RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780781|ref|YP_003065194.1|
2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase
[Candidatus Liberibacter asiaticus str. psy62]
(285 letters)
>gnl|CDD|32354 COG2171, DapD, Tetrahydrodipicolinate N-succinyltransferase [Amino
acid transport and metabolism].
Length = 271
Score = 278 bits (712), Expect = 1e-75
Identities = 122/283 (43%), Positives = 160/283 (56%), Gaps = 19/283 (6%)
Query: 6 STLEEIIDSFFEESNSKNESIP--QDVKDAVQSTLDLLDRGIIRIASRDDNGHWNTHQWI 63
+ +EII+ FEE + I D+ +AV L R+A + W T +W+
Sbjct: 2 QSAQEIIELAFEERKAVRTVIYVLDDLPEAVADAYLRLHLLSHRVAEPHIDNLWGTFEWL 61
Query: 64 KKAILLSFQINPTKIISDGN-GYSTWWDKIPAKF-DDWKTKDFEKHNFRIIPGTIVRHSA 121
KKA+LL F +++ G ++DK+ + F RI+PG IVR A
Sbjct: 62 KKAVLLGFGPCDLELLEAGRLRIRGYYDKVDSVDKAPRMLDYFVPEGVRIVPGAIVRLGA 121
Query: 122 YIGPKAVLMP-SFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTG 180
YI V+MP SFVN+GA GEG+M+D ++VGSCAQ+GKN HI GG IGGVLEP+Q
Sbjct: 122 YIAKGTVVMPESFVNIGAGTGEGTMVDGRASVGSCAQVGKNSHIGGGASIGGVLEPLQAN 181
Query: 181 PTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVV 240
P II DNC IGA SE+VEG I+ +G V+ GVFI + TKI DR G + + SVVV
Sbjct: 182 PVIIGDNCLIGANSEVVEGVIVGDGCVVAAGVFITQDTKIYDRVAGRV------AGSVVV 235
Query: 241 PGSYPSINLKGDIAGPHLYCAVIIKKVDEKTRSKTSINTLLRD 283
G+ P G LYCA I+K+VD KT+ KT IN LLR
Sbjct: 236 AGTLP--------GGLSLYCASIVKQVDAKTKGKTEINELLRT 270
>gnl|CDD|100041 cd03350, LbH_THP_succinylT,
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP)
N-succinyltransferase (also called THP
succinyltransferase): THDP N-succinyltransferase
catalyzes the conversion of tetrahydrodipicolinate and
succinyl-CoA to N-succinyltetrahydrodipicolinate and
CoA. It is the committed step in the succinylase pathway
by which bacteria synthesize L-lysine and
meso-diaminopimelate, a component of peptidoglycan. The
enzyme is homotrimeric and each subunit contains an
N-terminal region with alpha helices and hairpin loops,
as well as a C-terminal region with a left-handed
parallel alpha-helix (LbH) structural motif encoded by
hexapeptide repeat motifs..
Length = 139
Score = 221 bits (565), Expect = 2e-58
Identities = 87/139 (62%), Positives = 106/139 (76%), Gaps = 1/139 (0%)
Query: 108 NFRIIPGTIVRHSAYIGPKAVLM-PSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISG 166
R+ PG I+R A+IGP AVLM PS+VN+GAY+ EG+M+D+W+TVGSCAQIGKNVH+S
Sbjct: 1 GRRVPPGAIIRDGAFIGPGAVLMMPSYVNIGAYVDEGTMVDSWATVGSCAQIGKNVHLSA 60
Query: 167 GVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIIDRNTG 226
G IGGVLEP+Q P IIED+ FIGA E+VEG I+ +G+VL GV + +ST I DR TG
Sbjct: 61 GAVIGGVLEPLQATPVIIEDDVFIGANCEVVEGVIVGKGAVLAAGVVLTQSTPIYDRETG 120
Query: 227 EITYGEVPSYSVVVPGSYP 245
EI YG VP SVVV GS P
Sbjct: 121 EIYYGRVPPGSVVVAGSLP 139
>gnl|CDD|100038 cd00208, LbetaH, Left-handed parallel beta-Helix (LbetaH or LbH)
domain: The alignment contains 5 turns, each containing
three imperfect tandem repeats of a hexapeptide repeat
motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing
hexapeptide repeats are often enzymes showing
acyltransferase activity, however, some subfamilies in
this hierarchy also show activities related to ion
transport or translation initiation. Many are trimeric
in their active forms..
Length = 78
Score = 79.6 bits (197), Expect = 9e-16
Identities = 29/78 (37%), Positives = 39/78 (50%)
Query: 138 AYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIV 197
+IGEG I + + IG NV+I G IG P + PTII DN IGA + I
Sbjct: 1 VFIGEGVKIHPKAVIRGPVVIGDNVNIGPGAVIGAATGPNEKNPTIIGDNVEIGANAVIH 60
Query: 198 EGCIIREGSVLGMGVFIG 215
G I + +V+G G +
Sbjct: 61 GGVKIGDNAVIGAGAVVT 78
>gnl|CDD|100050 cd03360, LbH_AT_putative, Putative Acyltransferase (AT),
Left-handed parallel beta-Helix (LbH) domain; This group
is composed of mostly uncharacterized proteins
containing an N-terminal helical subdomain followed by a
LbH domain. The alignment contains 6 turns, each
containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
Proteins containing hexapeptide repeats are often
enzymes showing acyltransferase activity. A few members
are identified as NeuD, a sialic acid (Sia)
O-acetyltransferase that is required for Sia synthesis
and surface polysaccharide sialylation..
Length = 197
Score = 63.7 bits (156), Expect = 5e-11
Identities = 38/126 (30%), Positives = 59/126 (46%), Gaps = 15/126 (11%)
Query: 100 KTKDFEKHNFRII----PGTIVRHSAYIGPKAVLMP-SFVNMGAYIGEGSMIDTWSTVGS 154
+ +R P +V SA IG V+M + +N A IG+ +I+T + +G
Sbjct: 72 LAEKLLAAGYRFATLIHPSAVVSPSAVIGEGCVIMAGAVINPDARIGDNVIINTGAVIGH 131
Query: 155 CAQIGKNVHISGGVGI-GGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVF 213
IG VHI+ GV + GGV I + FIGA + I++G I G+++G G
Sbjct: 132 DCVIGDFVHIAPGVVLSGGV---------TIGEGAFIGAGATIIQGVTIGAGAIIGAGAV 182
Query: 214 IGKSTK 219
+ K
Sbjct: 183 VTKDVP 188
>gnl|CDD|100053 cd04647, LbH_MAT_like, Maltose O-acyltransferase (MAT)-like: This
family is composed of maltose O-acetyltransferase,
galactoside O-acetyltransferase (GAT), xenobiotic
acyltransferase (XAT) and similar proteins. MAT and GAT
catalyze the CoA-dependent acetylation of the 6-hydroxyl
group of their respective sugar substrates. MAT
acetylates maltose and glucose exclusively while GAT
specifically acetylates galactopyranosides. XAT
catalyzes the CoA-dependent acetylation of a variety of
hydroxyl-bearing acceptors such as chloramphenicol and
streptogramin, among others. XATs are implicated in
inactivating xenobiotics leading to xenobiotic
resistance in patients. Members of this family contain a
a left-handed parallel beta-helix (LbH) domain with at
least 5 turns, each containing three imperfect tandem
repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X). They are trimeric in their
active form..
Length = 109
Score = 54.8 bits (133), Expect = 2e-08
Identities = 30/113 (26%), Positives = 45/113 (39%), Gaps = 30/113 (26%)
Query: 139 YIGEGSMIDTWSTVGSCAQIGKNVHISGGVGI-----------GGVLEPIQTGPTIIEDN 187
YIG G +I + IG NV I V I + + + + P +I D+
Sbjct: 9 YIGPGCVISAGGGI----TIGDNVLIGPNVTIYDHNHDIDDPERPIEQGVTSAPIVIGDD 64
Query: 188 CFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVV 240
+IGA I+ G I +G+V+G G + K VP S+V
Sbjct: 65 VWIGANVVILPGVTIGDGAVVGAGSVVTKD---------------VPPNSIVA 102
>gnl|CDD|31246 COG1044, LpxD, UDP-3-O-[3-hydroxymyristoyl].
