RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781040|ref|YP_003065453.1| hypothetical protein
CLIBASIA_04710 [Candidatus Liberibacter asiaticus str. psy62]
(143 letters)
>gnl|CDD|179133 PRK00809, PRK00809, hypothetical protein; Provisional.
Length = 144
Score = 36.5 bits (85), Expect = 0.003
Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 14/81 (17%)
Query: 1 MAYWLVKSEPSEWSWKMQQDKGRVGEAWTGVRNYQARNNMRKMRVGDKGFFYHSN----- 55
M YWL + E +W++ +DK W GV + +N + K++ GDK Y S
Sbjct: 1 MTYWLCITN--EDNWEVIKDKN----VW-GV-PERYKNTIEKVKPGDKLIIYVSQEYGAE 52
Query: 56 -KGREIVGIFEVITCTYPDPT 75
+IVGI+EV++ Y D T
Sbjct: 53 RLPGKIVGIYEVVSEWYEDST 73
>gnl|CDD|132358 TIGR03315, Se_ygfK, putative selenate reductase, YgfK subunit.
Members of this protein family are YgfK, predicted to be
one subunit of a three-subunit, molybdopterin-containing
selenate reductase. This enzyme is found, typically, in
genomic regions associated with xanthine dehydrogenase
homologs predicted to belong to the selenium-dependent
molybdenum hydroxylases (SDMH). Therefore, the selenate
reductase is suggested to play a role in furnishing
selenide for SelD, the selenophosphate synthase.
Length = 1012
Score = 27.4 bits (61), Expect = 1.3
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 73 DPTAEQSSCWECVDICAVCSMPCP 96
P E C EC +C C CP
Sbjct: 875 FPEQESQRCLECSYVCEKCVDVCP 898
>gnl|CDD|150586 pfam09930, DUF2162, Predicted transporter (DUF2162). Members of
this family of bacterial proteins are thought to be
membrane transporters, but their exact function has not,
as yet, been elucidated.
Length = 228
Score = 26.9 bits (60), Expect = 1.8
Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 88 CAVCSMPCPVSLMAIKANPRLSSMILIVSSRLSVQPVTTDEYLEVC 133
S PCPV L A+ + I++++ L + PV + +
Sbjct: 101 FLAMSAPCPVCLGAVILS------IMLLAPSLGLSPVALGLVVGLA 140
>gnl|CDD|162660 TIGR02013, rpoB, DNA-directed RNA polymerase, beta subunit. This
model describes orthologs of the beta subunit of
Bacterial RNA polymerase. The core enzyme consists of
two alpha chains, one beta chain, and one beta' subunit.
Length = 1065
Score = 26.2 bits (58), Expect = 3.1
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 31 VRNYQARNNMRKMRVGDKGFFYHSNKG 57
V+ Y A+ RK++VGDK H NKG
Sbjct: 827 VKVYIAQK--RKIQVGDKMAGRHGNKG 851
>gnl|CDD|179919 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 26.1 bits (58), Expect = 3.4
Identities = 11/30 (36%), Positives = 14/30 (46%), Gaps = 5/30 (16%)
Query: 71 YPDPTAEQSSCWECVDICAVCSMPCPVSLM 100
P P EQ C+ C C+ CP SL+
Sbjct: 363 LPPPPPEQP----CIR-CGACADACPASLL 387
>gnl|CDD|132422 TIGR03379, glycerol3P_GlpC, glycerol-3-phosphate dehydrogenase,
anaerobic, C subunit. Members of this protein family
are the membrane-anchoring, non-catalytic C subunit,
product of the glpC gene, of a three-subunit,
FAD-dependent, anaerobic glycerol-3-phosphate
dehydrogenase. GlpC lasks classical hydrophobic
transmembrane helices; Cole, et al suggest interaction
with the membrane may involve amphipathic helices. GlcC
has conserved Cys-containing motifs suggestive of
iron-sulfur binding. This complex is found mostly in
Escherichia coli and closely related species.
Length = 397
Score = 25.9 bits (57), Expect = 4.4
Identities = 10/19 (52%), Positives = 13/19 (68%), Gaps = 4/19 (21%)
Query: 88 CAVCSMPCPVSLMAIKANP 106
C VC++ CPV+ KANP
Sbjct: 10 CTVCTVYCPVA----KANP 24
>gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit
beta/beta'; Reviewed.
Length = 2890
Score = 25.7 bits (56), Expect = 4.9
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 41 RKMRVGDKGFFYHSNKG 57
RK++VGDK H NKG
Sbjct: 1086 RKLKVGDKMAGRHGNKG 1102
>gnl|CDD|183966 PRK13309, ureC, urease subunit alpha; Reviewed.
Length = 572
Score = 25.6 bits (56), Expect = 5.3
Identities = 11/26 (42%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 19 QDKGRVGEAWTGVRNYQARNNMRKMR 44
Q GRVGE W +R Q + M+ R
Sbjct: 367 QAMGRVGENW--LRAIQTADAMKAAR 390
>gnl|CDD|149365 pfam08269, Cache_2, Cache domain.
