RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780410|ref|YP_003064823.1| hypothetical protein
CLIBASIA_01475 [Candidatus Liberibacter asiaticus str. psy62]
(362 letters)
>gnl|CDD|180916 PRK07276, PRK07276, DNA polymerase III subunit delta'; Validated.
Length = 290
Score = 30.8 bits (70), Expect = 0.59
Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 295 LTTQGKFLEGLGIWQRAFSLMKQTARKDILLDSVKRLVSTSADKKSMGELFKILVV 350
L KFLE + +R +++ KD V RLV + +K+ ++ +L +
Sbjct: 197 LAQNKKFLELIDQAERFVTILL--KDKDEAYLQVARLVQLADEKEEQDQVLTLLTL 250
>gnl|CDD|152432 pfam11997, DUF3492, Domain of unknown function (DUF3492). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is typically between 259 to 282 amino acids
in length. This domain is found associated with
pfam00534. This domain has two conserved sequence
motifs: GGVS and EHGIY.
Length = 268
Score = 29.9 bits (68), Expect = 0.97
Identities = 11/21 (52%), Positives = 15/21 (71%), Gaps = 2/21 (9%)
Query: 167 FVMTEHGI--RERMIDIDQHD 185
++TEHGI RER I++ Q D
Sbjct: 199 LLLTEHGIYTRERKIELLQAD 219
>gnl|CDD|150552 pfam09892, DUF2119, Uncharacterized protein conserved in archaea
(DUF2119). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 193
Score = 29.3 bits (66), Expect = 1.5
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 89 RGIMMLDILRVICKLKPDFFSVLSIYMVETSERLT 123
+ M ILR+I K KPDF+ L Y E ++LT
Sbjct: 61 KSEMGKKILRLIEKYKPDFYFELHSYSKENYDKLT 95
>gnl|CDD|173552 PTZ00359, PTZ00359, hypothetical protein; Provisional.
Length = 443
Score = 29.0 bits (65), Expect = 1.8
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 7/41 (17%)
Query: 42 PFGAVGDFVTAPEISQIFGEMLAIFLICAWEQHGFPSCVRL 82
+GA+G T E+ +FG F+ICA + H F C+ L
Sbjct: 147 VYGAMG--FTGLELLAMFG-----FIICAMKTHCFGGCMTL 180
>gnl|CDD|129416 TIGR00316, cdhC, CO dehydrogenase/CO-methylating acetyl-CoA
synthase complex, beta subunit. Nomenclature follows
the description for Methanosarcina thermophila. The
CO-methylating acetyl-CoA synthase is considered the
defining enzyme of the Wood-Ljungdahl pathway, used for
acetate catabolism by sulfate reducing bacteria but for
acetate biosynthesis by acetogenic bacteria such as
oorella thermoacetica (f. Clostridium thermoaceticum).
Length = 458
Score = 29.1 bits (65), Expect = 2.0
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 300 KFLEGLGIWQRAFSLMKQTAR--KDILLDSVKRLVSTSADKKSMGELFKIL 348
KFL+ G W+R + K+ KD + + ++ ++T D K+ EL K L
Sbjct: 338 KFLQADGGWERVVWMPKELKERVKDAIPEDLRDKIATEEDAKTTDELRKFL 388
>gnl|CDD|150938 pfam10344, Fmp27, Mitochondrial protein from FMP27. This family
contains mitochondrial FMP27 proteins which in yeasts
together with SEN1 are long genes that exist in a looped
conformation, effectively bringing together their
promoter and terminator regions. Pol-II is located at
both ends of FMP27 when this gene is transcribed from a
GAL1 promoter under induced and non-induced conditions.
The exact function of the Fmp27 protein is not certain.
Length = 859
Score = 28.6 bits (64), Expect = 2.9
Identities = 18/87 (20%), Positives = 34/87 (39%), Gaps = 8/87 (9%)
Query: 261 VSPLVNPGQADLSSHVDFQRLSSIAILYKLYINGLTTQGKFLEGLGIWQRAFSLMKQTAR 320
VS L + L ++ ++ LY+++ + L + + F T +
Sbjct: 756 VSTLSDDSGPKLHLNLHIPKIDGQYSLYRVFC--------IIYALSLLKSFFGKPISTVK 807
Query: 321 KDILLDSVKRLVSTSADKKSMGELFKI 347
+ D +K L S S D K + EL +
Sbjct: 808 RPSTKDEIKSLSSISKDWKGLKELLTL 834
>gnl|CDD|181269 PRK08176, pdxK, pyridoxal-pyridoxamine
kinase/hydroxymethylpyrimidine kinase; Reviewed.
