RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780727|ref|YP_003065140.1| putative pilus assembly
protein [Candidatus Liberibacter asiaticus str. psy62]
(474 letters)
>gnl|CDD|162900 TIGR02517, type_II_gspD, general secretion pathway protein D. In
Gram-negative bacteria, proteins that have first crossed
the inner member by Sec-dependent protein transport can
be exported across the outer membrane by type II
secretion, also called the main terminal branch of the
general secretion pathway. Members of this family are
general secretion pathway protein D. In Yersinia
enterocolitica, a second member of this family is part
of a novel second type II secretion system specifically
associated with virulence (See PubMed:12654803). This
family is closely homologous to the type IV pilus outer
membrane secretin PilQ (TIGR02515) and to the type III
secretion system pore YscC/HrcC (TIGR02516).
Length = 594
Score = 115 bits (291), Expect = 2e-26
Identities = 73/266 (27%), Positives = 112/266 (42%), Gaps = 32/266 (12%)
Query: 194 DQVTLKVTIAEVRRDILKQIGFQHSITG-------------SSSGPSKSFAADFGGKFV- 239
QV ++ I EV D ++G Q I G S S S +A G
Sbjct: 330 AQVLVEAIIVEVSLDDALELGVQWLIAGTGGGVNFSTGSPNSGSLLGASASAISLGSAGI 389
Query: 240 -----SEGGDFSVKGVLDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQ-- 292
S V G + +L+AL++ T L+ P+L + Q A G +
Sbjct: 390 GLLVTSSSTTSGVGGTGGGPNLGVLLNALKQDTGFNVLSTPSLLTLDNQEAEINVGQEVP 449
Query: 293 ---HLYKTVSSSTGATSVTTHDY---GVVLHFTPTVLSPGRIGLRIQTEVSEP---VIGV 343
Y T + T A T+ G+ L TP + G + L I EVS +G
Sbjct: 450 VLTGSYNTGTGGTNANPFNTYQRKDVGIKLKVTPQINEGGTVRLEIYQEVSSVAPTTVGS 509
Query: 344 NAGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRF 403
A P++ R+ T V + +G T+VL GL++D + +PLL IP+LG LFR++
Sbjct: 510 AASG-PTFNKREIKTVVLVDNGDTVVLGGLIQDKTSESVTKVPLLGDIPVLGWLFRSTTT 568
Query: 404 NREETEIFIAATPFLV-KPVAMRDLS 428
R +T + + TP ++ P R L+
Sbjct: 569 ERTKTNLMVFITPRIIRDPEDARALT 594
>gnl|CDD|162901 TIGR02519, pilus_MshL, pilus (MSHA type) biogenesis protein MshL.
Members of this family are predicted secretins, that is,
outer membrane pore proteins associated with delivery of
proteins from periplasm to the outside of the cell.
Related families include GspD of type II secretion
(TIGR02517), the YscC/HrcC family from type III
secretion (TIGR02516), and the PilQ secretin of type IV
pilus formation (TIGR02515). Members of this family are
found in gene clusters associated with MSHA
(mannose-sensitive hemagglutinin) and related pili, and
appear to be the secretin of this pilus system.
Length = 290
Score = 92.4 bits (230), Expect = 2e-19
Identities = 61/232 (26%), Positives = 98/232 (42%), Gaps = 32/232 (13%)
Query: 210 LKQIGFQHSITGSSSGPSK--SFAADFGGKFVSEGGDFSVKGVLDRFSFETVLHALERAT 267
K +G +S S + S F + G GV F F+++++ L
Sbjct: 69 YKALGAANSNDSSGNQFSSGLGFLDNIG---------LPT-GVNSGFGFDSIINFLATFG 118
Query: 268 AIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSST----GATSVTTHDY-------GVVL 316
+ L+ P + A++ Q A + G Y T SST G TS + D G+VL
Sbjct: 119 DTKVLSNPKVMALNNQPAVISVGDNIRYVTEESSTGTTGGTTSTASSDTRVDSVFSGIVL 178
Query: 317 HFTPTVLSPGRIGLRIQTEVSE---------PVIGVNAGDMPSYRVRKADTTVELPSGGT 367
TP + G++ L + +SE PV +P V++ + + + G T
Sbjct: 179 GVTPQISDDGKVILNVHPSISEVKPQSIDLNPVGNGAEVALPEISVKEMSSVLRVKDGDT 238
Query: 368 IVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLV 419
+VL GL+ K G+P L IP LG LF ++++TE+ I P +V
Sbjct: 239 VVLGGLIDKKKSNTKTGLPFLGDIPGLGYLFGYKSKSKKKTELVIIIRPSVV 290
>gnl|CDD|106878 PHA00019, IV, phage assembly protein.
