RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780400|ref|YP_003064813.1| hypothetical protein
CLIBASIA_01425 [Candidatus Liberibacter asiaticus str. psy62]
(71 letters)
>gnl|CDD|150527 pfam09866, DUF2093, Uncharacterized protein conserved in bacteria
(DUF2093). This domain, found in various hypothetical
prokaryotic proteins, has no known function.
Length = 42
Score = 71.9 bits (177), Expect = 4e-14
Identities = 22/42 (52%), Positives = 34/42 (80%)
Query: 21 IIRPGTYVVCAITGQRIPLKKLCYWSVDRQVPYANAEASFEA 62
++ PG++V+CA+TG+ IPL +L YWSV+RQ YA+AEA+ +
Sbjct: 1 VLSPGSFVLCAVTGEPIPLDELRYWSVERQEAYASAEAALQR 42
>gnl|CDD|178481 PLN02893, PLN02893, Cellulose synthase-like protein.
Length = 734
Score = 26.2 bits (58), Expect = 2.0
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 3 NKVDENEASIRYKDGTFE 20
+KV + E S RY+ G FE
Sbjct: 625 SKVVDEEQSKRYEQGIFE 642
>gnl|CDD|184106 PRK13516, PRK13516, gamma-glutamyl:cysteine ligase; Provisional.
Length = 373
Score = 26.0 bits (58), Expect = 2.3
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 25 GTYVVCAITGQRIPLKKLCYWSVDRQVPYANAEASFEA 62
G V TG+R PL + ++DR P+A A + A
Sbjct: 294 GVLVD-PATGERRPLAEDILRTLDRIAPHAEALGASSA 330
>gnl|CDD|181228 PRK08097, ligB, NAD-dependent DNA ligase LigB; Reviewed.
Length = 562
Score = 26.0 bits (58), Expect = 2.3
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 22 IRPGTYVVCAITGQRIP-LKKLCYWSVDRQVPYANAEASFEA 62
I PG V+ ++ GQ IP L K+ + +R P F +
Sbjct: 360 IAPGDQVLVSLAGQGIPRLDKVVWRGAERTKPTPPDADRFHS 401
>gnl|CDD|116083 pfam07462, MSP1_C, Merozoite surface protein 1 (MSP1) C-terminus.
This family represents the C-terminal region of
merozoite surface protein 1 (MSP1) which are found in a
number of Plasmodium species. MSP-1 is a 200-kDa protein
expressed on the surface of the P. vivax merozoite.
MSP-1 of Plasmodium species is synthesized as a
high-molecular-weight precursor and then processed into
several fragments. At the time of red cell invasion by
the merozoite, only the 19-kDa C-terminal fragment
(MSP-119), which contains two epidermal growth
factor-like domains, remains on the surface. Antibodies
against MSP-119 inhibit merozoite entry into red cells,
and immunisation with MSP-119 protects monkeys from
challenging infections. Hence, MSP-119 is considered a
promising vaccine candidate.
Length = 574
Score = 25.3 bits (55), Expect = 3.8
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 33 TGQRIPLKKLCYWSVDRQVPYANAEASFEAEKISGKI 69
TG+ +PLK L S+ R+ Y N E ++ G++
Sbjct: 165 TGEAVPLKTLSEVSIQREDNYLNLEKFRVLSRLEGRL 201
>gnl|CDD|184796 PRK14701, PRK14701, reverse gyrase; Provisional.
Length = 1638
Score = 24.5 bits (53), Expect = 6.2
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 35 QRIPLKKLCYWSVDRQVPYANAEASFEAEKISGKIP 70
+ IPLK L W+V+ A+A + S KIP
Sbjct: 1045 RVIPLKYLIEWNVNLDEVEREAKAIYRQRAGSKKIP 1080
>gnl|CDD|172296 PRK13758, PRK13758, anaerobic sulfatase-maturase; Provisional.
