RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9704
(116 letters)
>gnl|CDD|216992 pfam02358, Trehalose_PPase, Trehalose-phosphatase. This family
consist of trehalose-phosphatases EC:3.1.3.12 these
enzyme catalyze the de-phosphorylation of
trehalose-6-phosphate to trehalose and orthophosphate.
The aligned region is present in trehalose-phosphatases
and comprises the entire length of the protein it is
also found in the C-terminus of trehalose-6-phosphate
synthase EC:2.4.1.15 adjacent to the
trehalose-6-phosphate synthase domain - pfam00982. It
would appear that the two equivalent genes in the E.
coli otsBA operon otsA the trehalose-6-phosphate
synthase and otsB trehalose-phosphatase (this family)
have undergone gene fusion in most eukaryotes. Trehalose
is a common disaccharide of bacteria, fungi and
invertebrates that appears to play a major role in
desiccation tolerance.
Length = 235
Score = 40.0 bits (94), Expect = 5e-05
Identities = 20/84 (23%), Positives = 26/84 (30%), Gaps = 20/84 (23%)
Query: 6 LISGRNVHNVMEMVGIEGLTYAGNHGLEIIHPDG-SRFVHPIPTECASIYILRTAFGLDW 64
+ISGR+ G+ L A HG I P G + LDW
Sbjct: 41 IISGRSRAFEDLFFGVPNLGLAAEHGAFIRDPGGEDWTNLAEVED------------LDW 88
Query: 65 TERVKIIYAGDDVTDEDAMEALKG 88
+ V I E+ E G
Sbjct: 89 KKEVAAIL-------EEYTERTPG 105
Score = 32.3 bits (74), Expect = 0.028
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 5/49 (10%)
Query: 70 IIYAGDDVTDEDAMEALK-----GMAATFRVTQSQIVKTAAERRLPSKP 113
+ GDD TDED + + G++ T ++A+ L
Sbjct: 187 PLCIGDDRTDEDMFDVVNPTKMSGLSIEVGATSVGSKPSSAKYFLDDPS 235
>gnl|CDD|184712 PRK14501, PRK14501, putative bifunctional trehalose-6-phosphate
synthase/HAD hydrolase subfamily IIB; Provisional.
Length = 726
Score = 40.3 bits (95), Expect = 7e-05
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 70 IIYAGDDVTDEDAMEALKGMAATFRVTQSQIVKTAAERRLPS 111
++ GDD TDED AL A T +V ++ A RLPS
Sbjct: 674 VLAIGDDTTDEDMFRALPETAITVKVG---PGESRARYRLPS 712
>gnl|CDD|233092 TIGR00685, T6PP, trehalose-phosphatase. Trehalose, a neutral
disaccharide of two glucose residues, is an important
osmolyte for dessication and/or salt tolerance in a
number of prokaryotic and eukaryotic species, including
E. coli, Saccharomyces cerevisiae, and Arabidopsis
thaliana. Many bacteria also utilize trehalose in the
synthesis of trehalolipids, specialized cell wall
constituents believed to be involved in the uptake of
hydrophobic substances. Trehalose dimycolate (TDM, cord
factor) and related substances are important
constituents of the mycobacterial waxy coat and
responsible for various clinically important
immunological interactions with host organism. This
enzyme, trehalose-phosphatase, removes a phosphate
group in the final step of trehalose biosynthesis. The
trehalose-phosphatase from Saccharomyces cerevisiae is
fused to the synthase. At least 18 distinct sequences
from Arabidopsis have been identified, roughly half of
these are of the fungal type, with a fused synthase and
half are like the bacterial members having only the
phosphatase domain. It has been suggested that
trehalose is being used in Arabidopsis as a regulatory
molecule in development and possibly other processes
[Cellular processes, Adaptations to atypical
conditions].
Length = 244
Score = 39.4 bits (92), Expect = 1e-04
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 5 LLISGRNVHNVMEMVGIEGLTYAGNHGLEIIHPDGS 40
+ISGR V + GL AG HG E+ +GS
Sbjct: 46 WIISGRKFLEKWLGVKLPGLGLAGEHGCEMK-DNGS 80
Score = 25.9 bits (57), Expect = 4.6
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 71 IYAGDDVTDEDAMEALK 87
+Y GDD+TDEDA +
Sbjct: 187 VYLGDDITDEDAFRVVN 203
>gnl|CDD|215317 PLN02580, PLN02580, trehalose-phosphatase.
