RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780350|ref|YP_003064763.1| hypothetical protein
CLIBASIA_01175 [Candidatus Liberibacter asiaticus str. psy62]
(431 letters)
>gnl|CDD|182576 PRK10594, PRK10594, murein L,D-transpeptidase; Provisional.
Length = 608
Score = 167 bits (425), Expect = 4e-42
Identities = 101/296 (34%), Positives = 156/296 (52%), Gaps = 12/296 (4%)
Query: 126 PSKGLSVAFDAYVESAVKLFQMRHGLDPSGMVDSSTLEAMNVPVDLRIRQLQVNLMRIKK 185
P+ + A+D + AVK FQ GL G++ T + +NV R L +N+ R++
Sbjct: 301 PAPAVRAAYDNELVEAVKRFQAWQGLGADGVIGPRTRDWLNVTPAQRAGVLALNIQRLR- 359
Query: 186 LLEQKM--GLRYVLVNIPAASLEAVENGKVGLRSTVIVGRVDRQTPILHSRINRIMFNPY 243
LL ++ G ++VNIPA SL +NG L S VIVGR DR+TP++ S +N ++ NP
Sbjct: 360 LLPGELSTG---IMVNIPAYSLVYYQNGNQVLSSRVIVGRPDRKTPMMSSALNNVVVNPP 416
Query: 244 WVIPRSIIQKDMMALLRQDPQYLKDNNIHMIDEKGKEVFV---EEVDWNSPEPPNFIFR- 299
W +P ++ +KD++ +R DP YL+ + ++ + +DW++ NF +R
Sbjct: 417 WNVPTTLARKDILPKVRNDPGYLERHGYTVMRGWNSDAEAIDPWMIDWSTISASNFPYRF 476
Query: 300 -QDPGKINAMASTKIEFYSRNNTYMHDTPEPILFNNVVRFETSGCVRVRNIIDLDVWLLK 358
Q PG N++ K S + Y+HDTP LF +R +SGCVRV DL LL+
Sbjct: 477 QQAPGARNSLGRYKFNMPSSDAIYLHDTPNHNLFQKDIRALSSGCVRVNKASDLANMLLQ 536
Query: 359 DTPTWSRYHIEEVVKTRKTTPVKLATEVPVHFVYISAWSPKDSIIQFRDDIYGLDN 414
D W+ I + +K T V + +PV+ Y++AW D Q+R DIY D
Sbjct: 537 DA-GWNDARISDALKQGDTRYVNIRQRIPVNLYYLTAWVAADGRPQYRTDIYNYDL 591
>gnl|CDD|132327 TIGR03284, thym_sym, thymidylate synthase. Members of this protein
family are thymidylate synthase, an enzyme that produces
dTMP from dUMP. In prokaryotes, its gene usually is
found close to that for dihydrofolate reductase, and in
some systems the two enzymes are found as a fusion
protein. This model excludes a set of related proteins
(TIGR03283) that appears to replace this family in
archaeal methanogens, where tetrahydrofolate is replaced
by tetrahydromethanopterin.
Length = 296
Score = 35.5 bits (82), Expect = 0.026
Identities = 16/56 (28%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 246 IPRSIIQKDMMALLRQDP--QYLKDNNIHMIDEKGKEVFVEEVDWNSPEPPNFIFR 299
+P +I +++ L+ D +YL D+N+++ DE E +V+ D+ P+ +F R
Sbjct: 49 VPFRLIASELLWFLKGDTNIRYLLDHNVNIWDEWAFERWVKSDDYQGPDMTDFGLR 104
>gnl|CDD|128376 smart00062, PBPb, Bacterial periplasmic substrate-binding proteins.
bacterial proteins, eukaryotic ones are in PBPe.
Length = 219
Score = 32.3 bits (74), Expect = 0.23
Identities = 21/103 (20%), Positives = 47/103 (45%), Gaps = 22/103 (21%)
Query: 183 IKKLLEQKMGLRYVLVNIPAASL-EAVENGKVGLRSTVIVGRVDRQTPILHSRINRIMFN 241
+ K + +++GL+ V + +L A+++GK+ + + + +R + S +
Sbjct: 29 LAKAIAKELGLKVEFVEVSFDNLLTALKSGKIDVVAAGMTITPERAKQVDFS-------D 81
Query: 242 PYWVIPRSIIQKDMMALLRQDPQYLKDNNIHMIDE-KGKEVFV 283
PY+ + I+ KD+ I +++ KGK+V V
Sbjct: 82 PYYKSGQVIL-------------VRKDSPIKSLEDLKGKKVAV 111
>gnl|CDD|173170 PRK14707, PRK14707, hypothetical protein; Provisional.
