RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16054
(563 letters)
>gnl|CDD|200596 cd10974, CE4_CDA_like_1, Putative catalytic domain of chitin
deacetylase-like proteins with additional chitin-binding
peritrophin-A domain (ChBD) and/or a low-density
lipoprotein receptor class A domain (LDLa). Chitin
deacetylases (CDAs, EC 3.5.1.41) are secreted
metalloproteins belonging to a family of extracellular
chitin-modifying enzymes that catalyze the
N-deacetylation of chitin, a beta-1,4-linked
N-acetylglucosamine polymer, to form chitosan, a polymer
of beta-(1,4)-linked d-glucosamine residues. CDAs have
been isolated and characterized from various bacterial
and fungal species and belong to the larger carbohydrate
esterase 4 (CE4) superfamily. This family includes many
CDA-like proteins mainly from insects, which contain a
putative CDA-like catalytic domain similar to the
catalytic NodB homology domain of CE4 esterases. In
addition to the CDA-like domain, family members contain
two additional domains, a chitin-binding peritrophin-A
domain (ChBD) and a low-density lipoprotein receptor
class A domain (LDLa), or have the ChBD domain but do
not have the LDLa domain.
Length = 269
Score = 470 bits (1211), Expect = e-165
Identities = 166/277 (59%), Positives = 209/277 (75%), Gaps = 9/277 (3%)
Query: 218 PQMITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFFVSHKYTNYASVQELHRKGH 277
PQMIT+TF+ A+N +N +LY +IFNG R NPNGC IKGTFFVSH+YTNY +VQ+LHRKGH
Sbjct: 1 PQMITLTFDDAINDNNIELYKKIFNGKRNNPNGCPIKGTFFVSHEYTNYQAVQKLHRKGH 60
Query: 278 EISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPYLRVGGNK 337
EI+V S+TH DD +Y+DW+ EM G R I+E+FANI+D ++G+RAP+LRVGGN+
Sbjct: 61 EIAVHSITHNDDEN---NATYEDWVKEMVGMREILEKFANITDNEIVGMRAPFLRVGGNR 117
Query: 338 QFSMMTDQFFVYDASITASLGRVPIWPYTLYFRMPHKCNGNAHNCPSKSHPT-WEMVMNE 396
QF MM + F+YD+SITA VP+WPYTL ++MPH+C+G NCP++S P WEMV+NE
Sbjct: 118 QFEMMEEFGFLYDSSITAPPSNVPLWPYTLDYKMPHECHG--QNCPTRSFPGVWEMVLNE 175
Query: 397 LDRRDDPTFDESLPGCHMVDSCSNIQTGEQFGRLLRHNFNRHFSTNRAPLGLHFHASWLK 456
LD RDDP DE L M DSC NI +G+Q L+HNF RH+ TNRAP GL+FH +WLK
Sbjct: 176 LDVRDDPQGDEPL---AMDDSCLNILSGDQVYEWLQHNFERHYLTNRAPYGLYFHTNWLK 232
Query: 457 SKKEFKDELIKFIEEMLDRNDVYFVTMLQVIQWMQNP 493
+K E L KF++E+L DVYFVTM Q IQWMQNP
Sbjct: 233 TKNELLRALQKFLDEILQLPDVYFVTMTQAIQWMQNP 269
>gnl|CDD|200597 cd10975, CE4_CDA_like_2, Putative catalytic domain of chitin
deacetylase-like proteins. Chitin deacetylases (CDAs,
EC 3.5.1.41) are secreted metalloproteins belonging to a
family of extracellular chitin-modifying enzymes that
catalyze the N-deacetylation of chitin, a
beta-1,4-linked N-acetylglucosamine polymer, to form
chitosan, a polymer of beta-(1,4)-linked d-glucosamine
residues. CDAs have been isolated and characterized from
various bacterial and fungal species and belong to the
larger carbohydrate esterase 4 (CE4) superfamily. This
family includes many midgut-specific CDA-like proteins
mainly from insects, such as Tribolium castaneum CDAs
(TcCDA6-9). These proteins contain a putative CDA-like
catalytic domain similar to the catalytic NodB homology
domain of CE4 esterases. In addition to the CDA-like
domain, some family members have an additional
chitin-binding peritrophin-A domain (ChBD).
Length = 268
Score = 279 bits (715), Expect = 1e-90
Identities = 113/278 (40%), Positives = 161/278 (57%), Gaps = 12/278 (4%)
Query: 218 PQMITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFFVSHKYTNYASVQELHRKGH 277
PQ++T+TF+ AVN N Y+++F NR+NPNGC I TFFVSH+YT+Y VQEL+ GH
Sbjct: 1 PQLVTLTFDDAVNTLNYPYYEKLFG-NRKNPNGCPIGATFFVSHEYTDYRLVQELYNDGH 59
Query: 278 EISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPYLRVGGNK 337
EI++ S++H+ YW S D+W E G R I+ FANI + G RAP+L++GG+
Sbjct: 60 EIALHSISHRSPQDYWRNASVDEWEREFGGQREILAHFANIPAEDIKGFRAPFLQLGGDA 119
Query: 338 QFSMMTDQFFVYDAS-ITASLGRVPIWPYTLYFRMPHKCNGNAHNCPSKSHP-TWEMVMN 395
F + YD+S T S P+WPYTL + C CP+ S+P W + M
Sbjct: 120 TFKALKQLGLTYDSSWPTQSFTNPPLWPYTLDYGSTQDC--VIPPCPTDSYPGFWVVPMV 177
Query: 396 ELDRRDDPTFDESLPGCHMVDSCSNIQTGEQFGRLLRHNFNRHFSTNRAPLGLHFHASWL 455
+ D + C M+ +C T ++ L NF RH++TNRAP GL+ HASW
Sbjct: 178 DWQ-------DLNGVPCSMLAACPPPGTADEVYDWLLSNFERHYNTNRAPFGLYLHASWF 230
Query: 456 KSKKEFKDELIKFIEEMLDRNDVYFVTMLQVIQWMQNP 493
+ + KF++E+L +DVY VT+ Q I+WM+NP
Sbjct: 231 EFTPNRLEGFKKFLDELLSLDDVYLVTISQAIEWMRNP 268
>gnl|CDD|200545 cd10919, CE4_CDA_like, Putative catalytic domain of chitin
deacetylase-like proteins from insects and similar
proteins. Chitin deacetylases (CDAs, EC 3.5.1.41) are
secreted metalloproteins belonging to a family of
extracellular chitin-modifying enzymes that catalyze the
N-deacetylation of chitin, a beta-1,4-linked
N-acetylglucosamine polymer, to form chitosan, a polymer
of beta-(1,4)-linked d-glucosamine residues. CDAs have
been isolated and characterized from various bacterial
and fungal species and belong to the larger carbohydrate
esterase family 4 (CE4). This family includes many
CDA-like proteins, mainly from insects, which contain a
putative CDA-like catalytic domain similar to the
catalytic NodB homology domain of CE4 esterases. Some
family members have an additional chitin binding domain
(ChBD), or an additional low-density lipoprotein
receptor class A domain (LDLa), or both. Due to the lack
of some catalytically relevant residues, several insect
CDA-like proteins are devoid of enzymatic activity and
may simply bind to chitin and thus influence the
mechanical or permeability properties of
chitin-containing structures such as the cuticle or the
peritrophic membrane. This family also includes many
uncharacterized hypothetical proteins from bacteria,
exhibiting high sequence similarity to insect CDA-like
proteins.