Length = 384
Score = 39.4 bits (92), Expect = 1e-04
Identities = 16/32 (50%), Positives = 24/32 (75%)
Query: 6 LISGRNVHNVMEMVGIEGLTYAGNHGLEIIHP 37
+ISGR+ V E+VG+ L YAG+HG++I+ P
Sbjct: 161 IISGRSRDKVYELVGLTELYYAGSHGMDIMGP 192
Score = 32.5 bits (74), Expect = 0.035
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 56 LRTAFGLDWTERVKIIYAGDDVTDEDAMEALK 87
L + GL + V IY GDD TDEDA + L+
Sbjct: 309 LLESLGLSNCDDVLPIYIGDDRTDEDAFKVLR 340
>gnl|CDD|224789 COG1877, OtsB, Trehalose-6-phosphatase [Carbohydrate transport
and metabolism].
Length = 266
Score = 35.8 bits (83), Expect = 0.002
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 6 LISGRNVHNVMEMVGIEGLTYAGNHGLEIIHPDGS 40
+ISGR++ + + G+ G+ HG E+ P+G
Sbjct: 62 IISGRSLAELERLFGVPGIGLIAEHGAEVRDPNGK 96
Score = 33.5 bits (77), Expect = 0.011
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 70 IIYAGDDVTDEDAMEALKG 88
I+AGDD+TDEDA A+
Sbjct: 201 PIFAGDDLTDEDAFAAVNK 219
>gnl|CDD|178591 PLN03017, PLN03017, trehalose-phosphatase.
Length = 366
Score = 34.2 bits (78), Expect = 0.007
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 56 LRTAFGLDWTERVKIIYAGDDVTDEDAMEALKGMAATFRVTQSQIVK-TAAERRLPSKP 113
L + G T V +Y GDD TDEDA + L+ F + S+ K T A L
Sbjct: 291 LLESLGFGNTNNVFPVYIGDDRTDEDAFKMLRDRGEGFGILVSKFPKDTDASYSLQDPS 349
Score = 30.0 bits (67), Expect = 0.24
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 6 LISGRNVHNVMEMVGIEGLTYAGNHGLEIIHP 37
+++GR + V V + L YAG+HG++I P
Sbjct: 153 IVTGRCIDKVYNFVKLAELYYAGSHGMDIKGP 184
>gnl|CDD|177812 PLN02151, PLN02151, trehalose-phosphatase.
Length = 354
Score = 32.3 bits (73), Expect = 0.031
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 6 LISGRNVHNVMEMVGIEGLTYAGNHGLEIIHPD-GSRF 42
++SGR V V + L YAG+HG++I P+ GS++
Sbjct: 140 IVSGRCREKVSSFVKLTELYYAGSHGMDIKGPEQGSKY 177
Score = 28.9 bits (64), Expect = 0.65
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 71 IYAGDDVTDEDAMEALK 87
IY GDD TDEDA + L+
Sbjct: 292 IYIGDDRTDEDAFKILR 308
>gnl|CDD|233434 TIGR01484, HAD-SF-IIB, HAD-superfamily hydrolase, subfamily IIB.
This subfamily falls within the Haloacid Dehalogenase
(HAD) superfamily of aspartate-nucleophile hydrolases.
The Class II subfamilies are characterized by a domain
that is located between the second and third conserved
catalytic motifs of the superfamily domain. The IIB
subfamily is distinguished from the IIA subfamily
(TIGR01460) by homology and the predicted secondary
structure of this domain by PSI-PRED. The IIB
subfamily's Class II domain has the following predicted
structure: Helix-Sheet-Sheet-(Helix or
Sheet)-Helix-Sheet-(variable)-Helix-Sheet-Sheet. The IIB
subfamily consists of Trehalose-6-phosphatase
(TIGR00685), plant and cyanobacterial
Sucrose-phosphatase and a closely related group of
bacterial and archaeal sequences, eukaryotic
phosphomannomutase (pfam03332), a large subfamily
("Cof-like hydrolases", TIGR00099) containing many
closely related bacterial sequences, a hypothetical
equivalog containing the E. coli YedP protein, as well
as two small clusters containing OMNI|TC0379 and
OMNI|SA2196 whose relationship to the other groups is
unclear [Unknown function, Enzymes of unknown
specificity].
