RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780402|ref|YP_003064815.1|
3-deoxy-D-manno-octulosonic-acid transferase [Candidatus Liberibacter
asiaticus str. psy62]
(440 letters)
>gnl|CDD|31708 COG1519, KdtA, 3-deoxy-D-manno-octulosonic-acid transferase [Cell
envelope biogenesis, outer membrane].
Length = 419
Score = 406 bits (1045), Expect = e-114
Identities = 169/420 (40%), Positives = 244/420 (58%), Gaps = 7/420 (1%)
Query: 9 LLGIYRWGGIFFMPFLSVSLSLYRVFNRERGRKF-GERLG-YPTALRPIGPLIWFHASSV 66
L +YR +PF++ L LYR F + RK GER G Y ++P GPL+W HA+SV
Sbjct: 1 LRFLYRLLLTLALPFIAPRL-LYRSFKGPKYRKRLGERFGFYKPPVKPEGPLVWIHAASV 59
Query: 67 GETMALIGLIPAIRSRH--VNVLLTTMTATSAKVARKYLGQYAIHQYAPLDIQPAVSRFL 124
GE +A + L+ A+R R + +L+TTMT T A+ A G IHQY PLD+ AV RFL
Sbjct: 60 GEVLAALPLVRALRERFPDLRILVTTMTPTGAERAAALFGDSVIHQYLPLDLPIAVRRFL 119
Query: 125 KYWKPDCMILSESDIWPLTVFELSKQRIPQVLVNARMSRRSFKNWKTVLSFSKKIFSQFS 184
+ W+P +I+ E+++WP + EL ++ IP VLVNAR+S RSF + + ++ +F
Sbjct: 120 RKWRPKLLIIMETELWPNLINELKRRGIPLVLVNARLSDRSFARYAKLKFLARLLFKNID 179
Query: 185 LVIVQSERYFRRYKELGAQKLIVSGNLKIDTESLPCDKELLSLYQESIAG-RYTWAAIST 243
L++ QSE +R++ LGA+ ++V+GNLK D E P L+ + + G R W A ST
Sbjct: 180 LILAQSEEDAQRFRSLGAKPVVVTGNLKFDIEPPPQLAAELAALRRQLGGHRPVWVAAST 239
Query: 244 FEGEEDKAVYVH-NFIKCRTDVLTIIVPRHPRRCDAIERRLIAKGLKVARRSRGDVINAE 302
EGEE+ + H K ++L I+VPRHP R A+E L KGL V RRS+GD ++
Sbjct: 240 HEGEEEIILDAHQALKKQFPNLLLILVPRHPERFKAVENLLKRKGLSVTRRSQGDPPFSD 299
Query: 303 VDIFLGDTIGEMGFYLRMTEIAFIGRSFCASGGQNPLEAAMLGCAILSGPNVENFRDIYR 362
D+ LGDT+GE+G + +IAF+G S GG NPLE A G ++ GP NF DI
Sbjct: 300 TDVLLGDTMGELGLLYGIADIAFVGGSLVPIGGHNPLEPAAFGTPVIFGPYTFNFSDIAE 359
Query: 363 RMVSSGAVRIVEEVGTLADMVYSLLSEPTIRYEMINAAINEVKKMQGPLKITLRSLDSYV 422
R++ +GA VE+ LA V LL++ R A + + + +G L TL +L Y+
Sbjct: 360 RLLQAGAGLQVEDADLLAKAVELLLADEDKREAYGRAGLEFLAQNRGALARTLEALKPYL 419
>gnl|CDD|146849 pfam04413, Glycos_transf_N, 3-Deoxy-D-manno-octulosonic-acid
transferase (kdotransferase). Members of this family
transfer activated sugars to a variety of substrates,
including glycogen, fructose-6-phosphate and
lipopolysaccharides. Members of the family transfer UDP,
ADP, GDP or CMP linked sugars. The Glycos_transf_N
region is flanked at the N-terminus by a signal peptide
and at the C-terminus by Glycos_transf_1 (pfam00534).
The eukaryotic glycogen synthases may be distant members
of this bacterial family.