Length = 273
Score = 264 bits (678), Expect = 6e-85
Identities = 101/283 (35%), Positives = 149/283 (52%), Gaps = 17/283 (6%)
Query: 218 PQMITITFNGAVNVDNSDLYD-EIFNGNRQNPNGCQIKGTFFVSHKYTNYASVQELHRKG 276
PQ + TF+ A+N N+D EI +G N GC I TFFVS YT+ + V++L R+G
Sbjct: 1 PQFVLFTFDDAINELNTDAVIQEIADG-TNNNGGCPIPATFFVSTNYTDCSLVKQLWREG 59
Query: 277 HEISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPYLRVGGN 336
HEI+ ++TH D S D+W E+AG R + + I V+G RAPYL
Sbjct: 60 HEIATHTVTHVPDDSNA---SVDEWEEEIAGQREWLNKTCGIPLEKVVGFRAPYL-AYNP 115
Query: 337 KQFSMMTDQFFVYDASITASL---GRVPIWPYTLYFRMPHKCNGNAHNCPS--KSHPTWE 391
++ + F+YD+SI G +WPYTL + +P CN +C + WE
Sbjct: 116 NTREVLEENGFLYDSSIPEPYTPSGTNRLWPYTLDYGIPQDCNLVPGSCSPTERYPGLWE 175
Query: 392 MVMNELDRRDDPTFDESLPGCHMVDSCSNIQTGEQFGRLLRHNFNRHFSTNRAPLGLHFH 451
+ + L +D T D + G+ F LL++NF+RH++ NRAP G++ H
Sbjct: 176 VPLYTLQDGNDTTGDS-----YYCTPDDGPLNGDSFYALLKYNFDRHYNGNRAPFGIYLH 230
Query: 452 ASWLKSKK-EFKDELIKFIEEMLDRNDVYFVTMLQVIQWMQNP 493
A+WL E + L KF++ L + DV+FVT Q++ WMQNP
Sbjct: 231 AAWLSPPYSERRAALEKFLDYALSKPDVWFVTNSQLLDWMQNP 273
>gnl|CDD|200598 cd10976, CE4_CDA_like_3, Putative catalytic domain of
uncharacterized bacterial hypothetical proteins similar
to insect chitin deacetylase-like proteins. The family
includes many uncharacterized bacterial hypothetical
proteins that show high sequence similarity to insect
chitin deacetylase-like proteins. Chitin deacetylases
(CDAs, EC 3.5.1.41) are secreted metalloproteins
belonging to a family of extracellular chitin-modifying
enzymes that catalyze the N-deacetylation of chitin, a
beta-1,4-linked N-acetylglucosamine polymer, to form
chitosan, a polymer of beta-(1,4)-linked d-glucosamine
residues.
Length = 299
Score = 63.5 bits (155), Expect = 5e-11
Identities = 55/239 (23%), Positives = 85/239 (35%), Gaps = 43/239 (17%)
Query: 273 HRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERF---ANISDG-------- 321
+R+GHEI + H D S DW E +E I
Sbjct: 82 YREGHEIGSHANGHFDGKGGGGRWSVADWKREFDQFYRFVENAYAINGIEGAPPWPAFAP 141
Query: 322 -SVIGVRAPYLRVGGNKQFSMMTDQFFVYDASITASLGRVPIWPYTLYFRMPHKCNGNAH 380
S+ G RAP L Q ++ F YDAS S+ + P W P K +G +
Sbjct: 142 NSIKGFRAPCLEGSKGLQPALKKHG-FTYDAS---SVTQGPYW--------PQKVDGIWN 189
Query: 381 N------CPSKSHPTWEMVMNELDRRDDPTFDESLPGCHMVDSCSNIQTGEQFGRLLRHN 434
S P M N L R + + + R+
Sbjct: 190 FPLPLVPEGPTSRPVIAMDYN-LFVRHSGGVEAPAK---------AAEFEARMLATYRNA 239
Query: 435 FNRHFSTNRAPLGLHFH-ASWLKSKKEFKDELIKFIEEMLDRNDVYFVTMLQVIQWMQN 492
F+R ++ NRAPL L H W + + L +F EE+ + +V VT +++ +++
Sbjct: 240 FDRAYNGNRAPLQLGNHFVKWNGGA--YWNALERFAEEVCTKPEVKCVTYRELVDFLEA 296
>gnl|CDD|238060 cd00112, LDLa, Low Density Lipoprotein Receptor Class A domain, a
cysteine-rich repeat that plays a central role in
mammalian cholesterol metabolism; the receptor protein
binds LDL and transports it into cells by endocytosis; 7
successive cysteine-rich repeats of about 40 amino acids
are present in the N-terminal of this multidomain
membrane protein; other homologous domains occur in
related receptors, including the very low-density
lipoprotein receptor and the LDL receptor-related
protein/alpha 2-macroglobulin receptor, and in proteins
which are functionally unrelated, such as the C9
component of complement; the binding of calcium is
required for in vitro formation of the native disulfide
isomer and is necessary in establishing and maintaining
the modular structure.
