RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780767|ref|YP_003065180.1| lipid-A-disaccharide synthase
[Candidatus Liberibacter asiaticus str. psy62]
(383 letters)
>gnl|CDD|178802 PRK00025, lpxB, lipid-A-disaccharide synthase; Reviewed.
Length = 380
Score = 451 bits (1163), Expect = e-127
Identities = 141/383 (36%), Positives = 214/383 (55%), Gaps = 9/383 (2%)
Query: 3 SLKIAVIAGEISGDLLAGDLIKSLKEMVSYPINLVGVGGPSLQKEGLVSLFDFSELSVIG 62
L+IA++AGE+SGDLL LI++LK + VGVGGP +Q G SLFD EL+V+G
Sbjct: 1 PLRIAIVAGEVSGDLLGAGLIRALKARA-PNLEFVGVGGPRMQAAGCESLFDMEELAVMG 59
Query: 63 IMQVVRHLPQFIFRINQTVELIVSSKPDVLLIVDNPDFTHRVAKRVRKKMPNLPIINYVC 122
+++V+ LP+ + + +++ PDV + +D PDF R+ K++RK +P I+YV
Sbjct: 60 LVEVLPRLPRLLKIRRRLKRRLLAEPPDVFIGIDAPDFNLRLEKKLRKA--GIPTIHYVS 117
Query: 123 PSVWAWREGRARKMCAYINQVISILPFEKEVMQRLGGPPTTFVGHPLSSSPSILEVYSQR 182
PSVWAWR+GRA K+ + V+++ PFE +LG P TFVGHPL+ + +L +
Sbjct: 118 PSVWAWRQGRAFKIAKATDHVLALFPFEAAFYDKLGV-PVTFVGHPLADAIPLLPDRAAA 176
Query: 183 NKQRNTPSQWKKILLLPGSRAQEIYKILPFFESAVASLVKRNPFFRFSLVTVSSQ-ENLV 241
+ + + LLPGSR QEI ++LP F A L +R P RF L V+ + +
Sbjct: 177 RARLGLDPDARVLALLPGSRGQEIKRLLPPFLKAAQLLQQRYPDLRFVLPLVNPKRREQI 236
Query: 242 RCIVSKWDISPEIIIDKEQKKQVFMTCNAAMAASGTVILELALCGIPVVSIYKSEWIVNF 301
++++ E+ + QK++ +AA+AASGTV LELAL +P+V YK + +
Sbjct: 237 EEALAEYA-GLEVTLLDGQKREAMAAADAALAASGTVTLELALLKVPMVVGYKVSPLTFW 295
Query: 302 FIFY-IKTWTCALPNLIVDYPLVPEYFNSMIRSEALVRWIERLSQDTLQRRAMLHGFENL 360
+K +LPNL+ LVPE E L R + L D +R+A+L GF L
Sbjct: 296 IAKRLVKVPYVSLPNLLAGRELVPELLQEEATPEKLARALLPLLADGARRQALLEGFTEL 355
Query: 361 WDRMNTKKPAGHMAAEIVLQVLG 383
++ A AA+ VL++L
Sbjct: 356 HQQLRCG--ADERAAQAVLELLK 376
>gnl|CDD|129319 TIGR00215, lpxB, lipid-A-disaccharide synthase. Lipid-A precursor
biosynthesis producing lipid A disaccharide in a
condensation reaction. transcribed as part of an operon
including lpxA.