Length = 186
Score = 207 bits (529), Expect = 5e-54
Identities = 76/181 (41%), Positives = 115/181 (63%), Gaps = 6/181 (3%)
Query: 42 FGERLGYPTALRPI--GPLIWFHASSVGETMALIGLIPAIRSRH--VNVLLTTMTATSAK 97
ER G+ + P GPLIW HA+SVGE +A + LI A+++R+ + +L+TT T T A+
Sbjct: 5 LRERFGFASPPPPQGGGPLIWLHAASVGEVLAALPLIEALKARYPGLRILVTTTTPTGAE 64
Query: 98 VARKYLGQYAIHQYAPLDIQPAVSRFLKYWKPDCMILSESDIWPLTVFELSKQRIPQVLV 157
+ARK L IHQY PLD+ AV RFLK+W+PD +++ E+++WP + K+ IP VLV
Sbjct: 65 LARKLLPDRVIHQYLPLDLPGAVRRFLKHWRPDLLVIVETELWPNLIAAAKKRGIPVVLV 124
Query: 158 NARMSRRSFKNWKTVLSFSKKIFSQFSLVIVQSERYFRRYKELGA--QKLIVSGNLKIDT 215
NAR+S RS + ++ + + +F L++ QSE R++ LGA ++ V+GNLK D
Sbjct: 125 NARLSERSARRYRRFPGLFRPLLRRFDLILAQSEEDAERFRALGAPPDRVEVTGNLKFDA 184
Query: 216 E 216
Sbjct: 185 A 185
>gnl|CDD|99990 cd03820, GT1_amsD_like, This family is most closely related to the
GT1 family of glycosyltransferases. AmSD in Erwinia
amylovora has been shown to be involved in the
biosynthesis of amylovoran, the acidic exopolysaccharide
acting as a virulence factor. This enzyme may be
responsible for the formation of galactose alpha-1,6
linkages in amylovoran..
Length = 348
Score = 34.5 bits (80), Expect = 0.055
Identities = 30/148 (20%), Positives = 54/148 (36%), Gaps = 13/148 (8%)
Query: 95 SAKVARKYLGQYAIH-QYAPLDIQPAVSRFLKYWKPDCMILSESDIWPLTVFELSKQRIP 153
K+ LG A + + LK KPD +I + LT +I
Sbjct: 49 DPKIKVIDLGDKRDSKLLARFKKLRRLRKLLKNNKPDVVISFLT--SLLTFLASLGLKIV 106
Query: 154 QVLVNARMSRRSFKNWKTVLSFSKKIFSQFSLVIVQSERYFRRYKELGAQKLIVSGN-LK 212
+++V+ S ++K L + ++ + V+V +E Y + + ++V N L
Sbjct: 107 KLIVSEHNSPDAYKKRLRRLLLRRLLYRRADAVVVLTEEDRALYYKKFNKNVVVIPNPLP 166
Query: 213 IDTESLPCD---KELLSLYQESIAGRYT 237
E D K +L+ GR
Sbjct: 167 FPPEEPSSDLKSKRILA------VGRLV 188
>gnl|CDD|113327 pfam04552, Sigma54_DBD, Sigma-54, DNA binding domain. This DNA
binding domain is based on peptide fragmentation data.
This domain is proximal to DNA in the
promoter/holoenzyme complex. Furthermore this region
contains a putative helix-turn-helix motif. At the
C-terminus, there is a highly conserved region known as
the RpoN box and is the signature of the sigma-54
proteins.
Length = 160
Score = 31.0 bits (71), Expect = 0.72
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 9/58 (15%)
Query: 239 AAISTFEGEEDKAVYVHNFIKCRTDVLTII---VPRHPRRCDAIERRLIAKGLKVARR 293
+A+ST G E A + IK +I P+ P D I L +G+ +ARR
Sbjct: 90 SAVSTSGGGEASATAIRALIK------KLIAAEDPKKPLSDDKIVELLKEQGIDIARR 141
>gnl|CDD|88409 cd05014, SIS_Kpsf, KpsF-like protein. KpsF is an
arabinose-5-phosphate isomerase which contains SIS
(Sugar ISomerase) domains. SIS domains are found in many
phosphosugar isomerases and phosphosugar binding
proteins. KpsF catalyzes the reversible reaction of
ribulose 5-phosphate to arabinose 5-phosphate. This is
the second step in the CMP-Kdo biosynthesis pathway..