Length = 35
Score = 51.4 bits (124), Expect = 5e-09
Identities = 16/35 (45%), Positives = 19/35 (54%)
Query: 143 CPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC 177
CP + C NG CI + CD + DC D SDE C
Sbjct: 1 CPPNEFRCANGRCIPSSWVCDGEDDCGDGSDEENC 35
>gnl|CDD|213020 cd10585, CE4_SF, Catalytic NodB homology domain of the carbohydrate
esterase 4 superfamily. The carbohydrate esterase 4
(CE4) superfamily mainly includes chitin deacetylases
(EC 3.5.1.41), bacterial peptidoglycan
N-acetylglucosamine deacetylases (EC 3.5.1.-), and
acetylxylan esterases (EC 3.1.1.72), which catalyze the
N- or O-deacetylation of substrates such as acetylated
chitin, peptidoglycan, and acetylated xylan,
respectively. Members in this superfamily contain a NodB
homology domain that adopts a deformed (beta/alpha)8
barrel fold, which encompasses a mononuclear
metalloenzyme employing a conserved His-His-Asp
zinc-binding triad, closely associated with the
conserved catalytic base (aspartic acid) and acid
(histidine) to carry out acid/base catalysis. The NodB
homology domain of CE4 superfamily is remotely related
to the 7-stranded beta/alpha barrel catalytic domain of
the superfamily consisting of family 38 glycoside
hydrolases (GH38), family 57 heat stable retaining
glycoside hydrolases (GH57), lactam utilization protein
LamB/YcsF family proteins, and YdjC-family proteins.
Length = 142
Score = 53.2 bits (128), Expect = 2e-08
Identities = 24/96 (25%), Positives = 34/96 (35%), Gaps = 15/96 (15%)
Query: 249 NGCQIKGTFFVSHKY----------TNYASVQELHRKGHEISVFSLTHKDDPKYWSGGSY 298
G I T FV N+ ++EL GHEI + TH D S
Sbjct: 27 EGYGIPATLFVIPGNANPDKLMKSPLNWDLLRELLAYGHEIGLHGYTHPDLAYGN--LSP 84
Query: 299 DDWLAEMAGGRLIIERFANISDGSVIGVRAPYLRVG 334
++ L ++ R I+E G RAP +
Sbjct: 85 EEVLEDLLRARRILEEAGGQ---PPKGFRAPGGNLS 117
>gnl|CDD|200964 pfam00057, Ldl_recept_a, Low-density lipoprotein receptor domain
class A.
Length = 37
Score = 46.9 bits (112), Expect = 2e-07
Identities = 17/37 (45%), Positives = 21/37 (56%)
Query: 141 PVCPEGKLSCGNGECIDKTLFCDDKPDCKDESDENAC 177
C + CG+GECI + CD PDC+D SDE C
Sbjct: 1 STCGPDEFQCGSGECIPMSWVCDGDPDCEDGSDEKNC 37
>gnl|CDD|197566 smart00192, LDLa, Low-density lipoprotein receptor domain class A.
Cysteine-rich repeat in the low-density lipoprotein
(LDL) receptor that plays a central role in mammalian
cholesterol metabolism. The N-terminal type A repeats in
LDL receptor bind the lipoproteins. Other homologous
domains occur in related receptors, including the very
low-density lipoprotein receptor and the LDL
receptor-related protein/alpha 2-macroglobulin receptor,
and in proteins which are functionally unrelated, such
as the C9 component of complement. Mutations in the LDL
receptor gene cause familial hypercholesterolemia.
Length = 33
Score = 46.5 bits (111), Expect = 3e-07
Identities = 16/32 (50%), Positives = 18/32 (56%)
Query: 143 CPEGKLSCGNGECIDKTLFCDDKPDCKDESDE 174
CP G+ C NG CI + CD DC D SDE
Sbjct: 2 CPPGEFQCDNGRCIPSSWVCDGVDDCGDGSDE 33
>gnl|CDD|216601 pfam01607, CBM_14, Chitin binding Peritrophin-A domain. This
domain is called the Peritrophin-A domain and is found
in chitin binding proteins particularly peritrophic
matrix proteins of insects and animal chitinases.
Copies of the domain are also found in some
baculoviruses. Relevant references that describe
proteins with this domain include. It is an
extracellular domain that contains six conserved
cysteines that probably form three disulphide bridges.
Chitin binding has been demonstrated for a protein
containing only two of these domains.
Length = 53
Score = 46.3 bits (110), Expect = 6e-07
Identities = 24/62 (38%), Positives = 28/62 (45%), Gaps = 9/62 (14%)
Query: 29 CEGRPPEEYFRLTIEGDCRDVVRCDQAGENGITRLAGVRCPNGLAFDIDRQTCDWKTNVK 88
CEGRP Y GDC +C NG + CP GL FD TCD+ NV
Sbjct: 1 CEGRPDGLYP---DPGDCSKYYQCS----NGKAVVF--TCPAGLVFDPALGTCDYPDNVV 51
Query: 89 NC 90
+C
Sbjct: 52 DC 53
Score = 36.6 bits (85), Expect = 0.001
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 100 SCPSGLAFDVDKQTCDWKAKVTNC 123
+CP+GL FD TCD+ V +C
Sbjct: 30 TCPAGLVFDPALGTCDYPDNVVDC 53
>gnl|CDD|213022 cd10917, CE4_NodB_like_6s_7s, Catalytic NodB homology domain of
rhizobial NodB-like proteins. This family belongs to
the large and functionally diverse carbohydrate esterase
4 (CE4) superfamily, whose members show strong sequence
similarity with some variability due to their distinct
carbohydrate substrates. It includes many rhizobial NodB
chitooligosaccharide N-deacetylase (EC 3.5.1.-)-like
proteins, mainly from bacteria and eukaryotes, such as
chitin deacetylases (EC 3.5.1.41), bacterial
peptidoglycan N-acetylglucosamine deacetylases (EC
3.5.1.-), and acetylxylan esterases (EC 3.1.1.72), which
catalyze the N- or O-deacetylation of substrates such as
acetylated chitin, peptidoglycan, and acetylated xylan.
All members of this family contain a catalytic NodB
homology domain with the same overall topology and a
deformed (beta/alpha)8 barrel fold with 6- or 7 strands.
