RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11165
(244 letters)
>gnl|CDD|212120 cd10809, GH38N_AMII_GMII_SfManIII_like, N-terminal catalytic domain
of Golgi alpha-mannosidase II, Spodoptera frugiperda Sf9
alpha-mannosidase III, and similar proteins; glycoside
hydrolase family 38 (GH38). This subfamily is
represented by Golgi alpha-mannosidase II (GMII, also
known as mannosyl-oligosaccharide 1,3- 1,6-alpha
mannosidase, EC 3.2.1.114, Man2A1), a monomeric,
membrane-anchored class II alpha-mannosidase existing in
the Golgi apparatus of eukaryotes. GMII plays a key role
in the N-glycosylation pathway. It catalyzes the
hydrolysis of the terminal both alpha-1,3-linked and
alpha-1,6-linked mannoses from the high-mannose
oligosaccharide GlcNAc(Man)5(GlcNAc)2 to yield
GlcNAc(Man)3(GlcNAc)2(GlcNAc, N-acetylglucosmine), which
is the committed step of complex N-glycan synthesis.
GMII is activated by zinc or cobalt ions and is strongly
inhibited by swainsonine. Inhibition of GMII provides a
route to block cancer-induced changes in cell surface
oligosaccharide structures. GMII has a pH optimum of
5.5-6.0, which is intermediate between those of acidic
(lysosomal alpha-mannosidase) and neutral (ER/cytosolic
alpha-mannosidase) enzymes. GMII is a retaining glycosyl
hydrolase of family GH38 that employs a two-step
mechanism involving the formation of a covalent glycosyl
enzyme complex; two carboxylic acids positioned within
the active site act in concert: one as a catalytic
nucleophile and the other as a general acid/base
catalyst. This subfamily also includes human
alpha-mannosidase 2x (MX, also known as
mannosyl-oligosaccharide 1,3- 1,6-alpha mannosidase, EC
3.2.1.114, Man2A2). MX is enzymatically and functionally
very similar to GMII, and is thought to also function in
the N-glycosylation pathway. Also found in this
subfamily is class II alpha-mannosidase encoded by
Spodoptera frugiperda Sf9 cell. This alpha-mannosidase
is an integral membrane glycoprotein localized in the
Golgi apparatus. It shows high sequence homology with
mammalian Golgi alpha-mannosidase II(GMII). It can
hydrolyze p-nitrophenyl alpha-D-mannopyranoside
(pNP-alpha-Man), and it is inhibited by swainsonine.
However, the Sf9 enzyme is stimulated by cobalt and can
hydrolyze (Man)5(GlcNAc)2 to (Man)3(GlcNAc)2, but it
cannot hydrolyze GlcNAc(Man)5(GlcNAc)2, which is
distinct from that of GMII. Thus, this enzyme has been
designated as Sf9 alpha-mannosidase III (SfManIII). It
probably functions in an alternate N-glycan processing
pathway in Sf9 cells.
Length = 340
Score = 182 bits (464), Expect = 3e-56
Identities = 63/103 (61%), Positives = 80/103 (77%), Gaps = 2/103 (1%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNSQPSYNVHASF 60
+LLDQ+RKK+ LY + V+L+PLGDDFRY+ EEWDAQ NY+ LF ++NS P NV F
Sbjct: 238 LLLDQYRKKSQLYRSNVVLIPLGDDFRYDSDEEWDAQYDNYQKLFDYINSNPELNVEIQF 297
Query: 61 GTLADYFDTLKKA--KDERSFPSLSGDFFTYADKDDNYWSGYY 101
GTL+DYF+ L+K + FP+LSGDFFTYAD+DD+YWSGYY
Sbjct: 298 GTLSDYFNALRKRTGTNTPGFPTLSGDFFTYADRDDDYWSGYY 340
>gnl|CDD|178304 PLN02701, PLN02701, alpha-mannosidase.