Length = 95
Score = 25.3 bits (56), Expect = 5.5
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 35 QARNNMRKMRVGDKGFFY 52
QA+ +R +R G+F+
Sbjct: 43 QAKALLRALRYDGDGYFF 60
>gnl|CDD|162872 TIGR02470, sucr_synth, sucrose synthase. This model represents
sucrose synthase, an enzyme that, despite its name,
generally uses rather produces sucrose. Sucrose plus UDP
(or ADP) becomes D-fructose plus UDP-glucose (or
ADP-glucose), which is then available for cell wall (or
starch) biosynthesis. The enzyme is homologous to
sucrose phosphate synthase, which catalyzes the
penultimate step in sucrose synthesis. Sucrose synthase
is found, so far, exclusively in plants and
cyanobacteria.
Length = 784
Score = 25.4 bits (56), Expect = 6.1
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 96 PVSLMAIKANPRLSSMILIVSSRLSVQPVTTDEYLEVC 133
P +A++ + + + LSV+ +T EYL+
Sbjct: 61 PWVALAVRPRIGVWEYVRVNVEELSVEELTISEYLDFK 98
>gnl|CDD|177740 PLN00129, PLN00129, succinate dehydrogenase [ubiquinone]
iron-sulfur subunit.
Length = 276
Score = 25.1 bits (55), Expect = 6.2
Identities = 8/15 (53%), Positives = 11/15 (73%), Gaps = 1/15 (6%)
Query: 82 WECVDICAVCSMPCP 96
+EC+ +CA CS CP
Sbjct: 187 YECI-LCACCSTSCP 200
>gnl|CDD|185649 PTZ00470, PTZ00470, glycoside hydrolase family 47 protein;
Provisional.
Length = 522
Score = 25.1 bits (55), Expect = 7.0
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 12 EWSWKMQQ---DKGRVGEAWTGVRNYQA 36
EW+WK+ Q + ++G++N
Sbjct: 444 EWAWKIFQAIEKHCKTENGYSGLKNVLT 471
>gnl|CDD|182113 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 24.6 bits (54), Expect = 9.0
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 77 EQSSCWECVDICAVCSMPCP 96
E + C EC +C C CP
Sbjct: 884 EAARCLECNYVCEKCVDVCP 903
>gnl|CDD|181782 PRK09331, PRK09331, Sep-tRNA:Cys-tRNA synthetase; Provisional.
Length = 387
Score = 24.5 bits (54), Expect = 9.2
Identities = 7/15 (46%), Positives = 7/15 (46%)
Query: 50 FFYHSNKGREIVGIF 64
F Y K R I GI
Sbjct: 335 FLYEELKKRGIHGIK 349
>gnl|CDD|118696 pfam10168, Nup88, Nuclear pore component. Nup88 can be divided
into two structural domains; the N-terminal two-thirds
of the protein has no obvious structural motifs but is
the region for binding to Nup98, one of the components
of the nuclear pore. the C-terminal end is a predicted
coiled-coil domain. Nup88 is overexpressed in tumour
cells.
Length = 717
Score = 24.5 bits (53), Expect = 9.6
Identities = 14/56 (25%), Positives = 18/56 (32%), Gaps = 16/56 (28%)
Query: 63 IFEVITCTYPDPTAEQSSCWECVDICAVCSMPCPVSLMAIKANPRLSSMILIVSSR 118
I E I CT P C +P PV I + + MI I +
Sbjct: 424 IVEHILCTKPLS----------------CELPNPVRGFWILQDLLGAGMICITGTY 463
>gnl|CDD|150558 pfam09899, DUF2126, Putative amidoligase enzyme (DUF2126). Members
of this family of bacterial domains are predominantly
found in transglutaminase and transglutaminase-like
proteins. Their exact function is, as yet, unknown, but
they are likely to act as amidoligase enzymes Protein in
this family are found in conserved gene neighborhoods
encoding a glutamine amidotransferase-like thiol
peptidase (in proteobacteria) or an Aig2 family
cyclotransferase protein (in firmicutes).
Length = 817
Score = 24.5 bits (54), Expect = 9.9
Identities = 9/16 (56%), Positives = 10/16 (62%), Gaps = 1/16 (6%)
Query: 22 GRVGEAWTGVRNYQAR 37
G GEA GVR Y+A
Sbjct: 713 GTPGEAVAGVR-YRAW 727
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
0.320 0.133 0.433
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,262,005
Number of extensions: 121177
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 230
Number of HSP's successfully gapped: 22
Length of query: 143
Length of database: 5,994,473
Length adjustment: 84
Effective length of query: 59
Effective length of database: 4,179,401
Effective search space: 246584659
Effective search space used: 246584659
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.0 bits)