RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13951
(130 letters)
>gnl|CDD|215741 pfam00135, COesterase, Carboxylesterase family.
Length = 510
Score = 153 bits (388), Expect = 2e-45
Identities = 56/116 (48%), Positives = 76/116 (65%), Gaps = 5/116 (4%)
Query: 10 SPDSSRTYRRHSVLVIIHGESYSFGSG--NIYDGFVLASYANMVVVTFNFRLGILGFLRP 67
+P + ++ V+V IHG + GS + YDG LA+ ++VVVT N+RLG LGFL
Sbjct: 90 TPKLASESKKLPVMVWIHGGGFQSGSASLDDYDGPDLAASEDVVVVTINYRLGALGFL-- 147
Query: 68 GVGSSTV-TNFGIMDQVAALQWIKDNIEHFGGDPTSVTLMGHGTGAASINFLMLSP 122
G S + N G++DQV AL+W+KDNI FGGDP +VTL G GAAS++ L+LSP
Sbjct: 148 STGDSELPGNAGLLDQVLALRWVKDNIAAFGGDPDNVTLFGESAGAASVSLLLLSP 203
>gnl|CDD|238191 cd00312, Esterase_lipase, Esterases and lipases (includes fungal
lipases, cholinesterases, etc.) These enzymes act on
carboxylic esters (EC: 3.1.1.-). The catalytic apparatus
involves three residues (catalytic triad): a serine, a
glutamate or aspartate and a histidine.These catalytic
residues are responsible for the nucleophilic attack on
the carbonyl carbon atom of the ester bond. In contrast
with other alpha/beta hydrolase fold family members,
p-nitrobenzyl esterase and acetylcholine esterase have a
Glu instead of Asp at the active site carboxylate.
Length = 493
Score = 126 bits (319), Expect = 2e-35
Identities = 54/119 (45%), Positives = 74/119 (62%), Gaps = 7/119 (5%)
Query: 6 PEALSPDSSRTYRRHSVLVIIHGESYSFGSGNIYDGFVLASYA-NMVVVTFNFRLGILGF 64
P+ P +S V+V IHG + FGSG++Y G LA N++VV+ N+RLG+LGF
Sbjct: 86 PKNTKPGNSLP-----VMVWIHGGGFMFGSGSLYPGDGLAREGDNVIVVSINYRLGVLGF 140
Query: 65 LRPGVGSSTVTNFGIMDQVAALQWIKDNIEHFGGDPTSVTLMGHGTGAASINFLMLSPL 123
L G N+G+ DQ AL+W++DNI FGGDP SVT+ G G AS++ L+LSP
Sbjct: 141 LSTG-DIELPGNYGLKDQRLALKWVQDNIAAFGGDPDSVTIFGESAGGASVSLLLLSPD 198
>gnl|CDD|225181 COG2272, PnbA, Carboxylesterase type B [Lipid metabolism].
Length = 491
Score = 124 bits (313), Expect = 1e-34
Identities = 52/106 (49%), Positives = 72/106 (67%), Gaps = 5/106 (4%)
Query: 22 VLVIIHGESYSFGSGN--IYDGFVLASYANMVVVTFNFRLGILGFLR-PGVGS--STVTN 76
V+V IHG Y GSG+ +YDG LA+ ++VVV+ N+RLG LGFL + + + +N
Sbjct: 96 VMVYIHGGGYIMGSGSEPLYDGSALAARGDVVVVSVNYRLGALGFLDLSSLDTEDAFASN 155
Query: 77 FGIMDQVAALQWIKDNIEHFGGDPTSVTLMGHGTGAASINFLMLSP 122
G++DQ+ AL+W++DNIE FGGDP +VTL G GAASI L+ P
Sbjct: 156 LGLLDQILALKWVRDNIEAFGGDPQNVTLFGESAGAASILTLLAVP 201
>gnl|CDD|223730 COG0657, Aes, Esterase/lipase [Lipid metabolism].
Length = 312
Score = 53.4 bits (128), Expect = 2e-09
Identities = 28/106 (26%), Positives = 44/106 (41%), Gaps = 13/106 (12%)
Query: 9 LSPDSSRTYRRHSVLVIIHGESYSFGSGNIYDGFV--LASYANMVVVTFNFRLGILGFLR 66
PD V++ +HG + GS +D V LA+ A VVV+ ++RL
Sbjct: 69 YRPDRKAAATAP-VVLYLHGGGWVLGSLRTHDALVARLAAAAGAVVVSVDYRLA------ 121
Query: 67 PGVGSSTVTNFGIMDQVAALQWIKDNIEHFGGDPTSVTLMGHGTGA 112
P + D AA +W++ N G DP+ + + G G
Sbjct: 122 PEHPFPAA----LEDAYAAYRWLRANAAELGIDPSRIAVAGDSAGG 163
>gnl|CDD|219611 pfam07859, Abhydrolase_3, alpha/beta hydrolase fold. This
catalytic domain is found in a very wide range of
enzymes.