Length = 1050
Score = 184 bits (469), Expect = 2e-53
Identities = 77/141 (54%), Positives = 92/141 (65%), Gaps = 14/141 (9%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNSQPSYNVHASF 60
LLDQ+RKK+TLY T LLVPLGDDFRY +E +AQ NY+ LF ++NS PS F
Sbjct: 277 KLLDQYRKKSTLYRTNTLLVPLGDDFRYISIDEAEAQFRNYQKLFDYINSNPSLKAEVKF 336
Query: 61 GTLADYFDTLKKAKDERS--------------FPSLSGDFFTYADKDDNYWSGYYTSRPF 106
GTL DYF TL+ D + FPSLSGDFFTYAD+ +YWSGYY SRPF
Sbjct: 337 GTLEDYFSTLRDEADRINYSRPGEVGSGEVPGFPSLSGDFFTYADRQQDYWSGYYVSRPF 396
Query: 107 YKRMDRELSGILRAADILFTL 127
+K +DR L LRAA+ILF+
Sbjct: 397 FKAVDRVLEQTLRAAEILFSF 417
Score = 112 bits (282), Expect = 2e-28
Identities = 52/105 (49%), Positives = 66/105 (62%), Gaps = 17/105 (16%)
Query: 131 GSDMIKRKYLKKIPLQGNFYPMPSAAFIEDT-GRRLSLLSAQSLGVACLKPGQIEVTMPC 189
G M +R+ KIPLQGN+YPMPS AF++ + G+R S+ S QSLGVA LK G +E+ +
Sbjct: 787 GFQMSRRETYDKIPLQGNYYPMPSLAFLQGSNGQRFSVHSRQSLGVASLKNGWLEIML-- 844
Query: 190 DARVVGLNLGEVIQDRRLNQDDERGLGQGVMDNIPTLTLFRIVLE 234
DRRL QDD RGLGQGVMDN P +F ++LE
Sbjct: 845 --------------DRRLVQDDGRGLGQGVMDNRPMNVVFHLLLE 875
>gnl|CDD|212131 cd11666, GH38N_Man2A1, N-terminal catalytic domain of Golgi
alpha-mannosidase II and similar proteins; glycoside
hydrolase family 38 (GH38). This subfamily is
represented by Golgi alpha-mannosidase II (GMII, also
known as mannosyl-oligosaccharide 1,3- 1,6-alpha
mannosidase, EC 3.2.1.114, Man2A1), a monomeric,
membrane-anchored class II alpha-mannosidase existing in
the Golgi apparatus of eukaryotes. GMII plays a key role
in the N-glycosylation pathway. It catalyzes the
hydrolysis of the terminal of both alpha-1,3-linked and
alpha-1,6-linked mannoses from the high-mannose
oligosaccharide GlcNAc(Man)5(GlcNAc)2 to yield
GlcNAc(Man)3(GlcNAc)2(GlcNAc, N-acetylglucosmine), which
is the committed step of complex N-glycan synthesis.
GMII is activated by zinc or cobalt ions and is strongly
inhibited by swainsonine. Inhibition of GMII provides a
route to block cancer-induced changes in cell surface
oligosaccharide structures. GMII has a pH optimum of
5.5-6.0, which is intermediate between those of acidic
(lysosomal alpha-mannosidase) and neutral (ER/cytosolic
alpha-mannosidase) enzymes. GMII is a retaining glycosyl
hydrolase of family GH38 that employs a two-step
mechanism involving the formation of a covalent glycosyl
enzyme complex; two carboxylic acids positioned within
the active site act in concert: one as a catalytic
nucleophile and the other as a general acid/base
catalyst.