Length = 428
Score = 91.8 bits (228), Expect = 3e-19
Identities = 53/196 (27%), Positives = 92/196 (46%), Gaps = 11/196 (5%)
Query: 232 ADFGGKFVSEGGDFSVKGVLDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSG- 290
A S GG F G+ + + ALE ++ R L+ P + +SGQS + G
Sbjct: 235 ARLTTVLSSAGGSF---GIFNGNVLGLSVKALENSSNSRVLSRPRILTLSGQSGYISVGQ 291
Query: 291 ------GQHLYKTVSSSTGATSVTTHDYGVVLHFTPTVLSPGRIGLRIQTEVSEPVIGVN 344
G+ + + + ++ D GV L TP V+ G++ L I T+
Sbjct: 292 NVPFVTGRVTGEAANVNNPFQTIERKDVGVSLEVTPVVMGDGQLVLDIDTKADSLSDSTI 351
Query: 345 AGDMPSYRVRKADTTVELPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFN 404
A D+ + + R TTV++ G T++L GL+ + +P LSKIP++G LFR+ +
Sbjct: 352 ASDIITNQ-RSLQTTVQVKDGQTLLLGGLISSNNTDGDSSVPFLSKIPLIGWLFRSKSDS 410
Query: 405 REETEIFIAATPFLVK 420
E+ +++ T ++K
Sbjct: 411 NEQRTLYVLLTARVIK 426
>gnl|CDD|182549 PRK10560, hofQ, outer membrane porin HofQ; Provisional.
Length = 386
Score = 87.2 bits (216), Expect = 8e-18
Identities = 69/237 (29%), Positives = 105/237 (44%), Gaps = 19/237 (8%)
Query: 195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKFVSEGGDFSVKGVLDRF 254
QV L I + L+++G + + + G+ + G D SV R
Sbjct: 154 QVELAAHIVTINEKSLRELGVKWT-LADAQQAGGV------GQVTTLGSDLSVATATTRV 206
Query: 255 SF----------ETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGA 304
F + L ALE+ + +A P L A Q AS G + Y+ S +GA
Sbjct: 207 GFNIGRINGRLLDLELSALEQKQQLDIIASPRLLASHLQPASIKQGSEIPYQVSSGESGA 266
Query: 305 TSVTTHDYGVVLHFTPTVLSPGRI--GLRIQTEVSEPVIGVNAGDMPSYRVRKADTTVEL 362
TSV + + + TPTVL GRI L I V V+ G++ + ++ +T VE+
Sbjct: 267 TSVEFKEAVLGMEVTPTVLQKGRIRLKLHISQNVPGQVLQQADGEVLAIDKQEIETQVEV 326
Query: 363 PSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLV 419
SG T+ L G+ + ++ +PLL IP LG LFR+ E E+ + TP LV
Sbjct: 327 KSGETLALGGIFSRKNKSGQDSVPLLGDIPWLGQLFRHDGKEDERRELVVFITPRLV 383
>gnl|CDD|162898 TIGR02515, IV_pilus_PilQ, type IV pilus secretin (or competence
protein) PilQ. A number of proteins homologous to PilQ
are involved in type IV pilus formation, competence for
transformation, type III secretion, and type II
secretion (also called the main terminal branch of the
general secretion pathway). Members of this family
include PilQ itself, which is a component of the type IV
pilus structure, from a number of species. In
Haemophilus influenzae, the member of this family is
associated with competence for transformation with
exogenous DNA rather than with formation of a type IV
pilus; the surface structure required for competence may
be considered an unusual, incomplete type IV pilus
structure.
Length = 418
Score = 77.7 bits (192), Expect = 6e-15
Identities = 48/164 (29%), Positives = 84/164 (51%), Gaps = 6/164 (3%)
Query: 260 LHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFT 319
L ALE ++ P + + + A G + Y +SS+GATSV + + L T
Sbjct: 258 LSALESEGRGEIISSPRVVTANNKKAKIKQGTEIPY-QQTSSSGATSVEFKEAVLSLEVT 316
Query: 320 PTVLSPGRIGLRIQTEVSEPVIGVNA---GDMPSYRVRKADTTVELPSGGTIVLAGLLKD 376
P + GRI + + VS+ GV A G +P+ ++ +T V + +G T+V+ G+ +
Sbjct: 317 PQITPDGRIIMDLL--VSKDSPGVVAQAGGGVPAIDKQEINTQVLVKNGETVVIGGIYEQ 374
Query: 377 DIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVK 420
++ +P L IP+LG LF+ + + E++E+ I TP +V
Sbjct: 375 TQTNSEDKVPFLGDIPVLGNLFKKTGKSDEKSELLIFITPRIVN 418
>gnl|CDD|184149 PRK13568, hofQ, putative outer membrane porin HofQ; Provisional.