Length = 338
Score = 52.2 bits (125), Expect = 1e-07
Identities = 34/107 (31%), Positives = 46/107 (42%), Gaps = 9/107 (8%)
Query: 115 TIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVL 174
+A I P AV+ P+ A IG+ I +G+ IG+NV I G IG
Sbjct: 94 RPFNPAAGIHPTAVIDPT-----ATIGKNVSIGPNVVIGAGVVIGENVVIGAGAVIG--- 145
Query: 175 EPIQTGP-TIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKI 220
E ++ G T+I N I I II G+V+G F T I
Sbjct: 146 ENVKIGDGTVIHPNVTIYHNVVIGNNVIIHSGAVIGADGFGYAGTAI 192
Score = 50.7 bits (121), Expect = 5e-07
Identities = 31/150 (20%), Positives = 45/150 (30%), Gaps = 34/150 (22%)
Query: 108 NFRIIPGTIVRHSAYIGPKAVLMP-SFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISG 166
N I P ++ IG V+ + + IG+G++I T+ IG NV I
Sbjct: 117 NVSIGPNVVIGAGVVIGENVVIGAGAVIGENVKIGDGTVIHPNVTIYHNVVIGNNVIIHS 176
Query: 167 GVGIGG---VLEPIQTGP------------------------------TIIEDNCFIGAR 193
G IG G T+I + I
Sbjct: 177 GAVIGADGFGYAGTAIGWVKIPQIGRVIIGDDVEIGANTTIDRGALDDTVIGEGVKIDNL 236
Query: 194 SEIVEGCIIREGSVLGMGVFIGKSTKIIDR 223
+I I E ++ V I S KI
Sbjct: 237 VQIGHNVRIGEHCIIAGQVGIAGSVKIGKY 266
Score = 41.4 bits (97), Expect = 3e-04
Identities = 28/90 (31%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 134 VNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGAR 193
N A I ++ID +T+G IG NV I GV IG +N IGA
Sbjct: 96 FNPAAGIHPTAVIDPTATIGKNVSIGPNVVIGAGVVIG--------------ENVVIGAG 141
Query: 194 SEIVEGCIIREGSVLGMGVFIGKSTKIIDR 223
+ I E I +G+V+ V I + I +
Sbjct: 142 AVIGENVKIGDGTVIHPNVTIYHNVVIGNN 171
Score = 39.9 bits (93), Expect = 0.001
Identities = 23/57 (40%), Positives = 27/57 (47%), Gaps = 8/57 (14%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEI 196
IGE +I + +IGK V I G VGI G LE I D IGARS +
Sbjct: 245 IGEHCIIAGQVGIAGSVKIGKYVIIGGQVGIAGHLE--------IGDGVTIGARSGV 293
Score = 32.6 bits (74), Expect = 0.12
Identities = 21/84 (25%), Positives = 29/84 (34%), Gaps = 10/84 (11%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEG 199
I G++ DT +G +I V I V IG II I +I +
Sbjct: 217 IDRGALDDT--VIGEGVKIDNLVQIGHNVRIGE--------HCIIAGQVGIAGSVKIGKY 266
Query: 200 CIIREGSVLGMGVFIGKSTKIIDR 223
II + + IG I R
Sbjct: 267 VIIGGQVGIAGHLEIGDGVTIGAR 290
>gnl|CDD|36674 KOG1461, KOG1461, KOG1461, Translation initiation factor 2B,
epsilon subunit (eIF-2Bepsilon/GCD6) [Translation,
ribosomal structure and biogenesis].
Length = 673
Score = 51.1 bits (122), Expect = 3e-07
Identities = 40/132 (30%), Positives = 60/132 (45%), Gaps = 11/132 (8%)
Query: 94 AKFDDWKTKDFEKHNFRIIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVG 153
F +T E+ N P ++ HS +G V+ G IG GS I S +G
Sbjct: 301 INFSGNQTFSLERRNIYKSPDVVLSHSVIVGANVVI-----GAGTKIGSGSKISN-SVIG 354
Query: 154 SCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVF 213
+ +IG NV I V I I D+ I +I EG I++ GSVLG GV
Sbjct: 355 ANCRIGSNVRIKNSFIWNNVT--IGDNCRI--DHAIICDDVKIGEGAILKPGSVLGFGVV 410
Query: 214 IGKSTKIIDRNT 225
+G++ ++ +N+
Sbjct: 411 VGRN-FVLPKNS 421
>gnl|CDD|100054 cd04649, LbH_THP_succinylT_putative, Putative
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP)
N-succinyltransferase (THP succinyltransferase),
C-terminal left-handed parallel alpha-helix (LbH)
domain: This group is composed of mostly uncharacterized
proteins containing an N-terminal domain of unknown
function and a C-terminal LbH domain with similarity to
THP succinyltransferase LbH. THP succinyltransferase
catalyzes the conversion of tetrahydrodipicolinate and
succinyl-CoA to N-succinyltetrahydrodipicolinate and
CoA. It is the committed step in the succinylase pathway
by which bacteria synthesize L-lysine and
meso-diaminopimelate, a component of peptidoglycan. The
enzyme is trimeric and displays the left-handed parallel
alpha-helix (LbH) structural motif encoded by the
hexapeptide repeat motif..
Length = 147
Score = 49.3 bits (118), Expect = 1e-06
Identities = 30/114 (26%), Positives = 46/114 (40%), Gaps = 5/114 (4%)
Query: 108 NFRIIPGTIVRHSAYIGPKAVLMP-SFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISG 166
RI VR AY+ +M FVN A M++ + S +GK + G
Sbjct: 1 GVRIADADRVRLGAYLAEGTTVMHEGFVNFNAGTLGNCMVE--GRISSGVIVGKGSDVGG 58
Query: 167 GVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKI 220
G I G L I C +GA S I G + + ++ G+++ TK+
Sbjct: 59 GASIMGTLSGGGNNVISIGKRCLLGANSGI--GISLGDNCIVEAGLYVTAGTKV 110
>gnl|CDD|100045 cd03354, LbH_SAT, Serine acetyltransferase (SAT): SAT catalyzes the
CoA-dependent acetylation of the side chain hydroxyl
group of L-serine to form O-acetylserine, as the first
step of a two-step biosynthetic pathway in bacteria and
plants leading to the formation of L-cysteine. This
reaction represents a key metabolic point of regulation
for the cysteine biosynthetic pathway due to its
feedback inhibition by cysteine. The enzyme is a 175 kDa
homohexamer, composed of a dimer of homotrimers. Each
subunit contains an N-terminal alpha helical region and
a C-terminal left-handed beta-helix (LbH) subdomain with
5 turns, each containing a hexapeptide repeat motif
characteristic of the acyltransferase superfamily of
enzymes. The trimer interface mainly involves the
C-terminal LbH subdomain while the dimer (of trimers)
interface is mediated by the N-terminal alpha helical
subdomain..
Length = 101
Score = 48.2 bits (116), Expect = 3e-06
Identities = 32/106 (30%), Positives = 43/106 (40%), Gaps = 17/106 (16%)
Query: 137 GAYIGEGSMIDTWSTV--GSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARS 194
GA IG G ID + + G A IG N I GV +GG + I DN IGA +
Sbjct: 8 GAKIGPGLFIDHGTGIVIGETAVIGDNCTIYQGVTLGGKGKGGGKRHPTIGDNVVIGAGA 67
Query: 195 EIVEGCIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVV 240
+I+ I + +G + K VP+ S VV
Sbjct: 68 KILGNITIGDNVKIGANAVVTKD---------------VPANSTVV 98
>gnl|CDD|100039 cd00710, LbH_gamma_CA, Gamma carbonic anhydrases (CA): Carbonic
anhydrases are zinc-containing enzymes that catalyze the
reversible hydration of carbon dioxide in a two-step
mechanism, involving the nucleophilic attack of a
zinc-bound hydroxide ion on carbon dioxide, followed by
the regeneration of the active site by ionization of the
zinc-bound water molecule and removal of a proton from
the active site. They are ubiquitous enzymes involved in
fundamental processes like photosynthesis, respiration,
pH homeostasis and ion transport. There are three
distinct groups of carbonic anhydrases - alpha, beta
and gamma - which show no significant sequence identity
or structural similarity. Gamma CAs are homotrimeric
enzymes, with each subunit containing a left-handed
parallel beta helix (LbH) structural domain..