Length = 281
Score = 27.3 bits (61), Expect = 7.2
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 317 QTARKDILLDSVKRLVSTSADKKSMGELFKILVVSHEKVELM--PFV 361
A K +L D++K +V TSA + +++VV+ + V ++ P V
Sbjct: 178 IAAAKSLLSDTLKWVVITSAAGNEENQEMQVVVVTADSVNVISHPRV 224
>gnl|CDD|162909 TIGR02539, SepCysS, Sep-tRNA:Cys-tRNA synthase. Aminoacylation
of tRNA(Cys) with Cys, and cysteine biosynthesis in the
process, happens in Methanocaldococcus jannaschii and
several other archaea by misacylation of tRNA(Cys) with
O-phosphoserine (Sep), followed by modification of the
phosphoserine to cysteine. In some species, direct
tRNA-cys aminoacylation also occurs but this pathway is
required for Cys biosynthesis. Members of this protein
catalyze the second step in this two step pathway,
using pyridoxal phosphate and a sulfur donor to
synthesize Cys from Sep while attached to the tRNA.
Length = 370
Score = 27.1 bits (60), Expect = 7.3
Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 4 KLIRKIVNL--IKKNGQMTVDQYFALCVADPEFG-YYSTCNPFGAVGDFVTAPEISQIFG 60
+L R +NL +++ G +T AL EFG YS C+ G D +T P I F
Sbjct: 3 RLTRGSINLNPLQRGGVLTEAARKALV----EFGDGYSVCDFCGGRLDQITKPPIHD-FL 57
Query: 61 EMLAIFLIC 69
E LA FL
Sbjct: 58 EDLAEFLGM 66
>gnl|CDD|129953 TIGR00875, fsa_talC_mipB, fructose-6-phosphate aldolase, TalC/MipB
family. This model represents a family that includes
the E. coli transaldolase homologs TalC and MipB, both
shown to be fructose-6-phosphate aldolases rather than
transaldolases as previously thought. It is related to
but distinct from the transaldolase family of E. coli
TalA and TalB. The member from Bacillus subtilis becomes
phosphorylated during early stationary phase but not
during exponential growth.
Length = 213
Score = 27.1 bits (60), Expect = 7.4
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 252 LQAVKGHTYVSPLVNPGQADLSSHVDFQRLSSIAILYKLY 291
L A G TYVSP V G+ D + + + +++ +
Sbjct: 117 LAAKAGATYVSPFV--GRLDDIGGDGMKLIEEVKTIFENH 154
>gnl|CDD|129801 TIGR00718, sda_alpha, L-serine dehydratase, iron-sulfur-dependent,
alpha subunit. This enzyme is also called serine
deaminase. L-serine dehydratase converts serine into
pyruvate in the gluconeogenesis pathway from serine.
This model describes the alpha chain of an
iron-sulfur-dependent L-serine dehydratase, found in
Bacillus subtilis. A fairly deep split in a UPGMA tree
separates members of this family of alpha chains from
the homologous region of single chain forms such as
found in Escherichia coli. This family of enzymes is not
homologous to the pyridoxal phosphate-dependent
threonine deaminases and eukaryotic serine deaminases.
Length = 294
Score = 26.9 bits (59), Expect = 8.4
Identities = 9/51 (17%), Positives = 27/51 (52%)
Query: 294 GLTTQGKFLEGLGIWQRAFSLMKQTARKDILLDSVKRLVSTSADKKSMGEL 344
G T++ ++G +A++ ++ D + D++ + +T+ +MG++
Sbjct: 60 GDTSETGLIDGDAKKLQAYANSGKSISGDFIADAMAKAFATNEVNAAMGKI 110
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
0.324 0.140 0.417
Gapped
Lambda K H
0.267 0.0640 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,920,997
Number of extensions: 381885
Number of successful extensions: 771
Number of sequences better than 10.0: 1
Number of HSP's gapped: 771
Number of HSP's successfully gapped: 13
Length of query: 362
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 267
Effective length of database: 3,941,713
Effective search space: 1052437371
Effective search space used: 1052437371
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 (21.6 bits)
S2: 58 (26.3 bits)