RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781204|ref|YP_003065617.1| hypothetical protein
CLIBASIA_05555 [Candidatus Liberibacter asiaticus str. psy62]
(707 letters)
>gnl|CDD|183426 PRK12309, PRK12309, transaldolase/EF-hand domain-containing
protein; Provisional.
Length = 391
Score = 32.4 bits (74), Expect = 0.46
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 15/67 (22%)
Query: 373 SNPSLSLASTMMATKYKEILEKSHRQSMQELNQDA--------------ISWGIKYKQID 418
+NPSL A+ M +Y+ I++++ RQ+ +EL DA +++G+K +I
Sbjct: 35 TNPSLITAAAQMP-QYQSIVDETLRQARKELGSDAPVEDVVALAFDRLAVAFGLKILKIV 93
Query: 419 PLRFDTE 425
P R TE
Sbjct: 94 PGRVSTE 100
>gnl|CDD|178490 PLN02902, PLN02902, pantothenate kinase.
Length = 876
Score = 31.8 bits (72), Expect = 0.59
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 4/66 (6%)
Query: 468 RPASESVDLIRGAYNTLSDSDKEGVRSSFAHIEDNGLSA----VVRLSSEFSDDAKNAAM 523
R A+E+ L+ A D K+ S + +NG + + ++SSE + AK+A +
Sbjct: 763 RRAAEAGGLLVDAMVNTDDGSKDDSTSVPLMVVENGCGSPCIDLRQVSSELAAAAKDADL 822
Query: 524 VILSGM 529
++L GM
Sbjct: 823 IVLEGM 828
>gnl|CDD|181758 PRK09287, PRK09287, 6-phosphogluconate dehydrogenase; Validated.
Length = 459
Score = 32.0 bits (74), Expect = 0.61
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 2/35 (5%)
Query: 362 KFLQKIDDEYISNPSLSLASTMMATKYKEILEKSH 396
+FLQKI D Y +NP LA+ ++ +K+ILE+
Sbjct: 358 QFLQKITDAYEANP--DLANLLLDPYFKDILEEYQ 390
>gnl|CDD|163162 TIGR03156, GTP_HflX, GTP-binding protein HflX. This protein family
is one of a number of homologous small, well-conserved
GTP-binding proteins with pleiotropic effects. Bacterial
members are designated HflX, following the naming
convention in Escherichia coli where HflX is encoded
immediately downstream of the RNA chaperone Hfq, and
immediately upstream of HflKC, a membrane-associated
protease pair with an important housekeeping function.
Over large numbers of other bacterial genomes, the
pairing with hfq is more significant than with hflK and
hlfC. The gene from Homo sapiens in this family has been
named PGPL (pseudoautosomal GTP-binding protein-like).
Length = 351
Score = 30.1 bits (69), Expect = 2.1
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 9/53 (16%)
Query: 240 DVSDSARERSLEVVEDVSKAIGLAG---------WDRLDDTKRRRLLEHLSSR 283
D SD RE +E VE V + +G D LD+ + RL E
Sbjct: 277 DASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPRIERLEEGYPEA 329
>gnl|CDD|162528 TIGR01776, TonB-tbp-lbp, TonB-dependent lactoferrin and transferrin
receptors. This family of TonB-dependent receptors are
responsible for import of iron from the mammalian iron
carriers lactoferrin and transferrin across the outer
membrane. These receptors are found only in bacteria
which can infect mammals such as Moraxella, Mannheimia,
Neisseria, Actinobacillus, Pasteurella, Haemophilus and
Histophilus species.
Length = 932
Score = 29.4 bits (66), Expect = 3.0
Identities = 9/26 (34%), Positives = 13/26 (50%)
Query: 103 YDRFLSSISHRDVRKKFQAQVEHDIR 128
YD+F S +S D R++ IR
Sbjct: 518 YDKFKSQLSRHDYRRQNAVGTYESIR 543
>gnl|CDD|178325 PLN02724, PLN02724, Molybdenum cofactor sulfurase.
