RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780219|ref|YP_003064632.1| hypothetical protein
CLIBASIA_00520 [Candidatus Liberibacter asiaticus str. psy62]
(117 letters)
>gnl|CDD|181932 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase
complex subunit alpha/beta; Reviewed.
Length = 711
Score = 29.1 bits (66), Expect = 0.28
Identities = 14/29 (48%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 76 MESELKELLSDILLKR-----HPDEIDKI 99
M ELKE L D L R PD DKI
Sbjct: 653 MPKELKEELKDRLNARAKEEGLPDFYDKI 681
>gnl|CDD|182706 PRK10760, PRK10760, murein hydrolase B; Provisional.
Length = 359
Score = 28.9 bits (65), Expect = 0.33
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 9 LFPLLALLGSCDDNPKDPIVQ 29
L PL LL +C PK
Sbjct: 9 LLPLFVLLAACSSKPKPTETA 29
>gnl|CDD|162980 TIGR02706, P_butyryltrans, phosphate butyryltransferase. Members
of this family are phosphate butyryltransferase, also
called phosphotransbutyrylase. In general, this enzyme
is found in butyrate-producing anaerobic bacteria,
encoded next to the gene for butyrate kinase. Together,
these two enzymes represent what may be the less common
of two pathways for butyrate production from
butyryl-CoA. The alternative is transfer of the CoA
group to acetate by butyryl-CoA:acetate CoA transferase.
Cutoffs for this model are set such that the homolog
from Thermotoga maritima, whose activity on butyryl-CoA
is only 30 % of its activity with acetyl-CoA, scores in
the zone between trusted and noice cutoffs.
Length = 294
Score = 27.0 bits (60), Expect = 1.1
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 44 LSDALFKTYPDTMDKINTVQTALRNLH 70
L+DA F TYP+ DK+ + A++ H
Sbjct: 135 LTDAAFNTYPELKDKVQIINNAVKVAH 161
>gnl|CDD|178756 PLN03217, PLN03217, transcription factor ATBS1; Provisional.
Length = 93
Score = 27.1 bits (59), Expect = 1.2
Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 7/67 (10%)
Query: 20 DDNPKDPIVQFKQMKYESQESKKSLSDALFKTYPDTMDKINTVQTALRNLHNAISKMESE 79
+D D I++ +Q+ E ++S++S + + DT + I RNLH + +
Sbjct: 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYI-------RNLHREVDDLSER 71
Query: 80 LKELLSD 86
L ELL++
Sbjct: 72 LSELLAN 78
>gnl|CDD|180035 PRK05354, PRK05354, arginine decarboxylase; Provisional.
Length = 634
Score = 26.6 bits (60), Expect = 1.4
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 5/33 (15%)
Query: 68 NLHNAISKMESELKELLSDILLKRHPDEIDKIN 100
L+ AI + ++++LL RHP E+D++
Sbjct: 426 QLYWAICR---KIQKLLDP--KNRHPPELDELQ 453
>gnl|CDD|184892 PRK14898, PRK14898, DNA-directed RNA polymerase subunit A'';
Provisional.
Length = 858
Score = 26.4 bits (58), Expect = 1.6
Identities = 9/40 (22%), Positives = 22/40 (55%)
Query: 72 AISKMESELKELLSDILLKRHPDEIDKINPIKNSANEISK 111
++ + EL++L + + PD ID I I ++ ++++
Sbjct: 410 SVGERGDELEDLATSLDSDGTPDSIDMIPSIGDALTKLAE 449
>gnl|CDD|149105 pfam07851, TMPIT, TMPIT-like protein. A number of members of
this family are annotated as being transmembrane
proteins induced by tumour necrosis factor alpha, but
no literature was found to support this.
Length = 330
Score = 26.2 bits (58), Expect = 1.7
Identities = 8/52 (15%), Positives = 19/52 (36%)
Query: 29 QFKQMKYESQESKKSLSDALFKTYPDTMDKINTVQTALRNLHNAISKMESEL 80
+ + ++ SL P+ + + ++ ++ N MES L
Sbjct: 40 AIARQRKRLKQLIVSLKKLKKSLTPEDSELVEQLEEQIKERKNQFFDMESFL 91
>gnl|CDD|183689 PRK12697, flgH, flagellar basal body L-ring protein; Reviewed.
Length = 226
Score = 26.4 bits (58), Expect = 1.9
Identities = 7/18 (38%), Positives = 9/18 (50%)
Query: 12 LLALLGSCDDNPKDPIVQ 29
A L C P++PI Q
Sbjct: 16 AAAALAGCAQIPREPITQ 33
>gnl|CDD|180565 PRK06450, PRK06450, threonine synthase; Validated.