Their catalytic activity is dependent on the presence of
a divalent cation, preferably cobalt or zinc, and they
employ a conserved His-His-Asp zinc-binding triad
closely associated with the conserved catalytic base
(aspartic acid) and acid (histidine) to carry out
acid/base catalysis. Several family members show
diversity both in metal ion specificities and in the
residues that coordinate the metal.
Length = 171
Score = 43.4 bits (103), Expect = 6e-05
Identities = 24/114 (21%), Positives = 43/114 (37%), Gaps = 21/114 (18%)
Query: 221 ITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFFVS-HKYTNYAS-VQELHRKGHE 278
+ +TF+ + + + +I +K TFFV + V+ + +GHE
Sbjct: 3 VALTFDDGPDPEYTPKILDILAEY-------GVKATFFVVGENVEKHPDLVRRIVAEGHE 55
Query: 279 ISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPYLR 332
I + +H D + S ++ AE+ + IE GVR R
Sbjct: 56 IGNHTYSHPD----LTKLSPEEIRAEIERTQDAIEE--------ATGVRPRLFR 97
>gnl|CDD|200566 cd10941, CE4_PuuE_HpPgdA_like_2, Putative catalytic domain of
uncharacterized prokaryotic polysaccharide deacetylases
similar to bacterial PuuE allantoinases and Helicobacter
pylori peptidoglycan deacetylase (HpPgdA). This family
contains many uncharacterized prokaryotic polysaccharide
deacetylases (DCAs) that show high sequence similarity
to the catalytic domain of bacterial PuuE allantoinases
and Helicobacter pylori peptidoglycan deacetylase
(HpPgdA). PuuE allantoinase appears to be
metal-independent and specifically catalyzes the
hydrolysis of (S)-allantoin into allantoic acid.
Different from PuuE allantoinase, HpPgdA has the ability
to bind a metal ion at the active site and is
responsible for a peptidoglycan modification that
counteracts the host immune response. Both PuuE
allantoinase and HpPgdA function as homotetramers. The
monomer is composed of a 7-stranded barrel with
detectable sequence similarity to the 6-stranded barrel
NodB homology domain of DCA-like proteins in the CE4
superfamily, which removes N-linked or O-linked acetyl
groups from cell wall polysaccharides. In contrast to
typical NodB-like DCAs, PuuE allantoinase and HpPgdA do
not exhibit a solvent-accessible polysaccharide binding
groove and might only bind a small molecule at the
active site.
Length = 258
Score = 43.8 bits (104), Expect = 1e-04
Identities = 24/146 (16%), Positives = 47/146 (32%), Gaps = 24/146 (16%)
Query: 252 QIKGTFF----VSHKYTNYASVQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAG 307
+K TFF V+ +Y ++ + GHEI+ H+ + +D
Sbjct: 45 GVKATFFVLGEVAERYP--DLIRRIAEAGHEIASHGYAHERVDRLTPEEFREDLRRS--- 99
Query: 308 GRLIIERFANISDGSVIGVRAPYLRVGGNKQ-FSMMTDQFFVYDASITASLGRVPIWPYT 366
+ +I+ V+G RAP + ++ + ++YD+S+ P
Sbjct: 100 ----KKILEDITGQKVVGFRAPNFSI--TPWALDILAEAGYLYDSSV------FPTKRP- 146
Query: 367 LYFRMPHKCNGNAHNCPSKSHPTWEM 392
+ P E
Sbjct: 147 -GYGGPLAPKSEPLPPIRAKGGILEF 171
>gnl|CDD|200589 cd10967, CE4_GLA_like_6s, Putative catalytic NodB homology domain
of gellan lyase and similar proteins. This family is
represented by the extracellular
polysaccharide-degrading enzyme, gellan lyase
(gellanase, EC 4.2.2.-), from Bacillus sp. The enzyme
acts on gellan exolytically and releases a
tetrasaccharide of glucuronyl-glucosyl-rhamnosyl-glucose
with unsaturated glucuronic acid at the nonreducing
terminus. The family also includes many uncharacterized
prokaryotic polysaccharide deacetylases, which show high
sequence similarity to Bacillus sp. gellan lyase.
Although their biological functions remain unknown, all
members of the family contain a conserved domain with a
6-stranded beta/alpha barrel, which is similar to the
catalytic NodB homology domain of rhizobial NodB-like
proteins, belonging to the larger carbohydrate esterase
4 (CE4) superfamily.
Length = 202
Score = 42.8 bits (101), Expect = 2e-04
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 10/67 (14%)
Query: 253 IKGTFFVS------HKYTNYASVQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMA 306
+KGTFFV+ Y + ++EL GHEI ++TH D + E+A
Sbjct: 26 LKGTFFVNSGLLGRRGYLDLEELRELAAAGHEIGSHTVTHPDLTSL----PPAELRREIA 81
Query: 307 GGRLIIE 313
R +E
Sbjct: 82 ESRAALE 88
>gnl|CDD|216550 pfam01522, Polysacc_deac_1, Polysaccharide deacetylase. This
domain is found in polysaccharide deacetylase. This
family of polysaccharide deacetylases includes NodB
(nodulation protein B from Rhizobium) which is a
chitooligosaccharide deacetylase. It also includes
chitin deacetylase from yeast, and endoxylanases which
hydrolyses glucosidic bonds in xylan.
Length = 124
Score = 40.3 bits (95), Expect = 3e-04
Identities = 24/113 (21%), Positives = 45/113 (39%), Gaps = 17/113 (15%)
Query: 220 MITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFFV--SHKYTNYASVQELHRKGH 277
+ +TF+ D I + ++ +K TFFV + T V+ + +GH
Sbjct: 8 SVALTFDDGP----PDNTPRILDVLKKY----GVKATFFVIGGNAETYPDLVRRMVAEGH 59
Query: 278 EISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPY 330
EI + +H D + S ++ AE+ + I++ + R PY
Sbjct: 60 EIGNHTWSHPD----LTALSPEEIRAEILRSQEAIKK---ATGKRPRLFRPPY 105
>gnl|CDD|200574 cd10950, CE4_BsYlxY_like, Putative catalytic NodB homology domain
of uncharacterized protein YlxY from Bacillus subtilis
and its bacterial homologs. The Bacillus subtilis
genome contains six polysaccharide deacetylase gene
homologs: pdaA, pdaB (previously known as ybaN), yheN,
yjeA, yxkH and ylxY. This family is represented by
Bacillus subtilis putative polysaccharide deacetylase
BsYlxY, encoded by the ylxY gene, which is a member of
the carbohydrate esterase 4 (CE4) superfamily. Although
its biological function still remains unknown, BsYlxY
shows high sequence homology to the catalytic domain of
Bacillus subtilis pdaB gene encoding a putative
polysaccharide deacetylase (BsPdaB), which is essential
for the maintenance of spores after the late stage of
sporulation and is highly conserved in spore-forming
bacteria. However, disruption of the ylxY gene in B.
subtilis did not cause any sporulation defect. Moreover,
the Asp residue in the classical His-His-Asp
zinc-binding motif of CE4 esterases is mutated to a Val
residue in this family. Other catalytically relevant
residues of CE4 esterases are also not conserved, which
suggest that members of this family may be inactive.
