RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780373|ref|YP_003064786.1| flagellar basal
body-associated protein FliL [Candidatus Liberibacter asiaticus str.
psy62]
(172 letters)
>gnl|CDD|181469 PRK08561, rps15p, 30S ribosomal protein S15P; Reviewed.
Length = 151
Score = 27.9 bits (63), Expect = 1.3
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 143 RYFKEDIEER-VKLRSQGFVSSVI 165
Y E+IEE V+L QG+ S+I
Sbjct: 27 DYSPEEIEELVVELAKQGYSPSMI 50
>gnl|CDD|181003 PRK07500, rpoH2, RNA polymerase factor sigma-32; Reviewed.
Length = 289
Score = 26.5 bits (59), Expect = 3.2
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 102 LDIALICKDIPDKVFLETLHQDIMAYIRTVSIKQITGAQGFRYFK 146
+A KD D+ + LH+ I A++R V I+ A FR F
Sbjct: 27 HALAYRWKDHRDE---DALHRIISAHMRLV----ISMAGKFRRFG 64
>gnl|CDD|181494 PRK08594, PRK08594, enoyl-(acyl carrier protein) reductase;
Provisional.
Length = 257
Score = 26.6 bits (59), Expect = 3.3
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 128 IRTVSIKQITGAQGFRYFKEDIEERVKLR 156
IRT+S K G GF ++IEER LR
Sbjct: 194 IRTLSAK---GVGGFNSILKEIEERAPLR 219
>gnl|CDD|147962 pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodiesterase.
Covalent intermediates between topoisomerase I and DNA
can become dead-end complexes that lead to cell death.
Tyrosyl-DNA phosphodiesterase can hydrolyse the bond
between topoisomerase I and DNA.
Length = 433
Score = 26.6 bits (59), Expect = 3.6
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 54 QKFILNNFYDNSVRSVHTGDTISLKKL 80
K +L YD R DTI+L+ +
Sbjct: 2 FKLVLTPIYDLKARVQENPDTITLEDI 28
>gnl|CDD|150247 pfam09508, Lact_bio_phlase, Lacto-N-biose phosphorylase. The gene
which codes for this protein in gut-bacteria is located
in a novel putative operon for galactose metabolism. The
protein appears to be a carbohydrate-processing
phosphorolytic enzyme (EC:2.4.1.211), unlike either
glycoside hydrolases or glycoside lyase. Intestinal
colonisation by bifidobacteria is important for human
health, especially in pediatrics, because colonisation
seems to prevent infection by some pathogenic bacteria
that cause diarrhoea or other illnesses. The operon
seems to be involved in intestinal colonisation by
bifidobacteria mediated by metabolism of mucin sugars.
In addition, it may also resolve the question of the
nature of the bifidus factor in human milk as the
lacto-N-biose structure found in milk oligosaccharides.
Length = 716
Score = 26.6 bits (59), Expect = 3.7
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 44 LFAGQKEEKYQKFILNNFY 62
L+A +EE+ K+ +N Y
Sbjct: 650 LWAAHQEEEMHKWYSSNVY 668
>gnl|CDD|152144 pfam11708, Slu7, Pre-mRNA splicing Prp18-interacting factor. The
spliceosome, an assembly of snRNAs (U1, U2, U4/U6, and
U5) and proteins, catalyses the excision of introns from
pre-mRNAs in two successive trans-esterification
reactions. Step 2 depends upon integral spliceosome
constituents such as U5 snRNA and Prp8 and
non-spliceosomal proteins Prp16, Slu7, Prp18, and Prp22.
ATP hydrolysis by the DEAH-box enzyme Prp16 promotes a
conformational change in the spliceosome that leads to
protection of the 3'ss from targeted RNase H cleavage.
This change, which probably reflects binding of the 3'ss
PyAG in the catalytic centre of the spliceosome,
requires the ordered recruitment of Slu7, Prp18, and
Prp22 to the spliceosome. There is a close functional
relationship between Prp8, Prp18, and Slu7, and Prp18
interacts with Slu7, so that together they recruit Prp22
to the spliceosome. Most members of the family carry a
zinc-finger of the CCHC-type upstream of this domain.
Length = 236
Score = 25.5 bits (56), Expect = 6.7
Identities = 8/22 (36%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 63 DNSVRSVHTGDTISLKKLQIFS 84
DN VR +G+ + ++LQ F+
Sbjct: 119 DNFVRL--SGEALEFEELQKFA 138
>gnl|CDD|179246 PRK01209, cobD, cobalamin biosynthesis protein; Provisional.