Length = 167
Score = 46.8 bits (112), Expect = 7e-06
Identities = 39/135 (28%), Positives = 61/135 (45%), Gaps = 28/135 (20%)
Query: 116 IVRHSAYIGPKAVLMPSF-VNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVL 174
++ SAY+ P AV++ + ++G G+ I + G+ IG NV+I GV I L
Sbjct: 4 VIDPSAYVHPTAVVIGDVIIGDNVFVGPGASIR--ADEGTPIIIGANVNIQDGVVIHA-L 60
Query: 175 EP---------------IQTGPTIIEDNCFIGARS-----EIVEGCIIREGS-VLGMGVF 213
E I GP I DNCFIG RS ++ + C+I + V G+ +
Sbjct: 61 EGYSVWIGKNVSIAHGAIVHGPAYIGDNCFIGFRSVVFNAKVGDNCVIGHNAVVDGVEIP 120
Query: 214 IGK---STKIIDRNT 225
G+ + +I T
Sbjct: 121 PGRYVPAGAVITSQT 135
>gnl|CDD|31401 COG1208, GCD1, Nucleoside-diphosphate-sugar pyrophosphorylase
involved in lipopolysaccharide biosynthesis/translation
initiation factor 2B, gamma/epsilon subunits
(eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis,
outer membrane / Translation, ribosomal structure and
biogenesis].
Length = 358
Score = 45.7 bits (108), Expect = 1e-05
Identities = 36/139 (25%), Positives = 46/139 (33%), Gaps = 28/139 (20%)
Query: 89 WDKIPAKFDDWKTKDFEKHNFRIIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDT 148
D + A + P I+R + IGP IG G+ I
Sbjct: 225 EDLLEANELLLRGDGKSPLGPIEEPVVIIRSAYIIGP------------VVIGPGAKIGP 272
Query: 149 WSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVL 208
+ +G IG+ V I GV I II DN IG S I S++
Sbjct: 273 GALIGPYTVIGEGVTIGNGVEIKNS---------IIMDNVVIGHGSYI-------GDSII 316
Query: 209 GMGVFIGKSTKIIDRNTGE 227
G IG S I D G
Sbjct: 317 GENCKIGASLIIGDVVIGI 335
>gnl|CDD|100049 cd03359, LbH_Dynactin_5, Dynactin 5 (or subunit p25); Dynactin is a
major component of the activator complex that stimulates
dynein-mediated vesicle transport. Dynactin is a
heterocomplex of at least eight subunits, including a
150,000-MW protein called Glued, the actin-capping
protein Arp1, and dynamatin. In vitro binding
experiments show that dynactin enhances dynein-dependent
motility, possibly through interaction with microtubules
and vesicles. Subunit p25 is part of the pointed-end
subcomplex in dynactin that also includes p26, p27, and
Arp11. This subcomplex interacts with membranous
cargoes. p25 and p27 contain imperfect tandem repeats of
a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X),
indicating a left-handed parallel beta helix (LbH)
structural domain. Proteins containing hexapeptide
repeats are often enzymes showing acyltransferase
activity..
Length = 161
Score = 44.9 bits (107), Expect = 3e-05
Identities = 26/107 (24%), Positives = 40/107 (37%), Gaps = 41/107 (38%)
Query: 115 TIVRHSAYIGPKAVLMPSF-----------VNMGAY--IGEGSMIDTWSTVGSCAQIGKN 161
+I R+ + V+ P F +++G Y IGE ++ + AQIG
Sbjct: 44 SIGRYC-ILSEGCVIRPPFKKFSKGVAFFPLHIGDYVFIGENCVV-------NAAQIGSY 95
Query: 162 VHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVL 208
VHI NC IG R I + I +G+V+
Sbjct: 96 VHI--------------------GKNCVIGRRCIIKDCVKILDGTVV 122
>gnl|CDD|31007 COG0663, PaaY, Carbonic anhydrases/acetyltransferases, isoleucine
patch superfamily [General function prediction only].
Length = 176
Score = 44.8 bits (106), Expect = 3e-05
Identities = 30/135 (22%), Positives = 49/135 (36%), Gaps = 18/135 (13%)
Query: 97 DDWKTKDFEKHNFRIIPGTIVRHSAYIGPKAVLMPSFVNMGAY----IGEGSMIDTWSTV 152
+ + + F + P V IG + P V G IG + I +
Sbjct: 7 YEGLSPKIDPTAF-VAPSATVIGDVRIGAGVSIWPGAVLRGDVEPIRIGARTNIQDGVVI 65
Query: 153 ----GSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVL 208
G IG +V I G + G I DN IG + +++G +I +GS++
Sbjct: 66 HADPGYPVTIGDDVTIGHGAVVHGC---------TIGDNVLIGMGATVLDGAVIGDGSIV 116
Query: 209 GMGVFIGKSTKIIDR 223
G G + +I
Sbjct: 117 GAGALVTPGKEIPGG 131
>gnl|CDD|31247 COG1045, CysE, Serine acetyltransferase [Amino acid transport and
metabolism].
Length = 194
Score = 44.5 bits (105), Expect = 3e-05
Identities = 34/110 (30%), Positives = 50/110 (45%), Gaps = 19/110 (17%)
Query: 134 VNMGAYIGEGSMID--TWSTVGSCAQIGKNVHISGGVGIGGV-LEPIQTGPTIIEDNCFI 190
++ GA IG G ID T +G A IG +V I GV +GG E + PT I + +I
Sbjct: 70 IHPGAKIGRGLFIDHGTGVVIGETAVIGDDVTIYHGVTLGGTGKESGKRHPT-IGNGVYI 128
Query: 191 GARSEIVEGCIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVV 240
GA ++I+ I + + +G G + K VP + VV
Sbjct: 129 GAGAKILGNIEIGDNAKIGAGSVVLKD---------------VPPNATVV 163
>gnl|CDD|100043 cd03352, LbH_LpxD, UDP-3-O-acyl-glucosamine N-acyltransferase
(LpxD): The enzyme catalyzes the transfer of
3-hydroxymyristic acid or 3-hydroxy-arachidic acid,
depending on the organism, from the acyl carrier protein
(ACP) to UDP-3-O-acyl-glucosamine to produce
UDP-2,3-diacyl-GlcNAc. This constitutes the third step
in the lipid A biosynthetic pathway in Gram-negative
bacteria. LpxD is a homotrimer, with each subunit
consisting of a novel combination of an N-terminal
uridine-binding domain, a core lipid-binding left-handed
parallel beta helix (LbH) domain, and a C-terminal
alpha-helical extension. The LbH domain contains 9
turns, each containing three imperfect tandem repeats of
a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X)..