Length = 370
Score = 24.5 bits (53), Expect = 6.6
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 5 VDENEASIRYKDGTFEIIRPGTYVVCAITG 34
++ N SIRY DG E I G C + G
Sbjct: 230 LNGNRVSIRYFDGLLETILLGKSSSCGMNG 259
>gnl|CDD|129639 TIGR00548, lolB, outer membrane lipoprotein LolB. This protein,
LolB, is known so far only in the gamma and beta
subdivisions of the Proteobacteria. It is a processed,
lipid-modified outer membrane protein. It is required in
E. coli for insertion of the major outer lipoprotein
(Lpp) into the outer membrane. Lpp is transferred to
LolB from the carrier protein LolA in the periplasm.
Previously, this protein was thought to play in role in
5-aminolevulinic acid synthesis and was designated HemM.
Length = 202
Score = 24.2 bits (52), Expect = 7.5
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 32 ITGQRIPLKKLCYWSVDRQVPYANAEASFEAEKISGKIPY 71
G R+PL L +W R +P +++ + Y
Sbjct: 121 TLGMRLPLSHLLWWV--RGLPAPDSDYRLTLDADLRLATY 158
>gnl|CDD|131473 TIGR02420, dksA, RNA polymerase-binding protein DksA. The model
that is the basis for this family describes a small,
pleiotropic protein, DksA (DnaK suppressor A),
originally named as a multicopy suppressor of
temperature sensitivity of dnaKJ mutants. DksA mutants
are defective in quorum sensing, virulence, etc. DksA
is now understood to bind RNA polymerase directly and
modulate its response to small molecules to control the
level of transcription of rRNA. Nearly all members of
this family are in the Proteobacteria. Whether the
closest homologs outside the Proteobacteria function
equivalently is unknown. The low value set for the
noise cutoff allows identification of possible DksA
proteins from outside the proteobacteria. TIGR02419
describes a closely related family of short sequences
usually found in prophage regions of proteobacterial
genomes or in known phage.
Length = 110
Score = 24.1 bits (53), Expect = 7.6
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 16 DGTFEIIRPGTYVVCAITGQRIPLKKL 42
D + I G Y C G+ I L++L
Sbjct: 69 DEALKRIEDGEYGYCEECGEEIGLRRL 95
>gnl|CDD|163061 TIGR02890, spore_yteA, sporulation protein, yteA family. Members
of this predicted regulatory protein are found only in
endospore-forming members of the Firmicutes group of
bacteria, and in nearly every such species; Clostridium
perfringens seems to be an exception. The member from
Bacillus subtilis, the model system for the study of the
sporulation program, has been designated both yteA and
yzwB. Some (but not all) members of this family show a
strong sequence match to PFAM family pfam01258 the
C4-type zinc finger protein, DksA/TraR family, but only
one of the four key Cys residues is conserved. All
members of this protein family share an additional
C-terminal domain. The function of proteins in this
family is unknown. YteA was detected in mature spores of
Bacillus subtilis by Kuwana, et al., and appears to be
expressed under control of sigma-K.
Length = 159
Score = 24.2 bits (53), Expect = 7.7
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 22 IRPGTYVVCAITGQRIPLKKL 42
I GTY +C + G+ IP ++L
Sbjct: 81 IENGTYGICEVCGKPIPYERL 101
>gnl|CDD|181913 PRK09501, potD, spermidine/putrescine ABC transporter periplasmic
substrate-binding protein; Reviewed.
Length = 348
Score = 24.1 bits (52), Expect = 8.0
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 6/29 (20%)
Query: 1 MYNKVDENEASIRYKDGTFEIIRPGTYVV 29
MY K+ YKDG ++++ P TY V
Sbjct: 65 MYAKLKT------YKDGAYDLVVPSTYYV 87
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
0.318 0.136 0.412
Gapped
Lambda K H
0.267 0.0712 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,151,368
Number of extensions: 55621
Number of successful extensions: 109
Number of sequences better than 10.0: 1
Number of HSP's gapped: 109
Number of HSP's successfully gapped: 16
Length of query: 71
Length of database: 5,994,473
Length adjustment: 42
Effective length of query: 29
Effective length of database: 5,086,937
Effective search space: 147521173
Effective search space used: 147521173
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 (21.7 bits)
S2: 50 (23.1 bits)