Length = 344
Score = 147 bits (373), Expect = 8e-43
Identities = 63/107 (58%), Positives = 79/107 (73%), Gaps = 6/107 (5%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNSQPSYNVHASF 60
MLLDQ+RKK+ L+ T+VLL PLGDDFRY EWD Q NY+ LF ++NS P +V A F
Sbjct: 238 MLLDQYRKKSKLFRTKVLLAPLGDDFRYTEYTEWDQQFENYQKLFDYMNSHPELHVKAQF 297
Query: 61 GTLADYFDTLKKA------KDERSFPSLSGDFFTYADKDDNYWSGYY 101
GTL+DYFD L+K+ + +FP LSGDFFTYAD+DD+YWSGY+
Sbjct: 298 GTLSDYFDALRKSTGMDPVGGQSAFPVLSGDFFTYADRDDHYWSGYF 344
>gnl|CDD|212132 cd11667, GH38N_Man2A2, N-terminal catalytic domain of Golgi
alpha-mannosidase IIx, and similar proteins; glycoside
hydrolase family 38 (GH38). This subfamily is
represented by human alpha-mannosidase 2x (MX, also
known as mannosyl-oligosaccharide 1,3- 1,6-alpha
mannosidase, EC 3.2.1.114, Man2A2). MX is enzymatically
and functionally very similar to GMII (found in another
subfamily), and as an isoenzyme of GMII. It is thought
to also function in the N-glycosylation pathway. MX
specifically hydrolyzes the same oligosaccharide
substrate as does MII. It specifically removes two
mannosyl residues from GlcNAc(Man)5(GlcNAc)2 to yield
GlcNAc(Man)3(GlcNAc)2(GlcNAc, N-acetylglucosmine).
Length = 344
Score = 142 bits (360), Expect = 6e-41
Identities = 62/107 (57%), Positives = 80/107 (74%), Gaps = 6/107 (5%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNSQPSYNVHASF 60
+LLDQ+RKK+ LY ++VLLVPLGDDFRY++ +EWDAQ +NY+ LF LNS P +V A F
Sbjct: 238 LLLDQYRKKSKLYRSKVLLVPLGDDFRYDKPQEWDAQFLNYQRLFDFLNSHPELHVQAQF 297
Query: 61 GTLADYFDTLKK------AKDERSFPSLSGDFFTYADKDDNYWSGYY 101
GTL+DYFD L K FP +SGDFF+YAD++D+YW+GYY
Sbjct: 298 GTLSDYFDALYKRTGVVPGMRPPGFPVVSGDFFSYADREDHYWTGYY 344
>gnl|CDD|216284 pfam01074, Glyco_hydro_38, Glycosyl hydrolases family 38 N-terminal
domain. Glycosyl hydrolases are key enzymes of
carbohydrate metabolism.
Length = 269
Score = 65.3 bits (160), Expect = 1e-12
Identities = 31/92 (33%), Positives = 41/92 (44%), Gaps = 15/92 (16%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLN-SQPSY-NVHA 58
LLDQ +K A T +L P GD D + L ++N
Sbjct: 191 DLLDQAKKYADKTRTNHVLWPFGDG---------DGGGGPTDELLEYINRWNELPGLPKV 241
Query: 59 SFGTLADYFDTLKKAKDERSFPSLSGDFFTYA 90
FGT +DYFD L+ E ++P+ SGDF TYA
Sbjct: 242 QFGTPSDYFDALE----EATWPTKSGDFPTYA 269
>gnl|CDD|214875 smart00872, Alpha-mann_mid, Alpha mannosidase, middle domain.
Members of this entry belong to the glycosyl hydrolase
family 38, This domain, which is found in the central
region adopts a structure consisting of three alpha
helices, in an immunoglobulin/albumin-binding
domain-like fold. The domain is predominantly found in
the enzyme alpha-mannosidase.
Length = 79
Score = 57.2 bits (139), Expect = 4e-11
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 96 YWSGYYTSRPFYKRMDRELSGILRAADILFTLAW 129
Y G YTSRP+ KR++R +LRAA+ L LA
Sbjct: 1 YHRGTYTSRPYLKRLNRRAESLLRAAEELAALAA 34
>gnl|CDD|220157 pfam09261, Alpha-mann_mid, Alpha mannosidase, middle domain.
Members of this family adopt a structure consisting of
three alpha helices, in an
immunoglobulin/albumin-binding domain-like fold. They
are predominantly found in the enzyme alpha-mannosidase.
Length = 82
Score = 57.2 bits (139), Expect = 4e-11
Identities = 20/49 (40%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 96 YWSGYYTSRPFYKRMDRELSGILRAADILFTLA-WRGSDMIKRKYLKKI 143
Y G YTSRP KR++R+L +LRAA++L +LA G+ Y +++
Sbjct: 2 YHRGTYTSRPDIKRLNRKLESLLRAAELLASLASLLGNKGELDDYYEEL 50
>gnl|CDD|219551 pfam07748, Glyco_hydro_38C, Glycosyl hydrolases family 38
C-terminal domain. Glycosyl hydrolases are key enzymes
of carbohydrate metabolism.