Length = 381
Score = 73.2 bits (180), Expect = 1e-13
Identities = 55/168 (32%), Positives = 84/168 (50%), Gaps = 12/168 (7%)
Query: 260 LHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFT 319
L ALE+ + +A P L Q+AS G + Y S +G+TS+ + + + T
Sbjct: 217 LSALEQENQVDIIASPRLFTSHQQTASIKQGTEIPYTVSSGKSGSTSIEFKEAVLGMEVT 276
Query: 320 PTVLSPGRIGLRIQTEVSEPVIGVNAGDMPSYRVRKA--DTTVELPSGGTIVLAGLLKDD 377
P +L GRI L+++ + P + G+ + K T V + G TIVL G+ +
Sbjct: 277 PKILRNGRITLKLKISQNMPGRTIKRGEGEMLAIDKQEIQTQVTVKDGETIVLGGIFQ-- 334
Query: 378 IQQLKEG---IPLLSKIPILGALFRNS--RFNREETEIFIAATPFLVK 420
QQ ++ +PLL IP+LGALFR + +R E IFI TP L+
Sbjct: 335 -QQKRQSVNKVPLLGDIPLLGALFRQDTQQQSRRELVIFI--TPKLIS 379
>gnl|CDD|162899 TIGR02516, type_III_yscC, type III secretion outer membrane pore,
YscC/HrcC family. A number of proteins homologous to
the type IV pilus secretin PilQ (TIGR02515) are involved
in type IV pilus formation, competence for
transformation, type III secretion, and type II
secretion (also called the main terminal branch of the
general secretion pathway). The clade described by this
model contains the outer membrane pore proteins of
bacterial type III secretion systems, typified by YscC
for animal pathogens and HrcC for plant pathogens.
Length = 462
Score = 67.8 bits (166), Expect = 5e-12
Identities = 51/235 (21%), Positives = 91/235 (38%), Gaps = 15/235 (6%)
Query: 195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKFVSEGGDFSVKGVLDRF 254
+ + I ++ L Q+G T + F G S D
Sbjct: 235 LIEISAWIIDIDASDLSQLGVDWQATLGAGDRQTGFNV---SAGAGLGATGSSIVTSDGD 291
Query: 255 SFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGAT--SVTTHDY 312
F ++ALE+ + ++ P++ + A + + Y VS A SVT
Sbjct: 292 YFMARVNALEQTGKAKIVSRPSVLTLENVQAVLDNN-RTFYVKVSGERVADLESVT---A 347
Query: 313 GVVLHFTPTVLSPGRIGLRIQTEVS-----EPVIGVNAGD-MPSYRVRKADTTVELPSGG 366
G L TP V+ +I+ V + G + D +P + + +T + G
Sbjct: 348 GTSLRVTPRVIGDEGAQRQIKLNVDIEDGQQKTDGTSTVDALPEIKRTEINTQARVGHGQ 407
Query: 367 TIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKP 421
++++ G +D+ +GIPLL IP+LG LFR++ + TP +V+
Sbjct: 408 SLLIGGYYRDESADSVDGIPLLGDIPLLGNLFRSTSKEKSRVVRLFLITPKIVRD 462
>gnl|CDD|185244 PRK15346, PRK15346, outer membrane secretin SsaC; Provisional.