Length = 128
Score = 29.7 bits (67), Expect = 1.6
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 64 SSVGETMALIGLIPAIRSRHVNVLLTTMTATS--AKVARKYLGQYAIHQYAPLDIQPAVS 121
S+ GET L+ L+P ++ R ++ T S AK++ L + PL + P S
Sbjct: 55 SNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLAKLSDVVLDLPVEEEACPLGLAPTTS 114
>gnl|CDD|99982 cd03811, GT1_WabH_like, This family is most closely related to the
GT1 family of glycosyltransferases. WabH in Klebsiella
pneumoniae has been shown to transfer a GlcNAc residue
from UDP-GlcNAc onto the acceptor GalUA residue in the
cellular outer core..
Length = 353
Score = 28.8 bits (65), Expect = 3.1
Identities = 28/158 (17%), Positives = 56/158 (35%), Gaps = 13/158 (8%)
Query: 72 LIGLIPAIRSRHVNVLLTTMTAT-------SAKVARKYLGQYAIHQYAPLDIQPAVSRFL 124
L+ L + R +V L + + V + + L + R L
Sbjct: 18 LLNLANGLDKRGYDVTLVVLRDEGDYLELLPSNVKLIPVRVLKLKSLRDLLAILRLRRLL 77
Query: 125 KYWKPDCMILSESDIWPLTVFELSKQRIPQVLVNARMSR-RSFKNWKTVLSFSKKIFSQF 183
+ KPD ++S P + L+ + +++V S K +L +K++ +
Sbjct: 78 RKEKPDV-VISHLTTTPNVLALLAARLGTKLIVWEHNSLSLELKRKLRLLLLIRKLYRRA 136
Query: 184 SLVIVQSE---RYFRRYKELGAQKLIVSGNLKIDTESL 218
++ SE + + K+ V N ID E +
Sbjct: 137 DKIVAVSEGVKEDLLKLLGIPPDKIEVIYNP-IDIEEI 173
>gnl|CDD|31137 COG0794, GutQ, Predicted sugar phosphate isomerase involved in
capsule formation [Cell envelope biogenesis, outer
membrane].
Length = 202
Score = 28.3 bits (63), Expect = 4.4
Identities = 30/111 (27%), Positives = 38/111 (34%), Gaps = 21/111 (18%)
Query: 39 GRKFGERL---GYP-----------TALRPIGP---LIWFHASSVGETMALIGLIPAIRS 81
G+KF RL G P L I P +I S GET L+ L P +
Sbjct: 54 GKKFAARLASTGTPAFFVGPAEALHGDLGMITPGDVVIAISGS--GETKELLNLAPKAKR 111
Query: 82 RHVNVLLTTMTATS--AKVARKYLGQYAIHQYAPLDIQPAVSRFLKYWKPD 130
++ T S AK A L + PL + P S L D
Sbjct: 112 LGAKLIAITSNPDSSLAKAADVVLVIPVKTEACPLGLAPTTSTTLTLALGD 162
>gnl|CDD|58511 cd01834, SGNH_hydrolase_like_2, SGNH_hydrolase subfamily. SGNH
hydrolases are a diverse family of lipases and
esterases. The tertiary fold of the enzyme is
substantially different from that of the alpha/beta
hydrolase family and unique among all known hydrolases;
its active site closely resembles the Ser-His-Asp(Glu)
triad found in other serine hydrolases..
Length = 191
Score = 27.2 bits (60), Expect = 9.5
Identities = 21/113 (18%), Positives = 34/113 (30%), Gaps = 40/113 (35%)
Query: 296 GDVINAEVDIFLGDTIGEMGFYLRMTE-----------IAFIGRSFC---ASGGQNPLEA 341
GD I +F+G++I + G Y+ E + F + S +
Sbjct: 1 GDRI-----VFIGNSITDRGGYVGYVETYLAARYPELKLTFRNLGWSGDTVSDLAARRDR 55
Query: 342 -----------AMLG-----CAILSGPNVENFRDIYRRMVSS-----GAVRIV 373
M G +E F+ RR++ A RIV
Sbjct: 56 DVLPAKPDVVSIMFGINDSFRGFDDPVGLEKFKTNLRRLIDRLKNKESAPRIV 108
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.325 0.139 0.414
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,331,829
Number of extensions: 285873
Number of successful extensions: 912
Number of sequences better than 10.0: 1
Number of HSP's gapped: 907
Number of HSP's successfully gapped: 16
Length of query: 440
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 343
Effective length of database: 4,167,664
Effective search space: 1429508752
Effective search space used: 1429508752
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (26.4 bits)