Length = 207
Score = 44.1 bits (105), Expect = 3e-06
Identities = 28/94 (29%), Positives = 42/94 (44%), Gaps = 16/94 (17%)
Query: 23 LVIIHGESYSFGSGNIYDGFV--LASYANMVVVTFNFRLGILGFLRPGVGSSTVTNF--G 78
LV HG + GS + +D LA+ A VVV+ ++RL P F
Sbjct: 1 LVYFHGGGFVLGSADTHDRLCRRLAAAAGAVVVSVDYRLA------PE------HPFPAA 48
Query: 79 IMDQVAALQWIKDNIEHFGGDPTSVTLMGHGTGA 112
I D AAL+W+ ++ G DP+ + + G G
Sbjct: 49 IEDAYAALRWLAEHAWELGADPSRIAVAGDSAGG 82
>gnl|CDD|221720 pfam12697, Abhydrolase_6, Alpha/beta hydrolase family. This family
contains alpha/beta hydrolase enzymes of diverse
specificity.
Length = 187
Score = 32.0 bits (73), Expect = 0.055
Identities = 19/93 (20%), Positives = 31/93 (33%), Gaps = 18/93 (19%)
Query: 23 LVIIHGESYSFGSGNIYDGFV--LASYANMVVVTFNFRLGILGFLRPGVGSSTVTNFGIM 80
+V++HG + GS + LA+ ++ PG G S
Sbjct: 1 VVLLHG---AGGSAESWRPLAEALAAGYRVLAPD-----------LPGHGDSDGPPRTPY 46
Query: 81 DQVAALQWIKDNIEHFGGDPTSVTLMGHGTGAA 113
+ ++ G P V L+GH G A
Sbjct: 47 SLEDDAADLAALLDALGLGP--VVLVGHSLGGA 77
>gnl|CDD|182323 PRK10236, PRK10236, hypothetical protein; Provisional.
Length = 237
Score = 29.2 bits (65), Expect = 0.52
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 87 QWIKDNIEHFGGDPTSVTLMGHG 109
Q I ++HFGGD + L GHG
Sbjct: 64 QLIAGELQHFGGDSIANKLRGHG 86
>gnl|CDD|215228 PLN02408, PLN02408, phospholipase A1.
Length = 365
Score = 28.6 bits (64), Expect = 0.92
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 89 IKDNIEHFGGDPTSVTLMGHGTGAA 113
I ++ +G +P S+T+ GH GAA
Sbjct: 188 IARLLQSYGDEPLSLTITGHSLGAA 212
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 27.5 bits (62), Expect = 1.7
Identities = 12/27 (44%), Positives = 14/27 (51%), Gaps = 10/27 (37%)
Query: 51 VVVTFNFRLGILGFLRPGVGSSTVTNF 77
VVVT G+ PGVG +TV N
Sbjct: 5 VVVT-----GV-----PGVGKTTVLNK 21
>gnl|CDD|132100 TIGR03056, bchO_mg_che_rel, putative magnesium chelatase accessory
protein. Members of this family belong to the
alpha/beta fold family hydrolases (pfam00561). Members
are found in bacterial genomes if and only if they
encoded for anoxygenic photosynthetic systems similar to
that of Rhodobacter capsulatus and other
alpha-Proteobacteria. Members often are encoded in the
same operon as subunits of the protoporphyrin IX
magnesium chelatase, and were once designated BchO. No
literature supports a role as an actual subunit of
magnesium chelatase, but an accessory role is possible,
as suggested by placement by its probable hydrolase
activity [Energy metabolism, Photosynthesis].
Length = 278
Score = 27.2 bits (60), Expect = 3.1
Identities = 10/26 (38%), Positives = 18/26 (69%)
Query: 103 VTLMGHGTGAASINFLMLSPLLSPSY 128
+ L+ HGTGA++ ++ L P L+ S+
Sbjct: 30 LLLLLHGTGASTHSWRDLMPPLARSF 55
>gnl|CDD|219070 pfam06516, NUP, Purine nucleoside permease (NUP). This family
consists of several purine nucleoside permease from both
bacteria and fungi.