Length = 379
Score = 52.8 bits (127), Expect = 3e-08
Identities = 22/99 (22%), Positives = 36/99 (36%), Gaps = 18/99 (18%)
Query: 120 AADILFTLAWRGSDMIKRKYLKKIPLQGNFYPMPSAAFIED--TGRRLSLLSAQSLGVAC 177
+ G K P + +Y +PS FI+D +S+L+ GV+
Sbjct: 168 FYEDQN-----GVIERKLPTHPNTPWEAAYYEVPSHRFIDDSEASYGVSVLNDSKYGVSS 222
Query: 178 LKPGQIEVTMPCDARVVGLNLGEVIQDRRLNQDDERGLG 216
L GQ+E+++ R + DD R L
Sbjct: 223 LADGQLELSL---LRAPT--------YPDPSADDGRHLF 250
>gnl|CDD|212095 cd00451, GH38N_AMII_euk, N-terminal catalytic domain of eukaryotic
class II alpha-mannosidases; glycoside hydrolase family
38 (GH38). The family corresponds to a group of
eukaryotic class II alpha-mannosidases (AlphaMII), which
contain Golgi alpha-mannosidases II (GMII), the major
broad specificity lysosomal alpha-mannosidases (LAM,
MAN2B1), the noval core-specific lysosomal alpha
1,6-mannosidases (Epman, MAN2B2), and similar proteins.
GMII catalyzes the hydrolysis of the terminal both
alpha-1,3-linked and alpha-1,6-linked mannoses from the
high-mannose oligosaccharide GlcNAc(Man)5(GlcNAc)2 to
yield GlcNAc(Man)3(GlcNAc)2 (GlcNAc,
N-acetylglucosmine), which is the committed step of
complex N-glycan synthesis. LAM is a broad specificity
exoglycosidase hydrolyzing all known alpha 1,2-, alpha
1,3-, and alpha 1,6-mannosidic linkages from numerous
high mannose type oligosaccharides. Different from LAM,
Epman can efficiently cleave only the alpha 1,6-linked
mannose residue from (Man)3GlcNAc, but not
(Man)3(GlcNAc)2 or other larger high mannose
oligosaccharides, in the core of N-linked glycans.
Members in this family are retaining glycosyl hydrolases
of family GH38 that employs a two-step mechanism
involving the formation of a covalent glycosyl enzyme
complex. Two carboxylic acids positioned within the
active site act in concert: one as a catalytic
nucleophile and the other as a general acid/base
catalyst.
Length = 258
Score = 47.6 bits (114), Expect = 1e-06
Identities = 17/50 (34%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNS 50
++ +K++ Y T +L+PLGDDFR+ + Q N + L A++NS
Sbjct: 212 EFVEYIKKRSKTYRTNHILIPLGDDFRF---KNASLQFSNMDKLIAYINS 258
>gnl|CDD|212098 cd10786, GH38N_AMII_like, N-terminal catalytic domain of class II
alpha-mannosidases and similar proteins; glycoside
hydrolase family 38 (GH38). Alpha-mannosidases (EC
3.2.1.24) are extensively found in eukaryotes and play
important roles in the processing of newly formed
N-glycans and in degradation of mature glycoproteins. A
deficiency of this enzyme causes the lysosomal storage
disease alpha-mannosidosis. Many bacterial and archaeal
species also possess putative alpha-mannosidases, but
their activity and specificity is largely unknown.
Based on different functional characteristics and
sequence homology, alpha-mannosidases have been
organized into two classes (class I, belonging to
glycoside hydrolase family 47, and class II, belonging
to glycoside hydrolase family 38). Members of this
family corresponds to class II alpha-mannosidases
(alphaMII), which contain intermediate Golgi
alpha-mannosidases II, acidic lysosomal
alpha-mannosidases, animal sperm and epididymal alpha
-mannosidases, neutral ER/cytosolic alpha-mannosidases,
and some putative prokaryotic alpha-mannosidases.