Length = 499
Score = 48.9 bits (117), Expect = 3e-06
Identities = 56/230 (24%), Positives = 101/230 (43%), Gaps = 48/230 (20%)
Query: 195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGG-------KFVSEGGDFSV 247
+ + V+I +V + Q+G S + S G SF + F +S G+F V
Sbjct: 272 MIEISVSIIDVDAGDINQLGIDWSASASLGGGKISFNSGFADGNASGFSTVISNTGNFMV 331
Query: 248 KGVLDRFSFETVLHALERATAIRTLAEP---TLT---AISGQSASFTSGGQHLYKTVSSS 301
+ L+ALE+ + + L++P TL A+ ++ +F Y +
Sbjct: 332 R-----------LNALEKNSKAKILSQPSVVTLNNIQAVLDKNVTF-------YTKLQGE 373
Query: 302 TGAT--SVTTHDYGVVLHFTPTVLSPG-----RIGLRIQT-EVSEPVIGVNAGDMPSYRV 353
A S+TT G +L TP ++ + L IQ + S + D P V
Sbjct: 374 KVAKLESITT---GSLLRVTPRLIDDNGTQKVMLNLNIQDGQQSATQ---SETD-PLPEV 426
Query: 354 RKADTTVE--LPSGGTIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNS 401
+ ++ + L +G +++L G ++D + + IPLL IP++G LFR++
Sbjct: 427 QNSEIATQATLKAGQSLLLGGFIQDKQIESQNKIPLLGDIPLIGGLFRST 476
>gnl|CDD|162902 TIGR02520, pilus_B_mal_scr, type IVB pilus formation outer membrane
protein, R64 PilN family. Several related protein
families encode outer membrane pore proteins for type II
secretion, type III secretion, and type IV pilus
formation. This protein family appears to encode a
secretin for pilus formation, although it is quite
different from PilQ. Members include the PilN
lipoprotein of the plasmid R64 thin pilus, a type IV
pilus. Scoring between the trusted and noise cutoffs are
examples of bundle-forming pilus B (bfpB).
Length = 497
Score = 40.3 bits (94), Expect = 0.001
Identities = 47/196 (23%), Positives = 70/196 (35%), Gaps = 18/196 (9%)
Query: 195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKFVSEGGDFSVKGVLD-R 253
QV L V + V+ Q G S+ S A+ G + G + V+D
Sbjct: 260 QVLLNVKVLSVQFKGSDQTGVDWSLVYKSLSRFGLSLANAGTSTAATAGSSAGINVVDGP 319
Query: 254 FSFETVL-HALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTH-- 310
F+ T L AL + + P++T ++ Q A F Q Y S+T +V +
Sbjct: 320 FAGTTALIRALSTQGKVSVVTSPSVTTLNLQPAPFQIATQTGYLASQSTTVTANVGSSTD 379
Query: 311 ------DYGVVLHFTPTVLSPGRIGLRIQTEVSEPV----IGVNAG----DMPSYRVRKA 356
G + P + G I L+ S+ G P VR
Sbjct: 380 LEPGTITTGFNMTLLPDIRDDGDILLQFNISHSDLAQLRKFTSKDGGTKVQTPDTDVRNF 439
Query: 357 DTTVELPSGGTIVLAG 372
V L SG T+VL+G
Sbjct: 440 SQRVNLKSGQTLVLSG 455
>gnl|CDD|115787 pfam07156, Prenylcys_lyase, Prenylcysteine lyase. This family
contains prenylcysteine lyases (EC:1.8.3.5) that are
approximately 500 residues long. Prenylcysteine lyase is
a FAD-dependent thioether oxidase that degrades a
variety of prenylcysteines, producing free cysteine, an
isoprenoid aldehyde and hydrogen peroxide as products of
the reaction. It has been noted that this enzyme has
considerable homology with ClP55, a 55 kDa protein that
is associated with chloride ion pumps.
Length = 368
Score = 35.6 bits (82), Expect = 0.026
Identities = 42/183 (22%), Positives = 69/183 (37%), Gaps = 23/183 (12%)
Query: 134 SNIRVEMVSDTVVLHGM-VRTIQDSQRAVELSETFLSQSGRNQYANSSSKKVMNLLNIAG 192
S++R+ M + V+ M + Q+ A E L G + + N + + LN AG
Sbjct: 21 SSLRMHMWVEDVLDKFMRIYRYQEHGYAFSNVEELLHAIGGDDFVNLTKMTLTEYLNEAG 80
Query: 193 EDQVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADFGGKFVSEGGDFSVKGVLD 252
Q L +A V R Q ++ G+ S A GG + EGG+ V L
Sbjct: 81 FSQQFLNEMVAAVLRANYGQSTDINAFAGAVS-----LAGADGGLWSVEGGNKQVCSGLL 135
Query: 253 RFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDY 312
+ S ++H + +I+ + G+ LY+ V S +D
Sbjct: 136 QASKSNLIHG-------------KVMSIT----KYLGNGKKLYEVVYKIGKGNSSDFYDI 178
Query: 313 GVV 315
VV
Sbjct: 179 VVV 181
>gnl|CDD|185239 PRK15339, PRK15339, type III secretion system outer membrane pore
InvG; Provisional.