Length = 385
Score = 191 bits (487), Expect = 2e-49
Identities = 118/330 (35%), Positives = 181/330 (54%), Gaps = 21/330 (6%)
Query: 6 IAVIAGEISGDLLAGDLIKSLKEMVSYP-INLVGVGGPSLQKEGLVSLFDFSELSVIGIM 64
IA++AGE SGD+L L + LKE YP +GV GP + EG L+ ELSV+G+
Sbjct: 8 IALVAGEASGDILGAGLRQQLKE--HYPNARFIGVAGPRMAAEGCEVLYSMEELSVMGLR 65
Query: 65 QVVRHLPQFIFRINQTV-ELIVSSKPDVLLIVDNPDFTHRVAKRVRKKMPNLPIINYVCP 123
+V+ L + +I + V +L +KPD+L+ +D PDF + K ++KK P + II Y+ P
Sbjct: 66 EVLGRLG-RLLKIRKEVVQLAKQAKPDLLVGIDAPDFN--LTKELKKKDPGIKIIYYISP 122
Query: 124 SVWAWREGRARKMCAYINQVISILPFEKEVMQRLGGPPTTFVGHPLSSSPSILEVYSQRN 183
VWAWR+ RA+K+ + +++ILPFEK Q+ P FVGHPL +I R
Sbjct: 123 QVWAWRKWRAKKIEKATDFLLAILPFEKAFYQKK-NVPCRFVGHPLLD--AIPLYKPDRK 179
Query: 184 KQRNT---PSQWKKILLLPGSRAQEIYKILPFFESAVASLVKRNPFFRFSLVTVSSQENL 240
R + + LLPGSR E+ K+ P F A L ++ P R ++ V + +
Sbjct: 180 SAREKLGIDHNGETLALLPGSRGSEVEKLFPLFLKAAQLLEQQEPDLRR-VLPVVNFKRR 238
Query: 241 VRCIVSKWDISPEI---IIDKEQKKQVFMTCNAAMAASGTVILELALCGIPVVSIYKSEW 297
++ K + P++ +ID + +K +F +AA+ ASGT LE AL P+V Y+ +
Sbjct: 239 LQFEQIKAEYGPDLQLHLIDGDARKAMF-AADAALLASGTAALEAALIKTPMVVGYRMK- 296
Query: 298 IVNFFI--FYIKTWTCALPNLIVDYPLVPE 325
+ F I +KT +LPN++ + LVPE
Sbjct: 297 PLTFLIARRLVKTDYISLPNILANRLLVPE 326
>gnl|CDD|167141 PRK01021, lpxB, lipid-A-disaccharide synthase; Reviewed.
Length = 608
Score = 152 bits (386), Expect = 1e-37
Identities = 104/331 (31%), Positives = 169/331 (51%), Gaps = 27/331 (8%)
Query: 10 AGEISGDLLAGDLIKSLKEMVSYP-INLVGVGGPSLQKEGLVSLFDFSELSVIGIMQVVR 68
AGE SGD L G+L+K +K + YP I+ GVGGP ++ EG LF+ E V G +V+
Sbjct: 233 AGEHSGDTLGGNLLKEIKAL--YPDIHCFGVGGPQMRAEGFHPLFNMEEFQVSGFWEVLL 290
Query: 69 HLPQFIFRINQTVELIVSSKPDVLLIVDNPDFTHRVAKRVRKKMPNLPIINYVCPSVWAW 128
L + +R + + I+ + P ++ +D PDF + K++RK+ I++YVCPS+WAW
Sbjct: 291 ALFKLWYRYRKLYKTILKTNPRTVICIDFPDFHFLLIKKLRKRGYKGKIVHYVCPSIWAW 350
Query: 129 REGRARKMCAYINQVISILPFEKEVMQRLGGPPTTFVGHPLSSSPSILEVYSQRNKQRNT 188
R R + Y++ ++ ILPFE+ + + T ++GHPL + S +Q +
Sbjct: 351 RPKRKTILEKYLDLLLLILPFEQNLFKD-SPLRTVYLGHPLVETISSFSPNLSWKEQLHL 409
Query: 189 PSQWKKILLLPGSRAQEIYKIL-----PFFESAVAS----LVKR-NPFFRFSLVTVSSQE 238
PS + PGSR +I + L F S++AS LV NP + ++ V QE
Sbjct: 410 PSDKPIVAAFPGSRRGDILRNLTIQVQAFLASSLASTHQLLVSSANPKYDHLILEVLQQE 469
Query: 239 NLVRCIVSKWDISPEIIIDKEQKKQVFMTCNAAMAASGTVILELALCGIPVVSIYKSEWI 298
C+ S I+ + + ++ C+ A+A GT++LE AL P + +
Sbjct: 470 ---GCLHSH-------IVPSQFRYELMRECDCALAKCGTIVLETALNQTPTIVTCQLRPF 519
Query: 299 VNF---FIFYIKTWTCALPNLIVDYPLVPEY 326
F +IF I +LPN+I+ + PE+
Sbjct: 520 DTFLAKYIFKIILPAYSLPNIILGSTIFPEF 550
>gnl|CDD|184498 PRK14089, PRK14089, ipid-A-disaccharide synthase; Provisional.