AlphaMII possess a-1,3, a-1,6, and a-1,2 hydrolytic
activity, and catalyzes the degradation of N-linked
oligosaccharides. The N-terminal catalytic domain of
alphaMII adopts a structure consisting of parallel
7-stranded beta/alpha barrel. Members in this family are
retaining glycosyl hydrolases of family GH38 that
employs a two-step mechanism involving the formation of
a covalent glycosyl enzyme complex. Two carboxylic acids
positioned within the active site act in concert: one as
a catalytic nucleophile and the other as a general
acid/base catalyst.
Length = 251
Score = 43.9 bits (104), Expect = 3e-05
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 2 LLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNS 50
L++QW+K A L +T LL+P G DF + D +N L NS
Sbjct: 206 LVEQWKKLAELGATNHLLMPSGGDFTI---PQADPLQVNQARLVEPWNS 251
>gnl|CDD|212121 cd10810, GH38N_AMII_LAM_like, N-terminal catalytic domain of
lysosomal alpha-mannosidase and similar proteins;
glycoside hydrolase family 38 (GH38). The subfamily is
represented by lysosomal alpha-mannosidase (LAM, Man2B1,
EC 3.2.1.114), which is a broad specificity
exoglycosidase hydrolyzing all known alpha 1,2-, alpha
1,3-, and alpha 1,6-mannosidic linkages from numerous
high mannose type oligosaccharides. LAM is expressed in
all tissues and in many species. In mammals, the absence
of LAM can cause the autosomal recessive disease
alpha-mannosidosis. LAM has an acidic pH optimum at
4.0-4.5. It is stimulated by zinc ion and is inhibited
by cobalt ion and plant alkaloids, such as swainsonine
(SW). LAM catalyzes hydrolysis by a double displacement
mechanism in which a glycosyl-enzyme intermediate is
formed and hydrolyzed via oxacarbenium ion-like
transition states. A carboxylic acid in the active site
acts as the catalytic nucleophile in the formation of
the covalent intermediate while a second carboxylic acid
acts as a general acid catalyst. The same residue is
thought to assist in the hydrolysis (deglycosylation)
step, this time acting as a general base.
Length = 278
Score = 35.3 bits (82), Expect = 0.017
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 1 MLLDQWRKKATLYSTRVLLVPLGDDFRYERSEEWDAQM---INY 41
+ +++A Y T +++ +G DF+Y+ +E W M I Y
Sbjct: 232 DFVQYAKEQAQHYRTNHIMLTMGSDFQYQNAEMWFKNMDKLIKY 275
>gnl|CDD|212122 cd10811, GH38N_AMII_Epman_like, N-terminal catalytic domain of
mammalian core-specific lysosomal alpha 1,6-mannosidase
and similar proteins; glycoside hydrolase family 38
(GH38). The subfamily is represented by a novel human
core-specific lysosomal alpha 1,6-mannosidase (Epman,
Man2B2) and similar proteins. Although it was previously
named as epididymal alpha-mannosidase, Epman has a
broadly distributed transcript expression profile.
Different from the major broad specificity lysosomal
alpha-mannosidases (LAM, MAN2B1), Epman is not
associated with genetic alpha-mannosidosis that is
caused by the absence of LAM. Furthermore, Epman has
unique substrate specificity. It can efficiently cleave
only the alpha 1,6-linked mannose residue from
(Man)3GlcNAc, but not (Man)3(GlcNAc)2 or other larger
high mannose oligosaccharides, in the core of N-linked
glycans. In contrast, the major LAM can cleave all of
the alpha-linked mannose residues from high mannose
oligosaccharides except the core alpha 1,6-linked
mannose residue. Moreover, it is suggested that the
catalytic activity of Epman is dependent on prior action
by di-N-acetyl-chitobiase (chitobiase), which indicates
there is a functional cooperation between these two
enzymes for the full and efficient catabolism of
mammalian lysosomal N-glycan core structures. Epman has
an acidic pH optimum. It is strongly stimulated by
cobalt or zinc ions and strongly inhibited by furanose
analogues swainsonine (SW) and
1,4-dideoxy-1,4-imino-d-mannitol (DIM).