Length = 559
Score = 34.4 bits (79), Expect = 0.065
Identities = 27/125 (21%), Positives = 52/125 (41%), Gaps = 10/125 (8%)
Query: 312 YGVVLHFTPTVLSPGRIGLRIQTE-----VSEPVIGVNAGDMPSYRVRKADTTVELPSGG 366
YG ++ P + G+I + + E + + +P T +P G
Sbjct: 405 YGTMISVLPRFSADGQIEMSLDIEDGNEKTPQSDTTTSVDALPEVGRTLISTIARVPQGK 464
Query: 367 TIVLAGLLKDDIQQLKEGIPLLSKIPILGALFRNSRFNREETEIFIAATPFLVKPVAMRD 426
++++ G +D + IP L +P++G+LFR S N+ FL++P + +
Sbjct: 465 SLLIGGYTRDANTDEVQSIPFLGSLPLIGSLFRYSSKNKSNI-----VRVFLIEPREIVE 519
Query: 427 LSRPD 431
PD
Sbjct: 520 PLTPD 524
>gnl|CDD|162256 TIGR01217, ac_ac_CoA_syn, acetoacetyl-CoA synthase. This enzyme
catalyzes the first step of the mevalonate pathway of
IPP biosynthesis. Most bacteria do not use this pathway,
but rather the deoxyxylulose pathway.
Length = 652
Score = 33.3 bits (76), Expect = 0.14
Identities = 23/77 (29%), Positives = 31/77 (40%), Gaps = 13/77 (16%)
Query: 192 GEDQVTLKVTIAEVRRDI------LKQIGFQHSITGSSSGPSKSFA-------ADFGGKF 238
E VT AE+RR + L+ +G + S P+ A A G +
Sbjct: 107 DETHEPAPVTWAELRRQVASLAAALRALGVRPGDRVSGYLPNIPQAVVAMLATASVGAIW 166
Query: 239 VSEGGDFSVKGVLDRFS 255
S DF +GVLDRF
Sbjct: 167 SSCSPDFGARGVLDRFQ 183
>gnl|CDD|162411 TIGR01541, tape_meas_lam_C, phage tail tape measure protein, lambda
family. This model represents a relatively
well-conserved region near the C-terminus of the tape
measure protein of a lambda and related phage. This
protein, which controls phage tail length, is typically
about 1000 residues in length. Both low-complexity
sequence and insertion/deletion events appear common in
this family. Mutational studies suggest a ruler or
template role in the determination of phage tail length.
Similar behavior is attributed to proteins from
distantly related or unrelated families in other phage.
Length = 332
Score = 32.5 bits (74), Expect = 0.25
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 5/67 (7%)
Query: 195 QVTLKVTIAEVRRDILKQIGFQHSITGSSSGPSKSFAADF-----GGKFVSEGGDFSVKG 249
+ K+ IA + + I G S SSSG S+ A + GG + + GG + G
Sbjct: 210 DIIAKLAIAGLAQSIGSLFGGAVSGGASSSGAMASYGAAYVFNFAGGGYTAGGGKYEPSG 269
Query: 250 VLDRFSF 256
V+ F
Sbjct: 270 VVHPGEF 276
>gnl|CDD|162609 TIGR01929, menB, naphthoate synthase (dihydroxynaphthoic acid
synthetase). This model represents an enzyme,
naphthoate synthase (dihydroxynaphthoic acid
synthetase), which is involved in the fifth step of the
menaquinone biosynthesis pathway. Together with
o-succinylbenzoate-CoA ligase (menE: TIGR01923), this
enzyme takes 2-succinylbenzoate and converts it into
1,4-di-hydroxy-2-naphthoate. Included above the trusted
cutoff are two enzymes from Arabadopsis thaliana and one
from Staphylococcus aureus which are identified as
putative enoyl-CoA hydratase/isomerases. These enzymes
group with the naphthoate synthases when building a tree
and when doing BLAST searches.
Length = 259
Score = 29.4 bits (66), Expect = 2.3
Identities = 22/74 (29%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 235 GGKFVSEGGDFSVK---GVLDRFSFETVLHALERATAIRTLAEPTLTAISGQSASFTSGG 291
G K GGD V+ G +D S L+ L+ IRT +P + ++G + GG
Sbjct: 57 GDKAFCSGGDQKVRGDYGYIDD-SGVHRLNVLDVQRQIRTCPKPVIAMVNGYAI----GG 111
Query: 292 QHLYKTVSSSTGAT 305
H+ V T A
Sbjct: 112 GHVLHVVCDLTIAA 125
>gnl|CDD|164843 PHA00821, PHA00821, hypothetical protein.