Length = 2710
Score = 31.3 bits (70), Expect = 0.53
Identities = 36/142 (25%), Positives = 58/142 (40%), Gaps = 44/142 (30%)
Query: 65 SDIPIISKETIAQTEK--------------AIAFYQDILSRGGWPELPIRPLHLGNSSVS 110
+D+P+ ++ IA E+ ++ + LS+ WP+ P+ + +
Sbjct: 302 ADLPVCAEAAIALAERLADDPELCKALNARGLSTALNALSK--WPDNPV-------CAAA 352
Query: 111 VQRLRERLI----ISGDLDPSKGLSV---------------AFDAYVESAVKLFQMRHGL 151
V L ERL+ + DL+P SV A A E V ++R GL
Sbjct: 353 VSALAERLVADPELRKDLEPQGVSSVLNALSKWPDTPVCAAAASALAEHVVDDLELRKGL 412
Query: 152 DPSGMVDSSTLEAMNVPVDLRI 173
DP G+ S+ L A+ DL I
Sbjct: 413 DPQGV--SNALNALAKWPDLPI 432
>gnl|CDD|132265 TIGR03221, muco_delta, muconolactone delta-isomerase. Members of
this protein family are muconolactone delta-isomerase
(EC 5.3.3.4), the CatC protein of the ortho cleavage
pathway for metabolizing aromatic compounds by way of
catechol.
Length = 90
Score = 29.7 bits (67), Expect = 1.3
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 55 FLARVDMGIDSDIPIISKETIAQTEKAIAFYQDILSRGGWPEL 97
F R+D+ + D+P I EKA A Q++ G W L
Sbjct: 2 FHVRMDVNLPVDMPAEKAAAIKAREKAYA--QELQREGKWRHL 42
>gnl|CDD|131916 TIGR02869, spore_SleB, spore cortex-lytic enzyme. Members of this
protein family are the spore cortex-lytic enzyme SleB
from Bacillus subtilis and other Gram-positive,
endospore-forming bacterial species. This protein is
stored in an inactive form in the spore and activated
during germination.
Length = 201
Score = 29.7 bits (67), Expect = 1.5
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 134 FDAYVESAVKLFQMRHGLDPSGMVDSSTLEAMNVPV 169
F AV+ FQ ++GL G+V T A+ +
Sbjct: 37 FGWLTYWAVRKFQSKNGLTVDGIVGPKTKAALGIAT 72
>gnl|CDD|184513 PRK14109, PRK14109, bifunctional glutamine-synthetase
adenylyltransferase/deadenyltransferase; Provisional.
Length = 1007
Score = 29.0 bits (66), Expect = 2.6
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 138 VESAVKLFQMRHGLDPSGMVDSSTLEAMNVPVD 170
VE V+L Q++H + + +STLEA++
Sbjct: 892 VEWTVQLLQLQHAHEVPALRTTSTLEALDAAAA 924
Score = 27.5 bits (62), Expect = 7.8
Identities = 25/67 (37%), Positives = 31/67 (46%), Gaps = 21/67 (31%)
Query: 110 SVQRLRERLIISGDLDPSK-----------GLSVAFDAYVESAVKLFQMRHG-LDPSGMV 157
VQ +R R+ DL P+ GL D VE AV+L Q+ HG D S V
Sbjct: 351 DVQAMRRRVE---DLIPAAERDRELKLGPGGLR---D--VEFAVQLLQLVHGRSDESLRV 402
Query: 158 DSSTLEA 164
STL+A
Sbjct: 403 -RSTLDA 408
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
0.322 0.139 0.414
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,377,380
Number of extensions: 495197
Number of successful extensions: 963
Number of sequences better than 10.0: 1
Number of HSP's gapped: 959
Number of HSP's successfully gapped: 17
Length of query: 431
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 335
Effective length of database: 3,920,105
Effective search space: 1313235175
Effective search space used: 1313235175
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: 59 (26.4 bits)