Length = 326
Score = 33.3 bits (76), Expect = 0.091
Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 11/88 (12%)
Query: 7 RKKATLYSTRVLLVPLGDDFRYERSEEWDAQMINYEALFAHLNSQPS-YNVHASFGTLAD 65
+++A + T +L P G D ++ + Q N + L ++N S + V + TL D
Sbjct: 245 KQRAAWFRTPHVLWPWGCDKQFFNAS---VQFSNMDPLLDYINQHSSEFGVTVQYATLGD 301
Query: 66 YFDTLKKAK---DERSFPSLSGDFFTYA 90
YF L + + R S DF Y+
Sbjct: 302 YFQALHNSNLTWEVRG----SQDFLPYS 325
>gnl|CDD|177858 PLN02208, PLN02208, glycosyltransferase family protein.
Length = 442
Score = 30.0 bits (67), Expect = 1.1
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 5/56 (8%)
Query: 106 FYKRMDRELSGILRAADILF-----TLAWRGSDMIKRKYLKKIPLQGNFYPMPSAA 156
FYKR+ +++ L++ D++ + + D I R+Y KK+ L G +P P +
Sbjct: 179 FYKRLYHQITTGLKSCDVIALRTCKEIEGKFCDYISRQYHKKVLLTGPMFPEPDTS 234
>gnl|CDD|240157 cd05031, S-100A10_like, S-100A10_like: S-100A10 domain found in
proteins similar to S100A10. S100A10 is a member of the
S100 family of EF-hand superfamily of calcium-binding
proteins. Note that the S-100 hierarchy, to which this
S-100A1_like group belongs, contains only S-100 EF-hand
domains, other EF-hands have been modeled separately.
S100 proteins are expressed exclusively in vertebrates,
and are implicated in intracellular and extracellular
regulatory activities. A unique feature of S100A10 is
that it contains mutation in both of the calcium binding
sites, making it calcium insensitive. S100A10 has been
detected in brain, heart, gastrointestinal tract,
kidney, liver, lung, spleen, testes, epidermis, aorta,
and thymus. Structural data supports the homo- and
hetero-dimeric as well as hetero-tetrameric nature of
the protein. S100A10 has multiple binding partners in
its calcium free state and is therefore involved in many
diverse biological functions.
Length = 94
Score = 28.2 bits (63), Expect = 1.4
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 76 ERSFPSLSGDFFTYADKDDNYWSGYYTSRPFYKRMDRELSGILRA 120
E + SL F YA KD + + + K M++ELS L+
Sbjct: 4 EHAMESLILTFHRYAGKDGD--KNTLSRKELKKLMEKELSEFLKN 46
>gnl|CDD|236112 PRK07845, PRK07845, flavoprotein disulfide reductase; Reviewed.
Length = 466
Score = 29.4 bits (67), Expect = 1.8
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 153 PSAAFIEDTGRRLSLLSAQSLGVACLKPGQIEVTMP-CDARVVGL 196
PS I R L A LG+ + G+ V +P +ARV L
Sbjct: 46 PSKTLIATAEVRTELRRAAELGIRFIDDGEARVDLPAVNARVKAL 90
>gnl|CDD|219620 pfam07887, Calmodulin_bind, Calmodulin binding protein-like. The
members of this family are putative or actual
calmodulin binding proteins expressed by various plant
species. Some members , are known to be involved in the
induction of plant defence responses. However, their
precise function in this regards is as yet unknown.
Length = 301
Score = 28.8 bits (65), Expect = 2.2
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 14 STRVLLVPLGDDFRYERSEEWDAQMIN 40
S ++ +V L DF E E W + N
Sbjct: 46 SAKLEVVVLHGDFNSEDDENWTEEEFN 72
>gnl|CDD|235808 PRK06462, PRK06462, asparagine synthetase A; Reviewed.