Length = 204
Score = 28.1 bits (63), Expect = 0.88
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 51 ASIYILRTAFGLDWTERVKIIYAGDDVTDEDAMEAL 86
A +L+ G +R +I+ GD DE+ E
Sbjct: 167 ALQALLKELNG----KRDEILAFGDSGNDEEMFEVA 198
>gnl|CDD|216627 pfam01650, Peptidase_C13, Peptidase C13 family. Members of this
family are asparaginyl peptidases. The blood fluke
parasite Schistosoma mansoni has at least five Clan CA
cysteine peptidases in its digestive tract including
cathepsins B (2 isoforms), C, F and L. All have been
recombinantly expressed as active enzymes, albeit in
various stages of activation. In addition, a Clan CD
peptidase, termed asparaginyl endopeptidase or
'legumain' has been identified. This has formerly been
characterized as a 'haemoglobinase', but this term is
probably incorrect. Two cDNAs have been described for
Schistosoma mansoni legumain; one encodes an active
enzyme whereas the active site cysteine residue encoded
by the second cDNA is substituted by an asparagine
residue. Both forms have been recombinantly expressed.
Length = 258
Score = 26.9 bits (60), Expect = 2.5
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 10/70 (14%)
Query: 34 IIHPD-GSRFVHPIPTECASIYILRTAFGLDWTERVKIIYAGDDVTDEDAMEALKG---- 88
+++ D + +P P + I G D + V I Y G+DVT + + L G
Sbjct: 41 MMYDDIANNPENPFPGK-----IFNKPNGTDVYKGVPIDYTGNDVTPRNFLAVLLGDKSA 95
Query: 89 MAATFRVTQS 98
+ + +V +S
Sbjct: 96 LKGSGKVLKS 105
>gnl|CDD|236976 PRK11773, uvrD, DNA-dependent helicase II; Provisional.
Length = 721
Score = 27.1 bits (61), Expect = 2.5
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 6/31 (19%)
Query: 24 LTYAGN---HGLEIIH-PDGSRFVHPIPTEC 50
LTYA + +G E+ H P SRF+ IP EC
Sbjct: 612 LTYAESRRLYGKEVYHRP--SRFIREIPEEC 640
>gnl|CDD|240218 cd05792, S1_eIF1AD_like, S1_eIF1AD_like: eukaryotic translation
initiation factor 1A domain containing protein
(eIF1AD)-like, S1-like RNA-binding domain. eIF1AD is
also known as MGC11102 protein. Little is known about
the function of eIF1AD. S1-like RNA-binding domains are
found in a wide variety of RNA-associated proteins,
including translation initiation factor IF1A (also
referred to as eIF1A in eukaryotes). eIF1A is essential
for translation initiation. eIF1A acts synergistically
with eIF1 to mediate assembly of ribosomal initiation
complexes at the initiation codon and maintain the
accuracy of this process by recognizing and
destabilizing aberrant preinitiation complexes from the
mRNA. Without eIF1A and eIF1, 43S ribosomal
preinitiation complexes can bind to the cap-proximal
region, but are unable to reach the initiation codon.
eIF1a also enhances the formation of 5'-terminal
complexes in the presence of other translation
initiation factors.
Length = 78
Score = 25.9 bits (57), Expect = 2.8
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 28 GNHGLEIIHPDGSRFVHPIPTEC-ASIYILRTAFGLDWTERVKIIYAGDDVTDE 80
GN+ E+ P+GSR++ +PT+ +I+I R F L V+ I GD V E
Sbjct: 11 GNNLHEVETPNGSRYLVSMPTKFRKNIWIKRGDFVL-----VEPIEEGDKVKAE 59
>gnl|CDD|239770 cd04237, AAK_NAGS-ABP, AAK_NAGS-ABP: N-acetylglutamate (NAG)
kinase-like domain of the NAG Synthase (NAGS) of the
arginine-biosynthesis pathway (ABP) found in gamma- and
beta-proteobacteria and higher plant chloroplasts.