Length = 295
Score = 28.9 bits (64), Expect = 3.0
Identities = 18/61 (29%), Positives = 28/61 (45%)
Query: 268 AIRTLAEPTLTAISGQSASFTSGGQHLYKTVSSSTGATSVTTHDYGVVLHFTPTVLSPGR 327
A RT A+P L A S G L+K + +G T++ +Y ++ T TV G
Sbjct: 157 AFRTAAQPVLIKDRALYALGNSVGLQLFKAPTGISGGTAIPVQNYNDIIPQTSTVTVLGG 216
Query: 328 I 328
+
Sbjct: 217 V 217
>gnl|CDD|178909 PRK00164, moaA, molybdenum cofactor biosynthesis protein A;
Reviewed.
Length = 331
Score = 28.2 bits (64), Expect = 4.3
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 200 VTIAEVRRDILKQIGFQHSITGSSSGPSKSFA-ADFGGKF 238
++ AE+R L + G+ S GP++ F D+GG+
Sbjct: 210 LSGAEIR-ARLAERGWTLQPRARSGGPAQYFRHPDYGGEI 248
>gnl|CDD|148853 pfam07482, DUF1522, Domain of Unknown Function (DUF1522).
Length = 109
Score = 28.1 bits (63), Expect = 5.3
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 7/50 (14%)
Query: 259 VLHALERATAIRTL----AEPTLTAISGQSASFTSGGQHLYKTVSSSTGA 304
VL A++ A+ ++T T+ +G +AS + G T+S+STGA
Sbjct: 53 VLKAIDLASGVQTATISNGAATIATSAGTAASVIASGA---LTLSTSTGA 99
>gnl|CDD|162167 TIGR01034, metK, S-adenosylmethionine synthetase. Tandem isozymes
of this S-adenosylmethionine synthetase in E. coli are
designated MetK and MetX.
Length = 377
Score = 28.1 bits (63), Expect = 5.4
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 186 NLLNIAGEDQVTLKVTIAEVRRDILKQIGFQHSITG 221
L+ I GE + V I EV R+ +K IG+ S G
Sbjct: 45 GLVLIGGEITTSAYVDIQEVARNTIKDIGYTDSDYG 80
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 27.4 bits (60), Expect = 7.4
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 411 FIAATPFLVKPVAMRDLSRPDDHYSVEDDAKA 442
F + P +V P AM+ ++ PD Y+ A A
Sbjct: 66 FKISMPIMVAPTAMQKMAHPDGEYATARAASA 97
>gnl|CDD|184257 PRK13701, psiB, plasmid SOS inhibition protein B; Provisional.
Length = 144
Score = 27.4 bits (61), Expect = 9.0
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 238 FVSEGGD-FSVKGVLDRFSFETVLHAL 263
V+ GG+ F+V V DRF+ E + H+L
Sbjct: 91 LVNAGGEPFAVVQVQDRFAPEAISHSL 117
>gnl|CDD|179600 PRK03584, PRK03584, acetoacetyl-CoA synthetase; Provisional.
Length = 655
Score = 27.1 bits (61), Expect = 9.5
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 231 AADFGGKFVSEGGDFSVKGVLDRF 254
A G + S DF V+GVLDRF
Sbjct: 159 TASLGAIWSSCSPDFGVQGVLDRF 182
>gnl|CDD|182940 PRK11064, wecC, UDP-N-acetyl-D-mannosamine dehydrogenase;
Provisional.
Length = 415
Score = 27.3 bits (61), Expect = 9.7
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 2/31 (6%)
Query: 138 VEMVSDTVVLHGMVRTIQDSQRAVELSETFL 168
VE++ + V+ GM S RA EL + FL
Sbjct: 168 VELIKNDRVIGGMTPVC--SARASELYKIFL 196
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
0.318 0.135 0.372
Gapped
Lambda K H
0.267 0.0854 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,599,544
Number of extensions: 499859
Number of successful extensions: 1010
Number of sequences better than 10.0: 1
Number of HSP's gapped: 995
Number of HSP's successfully gapped: 31
Length of query: 474
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 377
Effective length of database: 3,898,497
Effective search space: 1469733369
Effective search space used: 1469733369
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: 41 (21.7 bits)
S2: 59 (26.3 bits)