Length = 335
Score = 28.8 bits (65), Expect = 2.6
Identities = 12/22 (54%), Positives = 14/22 (63%)
Query: 103 SRPFYKRMDRELSGILRAADIL 124
SR FY R D E G+LR D+L
Sbjct: 230 SREFYDREDPERPGVLRNYDLL 251
>gnl|CDD|225688 COG3146, COG3146, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 387
Score = 28.5 bits (64), Expect = 3.1
Identities = 28/123 (22%), Positives = 43/123 (34%), Gaps = 30/123 (24%)
Query: 32 EEWDAQMINYEALFAHLNSQPSYNVHASFGTLADYFDTL-----KKAKDER--------S 78
E+ + +A F H Q + ++ F D+ L K + ER
Sbjct: 159 EDEQPAL--EKAGFLHRLDQQFHWCNSGFQDFDDFLAALSSRKRKNIRRERRAVHKEGIE 216
Query: 79 FPSLSGDFFT----------YADKDDNYWSGYYTSRPFYKRMDRELSGILRAADILFTLA 128
L+GD T Y D W Y +RPF+ + + A D+L +A
Sbjct: 217 IQWLTGDDLTEAIWDAFFAFYMDTGSRKWGRPYLTRPFFSLLGERM-----ADDVLLVMA 271
Query: 129 WRG 131
RG
Sbjct: 272 KRG 274
>gnl|CDD|218033 pfam04339, DUF482, Protein of unknown function, DUF482. This
family contains several proteins of uncharacterized
function.
Length = 370
Score = 28.6 bits (65), Expect = 3.2
Identities = 21/99 (21%), Positives = 31/99 (31%), Gaps = 28/99 (28%)
Query: 60 FGTLADYFDTL-----KKAKDER--------SFPSLSG--------DFFT--YADKDDNY 96
+ + D+ L K + ER + L+G D F Y D
Sbjct: 170 YASFDDFLAALNSRKRKNIRKERRKVAEQGITIRWLTGDEITPEHWDAFYRFYQDTYLRK 229
Query: 97 WSGYYTSRPFYKRMDRELSGILRAADILFTLAWRGSDMI 135
W Y +R F+ + + IL LA R I
Sbjct: 230 WGSPYLTRAFFSLLAERM-----PDRILLVLAERDGRPI 263
>gnl|CDD|188157 TIGR01559, squal_synth, farnesyl-diphosphate farnesyltransferase.
This model describes farnesyl-diphosphate
farnesyltransferase, also known as squalene synthase, as
found in eukaryotes. This family is related to phytoene
synthases. Tentatively identified archaeal homologs
(excluded from this model) lack the C-terminal predicted
transmembrane region universally conserved among members
of this family.
Length = 337
Score = 28.2 bits (63), Expect = 4.5
Identities = 22/69 (31%), Positives = 29/69 (42%), Gaps = 10/69 (14%)
Query: 102 TSRPFYKRMDRELSGILRAADILFTLAWRGSDMI----KRKYLKKIPLQGNFYPMPSAAF 157
TSR F + +EL LR A +F L R D + KKIPL +F+
Sbjct: 13 TSRSFAAVI-QELPPELRNAVCIFYLVLRALDTVEDDMTISVDKKIPLLRDFH-----EK 66
Query: 158 IEDTGRRLS 166
I D R +
Sbjct: 67 IYDPDWRFT 75
>gnl|CDD|106361 PRK13403, PRK13403, ketol-acid reductoisomerase; Provisional.
Length = 335
Score = 27.8 bits (61), Expect = 5.4
Identities = 15/48 (31%), Positives = 24/48 (50%)
Query: 140 LKKIPLQGNFYPMPSAAFIEDTGRRLSLLSAQSLGVACLKPGQIEVTM 187
++++ +GN P A + TG L + A + GV C + G IE T
Sbjct: 135 VRRVFQEGNGVPALVAVHQDATGTALHVALAYAKGVGCTRAGVIETTF 182
>gnl|CDD|233528 TIGR01684, viral_ppase, viral phosphatase. This model represents a
family of viral proteins of unknown function. These
proteins are members, however, of the IIIC (TIGR01681)
subfamily of the haloacid dehalogenase (HAD) superfamily
of aspartate nucleophile hydrolases. All characterized
members of the III subfamilies (IIIA, TIGR01662; IIIB,
pfam03767) are phosphatases, including MDP-1, a member
of subfamily IIIC (TIGR01681). No member of this
subfamily is characterized with respect to particular
function. All of the active site residues characteristic
of HAD-superfamily phosphatases are present in subfamily
IIIC. These proteins also include an N-terminal domain
(ca. 125 aas) that is unique to this clade.