Length = 347
Score = 136 bits (344), Expect = 1e-32
Identities = 104/342 (30%), Positives = 162/342 (47%), Gaps = 41/342 (11%)
Query: 5 KIAVIAGEISGDLLAGDLIKSLKEMVSYPINLVGVGGPSLQKEGLVSLFDFSELSVIGIM 64
KI V A E S +L +L+K+L + L+G+ SL L+D E S++G +
Sbjct: 3 KILVSALEPSANLHLKELLKNLPK----DYELIGIFDKSLGN----PLYDSREFSIMGFV 54
Query: 65 QVVRHLPQFIFRINQTVELIVSSKPDVLLIVDNPDFTHRVAKRVRKKMPNLPIINYVCPS 124
V+ L I + VEL + + D +L++D+ F +AK+++K P II Y+ P
Sbjct: 55 DVLPKLFFAKKAIKEMVEL--AKQADKVLLMDSSSFNIPLAKKIKKAYPKKEIIYYILPQ 112
Query: 125 VWAWREGRARKMCAYINQVISILPFEKEVMQRLGGPPTTFVGHPLSSSPSILEVYSQRNK 184
VWAW++GRA+ + Y + + SILPFE + Q T+VGHPL + +
Sbjct: 113 VWAWKKGRAKILEKYCDFLASILPFEVQFYQS----KATYVGHPL---------LDEIKE 159
Query: 185 QRNTPSQWKKILLLPGSRAQEIYKILPFFESAVASLVKRNPFFRFSLVTVSS-QENLVRC 243
+ + I +PGSR EI +++P F+ L + LV S + ++
Sbjct: 160 FKKDLDKEGTIAFMPGSRKSEIKRLMPIFKELAKKLEGKEKI----LVVPSFFKGKDLKE 215
Query: 244 IVSKWDISP-EIIIDKEQKKQVFMTCNAAMAASGTVILELALCGIPVVSIYKSEWIVNFF 302
I DIS EI D + + A SGT LE AL G P V YK++ I ++F
Sbjct: 216 IYG--DISEFEISYDTH---KALLEAEFAFICSGTATLEAALIGTPFVLAYKAKAI-DYF 269
Query: 303 I--FYIKTWTCALPNLIVDY----PLVPEYFNSMIRSEALVR 338
I ++K L N+ D+ PL PE + E L++
Sbjct: 270 IAKMFVKLKHIGLANIFFDFLGKEPLHPELLQEFVTVENLLK 311
>gnl|CDD|163290 TIGR03492, TIGR03492, conserved hypothetical protein. This protein
family is restricted to the Cyanobacteria, in one or two
copies, save for instances in the genus Deinococcus.
This protein shows some sequence similarity, especially
toward the C-terminus, to lipid-A-disaccharide synthase
(TIGR00215 or pfam02684). The function is unknown.
Length = 396
Score = 38.4 bits (90), Expect = 0.003
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 156 RLGGPPTTFVGHPLSSSPSILEVYSQRNKQRNTPSQWKKILLLPGSRAQEIYKILPFFES 215
R G +++G+P +++ ++ + +I LLPGSR E Y+ L
Sbjct: 176 RRQGVRASYLGNP------MMDGLEPPERKPL-LTGRFRIALLPGSRPPEAYRNLKLLLR 228
Query: 216 AVASLVKRNPF-FRFSLV 232
A+ +L PF F ++V
Sbjct: 229 ALEALPDSQPFVFLAAIV 246
>gnl|CDD|163339 TIGR03590, PseG, pseudaminic acid biosynthesis-associated protein
PseG. This protein is found in association with enzymes
involved in the biosynthesis of pseudaminic acid, a
component of polysaccharide in certain Pseudomonas
strains as well as a modification of flagellin in
Campylobacter and Hellicobacter. The role of this
protein is unclear, although it may participate in
N-acetylation in conjunction with, or in the absence of
PseH (TIGR03585) as it often scores above the trusted
cutoff to pfam00583 representing a family of
acetyltransferases.