Length = 338
Score = 26.2 bits (58), Expect = 2.1
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 29 QFKQMKYESQESKKSLSDALFKTYPDTMDKINTVQTALRNLHNAISKMESELKE 82
+FK + Y + S++DAL T P +D + L I ++E+ E
Sbjct: 245 KFKGISYTPPDKVTSIADALVSTRPFLLDYMVKA---LSEYGECIVVSDNEIVE 295
>gnl|CDD|178561 PLN02980, PLN02980, 2-oxoglutarate decarboxylase/ hydro-lyase/
magnesium ion binding / thiamin pyrophosphate binding.
Length = 1655
Score = 26.0 bits (57), Expect = 2.4
Identities = 11/46 (23%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 33 MKYESQESKKSLSDALFKTYPDTMDKINTVQTALR---NLHNAISK 75
+++ +K L DALF + + MD + V++++ H+ + K
Sbjct: 857 VRHLHVGTKSELEDALFTSQVEQMDCVVEVESSIDANAAFHSTLRK 902
>gnl|CDD|182409 PRK10361, PRK10361, DNA recombination protein RmuC; Provisional.
Length = 475
Score = 25.7 bits (56), Expect = 2.9
Identities = 13/61 (21%), Positives = 33/61 (54%), Gaps = 1/61 (1%)
Query: 57 DKINTVQTALRNLHNAISKMESELKELLSDILLKRHPDEIDKINPIKNSANEISKLKEDL 116
+ + +R+L + + +E++L+E+ + + + + DKI + NS +S+ E+L
Sbjct: 60 AECELLNNEVRSLQSINTSLEADLREVTTRMEAAQQHAD-DKIRQMINSEQRLSEQFENL 118
Query: 117 S 117
+
Sbjct: 119 A 119
>gnl|CDD|163583 TIGR03871, ABC_peri_MoxJ_2, quinoprotein dehydrogenase-associated
probable ABC transporter substrate-binding protein.
This protein family, a sister family to TIGR03870, is
found more broadly. It occurs a range of
PQQ-biosynthesizing species, not just in known
methanotrophs. Interpretation of evidence by homology
and by direct experimental work suggest two different
roles. By homology, this family appears to be the
periplasmic substrate-binding protein of an ABC
transport family. However, mutational studies and direct
characterization for some sequences related to this
family suggests this family may act as a maturation
chaperone or additional subunit of a methanol
dehydrogenase-like enzyme.
Length = 232
Score = 25.7 bits (57), Expect = 3.1
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 72 AISKMESELKELLSDILLKRHPDEIDKI 99
+ K + K+ L+ +L +R EID I
Sbjct: 197 GVRKGDKAWKDELNAVLDRRQA-EIDAI 223
>gnl|CDD|180267 PRK05805, PRK05805, phosphate butyryltransferase; Validated.
Length = 301
Score = 25.4 bits (56), Expect = 3.7
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 44 LSDALFKTYPDTMDKINTVQTA 65
L+DA F PD +KI+ + A
Sbjct: 139 LTDAAFNIAPDLKEKIDIINNA 160
>gnl|CDD|178059 PLN02440, PLN02440, amidophosphoribosyltransferase.
Length = 479
Score = 25.4 bits (56), Expect = 3.8
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 71 NAISKMESELKELLSDILLKRHPDEIDKINPIKNS 105
S ES L+ +IL P + D + P+ +S
Sbjct: 253 FGRSVYESRLE--FGEILATEIPVDCDVVIPVPDS 285
>gnl|CDD|184948 PRK14986, PRK14986, glycogen phosphorylase; Provisional.
Length = 815
Score = 25.2 bits (55), Expect = 4.4
Identities = 16/62 (25%), Positives = 31/62 (50%), Gaps = 10/62 (16%)
Query: 47 ALFKTYPDTMDKINTV-----QTALRNLHNAISKMESELKELLSDILLKRHPDEIDKINP 101
A +++Y D DK++ + + + + N I+ M SD +K + DEI I+P
Sbjct: 758 ADYRSYVDCQDKVDELYRNQEEWTRKAMLN-IANM----GYFSSDRTIKEYADEIWHIDP 812
Query: 102 IK 103
++
Sbjct: 813 VR 814
>gnl|CDD|181903 PRK09490, metH, B12-dependent methionine synthase; Provisional.