Length = 315
Score = 26.8 bits (60), Expect = 3.2
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 102 SVTLMGHGTGAASINFLMLSPL--LSPSY 128
VT MG AAS+ L L P L+ +Y
Sbjct: 51 LVTGMGEINAAASVMALGLDPRFDLTKTY 79
>gnl|CDD|197249 cd09151, PLDc_Ymt_2, Putative catalytic domain, repeat 2, of
Yersinia pestis murine toxin-like proteins. Putative
catalytic domain, repeat 2, of Yersinia pestis murine
toxin (Ymt), a plasmid-encoded phospholipase D (PLD, EC
3.1.4.4), and similar proteins. Ymt is important in
order for Yersinia pestis to survive and spread. It is
toxic to mice and rats but not to other animals. It is
not a conventional secreted exotoxin, but a cytoplasmic
protein that is released upon bacterial lysis. Ymt may
be active as a dimer. The monomeric Ymt consists of two
catalytic domains, each of which contains one copy of
the conserved HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue). Two HKD motifs from
two domains form a single active site. Ymt has PLD-like
activity and has been classified into the PLD
superfamily. It hydrolyzes the terminal phosphodiester
bond in several phospholipids, with preference for
phosphatidylethanolamine (PE) over phosphatidylcholine
(PC) and phosphatidylserine (PS). Like other PLD
enzymes, Ymt may utilize a common two-step ping-pong
catalytic mechanism involving an enzyme-substrate
intermediate to cleave phosphodiester bonds. The two
histidine residues from the two HKD motifs play key
roles in the catalysis. Upon substrate binding, a
histidine residue from one HKD motif could function as
the nucleophile, attacking the phosphodiester bond to
create a covalent phosphohistidine intermediate, while
the other histidine residue from the second HKD motif
could serve as a general acid, stabilizing the leaving
group. In terms of sequence similarity, Ymt is closely
related to Streptomyces PLDs.
Length = 264
Score = 26.8 bits (59), Expect = 3.4
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 20 HSVLVIIHGESYSFGSGNIYDGFV 43
H+ L+II E Y GS N+Y G++
Sbjct: 209 HAKLMIIDDELYVVGSDNLYPGYL 232
>gnl|CDD|215406 PLN02761, PLN02761, lipase class 3 family protein.
Length = 527
Score = 26.2 bits (57), Expect = 5.9
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 71 SSTVTNFGIMDQVAALQWIKDNIEHFG----GDPTSVTLMGHGTGAA 113
S ++F +QV L +K +E++G G S+T+ GH GA+
Sbjct: 262 SCKFSSFSAREQV--LAEVKRLVEYYGTEEEGHEISITVTGHSLGAS 306
>gnl|CDD|117609 pfam09043, Lys-AminoMut_A, D-Lysine 5,6-aminomutase alpha subunit.
Members of his family are involved in the 1,2
rearrangement of the terminal amino group of DL-lysine
and of L-beta-lysine, using adenosylcobalamin (AdoCbl)
and pyridoxal-5'-phosphate as cofactors. The structure
is predominantly a PLP-binding TIM barrel domain, with
several additional alpha-helices and beta-strands at the
N and C termini. These helices and strands form an
intertwined accessory clamp structure that wraps around
the sides of the TIM barrel and extends up toward the
Ado ligand of the Cbl cofactor, providing most of the
interactions observed between the protein and the Ado
ligand of the Cbl, suggesting that its role is mainly in
stabilising AdoCbl in the precatalytic resting state.
Length = 509
Score = 26.2 bits (58), Expect = 6.1
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 8/70 (11%)
Query: 33 FGSGNIYDGFVLASYANMVVVTFNFRLGILGFLRPGVGSSTVTNFGIMDQVAALQ---WI 89
F +GNI+ G V + NMV + + +LG L + T F + D+ A++ +I
Sbjct: 373 FMTGNIFKGHVQDALFNMVTIMTGQGIHLLGMLTEAIH----TPF-MSDRALAIENAKYI 427
Query: 90 KDNIEHFGGD 99
+N++ G +
Sbjct: 428 FNNMKDIGEE 437
>gnl|CDD|173793 cd04847, Peptidases_S8_Subtilisin_like_2, Peptidase S8 family
domain in Subtilisin-like proteins. This family is a
member of the Peptidases S8 or Subtilases serine endo-
and exo-peptidase clan. They have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. The
stability of subtilases may be enhanced by calcium, some
members have been shown to bind up to 4 ions via binding
sites with different affinity. Some members of this clan
contain disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 291
Score = 26.1 bits (58), Expect = 6.2
Identities = 12/59 (20%), Positives = 19/59 (32%), Gaps = 6/59 (10%)
Query: 78 GIMDQVAALQWIKDNIEHFGGDPT-SVTLMGHGTGAASI-----NFLMLSPLLSPSYDI 130
GI L + +P + +GHGT A + L + L P +
Sbjct: 9 GINRGHPLLAPALAEDDLDSDEPGWTADDLGHGTAVAGLALYGDLTLPGNGLPRPGCRL 67
>gnl|CDD|233954 TIGR02622, CDP_4_6_dhtase, CDP-glucose 4,6-dehydratase. Members of
this protein family are CDP-glucose 4,6-dehydratase from
a variety of Gram-negative and Gram-positive bacteria.