Length = 188
Score = 37.6 bits (88), Expect = 0.007
Identities = 22/103 (21%), Positives = 42/103 (40%), Gaps = 15/103 (14%)
Query: 219 QMITITFNGAVNVDNSDLY-DEIFNGNRQNPNGCQIKGTFFVSHKYT--NYASVQELHRK 275
+M+ + +NV + Y + ++ +K TFF+ ++ N V+++ +
Sbjct: 6 KMVALL----INVAWGEEYLPAMLTILEKH----DVKATFFLEGRWAKKNPDLVRKIAKD 57
Query: 276 GHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANI 318
GHEI +H D + SY+ E+ IIE
Sbjct: 58 GHEIGNHGYSHPDPSQL----SYEQNREEIRKTNEIIEEITGE 96
>gnl|CDD|213757 TIGR03006, pepcterm_polyde, polysaccharide deacetylase family
protein, PEP-CTERM locus subfamily. Members of this
protein family belong to the family of polysaccharide
deacetylases (pfam01522). All are found in species that
encode the PEP-CTERM/exosortase system predicted to act
in protein sorting in a number of Gram-negative
bacteria, and are found near the epsH homolog that is
the putative exosortase gene. The highest scoring
homologs below the trusted cutoff for this model are
found in several species of Methanosarcina, an archaeal
genus [Cell envelope, Biosynthesis and degradation of
surface polysaccharides and lipopolysaccharides].
Length = 272
Score = 36.5 bits (85), Expect = 0.026
Identities = 24/108 (22%), Positives = 50/108 (46%), Gaps = 15/108 (13%)
Query: 252 QIKGTFF----VSHKYTNYASVQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAG 307
+K TFF V+ +Y V+ + GHE++ +H + + + + + A++
Sbjct: 47 GVKATFFTLGWVAERYPEL--VRRIVAAGHELA----SHGYGHERVTTQTPEAFRADIRR 100
Query: 308 GRLIIERFANISDGSVIGVRAPYLRVG-GNK-QFSMMTDQFFVYDASI 353
+ ++E ++S V G RAP +G N ++ + + Y +SI
Sbjct: 101 SKALLE---DLSGQPVRGYRAPSFSIGKKNLWALDVLAEAGYRYSSSI 145
>gnl|CDD|234001 TIGR02764, spore_ybaN_pdaB, polysaccharide deacetylase family
sporulation protein PdaB. This model describes the YbaN
protein family, also called PdaB and SpoVIE, of
Gram-positive bacteria. Although ybaN null mutants have
only a mild sporulation defect, ybaN/ytrI double mutants
show drastically reducted sporulation efficiencies. This
synthetic defect suggests the role of this
sigmaE-controlled gene in sporulation had been masked by
functional redundancy. Members of this family are
homologous to a characterized polysaccharide
deacetylase; the exact function this protein family is
unknown [Cellular processes, Sporulation and
germination].
Length = 191
Score = 35.0 bits (81), Expect = 0.049
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 9/70 (12%)
Query: 221 ITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFFVSHKYT-NYAS-VQELHRKGHE 278
I +TF+ ++ N D + I + ++ +K TFF+S + + V+E+ + GHE
Sbjct: 8 IALTFD--ISWGN-DYTEPILDTLKEY----DVKATFFLSGSWAERHPELVKEIVKDGHE 60
Query: 279 ISVFSLTHKD 288
I HK+
Sbjct: 61 IGSHGYRHKN 70
>gnl|CDD|214696 smart00494, ChtBD2, Chitin-binding domain type 2.
Length = 49
Score = 31.6 bits (72), Expect = 0.065
Identities = 15/40 (37%), Positives = 18/40 (45%), Gaps = 6/40 (15%)
Query: 45 DCRDVVRCDQAGENGITRLAGVRCPNGLAFDIDRQTCDWK 84
DC +C NG + CP GL F+ QTCDW
Sbjct: 16 DCSKYYQCS----NGRPIVG--SCPAGLVFNPATQTCDWP 49
Score = 31.6 bits (72), Expect = 0.079
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 100 SCPSGLAFDVDKQTCDWK 117
SCP+GL F+ QTCDW
Sbjct: 32 SCPAGLVFNPATQTCDWP 49
>gnl|CDD|200569 cd10944, CE4_SmPgdA_like, Catalytic NodB homology domain of
Streptococcus mutans polysaccharide deacetylase PgdA,
Bacillus subtilis YheN, and similar proteins. This
family is represented by a putative polysaccharide
deacetylase PgdA from the oral pathogen Streptococcus
mutans (SmPgdA) and Bacillus subtilis YheN (BsYheN),
which are members of the carbohydrate esterase 4 (CE4)
superfamily. SmPgdA is an extracellular metal-dependent
polysaccharide deacetylase with a typical CE4 fold, with
metal bound to a His-His-Asp triad. It possesses
de-N-acetylase activity toward a hexamer of
chitooligosaccharide N-acetylglucosamine, but not
shorter chitooligosaccharides or a synthetic
peptidoglycan tetrasaccharide. SmPgdA plays a role in
tuning cell surface properties and in interactions with
(salivary) agglutinin, an essential component of the
innate immune system, most likely through deacetylation
of an as-yet-unidentified polysaccharide. SmPgdA shows
significant homology to the catalytic domains of
peptidoglycan deacetylases from Streptococcus pneumoniae
(SpPgdA) and Listeria monocytogenes (LmPgdA), both of
which are involved in the bacterial defense mechanism
against human mucosal lysozyme. The Bacillus subtilis
genome contains six polysaccharide deacetylase gene
homologs: pdaA, pdaB (previously known as ybaN), yheN,
yjeA, yxkH and ylxY. The biological function of BsYheN
is still unknown. This family also includes many
uncharacterized polysaccharide deacetylases mainly found
in bacteria.