Length = 1229
Score = 24.8 bits (55), Expect = 5.1
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 77 ESELKELLSDILLKRHPD 94
EL+E + D++L R PD
Sbjct: 612 PPELREAVEDVVLNRRPD 629
>gnl|CDD|179223 PRK01109, PRK01109, ATP-dependent DNA ligase; Provisional.
Length = 590
Score = 24.5 bits (54), Expect = 5.8
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 5/38 (13%)
Query: 67 RNLHNAISKMES-----ELKELLSDILLKRHPDEIDKI 99
L ++E +L +LL+D+L K P+ IDK+
Sbjct: 4 SELAEYFERLEKTTSRTQLTKLLADLLKKTPPEIIDKV 41
>gnl|CDD|162917 TIGR02550, flagell_flgL, flagellar hook-associated protein 3. This
protein family consists of flagellar hook-associated
proteins designated FlgL (or HAP3) encoded in bacterial
flagellar operons. A N-terminal region of about 150
residues and a C-terminal region of about 85 residues
are conserved. Members show considerable length
heterogeneity between these two well-conserved terminal
regions; members of the family vary between 287 to over
500 residues in length. This model distinguishes FlgL
from the flagellin gene product FliC.
Length = 306
Score = 24.6 bits (54), Expect = 6.1
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 37 SQESKKSLSDALFKTYPDTMDKINTVQT-------ALRNLHNAISKMESELKELLSDI 87
S ++ A +D + + + L NL N +S+ + +L E+LSD+
Sbjct: 211 SSGDAQAALSASLNELDKALDNVLSARAEVGARLNRLENLENRLSEQKLQLTEVLSDL 268
>gnl|CDD|117853 pfam09311, Rab5-bind, Rab5 binding. Members of this family are
predominantly found in Rabaptin and allow for binding to
the GTPase Rab5. This interaction is necessary and
sufficient for Rab5-dependent recruitment of Rabaptin5
to early endosomal membranes.
Length = 180
Score = 24.3 bits (53), Expect = 8.6
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 64 TALRNLHNAISKMESELKELLSDILLK 90
LR LHN + + ES+ + ++ L K
Sbjct: 137 ARLRTLHNLVIQYESQGRYEVAVPLCK 163
>gnl|CDD|181571 PRK08870, flgL, flagellar hook-associated protein FlgL; Reviewed.
Length = 404
Score = 24.1 bits (53), Expect = 9.2
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 59 INTVQTALRNLHNAISKM 76
N + ALRNL NA++ +
Sbjct: 314 QNALAQALRNLDNALNNV 331
>gnl|CDD|152058 pfam11622, DUF3251, Protein of unknown function (DUF3251). This
family of proteins with unknown function appears to be
restricted to Enterobacteriaceae. Some members if this
family are annotated as putative lipoprotein YajI
however this cannot be confirmed.
Length = 156
Score = 24.0 bits (52), Expect = 9.4
Identities = 7/21 (33%), Positives = 12/21 (57%)
Query: 63 QTALRNLHNAISKMESELKEL 83
Q+ + LH ++S + EL L
Sbjct: 3 QSEVPQLHQSVSTLNQELTTL 23
>gnl|CDD|180531 PRK06330, PRK06330, transcript cleavage factor/unknown domain
fusion protein; Validated.
Length = 718
Score = 23.9 bits (52), Expect = 9.4
Identities = 32/119 (26%), Positives = 57/119 (47%), Gaps = 28/119 (23%)
Query: 21 DNPKDP-IVQFKQMKYESQESKKSLSDALFKTYPDTMDKINTVQTALRNLHNAISKMES- 78
D+ KDP +++ K + +ESQ ++SLS + D KI T+ T +R+LH+ + E+
Sbjct: 267 DSLKDPYVLRPKGLSHESQ-LERSLSGST-----DVDKKIQTIYTFVRDLHSELKNEENR 320
Query: 79 ----------ELKELLSDILLKRH----------PDEIDKINPIKNSANEISKLKEDLS 117
+L+EL S +LL+R E+D N S ++I + ++
Sbjct: 321 KSLIKKLQDLDLEELNSALLLQRALLLSEFLGEKSSELDCENIASLSEDQIEDIVNNIE 379
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
0.315 0.132 0.361
Gapped
Lambda K H
0.267 0.0751 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,833,160
Number of extensions: 99220
Number of successful extensions: 243
Number of sequences better than 10.0: 1
Number of HSP's gapped: 242
Number of HSP's successfully gapped: 66
Length of query: 117
Length of database: 5,994,473
Length adjustment: 81
Effective length of query: 36
Effective length of database: 4,244,225
Effective search space: 152792100
Effective search space used: 152792100
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: 42 (22.0 bits)
S2: 50 (23.0 bits)