Length = 805
Score = 29.1 bits (65), Expect = 4.6
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 355 MSTF-DAKKFLQKIDDEYISNPSLSLASTMMATK 387
MSTF D +KF+ I ++S P T+ + +
Sbjct: 469 MSTFEDCQKFIDFIISSFVSTPKKRGNVTLRSKR 502
>gnl|CDD|183531 PRK12447, PRK12447, histidinol dehydrogenase; Reviewed.
Length = 426
Score = 29.1 bits (66), Expect = 4.6
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 485 SDSD-KEGVRSSFAHIEDNGLSAVVRLSSEF 514
+DS +E V + A IE G +AV S +F
Sbjct: 18 TDSKVRETVEAILADIEARGDAAVREYSRKF 48
>gnl|CDD|162366 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD.
Length = 720
Score = 29.0 bits (65), Expect = 4.8
Identities = 29/152 (19%), Positives = 50/152 (32%), Gaps = 18/152 (11%)
Query: 286 ALNTKLRKETQAQARRIDAQLNHGITVKPSELIPLEDYTQAYGVEQGTELYNLQQFKSVA 345
ALN R A G T +P + ++Q L N+Q + +
Sbjct: 204 ALNDPRRITAGLVYSLQQACTEEGHT-----YLPRNRF-----IKQVVHLLNVQPQERLL 253
Query: 346 APDVARIKLMSTFDAKKFLQKIDDEYISNPSLSLASTMMATKYKEILEKSHRQSMQELNQ 405
P+ ++ + + K +D I PSL A +A+ + +L S +N
Sbjct: 254 VPEAVELERLYLDEEPKLAA--EDGRIYLPSLFRAEKQIASHIRRLLATSPAI--GAIND 309
Query: 406 DAISWGIKYKQIDPLRFDTEESFADSLRQRAG 437
W ++ LR E +L
Sbjct: 310 QEHIWEVE----KKLRKGLSEEQKQALDTAIQ 337
>gnl|CDD|180998 PRK07488, PRK07488, indole acetimide hydrolase; Validated.
Length = 472
Score = 28.4 bits (64), Expect = 6.3
Identities = 22/75 (29%), Positives = 29/75 (38%), Gaps = 15/75 (20%)
Query: 235 STSLSDVSDSARERSLEVVEDVSKAIGLAGWDRLDDTKRRRLLEHLSSRDNALNTKLRKE 294
S SL++ + + R L +E V + R L L NA T +
Sbjct: 10 SLSLTEAAAALRSGRLSCLELVEALL-----------ARAAALAPL----NAFTTVDAEG 54
Query: 295 TQAQARRIDAQLNHG 309
A ARRIDAQ G
Sbjct: 55 ALAAARRIDAQRAAG 69
>gnl|CDD|151059 pfam10499, Pmp24, Peroxisomal membrane protein 24. Peroxisomes are
single membrane bound organelles, present in practically
all eukaryotic cells, and involved in a variety of
metabolic pathways; the deduced protein is extremely
basic, a characteristic of many other peroxisomal
intrinsic membrane proteins. They carry two short
stretches of hydrophobic residues shown to be necessary
for the correct targeting of these proteins. A sequence
with these characteristics is found in human PMP24
(amino acid residues 16-30). However, in the absence of
experimental data, the involvement of this domain in the
targeting of PMP24 remains to be proved. PMP24 was known
as Pmp27.
Length = 181
Score = 28.4 bits (64), Expect = 6.9
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 376 SLSLASTMMATKY-KEILEKSHRQSMQELNQDAISW 410
+++ M +Y E L+ S R SM L D+ SW
Sbjct: 145 AVTWGLVMYLFRYHPETLQSSLRSSMTYLYHDSDSW 180
>gnl|CDD|148851 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus. This
family represents the C-terminal, catalytic domain of
the D-alanine--D-alanine ligase enzyme EC:6.3.2.4.
D-Alanine is one of the central molecules of the
cross-linking step of peptidoglycan assembly. There are
three enzymes involved in the D-alanine branch of
peptidoglycan biosynthesis: the pyridoxal
phosphate-dependent D-alanine racemase (Alr), the
ATP-dependent D-alanine:D-alanine ligase (Ddl), and the
ATP-dependent D-alanine:D-alanine-adding enzyme (MurF).