Length = 189
Score = 34.4 bits (80), Expect = 0.071
Identities = 22/97 (22%), Positives = 42/97 (43%), Gaps = 14/97 (14%)
Query: 252 QIKGTFFV--SHKYTNYASVQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGGR 309
+K TFFV S+ V+ + ++GH I + S TH Y S + ++ ++ +
Sbjct: 26 NVKATFFVIGSNVEKYPELVKRIVKEGHAIGLHSYTHDYKKLY---SSPEAFIKDLNKTQ 82
Query: 310 LIIERFANISDGSVIGVRAPYLRV-GGNKQFSMMTDQ 345
+I+ + GV+ +R GG+ +M
Sbjct: 83 DLIK--------KITGVKTKLIRFPGGSSNTGLMKAL 111
>gnl|CDD|200582 cd10959, CE4_NodB_like_3, Catalytic NodB homology domain of
uncharacterized bacterial polysaccharide deacetylases.
This family includes many uncharacterized bacterial
polysaccharide deacetylases. Although their biological
function still remains unknown, members in this family
show high sequence homology to the catalytic NodB
homology domain of Streptococcus pneumoniae
polysaccharide deacetylase PgdA (SpPgdA), which is an
extracellular metal-dependent polysaccharide deacetylase
with de-N-acetylase activity toward a hexamer of
chitooligosaccharide N-acetylglucosamine, but not
shorter chitooligosaccharides or a synthetic
peptidoglycan tetrasaccharide. Like SpPgdA, this family
is a member of the carbohydrate esterase 4 (CE4)
superfamily.
Length = 187
Score = 33.7 bits (78), Expect = 0.13
Identities = 16/82 (19%), Positives = 29/82 (35%), Gaps = 9/82 (10%)
Query: 251 CQIKGTFFV--SHKYTNYASVQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGG 308
K TFFV + ++ + +GHEI H+ S + ++
Sbjct: 26 HGAKATFFVVGERAERHPDLIRRIVDEGHEIGNHGYRHRHPWLR----SPWKAIRDLRRA 81
Query: 309 RLIIERFANISDGSVIGVRAPY 330
IIE+ ++ R P+
Sbjct: 82 ARIIEQ---LTGRPPRYYRPPW 100
>gnl|CDD|200578 cd10954, CE4_CtAXE_like, Catalytic NodB homology domain of
Clostridium thermocellum acetylxylan esterase and its
bacterial homologs. This family is represented by
Clostridium thermocellum acetylxylan esterase (CtAXE, EC
3.1.1.72), a member of the carbohydrate esterase 4 (CE4)
superfamily. CtAXE deacetylates O-acetylated xylan, a
key component of plant cell walls. It shows no
detectable activity on generic esterase substrates
including para-nitrophenyl acetate. It is specific for
sugar-based substrates and will precipitate acetylxylan,
as a consequence of deacetylation. CtAXE is a monomeric
protein containing a catalytic NodB homology domain with
the same overall topology and a deformed (beta/alpha)8
barrel fold as other CE4 esterases. However, due to
differences in the topography of the substrate-binding
groove, the chemistry of the active center, and metal
ion coordination, CtAXE has different metal ion
preference and lacks activity on N-acetyl substrates. It
is significantly activated by Co2+. Moreover, CtAXE
displays distinctly different ligand coordination to the
metal ion, utilizing an aspartate, a histidine, and four
water molecules, as opposed to the conserved His-His-Asp
zinc-binding triad of other CE4 esterases.
Length = 180
Score = 33.7 bits (78), Expect = 0.13
Identities = 25/119 (21%), Positives = 39/119 (32%), Gaps = 16/119 (13%)
Query: 220 MITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFF-VSHKYTNYAS-VQELHRKGH 277
M+ +TF+ N + ++ ++ TFF V V+ + G
Sbjct: 2 MVALTFDDGPNAKYTPRLLDVLEKYN-------VRATFFLVGQNVNGNKEIVKRMVEMGC 54
Query: 278 EISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPYLRVGGN 336
EI S TH D K S + E+ I+ I+ R PY V
Sbjct: 55 EIGNHSYTHPDLTKL----SPSEIKKEIEKTNEAIK---KITGKRPKLFRPPYGAVNDT 106
>gnl|CDD|200575 cd10951, CE4_ClCDA_like, Catalytic NodB homology domain of
Colletotrichum lindemuthianum chitin deacetylase and
similar proteins. This family is represented by the
chitin deacetylase (endo-chitin de-N-acetylase, ClCDA,
EC 3.5.1.41) from Colletotrichum lindemuthianum (also
known as Glomerella lindemuthiana), which is a member of
the carbohydrate esterase 4 (CE4) superfamily. ClCDA
catalyzes the hydrolysis of N-acetamido groups of
N-acetyl-D-glucosamine residues in chitin, converting it
to chitosan in fungal cell walls. It consists of a
single catalytic domain similar to the deformed
(alpha/beta)8 barrel fold adopted by other CE4
esterases, which encompasses a mononuclear metalloenzyme
employing a conserved His-His-Asp zinc-binding triad
closely associated with the conserved catalytic base
(aspartic acid) and acid (histidine), to carry out
acid/base catalysis. It possesses a highly conserved
substrate-binding groove, with subtle alterations that
influence substrate specificity and subsite affinity.
Unlike its bacterial homologs, ClCDA contains two
intramolecular disulfide bonds that may add stability to
this secreted protein. The family also includes many
uncharacterized deacetylases and hypothetical proteins
mainly from eukaryotes, which show high sequence
similarity to ClCDA.