Length = 312
Score = 25.5 bits (57), Expect = 7.1
Identities = 3/32 (9%), Positives = 13/32 (40%)
Query: 18 LFVTWFVVYTFIGIFCGWLGGIVMLFLFAGQK 49
+ W ++ ++ G +++L+ +
Sbjct: 65 GLLAWLLLALAARLWLGVALEVLLLYTALAGR 96
>gnl|CDD|182113 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 25.3 bits (56), Expect = 7.3
Identities = 25/109 (22%), Positives = 34/109 (31%), Gaps = 25/109 (22%)
Query: 22 WFVVYTFIGIFCGWLGGIVMLFLF--------AGQKEEKYQKFILNNFYDNSVRSVHTGD 73
WF ++ F L F+F G K K Q+FI + D S D
Sbjct: 126 WFALHLLEKEF--QLSDSGKSFIFNMSVGYDLEGIKSPKMQQFI-DGMMDAS-------D 175
Query: 74 TISLKKLQIF-SLQPIITNFDSSPKDWLRLDIALICKDIPDKVFLETLH 121
T IF + + R + I I V L T+H
Sbjct: 176 T------PIFAECRETLNKLLDDFAFLAREGLERIPPSICPSVTLSTMH 218
>gnl|CDD|149487 pfam08440, Poty_PP, Potyviridae polyprotein. This domain is found
in polyproteins of the viral Potyviridae taxon.
Length = 274
Score = 25.2 bits (56), Expect = 7.8
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 104 IALICKDIPDKVFLETLHQDIMAYIRTVSIKQITGA 139
I KD+PDK++ E L + ++ Y +++ A
Sbjct: 107 IPFYVKDVPDKLY-EKLWEAVLKYKPDAGFGRLSSA 141
>gnl|CDD|183107 PRK11376, hlyE, hemolysin E; Provisional.
Length = 303
Score = 25.4 bits (55), Expect = 8.4
Identities = 18/71 (25%), Positives = 30/71 (42%)
Query: 14 NQHKLFVTWFVVYTFIGIFCGWLGGIVMLFLFAGQKEEKYQKFILNNFYDNSVRSVHTGD 73
+Q K F VY + G+ L ++LF +K+ QK IL D+ + ++
Sbjct: 72 SQDKYFEATQTVYEWCGVATQLLAAYILLFDEYNEKKASAQKDILIKVLDDGITKLNEAQ 131
Query: 74 TISLKKLQIFS 84
L Q F+
Sbjct: 132 KSLLVSSQSFN 142
>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4;
Provisional.
Length = 915
Score = 25.3 bits (55), Expect = 8.9
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 47 GQKEEKYQKFILNNFYDNSVRSVHTGDTISLKKLQIFSLQPIITN 91
G+ K + I N YD+ + SV TGD +++ + I + PI T+
Sbjct: 338 GEIYMKDNEVINLNLYDDLIDSVKTGDRVTV--VGILKVTPIRTS 380
>gnl|CDD|178121 PLN02505, PLN02505, omega-6 fatty acid desaturase.
Length = 381
Score = 25.0 bits (55), Expect = 9.5
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 87 PIITNFDSSPKDWLRLDIALICKD--IPDKVF 116
P + ++DSS DWLR +A + +D I +KVF
Sbjct: 277 PALPHYDSSEWDWLRGALATVDRDYGILNKVF 308
>gnl|CDD|179764 PRK04172, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Provisional.
Length = 489
Score = 25.2 bits (56), Expect = 9.9
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 136 ITGAQGFRY-FKEDIEERVKLRSQGFVSSV 164
TG++G+ Y + EDI +R+ LR+ S
Sbjct: 311 DTGSRGWGYKWDEDIAKRLVLRTHTTALSA 340
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
0.328 0.143 0.433
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: 2,839,084
Number of extensions: 172034
Number of successful extensions: 506
Number of sequences better than 10.0: 1
Number of HSP's gapped: 506
Number of HSP's successfully gapped: 29
Length of query: 172
Length of database: 5,994,473
Length adjustment: 87
Effective length of query: 85
Effective length of database: 4,114,577
Effective search space: 349739045
Effective search space used: 349739045
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (24.5 bits)