Length = 279
Score = 31.6 bits (72), Expect = 0.37
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 3/81 (3%)
Query: 214 ESAVASLVKRNPFFRFSLVTVSSQENLVRCIVSKWDISPEII--IDKEQKKQVFMTCNAA 271
+++L + +LVT SS NL + P II ID E ++ + A
Sbjct: 187 LKLLSALAESQINISITLVTGSSNPNLDE-LKKFAKEYPNIILFIDVENMAELMNEADLA 245
Query: 272 MAASGTVILELALCGIPVVSI 292
+ A+G+ E G+P ++I
Sbjct: 246 IGAAGSTSWERCCLGLPSLAI 266
>gnl|CDD|182947 PRK11073, glnL, nitrogen regulation protein NR(II); Provisional.
Length = 348
Score = 30.4 bits (69), Expect = 0.71
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 8/56 (14%)
Query: 231 LVTVSSQENLVRCIVSKWDIS-PEIIIDKEQKKQVF--MTCNAAMA---ASGTVIL 280
LV++ +N+ ++ +D S PE+ D +Q +QV + NA A GT+ L
Sbjct: 209 LVSLELPDNVR--LIRDYDPSLPELAHDPDQIEQVLLNIVRNALQALGPEGGTITL 262
>gnl|CDD|181754 PRK09282, PRK09282, pyruvate carboxylase subunit B; Validated.
Length = 592
Score = 29.8 bits (68), Expect = 1.3
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 19 AGDLIKSLKEMVSYPINL 36
A +L+K+LKE V P+ L
Sbjct: 185 AYELVKALKEEVDLPVQL 202
>gnl|CDD|183098 PRK11360, PRK11360, sensory histidine kinase AtoS; Provisional.
Length = 607
Score = 29.2 bits (66), Expect = 1.8
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 4/39 (10%)
Query: 252 PEIIIDKEQKKQVFMTC--NA--AMAASGTVILELALCG 286
P I D E KQV + NA A++A G + +
Sbjct: 492 PPIWADPELLKQVLLNILINAVQAISARGKIRIRTWQYS 530
>gnl|CDD|178019 PLN02397, PLN02397, aspartate transaminase.
Length = 423
Score = 27.6 bits (62), Expect = 5.6
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 5/29 (17%)
Query: 188 TPSQWKKILLLPGSRAQEIYKILPFFESA 216
TP QW++I S + LPFF+SA
Sbjct: 212 TPEQWEQI-----SDLIKSKNHLPFFDSA 235
>gnl|CDD|180838 PRK07102, PRK07102, short chain dehydrogenase; Provisional.
Length = 243
Score = 27.2 bits (61), Expect = 6.8
Identities = 6/14 (42%), Positives = 11/14 (78%)
Query: 63 IMQVVRHLPQFIFR 76
IM ++R +P+ IF+
Sbjct: 226 IMLIIRSIPEPIFK 239
>gnl|CDD|132622 TIGR03583, EF_0837, probable amidohydrolase EF_0837/AHA_3915.
Members of this family of relatively uncommon proteins
are found in both Gram-positive (e.g. Enterococcus
faecalis) and Gram-negative (e.g. Aeromonas hydrophila)
bacteria, as part of a cluster of conserved proteins.
These proteins resemble aminohydrolases (see pfam01979),
including dihydroorotases. The function is unknown.
Length = 365
Score = 27.0 bits (60), Expect = 9.2
Identities = 20/83 (24%), Positives = 38/83 (45%), Gaps = 19/83 (22%)
Query: 46 KEGLVS---LFDFSELSVIGIMQVVRHLPQFIF----RINQTVELIVSSKPDVLLIVDNP 98
+ GLV+ L D S L + Q V P FI R++++V + DN
Sbjct: 115 RIGLVAQDELADLSNLDASAVKQAVERYPDFIVGLKARMSKSV------------VGDNG 162
Query: 99 DFTHRVAKRVRKKMPNLPIINYV 121
+AK+++++ LP++ ++
Sbjct: 163 IEPLEIAKQIQQENLELPLMVHI 185
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
0.323 0.138 0.415
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 6,408,465
Number of extensions: 415549
Number of successful extensions: 849
Number of sequences better than 10.0: 1
Number of HSP's gapped: 830
Number of HSP's successfully gapped: 21
Length of query: 383
Length of database: 5,994,473
Length adjustment: 95
Effective length of query: 288
Effective length of database: 3,941,713
Effective search space: 1135213344
Effective search space used: 1135213344
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 58 (26.2 bits)