKKFHAEISEGQLDGLRTILI 59
+ ++ GLGNPG +Y RHN GF +D + S +KKF G L G + IL+
Sbjct: 1 IKLIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILL 60
Query: 60 KPQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSIS 119
KP T+MNLSG+++ + +FY++ LV+HD+LDL G +RLK GGG GHNGLKSI
Sbjct: 61 KPLTYMNLSGEAVRALASFYRIKP-AELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSII 119
Query: 120 EKCGK-NYKRLRIGIGRPPDTAHIIRHVLGNFSSPERYFLLPIID 163
G N+ RLRIGIG P + ++ VL F+ E L +D
Sbjct: 120 SHLGTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLLEKALD 164
>gnl|CDD|182647 PRK10684, PRK10684, HCP oxidoreductase, NADH-dependent;
Provisional.
Length = 332
Score = 30.1 bits (68), Expect = 0.35
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 33 HFFPAWKKKFHAEISEGQLDGLR-TILIKPQTFMNLSGQSLLEVMNFYKLP 82
FF K+KF ++E GL T L + F G +LLE + K+P
Sbjct: 231 RFF---KEKFFTPVAEAATSGLTFTKLQPAREFYAPVGTTLLEALESNKVP 278
>gnl|CDD|149934 pfam09037, Sulphotransf, Stf0 sulphotransferase. Members of this
family are essential for the biosynthesis of
sulpholipid-1 in prokaryotes. They adopt a structure
that belongs to the sulphotransferase superfamily,
consisting of a single domain with a core four-stranded
parallel beta-sheet flanked by alpha-helices.
Length = 245
Score = 27.4 bits (61), Expect = 2.4
Identities = 24/90 (26%), Positives = 30/90 (33%), Gaps = 5/90 (5%)
Query: 61 PQTFMNLSGQSLLEVMNFYKLPNLENYLVIHDDLDLDFGTLRLKTGGGDAGHNGLKSISE 120
PQ F E LP LE + D L G G GLK +
Sbjct: 28 PQEFFQR--PQPREWAEGVGLP-LEPGTPDTEFADAYLQAA-LTRGRTPNGVFGLKLMWN 83
Query: 121 KCGKNYKRL-RIGIGRPPDTAHIIRHVLGN 149
+ G +RL + GR D I V G+
Sbjct: 84 QLGLLLQRLAHLYPGRSGDGLRDIEAVFGD 113
>gnl|CDD|180394 PRK06090, PRK06090, DNA polymerase III subunit delta'; Validated.
Length = 319
Score = 27.1 bits (60), Expect = 2.6
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 50 QLDGLRTILIKPQTFMNLSGQSLL 73
QL+G R +I+P MN S + L
Sbjct: 105 QLNGYRLFVIEPADAMNESASNAL 128
>gnl|CDD|184308 PRK13761, PRK13761, hypothetical protein; Provisional.
Length = 248
Score = 26.7 bits (60), Expect = 3.5
Identities = 6/16 (37%), Positives = 12/16 (75%)
Query: 159 LPIIDNIARSLPLLAK 174
+ I+DNI R++P + +
Sbjct: 191 ITIVDNITRAVPNMTE 206
>gnl|CDD|165505 PHA03246, PHA03246, large tegument protein UL36; Provisional.
Length = 3095
Score = 26.5 bits (58), Expect = 4.1
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 142 IIRHVLGNFSSPERYFLLPIIDNIARSLPLLAKRED---------VSFLNHIVSVR 188
I+RH + + + YFL+ I++ R++P LAK D FL + +R
Sbjct: 1515 ILRHASAHPGNLDYYFLVGEIESDLRAIPSLAKYVDFYRRGHDSFEGFLARLEQMR 1570
>gnl|CDD|180215 PRK05707, PRK05707, DNA polymerase III subunit delta'; Validated.
Length = 328
Score = 26.6 bits (59), Expect = 4.2
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 50 QLDGLRTILIKPQTFMNLSGQ-SLLEVM 76
QL G + +LI+P MN + +LL+ +
Sbjct: 103 QLGGRKVVLIEPAEAMNRNAANALLKSL 130
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 26.7 bits (59), Expect = 4.4
Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 123 GKNYKR--LRIGIGRPPDTAHIIRHVLGNFSSP 153
G N +R +GI RPP + S+P
Sbjct: 244 GVNVQRQPWAVGIVRPPSVDEVRAAAKSGKSAP 276
>gnl|CDD|178527 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 26.4 bits (58), Expect = 4.9
Identities = 16/48 (33%), Positives = 24/48 (50%)
Query: 37 AWKKKFHAEISEGQLDGLRTILIKPQTFMNLSGQSLLEVMNFYKLPNL 84
A ++K H EI E QL+ LR L+ L SL + ++ K N+
Sbjct: 189 AAQEKIHVEILEEQLEKLRNELLIRGATEGLCVHSLSKELDVLKEENM 236
>gnl|CDD|130386 TIGR01319, glmL_fam, conserved hypothetical protein. This small
family includes, so far, an uncharacterized protein from
E. coli O157:H7 and GlmL from Clostridium tetanomorphum
and Clostridium cochlearium. GlmL is located between the
genes for the two subunits, epsilon (GlmE) and sigma
(GlmS), of the coenzyme-B12-dependent glutamate mutase
(methylaspartate mutase), the first enzyme in a pathway
of glutamate fermentation. Members shows significant
sequence similarity to the hydantoinase branch of the
hydantoinase/oxoprolinase family (pfam01968).
Length = 463
Score = 25.8 bits (56), Expect = 7.4
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 4/33 (12%)
Query: 153 PERY----FLLPIIDNIARSLPLLAKREDVSFL 181
E Y +LP + +A P A R + L
Sbjct: 430 FEYYIDKRGILPALALLAEDDPDAAARIMIKCL 462
>gnl|CDD|181600 PRK08974, PRK08974, long-chain-fatty-acid--CoA ligase; Validated.
Length = 560
Score = 25.8 bits (57), Expect = 7.5
Identities = 12/28 (42%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 84 LENYLVIHDDL-DLDFGTLRLKTGGGDA 110
L N L+ +++ +LDF +L+L GGG A
Sbjct: 309 LFNALLNNEEFQELDFSSLKLSVGGGMA 336
>gnl|CDD|181538 PRK08699, PRK08699, DNA polymerase III subunit delta'; Validated.
Length = 325
Score = 25.6 bits (56), Expect = 7.9
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 53 GLRTILIKPQTFMNL-SGQSLLEVM 76
GLR ILI P MNL + SLL+V+
Sbjct: 113 GLRVILIHPAESMNLQAANSLLKVL 137
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
0.325 0.144 0.445
Gapped
Lambda K H
0.267 0.0547 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,260,287
Number of extensions: 205836
Number of successful extensions: 468
Number of sequences better than 10.0: 1
Number of HSP's gapped: 461
Number of HSP's successfully gapped: 19
Length of query: 189
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 101
Effective length of database: 4,092,969
Effective search space: 413389869
Effective search space used: 413389869
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: 54 (25.0 bits)