Length = 205
Score = 44.3 bits (106), Expect = 3e-05
Identities = 35/133 (26%), Positives = 51/133 (38%), Gaps = 22/133 (16%)
Query: 110 RIIPGTIVRHSAYIGPKAVLMP-SFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGV 168
I P ++ IG V+ P + G IG+ +I T+ IG V I G
Sbjct: 9 SIGPNAVIGEGVVIGDGVVIGPGVVIGDGVVIGDDCVIHPNVTIYEGCIIGDRVIIHSGA 68
Query: 169 GIG----------GVLEPI-QTGPTIIEDNCFIGARSEI----VEGCIIREGSVL----- 208
IG G I Q G II D+ IGA + I + +I +G+ +
Sbjct: 69 VIGSDGFGFAPDGGGWVKIPQLGGVIIGDDVEIGANTTIDRGALGDTVIGDGTKIDNLVQ 128
Query: 209 -GMGVFIGKSTKI 220
V IG++ I
Sbjct: 129 IAHNVRIGENCLI 141
Score = 40.9 bits (97), Expect = 5e-04
Identities = 29/79 (36%), Positives = 36/79 (45%), Gaps = 10/79 (12%)
Query: 138 AYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIG-GVLEPIQTGPTIIEDNCFIGARSEI 196
A IGE I + +G IG V I GV IG GV +I D+C I I
Sbjct: 2 AKIGENVSIGPNAVIGEGVVIGDGVVIGPGVVIGDGV---------VIGDDCVIHPNVTI 52
Query: 197 VEGCIIREGSVLGMGVFIG 215
EGCII + ++ G IG
Sbjct: 53 YEGCIIGDRVIIHSGAVIG 71
Score = 39.7 bits (94), Expect = 0.001
Identities = 19/62 (30%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 156 AQIGKNVHISGGVGIGGVLEPIQTGP-TIIEDNCFIGARSEIVEGCIIREGSVLGMGVFI 214
A+IG+NV I IG E + G +I IG I + C+I + G I
Sbjct: 2 AKIGENVSIGPNAVIG---EGVVIGDGVVIGPGVVIGDGVVIGDDCVIHPNVTIYEGCII 58
Query: 215 GK 216
G
Sbjct: 59 GD 60
Score = 35.1 bits (82), Expect = 0.025
Identities = 23/70 (32%), Positives = 28/70 (40%), Gaps = 10/70 (14%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEG 199
IGE +I + IG NV I G VGI G L I D IGA S +
Sbjct: 135 IGENCLIAAQVGIAGSTTIGDNVIIGGQVGIAGHLT--------IGDGVVIGAGSGVTS- 185
Query: 200 CIIREGSVLG 209
I+ G +
Sbjct: 186 -IVPPGEYVS 194
Score = 34.3 bits (80), Expect = 0.041
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 183 IIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKI 220
I +N IG + I EG +I +G V+G GV IG I
Sbjct: 3 KIGENVSIGPNAVIGEGVVIGDGVVIGPGVVIGDGVVI 40
>gnl|CDD|39947 KOG4750, KOG4750, KOG4750, Serine O-acetyltransferase [Amino acid
transport and metabolism].
Length = 269
Score = 44.3 bits (104), Expect = 4e-05
Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 2/82 (2%)
Query: 137 GAYIGEGSMID--TWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARS 194
A IG+G ++D T +G A +G NV I V +GG + I DN IGA
Sbjct: 154 AAKIGKGILLDHATGVVIGETAVVGDNVSILHPVTLGGTGKGSGDRHPKIGDNVLIGAGV 213
Query: 195 EIVEGCIIREGSVLGMGVFIGK 216
I+ I EG+V+ G + K
Sbjct: 214 TILGNVTIGEGAVIAAGSVVLK 235
>gnl|CDD|100061 cd05787, LbH_eIF2B_epsilon, eIF-2B epsilon subunit, central
Left-handed parallel beta-Helix (LbH) domain: eIF-2B is
a eukaryotic translation initiator, a guanine nucleotide
exchange factor (GEF) composed of five different
subunits (alpha, beta, gamma, delta and epsilon). eIF2B
is important for regenerating GTP-bound eIF2 during the
initiation process. This event is obligatory for eIF2 to
bind initiator methionyl-tRNA, forming the ternary
initiation complex. The eIF-2B epsilon subunit contains
an N-terminal domain that resembles a
dinucleotide-binding Rossmann fold, a central LbH domain
containing 4 turns, each containing three imperfect
tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X), and a C-terminal domain of
unknown function that is present in eIF-4 gamma, eIF-5,
and eIF-2B epsilon. The epsilon and gamma subunits form
the catalytic subcomplex of eIF-2B, which binds eIF2 and
catalyzes guanine nucleotide exchange..
Length = 79
Score = 44.1 bits (105), Expect = 5e-05
Identities = 29/83 (34%), Positives = 40/83 (48%), Gaps = 5/83 (6%)
Query: 134 VNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGAR 193
+ G IGEG+ I S +G +IGKNV I V I+ G TI + +
Sbjct: 2 IGRGTSIGEGTTI-KNSVIGRNCKIGKNVVIDNSYIWDDVT--IEDGCTI--HHSIVADG 56
Query: 194 SEIVEGCIIREGSVLGMGVFIGK 216
+ I +GC I GS++ GV IG
Sbjct: 57 AVIGKGCTIPPGSLISFGVVIGD 79
>gnl|CDD|31400 COG1207, GlmU, N-acetylglucosamine-1-phosphate uridyltransferase
(contains nucleotidyltransferase and I-patch
acetyltransferase domains) [Cell envelope biogenesis,
outer membrane].
Length = 460
Score = 42.1 bits (99), Expect = 2e-04
Identities = 40/122 (32%), Positives = 59/122 (48%), Gaps = 14/122 (11%)
Query: 107 HNFRIIPGTIVRHSAYIGPKAVLMP-----------SFVNM-GAYIGEGSMIDTWSTVGS 154
+ +I G+ V A +GP A L P +FV + A IG+GS + +G
Sbjct: 313 KAYSVIEGSTVGEGATVGPFARLRPGAVLGADVHIGNFVEVKKATIGKGSKAGHLTYLGD 372
Query: 155 CAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFI 214
A+IG+NV+I G I + TII DN FIG+ S++V I +G+ + G I
Sbjct: 373 -AEIGENVNIGAGT-ITCNYDGKNKFKTIIGDNVFIGSNSQLVAPVTIGDGATIAAGSTI 430
Query: 215 GK 216
K
Sbjct: 431 TK 432
Score = 38.6 bits (90), Expect = 0.002
Identities = 34/128 (26%), Positives = 59/128 (46%), Gaps = 16/128 (12%)
Query: 106 KHNFRIIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHIS 165
N I PG++++ S IG AV+ V G+ +GEG+ + ++ + A +G +VHI
Sbjct: 290 GDNVVIGPGSVIKDSV-IGDNAVIKAYSVIEGSTVGEGATVGPFARLRPGAVLGADVHIG 348
Query: 166 GGVGIGGVLEPIQTGP-----TIIEDNCFIGARSEIVEGCII-------REGSVLGMGVF 213
V + I G T + D IG I G I + +++G VF
Sbjct: 349 NFVEVKKA--TIGKGSKAGHLTYLGD-AEIGENVNIGAGTITCNYDGKNKFKTIIGDNVF 405
Query: 214 IGKSTKII 221
IG +++++
Sbjct: 406 IGSNSQLV 413
Score = 27.4 bits (61), Expect = 4.2
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 9/60 (15%)
Query: 161 NVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKI 220
+I G V IG +IE N + + I + +I GSV+ IG + I
Sbjct: 262 TTYIRGDVEIGR--------DVVIEPNVILEGNTVIGDNVVIGPGSVI-KDSVIGDNAVI 312
>gnl|CDD|100060 cd05636, LbH_G1P_TT_C_like, Putative glucose-1-phosphate
thymidylyltransferase, C-terminal Left-handed parallel
beta-Helix (LbH) domain: Proteins in this family show
simlarity to glucose-1-phosphate adenylyltransferases in
that they contain N-terminal catalytic domains that
resemble a dinucleotide-binding Rossmann fold and
C-terminal LbH fold domains. Members in this family are
predicted to be glucose-1-phosphate
thymidylyltransferases, which are involved in the
dTDP-L-rhamnose biosynthetic pathway.
Glucose-1-phosphate thymidylyltransferase catalyzes the
synthesis of deoxy-thymidine di-phosphate
(dTDP)-L-rhamnose, an important component of the cell
wall of many microorganisms. The C-terminal LbH domain
contains multiple turns, each containing three imperfect
tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing
hexapeptide repeats are often enzymes showing
acyltransferase activity..