Length = 201
Score = 28.4 bits (64), Expect = 7.0
Identities = 9/31 (29%), Positives = 16/31 (51%)
Query: 239 SDVSDSARERSLEVVEDVSKAIGLAGWDRLD 269
+D+ + E+ E+ KA+G G R+D
Sbjct: 125 ADLPEEVEEQIQELALKAYKALGCRGLARID 155
>gnl|CDD|183786 PRK12843, PRK12843, putative FAD-binding dehydrogenase; Reviewed.
Length = 578
Score = 28.2 bits (63), Expect = 7.4
Identities = 16/64 (25%), Positives = 22/64 (34%), Gaps = 4/64 (6%)
Query: 86 QAGDKIKEYVDGRIRSA---YDRFLSSISHRDVRKKFQAQVEH-DIRDYHTKGVDIQIGA 141
A D+I R+ R L S+ R VR Q VE + G + G
Sbjct: 204 YARDRISYARGTRLVMGNALIGRLLYSLRARGVRILTQTDVESLETDHGRVIGATVVQGG 263
Query: 142 TQRA 145
+R
Sbjct: 264 VRRR 267
>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase, decarboxylating.
This model does not specify whether the cofactor is NADP
only (EC 1.1.1.44), NAD only, or both. The model does
not assign an EC number for that reason.
Length = 467
Score = 28.1 bits (63), Expect = 8.4
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 10/73 (13%)
Query: 362 KFLQKIDDEYISNPSLSLASTMMATKYKEILEKSHRQSMQELNQDAISWGIKYKQIDPL- 420
FL KI + NP LA+ ++A +K+ L+ + + + AI +GI P+
Sbjct: 366 GFLDKITKAFAENP--DLANLLLAPYFKDALKDAQ-SGWRRVVALAIEYGI------PVP 416
Query: 421 RFDTEESFADSLR 433
F SF D R
Sbjct: 417 AFSAALSFYDGYR 429
>gnl|CDD|131364 TIGR02311, HpaI, 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase.
This model represents the aldolase which performs the
final step unique to the 4-hydroxyphenylacetic acid
catabolism pathway in which
2,4-dihydroxyhept-2-ene-1,7-dioic acid is split into
pyruvate and succinate-semialdehyde. The gene for enzyme
is generally found adjacent to other genes for this
pathway organized into an operon.
Length = 249
Score = 27.8 bits (62), Expect = 8.8
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 9 PLVEAVTPNQDAVRDSVNPQAGLRDLGDALGKATQF 44
P++E + AV + P G+R +G AL +A+++
Sbjct: 91 PMIETAEQAEAAVAATRYPPMGIRGVGSALARASRW 126
>gnl|CDD|185639 PTZ00460, PTZ00460, acyl-CoA dehydrogenase; Provisional.
Length = 646
Score = 27.9 bits (62), Expect = 9.4
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 12/59 (20%)
Query: 622 PPRGMSKTDFEDRLWYATKDTG--EYDPYTI-------KYMNVGS-GKYMIIKNGNPKV 670
P +G+ D ++ YA KD G +D Y I +Y+ V G+ + + GNPKV
Sbjct: 212 PLQGVEVGDIGPKMGYAVKDNGFLSFDHYRIPLDSLLARYIKVSEDGQ--VERQGNPKV 268
>gnl|CDD|180867 PRK07187, PRK07187, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 721
Score = 27.8 bits (62), Expect = 10.0
Identities = 13/33 (39%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 552 YDSYIN-TPLTKLEQSTAGGNFNKDKEAIKLYL 583
DSY++ LTK ++ +F+ DKEA++ YL
Sbjct: 5 NDSYLSLNALTKFKKPDGSYHFDSDKEAVERYL 37
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
0.314 0.130 0.361
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 11,261,384
Number of extensions: 731657
Number of successful extensions: 1190
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1190
Number of HSP's successfully gapped: 36
Length of query: 707
Length of database: 5,994,473
Length adjustment: 100
Effective length of query: 607
Effective length of database: 3,833,673
Effective search space: 2327039511
Effective search space used: 2327039511
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 61 (27.4 bits)