Domain architecture of these NAGS consisted of an
N-terminal NAG kinase-like (ArgB) domain (this CD) and a
C-terminal NAG synthase, acetyltransferase (ArgA)
domain. Both bacterial and plant sequences in this CD
have a conserved N-terminal extension; a similar
sequence in the NAG kinases of the cyclic
arginine-biosynthesis pathway has been implicated in
feedback inhibition sensing. Plant sequences also have
an N-terminal chloroplast transit peptide and an insert
(approx. 70 residues) in the C-terminal region of ArgB.
Members of this CD belong to the Amino Acid Kinase
Superfamily (AAK).
Length = 280
Score = 26.4 bits (59), Expect = 4.3
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 77 VTDEDAMEALKGMAATFRVT 96
+TD A+E +K A R+
Sbjct: 81 ITDAAALECVKEAAGAVRLE 100
>gnl|CDD|198376 cd07810, FGGY_D-XK_2, D-xylulose kinases, subgroup 2; members of
the FGGY family of carbohydrate kinases. This subgroup
is predominantly composed of bacterial D-xylulose
kinases (XK, also known as xylulokinase; EC 2.7.1.17).
They share high sequence similarity with Escherichia
coli xylulokinase (EcXK), which catalyzes the
rate-limiting step in the ATP-dependent phosphorylation
of D-xylulose to produce D-xylulose 5-phosphate (X5P)
and ADP. EcXK exists as a dimer. Each monomer consists
of two large domains separated by an open cleft that
forms an active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
The presence of Mg2+ or Mn2+ might be required for
catalytic activity. Members of this subgroup belong to
the FGGY family of carbohydrate kinases.
Length = 490
Score = 26.2 bits (58), Expect = 5.4
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 11 NVHNVMEMV--GIEGLTYAGNHGLEIIHPDG 39
N H +V EG+ +A +GLEI+ G
Sbjct: 369 NRHGKAHLVRAAQEGIVFAFAYGLEIMRNMG 399
>gnl|CDD|235713 PRK06139, PRK06139, short chain dehydrogenase; Provisional.
Length = 330
Score = 25.8 bits (57), Expect = 5.8
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 76 DVTDEDAMEALKGMAATF 93
DVTD D ++AL AA+F
Sbjct: 64 DVTDADQVKALATQAASF 81
>gnl|CDD|201775 pfam01402, RHH_1, Ribbon-helix-helix protein, copG family. The
structure of this protein repressor, which is the
shortest reported to date and the first isolated from a
plasmid, has a homodimeric ribbon-helix-helix
arrangement. The helix-turn-helix-like structure is
involved in dimerisation and not DNA binding as might
have been expected.
Length = 39
Score = 23.9 bits (53), Expect = 6.1
Identities = 8/31 (25%), Positives = 18/31 (58%)
Query: 79 DEDAMEALKGMAATFRVTQSQIVKTAAERRL 109
DE+ +E L +A +++S++++ A L
Sbjct: 7 DEELLERLDELAKKRGLSRSELIREALREYL 37
>gnl|CDD|132723 cd02736, RNAP_III_Rpc1_C, Largest subunit (Rpc1) of Eukaryotic RNA
polymerase III (RNAP III), C-terminal domain.
Eukaryotic RNA polymerase III (RNAP III) is a large
multi-subunit complex responsible for the synthesis of
tRNAs, 5SrRNA, Alu-RNA, U6 snRNA, among others. Rpc1 is
also known as C160 in yeast. Structure studies suggest
that different RNA polymerase complexes share a similar
crab-claw-shape structure. The C-terminal domain of
Rpb1, the largest subunit of RNAP II, makes up part of
the foot and jaw structures of RNAP II. The similarity
between this domain and the C-terminal domain of Rpb1,
its counterpart in RNAP II, suggests a similar
functional and structural role.
Length = 300
Score = 25.6 bits (57), Expect = 6.4
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 2 CTSLLISGRNVHNVMEMVGIEGLTYAGNHGLEI 34
LL+ G + VM G+ G NH +E+
Sbjct: 162 KYKLLVEGYGLRAVMNTPGVIGTRTTSNHIMEV 194
>gnl|CDD|213268 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to
the transporter as ATP is hydrolyzed.