Length = 163
Score = 39.9 bits (94), Expect = 8e-04
Identities = 21/67 (31%), Positives = 27/67 (40%), Gaps = 12/67 (17%)
Query: 156 AQIGKNVHISGGVGI--GGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVF 213
I V I G + G +E GP II C IG IR +VLG G
Sbjct: 12 VTIKGPVWIGEGAIVRSGAYIE----GPVIIGKGCEIGP------NAYIRGYTVLGDGCV 61
Query: 214 IGKSTKI 220
+G S ++
Sbjct: 62 VGNSVEV 68
Score = 34.9 bits (81), Expect = 0.030
Identities = 25/93 (26%), Positives = 38/93 (40%), Gaps = 20/93 (21%)
Query: 139 YIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVE 198
+IGEG+++ + + + IGK I I G T++ D C +G E+
Sbjct: 19 WIGEGAIVRSGAYIEGPVIIGKGCEIGPNAYI--------RGYTVLGDGCVVGNSVEVKN 70
Query: 199 GCIIREG-----------SVLGMGVFIGKSTKI 220
II +G SVLG V +G T
Sbjct: 71 -SIIMDGTKVPHLNYVGDSVLGENVNLGAGTIT 102
Score = 28.7 bits (65), Expect = 1.7
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 184 IEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKI 220
+E+ I I EG I+R G+ + V IGK +I
Sbjct: 8 VEEGVTIKGPVWIGEGAIVRSGAYIEGPVIIGKGCEI 44
>gnl|CDD|100044 cd03353, LbH_GlmU_C, N-acetyl-glucosamine-1-phosphate
uridyltransferase (GlmU), C-terminal left-handed
beta-helix (LbH) acetyltransferase domain: GlmU is also
known as UDP-N-acetylglucosamine pyrophosphorylase. It
is a bifunctional bacterial enzyme that catalyzes two
consecutive steps in the formation of
UDP-N-acetylglucosamine (UDP-GlcNAc), an important
precursor in bacterial cell wall formation. The two
enzymatic activities, uridyltransferase and
acetyltransferase, are carried out by two independent
domains. The C-terminal LbH domain possesses the
acetyltransferase activity. It catalyzes the
CoA-dependent acetylation of GlcN-1-phosphate to
GlcNAc-1-phosphate. The LbH domain contains 10 turns,
each containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X. The
acetyltransferase active site is located at the
interface between two subunits of the active LbH
trimer..
Length = 193
Score = 39.7 bits (94), Expect = 0.001
Identities = 39/123 (31%), Positives = 57/123 (46%), Gaps = 28/123 (22%)
Query: 107 HNFRIIPGTIVRHSAYIGPKAVLMP-----------SFVNM-GAYIGEGSMIDTWSTVGS 154
+I G ++ + A +GP A L P +FV + + IGEGS + S +G
Sbjct: 60 KASSVIEGAVIGNGATVGPFAHLRPGTVLGEGVHIGNFVEIKKSTIGEGSKANHLSYLGD 119
Query: 155 CAQIGKNVHISGGVGI----GGVLEPIQTGPTIIEDNCFIGARSEIV------EGCIIRE 204
A+IG+ V+I G I GV T+I DN FIG+ S++V +G I
Sbjct: 120 -AEIGEGVNIGAGT-ITCNYDGV----NKHRTVIGDNVFIGSNSQLVAPVTIGDGATIAA 173
Query: 205 GSV 207
GS
Sbjct: 174 GST 176
Score = 37.8 bits (89), Expect = 0.003
Identities = 27/86 (31%), Positives = 35/86 (40%), Gaps = 16/86 (18%)
Query: 145 MIDTWSTVGSCAQIGKNVHISGGVGIGG--VLEPIQT-GPTIIEDNCFIGARSEIVEGCI 201
ID +G I V + G IG V+ P + I D I A S ++EG +
Sbjct: 11 YIDGDVEIGVDVVIDPGVILEGKTVIGEDCVIGPNCVIKDSTIGDGVVIKASS-VIEGAV 69
Query: 202 I------------REGSVLGMGVFIG 215
I R G+VLG GV IG
Sbjct: 70 IGNGATVGPFAHLRPGTVLGEGVHIG 95
Score = 32.4 bits (75), Expect = 0.16
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 182 TIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKI 220
+I+ + ++ I E C+I V+ IG I
Sbjct: 22 VVIDPGVILEGKTVIGEDCVIGPNCVIK-DSTIGDGVVI 59
Score = 28.5 bits (65), Expect = 2.0
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 182 TIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIID 222
T I+ + IG I G I+ +V+G IG + I D
Sbjct: 10 TYIDGDVEIGVDVVIDPGVILEGKTVIGEDCVIGPNCVIKD 50
>gnl|CDD|100051 cd04645, LbH_gamma_CA_like, Gamma carbonic anhydrase-like: This
family is composed of gamma carbonic anhydrase (CA),
Ferripyochelin Binding Protein (FBP), E. coli paaY
protein, and similar proteins. CAs are zinc-containing
enzymes that catalyze the reversible hydration of carbon
dioxide in a two-step mechanism, involving the
nucleophilic attack of a zinc-bound hydroxide ion on
carbon dioxide, followed by the regeneration of the
active site by ionization of the zinc-bound water
molecule and removal of a proton from the active site.
They are ubiquitous enzymes involved in fundamental
processes like photosynthesis, respiration, pH
homeostasis and ion transport. There are three
evolutionary distinct groups - alpha, beta and gamma
carbonic anhydrases - which show no significant sequence
identity or structural similarity. Gamma CAs are
trimeric enzymes with left-handed parallel beta helix
(LbH) structural domain..
Length = 153
Score = 39.3 bits (93), Expect = 0.001
Identities = 29/85 (34%), Positives = 40/85 (47%), Gaps = 13/85 (15%)
Query: 140 IGEGSMIDTWSTV----GSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSE 195
IGE + I S + G IG NV + G G VL G TI DNC IG +
Sbjct: 41 IGERTNIQDGSVLHVDPGYPTIIGDNVTV----GHGAVLH----GCTI-GDNCLIGMGAI 91
Query: 196 IVEGCIIREGSVLGMGVFIGKSTKI 220
I++G +I +GS++ G + I
Sbjct: 92 ILDGAVIGKGSIVAAGSLVPPGKVI 116
Score = 32.8 bits (76), Expect = 0.10
Identities = 17/79 (21%), Positives = 31/79 (39%), Gaps = 15/79 (18%)
Query: 140 IGEGSMIDTWS----TVGSCAQIGKNVHISGG-------VGIGGVLEPIQTGPTIIEDNC 188
I +GS++ +G +G + G +G+G + I G +I
Sbjct: 47 IQDGSVLHVDPGYPTIIGDNVTVGHGAVLHGCTIGDNCLIGMGAI---ILDG-AVIGKGS 102
Query: 189 FIGARSEIVEGCIIREGSV 207
+ A S + G +I GS+
Sbjct: 103 IVAAGSLVPPGKVIPPGSL 121
>gnl|CDD|31245 COG1043, LpxA, Acyl-[acyl carrier protein].
Length = 260
Score = 38.6 bits (90), Expect = 0.002
Identities = 27/117 (23%), Positives = 41/117 (35%), Gaps = 17/117 (14%)
Query: 119 HSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQ 178
A I P A++ P GA IGE I + +G +IG + V + G I
Sbjct: 2 KMAKIHPTAIIEP-----GAEIGEDVKIGPFCIIGPNVEIGDGTVLKSHVVVEGHTT-IG 55
Query: 179 TGPTII---------EDNCFIGARSEIV--EGCIIREGSVLGMGVFIGKSTKIIDRN 224
I +D + G + ++ + IRE + G G I N
Sbjct: 56 RNNRIFPFASIGEDPQDLKYKGEPTRLIIGDNNTIREFVTIHRGTVQGGGVTRIGDN 112
Score = 33.6 bits (77), Expect = 0.069
Identities = 39/166 (23%), Positives = 61/166 (36%), Gaps = 36/166 (21%)
Query: 72 QINPTKIISDGNGYSTWWDKIPAKFDDWKTKDFEKHNFRIIPGTIVRHSAYIGPKAVLMP 131
+I+PT II G A+ + + +I P I+ + IG VL
Sbjct: 5 KIHPTAIIEPG-----------AEIGE---------DVKIGPFCIIGPNVEIGDGTVLKS 44
Query: 132 SFVNMGA-YIGEGSMIDTWSTVGSCAQ------------IGKNVHISGGVGIG-GVLEPI 177
V G IG + I ++++G Q IG N I V I G ++
Sbjct: 45 HVVVEGHTTIGRNNRIFPFASIGEDPQDLKYKGEPTRLIIGDNNTIREFVTIHRGTVQGG 104
Query: 178 QTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIIDR 223
G T I DN I A + + C+I +L + ++ D
Sbjct: 105 --GVTRIGDNNLIMAYAHVAHDCVIGNNCILANNATLAGHVEVGDY 148
Score = 29.8 bits (67), Expect = 0.83
Identities = 20/114 (17%), Positives = 41/114 (35%), Gaps = 25/114 (21%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEG 199
IG+ ++I ++ V IG N ++ + G +E + D IG S + +
Sbjct: 109 IGDNNLIMAYAHVAHDCVIGNNCILANNATLAGHVE--------VGDYAIIGGLSAVHQF 160
Query: 200 CIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVV--PGSYPSINLKG 251
I +++G + + +VP Y + +N+ G
Sbjct: 161 VRIGAHAMIGGLSAVSQ---------------DVPPYVIASGNHARLRGLNIVG 199
>gnl|CDD|100048 cd03358, LbH_WxcM_N_like, WcxM-like, Left-handed parallel
beta-Helix (LbH) N-terminal domain: This group is
composed of Xanthomonas campestris WcxM and proteins
with similarity to the WcxM N-terminal domain. WcxM is
thought to be bifunctional, catalyzing both the
isomerization and transacetylation reactions of
keto-hexoses. It contains an N-terminal LbH domain
responsible for the transacetylation function and a
C-terminal isomerase domain. The LbH domain contains
imperfect tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X), typical of enzymes with
acyltransferase activity..