Length = 197
Score = 33.4 bits (77), Expect = 0.21
Identities = 27/136 (19%), Positives = 43/136 (31%), Gaps = 41/136 (30%)
Query: 217 VPQMITITFNGAVNVDNSDLYDEIFNGNRQNPNGCQIKGTFFVSHKYTNYAS------VQ 270
VP + +TF+ + L D + K TFFV+ N ++
Sbjct: 6 VPGTVALTFDDGPSTYTPQLLD-LLKEA-------GAKATFFVNGNNFNGCIYDYADVLR 57
Query: 271 ELHRKGHEISVFSLTHKDDPKYWSGGSYDD-----WLAEMAGGRLIIERFANISDGSVIG 325
++ +GH+I+ + +H D K S E A I +G
Sbjct: 58 RMYNEGHQIASHTWSHPDLTKL----SAAQIRDEMTKLEDA--------LRKI-----LG 100
Query: 326 V-----RAPYLRVGGN 336
V R PY
Sbjct: 101 VKPTYMRPPYGECNDE 116
>gnl|CDD|234837 PRK00783, PRK00783, DNA-directed RNA polymerase subunit D;
Provisional.
Length = 263
Score = 33.7 bits (78), Expect = 0.21
Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 1/48 (2%)
Query: 139 DEPVCPEGKLSCGNGECIDKTLF-CDDKPDCKDESDENACSVEQDPNR 185
CP G L G+ + L C C+ A V D N+
Sbjct: 177 CVEACPRGVLELKEGKLVVTDLLNCSLCKLCERACPGKAIRVSDDENK 224
>gnl|CDD|200563 cd10938, CE4_HpPgdA_like, Catalytic domain of Helicobacter pylori
peptidoglycan deacetylase (HpPgdA) and similar proteins.
This family is represented by a peptidoglycan
deacetylase (HP0310, HpPgdA) from the gram-negative
pathogen Helicobacter pylori. HpPgdA has the ability to
bind a metal ion at the active site and is responsible
for a peptidoglycan modification that counteracts the
host immune response. It functions as a homotetramer.
The monomer is composed of a 7-stranded barrel with
detectable sequence similarity to the 6-stranded barrel
NodB homology domain of polysaccharide deacetylase
(DCA)-like proteins in the CE4 superfamily, which
removes N-linked or O-linked acetyl groups from cell
wall polysaccharides. In contrast to typical NodB-like
DCAs, HpPgdA does not exhibit a solvent-accessible
polysaccharide binding groove, suggesting that the
enzyme binds a small molecule at the active site.
Length = 258
Score = 32.1 bits (74), Expect = 0.58
Identities = 25/107 (23%), Positives = 44/107 (41%), Gaps = 20/107 (18%)
Query: 253 IKGTFFVS-HKYTNY-ASVQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRL 310
+K TFFV H + +V+ + GHEI H + +G + ++ + G
Sbjct: 51 VKATFFVPGHTAETFPEAVEAILAAGHEIGHHGYLH----ENPTGLTPEEERELLERGLE 106
Query: 311 IIERFANISDGSVIGVRAPYLRVGGNKQFSMMTDQF-----FVYDAS 352
++E+ +G R+P +FS T F+YD+S
Sbjct: 107 LLEKLTGK---RPVGYRSPSW------EFSPNTLDLLLEHGFLYDSS 144
Score = 28.7 bits (65), Expect = 8.6
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 467 KFIEEMLDRNDVYFVTMLQVIQWMQ 491
+ IE + V+F T ++ + +
Sbjct: 234 RLIEHIKAHGGVWFATGEEIADYWR 258
>gnl|CDD|222448 pfam13905, Thioredoxin_8, Thioredoxin-like. Thioredoxins are small
enzymes that participate in redox reactions, via the
reversible oxidation of an active centre disulfide bond.
Length = 94
Score = 30.0 bits (68), Expect = 0.86
Identities = 10/38 (26%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 445 PLGLHFHASWLKSKKEFKDELIKFIEEMLDRN-DVYFV 481
+ L+F ASW + F EL + E++ ++ +V
Sbjct: 3 VVLLYFWASWCPPCRAFTPELKELYEKLKKPKVEIVYV 40
>gnl|CDD|187791 cd09660, Csx1_III-U, CRISPR/Cas system-associated protein Csx1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Protein of this family often fused to HTH domain; Some
proteins could have an additional fusion with
RecB-family nuclease domain; Core domain appears to have
a Rossmann-like fold; loosely associated with CRISPR/Cas
systems; also known as MJ1666 family.
Length = 394
Score = 32.0 bits (73), Expect = 0.92
Identities = 16/74 (21%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 435 FNRHFSTNRAPLGLHFHASWLKSKKEFKDELIKFIEEMLDRNDVYFVTMLQVIQWMQNPT 494
F + T L+FH+ L+ K + +EE+ + +F + ++N
Sbjct: 268 FKEDYLTILK---LYFHSLLLEILKFIDYKNEVKLEEIKKLAETFFDKIEVTRVIIEN-- 322
Query: 495 ELTSLRDFQEWKEK 508
E+ + Q W EK
Sbjct: 323 EVDKIEKGQNWSEK 336
>gnl|CDD|213023 cd10918, CE4_NodB_like_5s_6s, Putative catalytic NodB homology
domain of PgaB, IcaB, and similar proteins which consist
of a deformed (beta/alpha)8 barrel fold with 5- or
6-strands. This family belongs to the large and
functionally diverse carbohydrate esterase 4 (CE4)
superfamily, whose members show strong sequence
similarity with some variability due to their distinct
carbohydrate substrates. It includes bacterial
poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB,
hemin storage system HmsF protein in gram-negative
species, intercellular adhesion proteins IcaB, and many
uncharacterized prokaryotic polysaccharide deacetylases.
It also includes a putative polysaccharide deacetylase
YxkH encoded by the Bacillus subtilis yxkH gene, which
is one of six polysaccharide deacetylase gene homologs
present in the Bacillus subtilis genome. Sequence
comparison shows all family members contain a conserved
domain similar to the catalytic NodB homology domain of
rhizobial NodB-like proteins, which consists of a
deformed (beta/alpha)8 barrel fold with 6 or 7 strands.
However, in this family, most proteins have 5 strands
and some have 6 strands. Moreover, long insertions are
found in many family members, whose function remains
unknown.