Length = 301
Score = 27.4 bits (61), Expect = 6.1
Identities = 17/86 (19%), Positives = 35/86 (40%), Gaps = 11/86 (12%)
Query: 59 SFGTLADYFDTLKKAKDERSFP------SLSGDFFTYADKDDNYWSGYYTSRPFYKRMDR 112
S+G ++++K K +R F + ++ T +D + +T PFY ++
Sbjct: 169 SYGDRDHVVESMRKVKLDRYFDIIISGGHKAEEYST-MSTEDRQYRYVFTKTPFY--LNT 225
Query: 113 ELSGILRAAD--ILFTLAWRGSDMIK 136
L + +L+ L G + K
Sbjct: 226 TDGKRLPKSPRVVLWYLYDLGVNYFK 251
>gnl|CDD|220730 pfam10395, Utp8, Utp8 family. Utp8 is an essential component of
the nuclear tRNA export machinery in Saccharomyces
cerevisiae. It is a tRNA binding protein that acts at a
step between tRNA maturation /aminoacylation, and
translocation of the tRNA across the nuclear pore
complex.
Length = 669
Score = 27.7 bits (62), Expect = 7.1
Identities = 22/100 (22%), Positives = 37/100 (37%), Gaps = 12/100 (12%)
Query: 48 LNSQPSYNVHASFGTLADYFDTLKKAKDERSFPSLSGDFFTYA--DKDDNYWSGYYTSRP 105
L + SY + + + D++D LK+ K ++ F Y K Y +
Sbjct: 389 LFDEDSYILSSELPEV-DFYDILKELKSQKDIEKFDSILFKYLKNKKSWLEIKKVYAFKE 447
Query: 106 FYKRMDRE-----LSGILRAADILFTLAWRGSDMIKRKYL 140
F DR L +L D++F + + I K L
Sbjct: 448 FETENDRFIDPEFLDQVL---DLIFG-NFADPEFIPEKTL 483
>gnl|CDD|223096 COG0017, AsnS, Aspartyl/asparaginyl-tRNA synthetases [Translation,
ribosomal structure and biogenesis].
Length = 435
Score = 27.2 bits (61), Expect = 8.1
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 103 SRPFYKRMDRELSGILRAADILF 125
+PFY R D + G + + D+L
Sbjct: 331 IKPFYMRPDPDNPGTVASFDLLA 353
>gnl|CDD|226618 COG4134, COG4134, ABC-type uncharacterized transport system,
periplasmic component [General function prediction
only].
Length = 384
Score = 27.1 bits (60), Expect = 8.9
Identities = 13/91 (14%), Positives = 26/91 (28%), Gaps = 8/91 (8%)
Query: 62 TLADYFDTLKKAKDERSFPSLSGDFFTYADKDDNYWSGYYTSRPFYKRMDRELSGILRAA 121
L L++A D +F + + Y D+ Y M + L+
Sbjct: 203 MLTGDAAALQQAVDPATFAKVWAPLWQYLDELHPYIWRTGKG---PADMLQLLN----DG 255
Query: 122 DILFTLAWRGSDMIKRKYLKKIPLQGNFYPM 152
+ TL + +P + +
Sbjct: 256 TLYLTLTFPDHASSAIA-TGDLPASARSFAL 285
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
0.321 0.138 0.419
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,783,832
Number of extensions: 1218874
Number of successful extensions: 956
Number of sequences better than 10.0: 1
Number of HSP's gapped: 947
Number of HSP's successfully gapped: 35
Length of query: 244
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 150
Effective length of database: 6,768,326
Effective search space: 1015248900
Effective search space used: 1015248900
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 (21.9 bits)
S2: 58 (26.0 bits)