Members typically are encoded next to a gene that
encodes a glucose-1-phosphate cytidylyltransferase,
which produces the substrate, CDP-D-glucose, used by
this enzyme to produce CDP-4-keto-6-deoxyglucose [Cell
envelope, Biosynthesis and degradation of surface
polysaccharides and lipopolysaccharides].
Length = 349
Score = 25.7 bits (57), Expect = 8.6
Identities = 10/49 (20%), Positives = 15/49 (30%), Gaps = 2/49 (4%)
Query: 76 NFG--IMDQVAALQWIKDNIEHFGGDPTSVTLMGHGTGAASINFLMLSP 122
NFG D ++ + D +E + GD L L
Sbjct: 254 NFGPRASDNARVVELVVDALEFWWGDDAEWEDDSDLNHPHEARLLKLDS 302
>gnl|CDD|235124 PRK03427, PRK03427, cell division protein ZipA; Provisional.
Length = 333
Score = 25.8 bits (57), Expect = 8.7
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 26/76 (34%)
Query: 2 QPNLPEALSPDSSRTYRRHSVLVI---------IHGES---------YSFGSGNIY---- 39
QP +P + R+ +V+V+ ++GE + FG NI+
Sbjct: 178 QPEPVAEPAPVMDKPKRKEAVIVMNVAAHHGSELNGEVLLNSIQQAGFQFGDMNIFHRHL 237
Query: 40 ----DGFVLASYANMV 51
G VL S ANMV
Sbjct: 238 SPDGSGPVLFSLANMV 253
>gnl|CDD|197208 cd09109, PLDc_PMFPLD_like_2, Catalytic domain, repeat 2, of
phospholipase D from Streptomyces Sp. Strain PMF and
similar proteins. Catalytic domain, repeat 2, of
phospholipases D (PLD, EC 3.1.4.4) from Streptomyces Sp.
Strain PMF (PMFPLD) and similar proteins, which are
generally extracellular and bear N-terminal signal
sequences. PMFPLD hydrolyzes the terminal phosphodiester
bond of phospholipids with the formation of phosphatidic
acid and alcohols. Phosphatidic acid is an essential
compound involved in signal transduction. It also
catalyzes a transphosphatidylation of phospholipids to
acceptor alcohols, by which various phospholipids can be
synthesized. In contrast to eukaryotic PLDs, PMFPLD has
a compact structure, which consists of two catalytic
domains, but lacks the regulatory domains. Each
catalytic domain contains one copy of the HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue) that characterizes the PLD superfamily. Two HKD
motifs from two domains form a single active site. Like
other PLD enzymes, PMFPLD may utilize a common two-step
ping-pong catalytic mechanism involving an
enzyme-substrate intermediate to cleave phosphodiester
bonds. The two histidine residues from the two HKD
motifs play key roles in the catalysis. Upon substrate
binding, a histidine residue from one HKD motif could
function as the nucleophile, attacking the
phosphodiester bond to create a covalent
phosphohistidine intermediate, while the other histidine
residue from the second HKD motif could serve as a
general acid, stabilizing the leaving group. A
calcium-dependent PLD from Streptomyce chromofuscus is
excluded from this family, since it displays very little
sequence homology with other Streptomyces PLDs.
Moreover, it does not contain the conserved HKD motif
and hydrolyzes the phospholipids via a different
mechanism.
Length = 212
Score = 25.3 bits (55), Expect = 9.4
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 17 YRRHSVLVIIHGESYSFGSGNIYDGF 42
Y H+ LVI+ G+ + GS N+Y +
Sbjct: 158 YALHAKLVIVDGKLFYIGSDNLYPSW 183
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
0.322 0.139 0.417
Gapped
Lambda K H
0.267 0.0673 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,955,538
Number of extensions: 632719
Number of successful extensions: 574
Number of sequences better than 10.0: 1
Number of HSP's gapped: 567
Number of HSP's successfully gapped: 27
Length of query: 130
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 44
Effective length of database: 7,123,158
Effective search space: 313418952
Effective search space used: 313418952
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 (24.3 bits)