Length = 157
Score = 29.1 bits (66), Expect = 3.4
Identities = 17/80 (21%), Positives = 27/80 (33%), Gaps = 21/80 (26%)
Query: 252 QIKGTFFVS-----------------HKYTNYASVQELHRKGHEISVFSLTHKDDPKYWS 294
+ TFFV Y + ++EL G EI + TH D
Sbjct: 25 GLPATFFVITGYIGGGNPWWAPAPPRPPYLTWDQLRELAASGVEIGSHTHTHPDLTTL-- 82
Query: 295 GGSYDDWLAEMAGGRLIIER 314
S ++ E+A + +E
Sbjct: 83 --SDEELRRELAESKERLEE 100
>gnl|CDD|200576 cd10952, CE4_MrCDA_like, Catalytic NodB homology domain of Mucor
rouxii chitin deacetylase and similar proteins. This
family is represented by the chitin deacetylase (MrCDA,
EC 3.5.1.41) encoded from the fungus Mucor rouxii (also
known as Amylomyces rouxii). MrCDA is an acidic
glycoprotein with a very stringent specificity for
beta1-4-linked N-acetylglucosamine homopolymers. It
requires at least four residues (chitotetraose) for
catalysis, and can achieve extensive deacetylation on
chitin polymers. MrCDA shows high sequence similarity to
Colletotrichum lindemuthianum chitin deacetylase
(endo-chitin de-N-acetylase, ClCDA), which consists of a
single catalytic domain similar to the deformed
(beta/alpha)8 barrel fold adopted by the carbohydrate
esterase 4 (CE4) superfamily, which encompasses a
mononuclear metalloenzyme employing a conserved
His-His-Asp zinc-binding triad closely associated with
the conserved catalytic base (aspartic acid) and acid
(histidine) to carry out acid/base catalysis. The family
also includes some uncharacterized eukaryotic and
bacterial homologs of MrCDA.
Length = 178
Score = 29.3 bits (66), Expect = 3.5
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 253 IKGTFFV--SHKYTNYASVQELHRKGHEISVFSLTHK 287
K TFFV S+ N +Q GHEI V + +H
Sbjct: 27 QKATFFVIGSNVVNNPDILQRALEAGHEIGVHTWSHP 63
>gnl|CDD|99987 cd03817, GT1_UGDG_like, This family is most closely related to the
GT1 family of glycosyltransferases.
UDP-glucose-diacylglycerol glucosyltransferase (UGDG;
also known as 1,2-diacylglycerol 3-glucosyltransferase)
catalyzes the transfer of glucose from UDP-glucose to
1,2-diacylglycerol forming
3-D-glucosyl-1,2-diacylglycerol.
Length = 374
Score = 29.5 bits (67), Expect = 5.6
Identities = 7/24 (29%), Positives = 15/24 (62%)
Query: 270 QELHRKGHEISVFSLTHKDDPKYW 293
+EL ++GHE+ V + ++ P+
Sbjct: 25 EELEKRGHEVYVVAPSYPGAPEEE 48
>gnl|CDD|238481 cd00981, arch_gltB, Archaeal-type gltB domain. This domain shares
sequence similarity with a region of unknown function
found in the large subunit of glutamate synthase, which
is encoded by gltB and found in most bacteria and
eukaryotes. It is predicted to be homologous to the
C-terminal domain of glutamate synthase based upon
sequence similarity coupled with genome organization
data, showing that this domain is found in a gene
cluster with other domains of Glts, which are annotated.
This domain is found primarily in archaea, but is also
present in a few bacteria, likely as a result of lateral
gene transfer.
Length = 232
Score = 28.8 bits (65), Expect = 5.8
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 295 GGSYDDWLAE-MAGGRLIIERFANISDGSVIG 325
GG+ D+L E MAGG +I+ +D +G
Sbjct: 133 GGTAGDFLGEYMAGGVIIV--LGLGTDEEPVG 162
>gnl|CDD|99968 cd03794, GT1_wbuB_like, This family is most closely related to the
GT1 family of glycosyltransferases. wbuB in E. coli is
involved in the biosynthesis of the O26 O-antigen. It
has been proposed to function as an
N-acetyl-L-fucosamine (L-FucNAc) transferase.
Length = 394
Score = 29.1 bits (66), Expect = 5.9
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 269 VQELHRKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGG 308
+EL ++GHE++V + P Y SG Y + E G
Sbjct: 24 AEELVKRGHEVTVITG----SPNYPSGKIYKGYKREEVDG 59
>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 = 29.1 bits (66), Expect = 6.8
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 271 ELHRKGHEISVFSLTHKDDPKY 292
L KGHE+++ SL + P Y
Sbjct: 25 ALAEKGHEVTIISLDKGEPPFY 46
>gnl|CDD|200557 cd10931, CE4_u7, Putative catalytic domain of uncharacterized
bacterial proteins from the carbohydrate esterase 4
superfamily. This family corresponds to a group of
uncharacterized bacterial proteins with high sequence
similarity to the catalytic domain of the six-stranded
barrel rhizobial NodB-like proteins, which remove
N-linked or O-linked acetyl groups from cell wall
polysaccharides and belong to the larger carbohydrate
esterase 4 (CE4) superfamily.
Length = 224
Score = 28.3 bits (64), Expect = 9.0
Identities = 26/119 (21%), Positives = 42/119 (35%), Gaps = 33/119 (27%)
Query: 229 VNVDNS-DLYDEIFNGNRQNPNGCQIKGTFF-------------VSHKYTNYASV-QELH 273
+VD+ D +D + + ++ ++ TFF S+ S+ +E+
Sbjct: 7 HDVDDPYDTFDWLMDLEKKY----GVRSTFFFLAGDYSPYDDGNYSYNDPKIRSLIKEIA 62
Query: 274 RKGHEISVFSLTHKDDPKYWSGGSYDDWLAEMAGGRLIIERFANISDGSVIGVRAPYLR 332
+G EI + H Y S + E ER I V G R YLR
Sbjct: 63 DRGWEIGL----H---GSYNSYTDPEKLKKEK-------ERLEKILGRPVTGGRQHYLR 107
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.137 0.445
Gapped
Lambda K H
0.267 0.0665 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,520,624
Number of extensions: 2706928
Number of successful extensions: 2297
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2274
Number of HSP's successfully gapped: 37
Length of query: 563
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 461
Effective length of database: 6,413,494
Effective search space: 2956620734
Effective search space used: 2956620734
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 (21.8 bits)
S2: 62 (27.8 bits)