Length = 119
Score = 37.1 bits (87), Expect = 0.006
Identities = 21/91 (23%), Positives = 33/91 (36%), Gaps = 19/91 (20%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIG-------------------GVLEPIQTG 180
IG I+ +G +I NV I GV I + +
Sbjct: 7 IGTNVFIENDVKIGDNVKIQSNVSIYEGVTIEDDVFIGPNVVFTNDLYPRSKIYRKWELK 66
Query: 181 PTIIEDNCFIGARSEIVEGCIIREGSVLGMG 211
T ++ IGA + I+ G I E +++G G
Sbjct: 67 GTTVKRGASIGANATILPGVTIGEYALVGAG 97
Score = 32.5 bits (75), Expect = 0.12
Identities = 17/58 (29%), Positives = 21/58 (36%), Gaps = 14/58 (24%)
Query: 158 IGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIG 215
IG N I V IE++ IG +I I EG + VFIG
Sbjct: 1 IGDNCIIGTNV--------------FIENDVKIGDNVKIQSNVSIYEGVTIEDDVFIG 44
Score = 26.7 bits (60), Expect = 7.3
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 5/35 (14%)
Query: 112 IPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMI 146
+ GT V+ A IG A ++P G IGE +++
Sbjct: 65 LKGTTVKRGASIGANATILP-----GVTIGEYALV 94
>gnl|CDD|100063 cd05825, LbH_wcaF_like, wcaF-like: This group is composed of the
protein product of the E. coli wcaF gene and similar
proteins. WcaF is part of the gene cluster responsible
for the biosynthesis of the extracellular polysaccharide
colanic acid. The wcaF protein is predicted to contain a
left-handed parallel beta-helix (LbH) domain encoded by
imperfect tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing
hexapeptide repeats are often enzymes showing
acyltransferase activity. Many are trimeric in their
active forms..
Length = 107
Score = 36.8 bits (86), Expect = 0.006
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 13/90 (14%)
Query: 131 PSFVNMGAY--IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGG-------VLEPIQTGP 181
P + +G IGEG I + V IG + IS G + P+ T P
Sbjct: 1 PWNLTIGDNSWIGEGVWIYNLAPV----TIGSDACISQGAYLCTGSHDYRSPAFPLITAP 56
Query: 182 TIIEDNCFIGARSEIVEGCIIREGSVLGMG 211
+I D ++ A + + G I EG+V+G
Sbjct: 57 IVIGDGAWVAAEAFVGPGVTIGEGAVVGAR 86
Score = 26.4 bits (59), Expect = 8.7
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 101 TKDFEKHNFRIIPGTIVRHSAYIGPKA-VLMPSFVNMGAYIGEGSMIDTWSTV 152
+ D+ F +I IV IG A V +FV G IGEG+++ S V
Sbjct: 42 SHDYRSPAFPLITAPIV-----IGDGAWVAAEAFVGPGVTIGEGAVVGARSVV 89
>gnl|CDD|30459 COG0110, WbbJ, Acetyltransferase (isoleucine patch superfamily)
[General function prediction only].
Length = 190
Score = 35.3 bits (80), Expect = 0.020
Identities = 24/74 (32%), Positives = 34/74 (45%), Gaps = 1/74 (1%)
Query: 138 AYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIV 197
+GEG I VG I N H G + + GP I ++ +IGA + I+
Sbjct: 82 ILVGEGITIGDNVVVGPNVTIYTNSHP-GDFVTANIGALVGAGPVTIGEDVWIGAGAVIL 140
Query: 198 EGCIIREGSVLGMG 211
G I EG+V+G G
Sbjct: 141 PGVTIGEGAVIGAG 154
>gnl|CDD|36675 KOG1462, KOG1462, KOG1462, Translation initiation factor 2B, gamma
subunit (eIF-2Bgamma/GCD1) [Translation, ribosomal
structure and biogenesis].
Length = 433
Score = 34.5 bits (79), Expect = 0.030
Identities = 33/129 (25%), Positives = 53/129 (41%), Gaps = 21/129 (16%)
Query: 113 PGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKN-VHISGGVGIG 171
P ++ AYI P L + +Y+ E + + S A+ KN V VG
Sbjct: 276 PDDRIKCYAYILPTESLFVRANTLLSYM-EINRDKKLKKLCSEAKFVKNYVKKVALVGAD 334
Query: 172 GVLEP-IQTGP------TIIEDNCFIGARSEIV-----------EGCIIREGSVLGMGVF 213
++ Q G ++I NC IG R ++ +G I E S++GMG
Sbjct: 335 SIVGDNTQIGENSNIKRSVIGSNCDIGERVKVANSILMDNVVVGDGVNI-ENSIIGMGAQ 393
Query: 214 IGKSTKIID 222
IG +K+ +
Sbjct: 394 IGSGSKLKN 402
>gnl|CDD|100042 cd03351, LbH_UDP-GlcNAc_AT, UDP-N-acetylglucosamine
O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins
in this family catalyze the transfer of
(R)-3-hydroxymyristic acid from its acyl carrier protein
thioester to UDP-GlcNAc. It is the first enzyme in the
lipid A biosynthetic pathway and is also referred to as
LpxA. Lipid A is essential for the growth of Escherichia
coli and related bacteria. It is also essential for
maintaining the integrity of the outer membrane.
UDP-GlcNAc acyltransferase is a homotrimer of
left-handed parallel beta helix (LbH) subunits. Each
subunit contains an N-terminal LbH region with 9 turns,
each containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X),
and a C-terminal alpha-helical region..
Length = 254
Score = 34.3 bits (80), Expect = 0.035
Identities = 23/76 (30%), Positives = 31/76 (40%), Gaps = 20/76 (26%)
Query: 145 MIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIRE 204
MI + V A+IG+NV I GP C IG EI +G +I
Sbjct: 1 MIHPTAIVDPGAKIGENVEI---------------GP-----FCVIGPNVEIGDGTVIGS 40
Query: 205 GSVLGMGVFIGKSTKI 220
V+ IGK+ +I
Sbjct: 41 HVVIDGPTTIGKNNRI 56
Score = 33.9 bits (79), Expect = 0.046
Identities = 30/124 (24%), Positives = 40/124 (32%), Gaps = 38/124 (30%)
Query: 120 SAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQT 179
+A + P A IGE I + +G +IG I V I
Sbjct: 5 TAIVDPGAK-----------IGENVEIGPFCVIGPNVEIGDGTVIGSHVVI--------D 45
Query: 180 GPTIIEDNCFI----------------GARS--EIVEGCIIREGSVLGMGVFIGKS-TKI 220
GPT I N I G + EI + IRE + G G T+I
Sbjct: 46 GPTTIGKNNRIFPFASIGEAPQDLKYKGEPTRLEIGDNNTIREFVTIHRGTAQGGGVTRI 105
Query: 221 IDRN 224
+ N
Sbjct: 106 GNNN 109
Score = 29.3 bits (67), Expect = 1.2
Identities = 24/115 (20%), Positives = 40/115 (34%), Gaps = 27/115 (23%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGG-VLEPIQTGPTIIEDNCFIGARSEIVE 198
IG +++ + V IG NV ++ + G V I D IG S + +
Sbjct: 105 IGNNNLLMAYVHVAHDCVIGNNVILANNATLAGHV---------EIGDYAIIGGLSAVHQ 155
Query: 199 GCIIREGSVLGMGVFIGKSTKIIDRNTGEITYGEVPSYSVVV--PGSYPSINLKG 251
C I G +G + ++ +VP Y + +NL G
Sbjct: 156 FCRI------GRHAMVGGGSGVV---------QDVPPYVIAAGNRARLRGLNLVG 195
>gnl|CDD|100047 cd03357, LbH_MAT_GAT, Maltose O-acetyltransferase (MAT) and
Galactoside O-acetyltransferase (GAT): MAT and GAT
catalyze the CoA-dependent acetylation of the 6-hydroxyl
group of their respective sugar substrates. MAT
acetylates maltose and glucose exclusively at the C6
position of the nonreducing end glucosyl moiety. GAT
specifically acetylates galactopyranosides. Furthermore,
MAT shows higher affinity toward artificial substrates
containing an alkyl or hydrophobic chain as well as a
glucosyl unit. Active MAT and GAT are homotrimers, with
each subunit consisting of an N-terminal alpha-helical
region and a C-terminal left-handed parallel alpha-helix
(LbH) subdomain with 6 turns, each containing three
imperfect tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X)..