Length = 213
Score = 25.7 bits (57), Expect = 6.6
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 2/56 (3%)
Query: 29 NHGLEIIHPDGSRFVHPIPTECASIYILRTAFGLDWTERVKIIYAGDDVTDEDAME 84
+ L+I DG V P+ C LR GL+ +I G DVTD +
Sbjct: 18 DLNLDI--ADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYIGGRDVTDLPPKD 71
>gnl|CDD|213263 cd03296, ABC_CysA_sulfate_importer, ATP-binding cassette domain
of the sulfate transporter. Part of the ABC
transporter complex cysAWTP involved in sulfate import.
Responsible for energy coupling to the transport
system. The complex is composed of two ATP-binding
proteins (cysA), two transmembrane proteins (cysT and
cysW), and a solute-binding protein (cysP). ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 239
Score = 25.8 bits (57), Expect = 6.7
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 47 PTECASIYILRTAFGLDWTERVKIIYAGDDVTDEDAME 84
P+ +LR GL+ + I++ G+D TD E
Sbjct: 36 PSGSGKTTLLRLIAGLERPDSGTILFGGEDATDVPVQE 73
>gnl|CDD|222898 PHA02594, nadV, nicotinamide phosphoribosyl transferase;
Provisional.
Length = 470
Score = 25.8 bits (57), Expect = 6.9
Identities = 20/66 (30%), Positives = 26/66 (39%), Gaps = 16/66 (24%)
Query: 34 IIHPDGSRFVHPIPTECASIYILRTAFG----------LDWTERVKIIYAGDDVTDEDAM 83
+I PD V I C ++ L FG LD E V++I GD +T E
Sbjct: 296 VIRPDSGDPVDII---CGALETLGEIFGGTVNSKGYKVLD--EHVRLIQ-GDGITLERIN 349
Query: 84 EALKGM 89
L M
Sbjct: 350 RILTRM 355
>gnl|CDD|181196 PRK08010, PRK08010, pyridine nucleotide-disulfide oxidoreductase;
Provisional.
Length = 441
Score = 25.7 bits (56), Expect = 7.6
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 10 RNVHNVMEMVGIEGL----TYAGNHGLEIIHPDGSRFVH 44
+N HN+ +M I+ + + NH L + P+G+ +H
Sbjct: 81 KNFHNLADMPNIDVIDGQAEFINNHSLRVHRPEGNLEIH 119
>gnl|CDD|223138 COG0060, IleS, Isoleucyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 933
Score = 25.6 bits (57), Expect = 8.0
Identities = 20/74 (27%), Positives = 27/74 (36%), Gaps = 24/74 (32%)
Query: 12 VHNVMEMVGIEGL----TYAGNHGLEIIHPDGSRFVHPIPTECASIYILRTAFGLDWTER 67
V +V + G+E T+ G+ LE G R+ HP F D
Sbjct: 271 VESVAKKAGVEDYEVLETFKGSE-LE-----GLRYEHPFYD-----------FVYDRAFP 313
Query: 68 VKIIYAGDDVTDED 81
V GD VT +D
Sbjct: 314 V---ILGDHVTLDD 324
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 25.1 bits (55), Expect = 9.5
Identities = 10/20 (50%), Positives = 14/20 (70%)
Query: 8 SGRNVHNVMEMVGIEGLTYA 27
SG V +V ++VG EG+ YA
Sbjct: 143 SGTTVSHVSDLVGPEGVVYA 162
>gnl|CDD|226195 COG3669, COG3669, Alpha-L-fucosidase [Carbohydrate transport and
metabolism].
Length = 430
Score = 25.2 bits (55), Expect = 9.9
Identities = 10/40 (25%), Positives = 14/40 (35%)
Query: 74 GDDVTDEDAMEALKGMAATFRVTQSQIVKTAAERRLPSKP 113
GD + + E L MA V I+ R + P
Sbjct: 293 GDGLIPDLDKERLLDMAGWLNVNYGAILGLGPWRVGCAGP 332
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 0.136 0.416
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,960,119
Number of extensions: 516750
Number of successful extensions: 645
Number of sequences better than 10.0: 1
Number of HSP's gapped: 645
Number of HSP's successfully gapped: 40
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
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: 53 (24.1 bits)