Length = 169
Score = 33.9 bits (79), Expect = 0.052
Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 8/83 (9%)
Query: 133 FVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGG---VGIGGVLEPIQTG-PTIIEDNC 188
+ N I + + + T+G IG NV I + ++ P I DN
Sbjct: 70 YANFNCTILDVAPV----TIGDNVLIGPNVQIYTAGHPLDPEERNRGLEYAKPITIGDNV 125
Query: 189 FIGARSEIVEGCIIREGSVLGMG 211
+IG I+ G I + SV+G G
Sbjct: 126 WIGGGVIILPGVTIGDNSVIGAG 148
>gnl|CDD|36536 KOG1322, KOG1322, KOG1322, GDP-mannose
pyrophosphorylase/mannose-1-phosphate
guanylyltransferase [Cell wall/membrane/envelope
biogenesis].
Length = 371
Score = 33.3 bits (76), Expect = 0.069
Identities = 19/90 (21%), Positives = 34/90 (37%), Gaps = 6/90 (6%)
Query: 107 HNFRIIPGTIVRHSAYIGPKAVLMPSFVNMGAYI-----GEGSMIDTWSTVGSCAQIGKN 161
N I P + + +L + + I G I W+ + A +GKN
Sbjct: 281 PNVVIGPRVRIEDGVRLQDSTILGADYYETHSEISSSIVGWNVPIGIWARIDKNAVLGKN 340
Query: 162 VHISGGVGI-GGVLEPIQTGPTIIEDNCFI 190
V ++ + G PI++G T++ I
Sbjct: 341 VIVADEDYVNEGSGLPIKSGITVVLKPAII 370
Score = 27.9 bits (62), Expect = 2.9
Identities = 19/81 (23%), Positives = 30/81 (37%), Gaps = 4/81 (4%)
Query: 134 VNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGAR 193
V+ A IGE I +G +I V + +G +T I + +G
Sbjct: 267 VDSIASIGENCSIGPNVVIGPRVRIEDGVRLQDSTILGADY--YETHSEI--SSSIVGWN 322
Query: 194 SEIVEGCIIREGSVLGMGVFI 214
I I + +VLG V +
Sbjct: 323 VPIGIWARIDKNAVLGKNVIV 343
Score = 27.5 bits (61), Expect = 4.0
Identities = 12/47 (25%), Positives = 19/47 (40%)
Query: 176 PIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGMGVFIGKSTKIID 222
P + I N + + + I E C I V+G V I ++ D
Sbjct: 253 PRLLPGSKIVGNVLVDSIASIGENCSIGPNVVIGPRVRIEDGVRLQD 299
>gnl|CDD|100046 cd03356, LbH_G1P_AT_C_like, Left-handed parallel beta-Helix (LbH)
domain of a group of proteins with similarity to
glucose-1-phosphate adenylyltransferase: Included in
this family are glucose-1-phosphate adenylyltransferase,
mannose-1-phosphate guanylyltransferase, and the
eukaryotic translation initiation factor eIF-2B
subunits, epsilon and gamma. Most members of this family
contains an N-terminal catalytic domain that resembles a
dinucleotide-binding Rossmann fold, followed by a LbH
fold domain with at least 4 turns, each containing three
imperfect tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X). eIF-2B epsilon contains an
additional domain of unknown function at the C-terminus.
Proteins containing hexapeptide repeats are often
enzymes showing acyltransferase activity..
Length = 79
Score = 31.8 bits (73), Expect = 0.22
Identities = 24/83 (28%), Positives = 31/83 (37%), Gaps = 16/83 (19%)
Query: 120 SAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQT 179
S IG A++ S + IG+G I S + IG N I
Sbjct: 5 STVIGENAIIKNSVIGDNVRIGDGVTITN-SILMDNVTIGANSVIVD------------- 50
Query: 180 GPTIIEDNCFIGARSEIVEGCII 202
+II DN IG +V CII
Sbjct: 51 --SIIGDNAVIGENVRVVNLCII 71
Score = 26.8 bits (60), Expect = 7.0
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 1/61 (1%)
Query: 111 IIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGI 170
II +++ + IG + S + IG S+I S +G A IG+NV + I
Sbjct: 13 IIKNSVIGDNVRIGDGVTITNSILMDNVTIGANSVI-VDSIIGDNAVIGENVRVVNLCII 71
Query: 171 G 171
G
Sbjct: 72 G 72
>gnl|CDD|100056 cd04651, LbH_G1P_AT_C, Glucose-1-phosphate adenylyltransferase,
C-terminal Left-handed parallel beta helix (LbH) domain:
Glucose-1-phosphate adenylyltransferase is also known as
ADP-glucose synthase or ADP-glucose pyrophosphorylase.
It catalyzes the first committed and rate-limiting step
in starch biosynthesis in plants and glycogen
biosynthesis in bacteria. It is the enzymatic site for
regulation of storage polysaccharide accumulation in
plants and bacteria. The enzyme is a homotetramer, with
each subunit containing an N-terminal catalytic domain
that resembles a dinucleotide-binding Rossmann fold and
a C-terminal LbH fold domain with at 5 turns, each
containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
The LbH domain is involved in cooperative allosteric
regulation and oligomerization..
Length = 104
Score = 30.9 bits (71), Expect = 0.40
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 193 RSEIVEGCIIREG----SVLGMGVFIGKSTKIID 222
S + EGCII G SVL GV +G + + D
Sbjct: 12 NSLVSEGCIISGGTVENSVLFRGVRVGSGSVVED 45
Score = 27.0 bits (61), Expect = 6.2
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 19/78 (24%)
Query: 110 RIIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVG 169
R+ G++V S V+MP IG ++I A I KNV I GV
Sbjct: 36 RVGSGSVVEDS-------VIMP-----NVGIGRNAVIR-------RAIIDKNVVIPDGVV 76
Query: 170 IGGVLEPIQTGPTIIEDN 187
IGG E + + ED
Sbjct: 77 IGGDPEEDRARFYVTEDG 94
>gnl|CDD|100040 cd03349, LbH_XAT, Xenobiotic acyltransferase (XAT): The XAT class
of hexapeptide acyltransferases is composed of a large
number of microbial enzymes that catalyze the
CoA-dependent acetylation of a variety of
hydroxyl-bearing acceptors such as chloramphenicol and
streptogramin, among others. Members of this class of
enzymes include Enterococcus faecium streptogramin A
acetyltransferase and Pseudomonas aeruginosa
chloramphenicol acetyltransferase. They contain repeated
copies of a six-residue hexapeptide repeat sequence
motif (X-[STAV]-X-[LIV]-[GAED]-X) and adopt a
left-handed parallel beta helix (LbH) structure. The
active enzyme is a trimer with CoA and substrate binding
sites at the interface of two separate LbH subunits.
XATs are implicated in inactivating xenobiotics leading
to xenobiotic resistance in patients..
Length = 145
Score = 31.0 bits (71), Expect = 0.43
Identities = 26/134 (19%), Positives = 46/134 (34%), Gaps = 43/134 (32%)
Query: 133 FVNMGA--YIGEG--SMIDTWSTVGSCAQIGKNVHISGG--------------VGIGGVL 174
+++G Y + ++G I V I G + G
Sbjct: 1 NISVGDYSYGSGPDCDVGGDKLSIGKFCSIAPGVKIGLGGNHPTDWVSTYPFYIFGGEWE 60
Query: 175 EPIQ------TGPTIIEDNCFIGARSEIVEGCIIREGSVLGMG--VFIGKSTKIIDRNTG 226
+ + G II ++ +IG + I+ G I +G+V+ G V TK
Sbjct: 61 DDAKFDDWPSKGDVIIGNDVWIGHGATILPGVTIGDGAVIAAGAVV-----TK------- 108
Query: 227 EITYGEVPSYSVVV 240
+VP Y++V
Sbjct: 109 -----DVPPYAIVG 117
>gnl|CDD|100058 cd04745, LbH_paaY_like, paaY-like: This group is composed by
uncharacterized proteins with similarity to the protein
product of the E. coli paaY gene, which is part of the
paa gene cluster responsible for phenylacetic acid
degradation. Proteins in this group are expected to
adopt the left-handed parallel beta-helix (LbH)
structure. They contain imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
Similarity to gamma carbonic anhydrase and
Ferripyochelin Binding Protein (FBP) may suggest metal
binding capacity..
Length = 155
Score = 30.8 bits (70), Expect = 0.43
Identities = 26/100 (26%), Positives = 40/100 (40%), Gaps = 25/100 (25%)
Query: 111 IIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGI 170
+I I+ + YIGP A L F G ++ + A + N I G G
Sbjct: 15 LIGDVIIGKNCYIGPHASLRGDF---------GRIV-----IRDGANVQDNCVIHGFPGQ 60
Query: 171 GGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLGM 210
T++E+N IG I+ GC I +++GM
Sbjct: 61 D----------TVLEENGHIG-HGAILHGCTIGRNALVGM 89
>gnl|CDD|111866 pfam03022, MRJP, Major royal jelly protein. Royal jelly is the
food of queen bee larvae, and is responsible for the
high reproductive ability of the queen. Major royal
jelly proteins make up around 90% of larval jelly
proteins. This family also the sequence-related yellow
protein of drosophila which controls pigmentation of the
adult cuticle and larval mouth parts.
Length = 285
Score = 30.4 bits (69), Expect = 0.63
Identities = 27/111 (24%), Positives = 43/111 (38%), Gaps = 20/111 (18%)
Query: 18 ESNSKNESIPQDVKD----AVQSTLDLLDRG---IIRIASRDDNGHWNTHQWIKKAILLS 70
E+N N + +D KD QST +D + ++ G WNT +A L
Sbjct: 166 ETNWGNNAQYEDFKDLGDRNTQSTALAVDPNGVLFFGLVGQNAVGCWNTSTPYSRANLGV 225
Query: 71 FQINPTKIIS------DGNGYSTWW---DKIPAKFDDWKTKDFEKHNFRII 112
N + D Y W +++ KF D+++ NFRI+
Sbjct: 226 VARNSDTLQFPSDLKIDKEEY--LWVLSNRMQ-KFLYNDL-DYDEVNFRIL 272
>gnl|CDD|34410 COG4801, COG4801, Predicted acyltransferase [General function
prediction only].
Length = 277
Score = 28.7 bits (64), Expect = 1.6
Identities = 16/35 (45%), Positives = 17/35 (48%)
Query: 138 AYIGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGG 172
AYIGE S I TV IG +V I GG G
Sbjct: 75 AYIGEFSSIKGKLTVIGDLDIGADVIIEGGFVAKG 109
>gnl|CDD|30653 COG0305, DnaB, Replicative DNA helicase [DNA replication,
recombination, and repair].
Length = 435
Score = 28.6 bits (64), Expect = 1.7
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 8 LEEIIDSFFEESNSKNESIPQDVKDAVQSTLDLLDR 43
L+ F+ + KN + D ++ T+D ++
Sbjct: 134 LDAAEKKIFDVAERKNSEDFVHIGDLLKETMDEIEA 169
>gnl|CDD|100057 cd04652, LbH_eIF2B_gamma_C, eIF-2B gamma subunit, C-terminal
Left-handed parallel beta-Helix (LbH) domain: eIF-2B is
a eukaryotic translation initiator, a guanine nucleotide
exchange factor (GEF) composed of five different
subunits (alpha, beta, gamma, delta and epsilon). eIF2B
is important for regenerating GTP-bound eIF2 during the
initiation process. This event is obligatory for eIF2 to
bind initiator methionyl-tRNA, forming the ternary
initiation complex. The eIF-2B gamma subunit contains an
N-terminal domain that resembles a dinucleotide-binding
Rossmann fold and a C-terminal LbH domain with 4 turns,
each containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X).
The epsilon and gamma subunits form the catalytic
subcomplex of eIF-2B, which binds eIF2 and catalyzes
guanine nucleotide exchange..
Length = 81
Score = 28.7 bits (65), Expect = 2.1
Identities = 26/94 (27%), Positives = 35/94 (37%), Gaps = 30/94 (31%)
Query: 150 STVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEGCIIREGSVLG 209
S +G+ +IGK V I+ V + V IED C +E CII G
Sbjct: 17 SVIGANCKIGKRVKITNCVIMDNV---------TIEDGC-------TLENCII------G 54
Query: 210 MGVFIGKSTKIIDRNTGEITYGEVPSYSVVVPGS 243
G IG+ K + V S V G+
Sbjct: 55 NGAVIGEKCK--------LKDCLVGSGYRVEAGT 80
>gnl|CDD|100059 cd05635, LbH_unknown, Uncharacterized proteins, Left-handed
parallel beta-Helix (LbH) domain: Members in this group
are uncharacterized bacterial proteins containing a LbH
domain with multiple turns, each containing three
imperfect tandem repeats of a hexapeptide repeat motif
(X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing
hexapeptide repeats are often enzymes showing
acyltransferase activity..
Length = 101
Score = 28.4 bits (64), Expect = 2.4
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 5/46 (10%)
Query: 108 NFRIIPGTIVRHSAYIGPKAVLMPSFVNMGAYIGEGSMIDTWSTVG 153
+ I P ++ YIGP + V MGA I + I +G
Sbjct: 17 DAVIEPFAVIEGPVYIGPGSR-----VKMGARIYGNTTIGPTCKIG 57
>gnl|CDD|146886 pfam04465, DUF499, Protein of unknown function (DUF499). Family of
uncharacterized hypothetical prokaryotic proteins.
Length = 1025
Score = 28.3 bits (63), Expect = 2.5
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 7 TLEEIIDSFFE-ESNSKNESIPQDVKDAVQ 35
T E+I +E E+ KN +P D+KDA++
Sbjct: 366 TPEDIARGVYEPETFEKNNWLPVDIKDALE 395
>gnl|CDD|30797 COG0448, GlgC, ADP-glucose pyrophosphorylase [Carbohydrate
transport and metabolism].
Length = 393
Score = 27.8 bits (62), Expect = 3.4
Identities = 25/99 (25%), Positives = 35/99 (35%), Gaps = 23/99 (23%)
Query: 140 IGEGSMIDTWSTVGSCAQIGKNVHISGGVGIGGVLEPIQTGPTIIEDNCFIGARSEIVEG 199
+ G +I TV + + + V I G I +N I EI EG
Sbjct: 299 VAGGCIIS--GTVENSV-LFRGVRIGKGSVI---------------ENSVIMPDVEIGEG 340
Query: 200 CIIR-----EGSVLGMGVFIGKSTKIIDRNTGEITYGEV 233
++R + V+G GV IG DR G V
Sbjct: 341 AVLRRAIIDKNVVIGEGVVIGGDKPEEDRKRFRSEEGIV 379
Score = 27.5 bits (61), Expect = 4.2
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 194 SEIVEGCIIR---EGSVLGMGVFIGKSTKIID 222
S + GCII E SVL GV IGK + I +
Sbjct: 297 SLVAGGCIISGTVENSVLFRGVRIGKGSVIEN 328
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
0.318 0.137 0.414
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,524,856
Number of extensions: 189758
Number of successful extensions: 711
Number of sequences better than 10.0: 1
Number of HSP's gapped: 513
Number of HSP's successfully gapped: 93
Length of query: 285
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 192
Effective length of database: 4,254,100
Effective search space: 816787200
Effective search space used: 816787200
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: 57 (26.0 bits)