RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12957
(274 letters)
>gnl|CDD|215741 pfam00135, COesterase, Carboxylesterase family.
Length = 510
Score = 277 bits (710), Expect = 1e-90
Identities = 106/253 (41%), Positives = 140/253 (55%), Gaps = 42/253 (16%)
Query: 1 MVFVHGGGFLMGQATSNMY-GPEYFMDHNVVLVTIQYRLGVLAENSPDSIGIITRGFLSF 59
MV++HGGGF G A+ + Y GP+ +VV+VTI YRLG L GFLS
Sbjct: 103 MVWIHGGGFQSGSASLDDYDGPDLAASEDVVVVTINYRLGAL-------------GFLST 149
Query: 60 GNAEVPGNLGMKDQVLALQWIQENIEEFGGNPDSVTIFGESAGAASVSYHLVSPLSKGKF 119
G++E+PGN G+ DQVLAL+W+++NI FGG+PD+VT+FGESAGAASVS L+SP S+G
Sbjct: 150 GDSELPGNAGLLDQVLALRWVKDNIAAFGGDPDNVTLFGESAGAASVSLLLLSPASRG-- 207
Query: 120 ESRGGNNHFNFRLFHRAILQSGTASCSWASTPAWLARDRAHAFATLVGCP-TQPIETVLD 178
LFHRAIL SG+A WA T R RA A L+GCP +L+
Sbjct: 208 ------------LFHRAILMSGSALSPWAITSN--PRQRAKRLAKLLGCPGEDSSAELLE 253
Query: 179 CLRQLPTETFVTTLNKFHIWFKNPMITFAPVIESPLSQNNFLPDHPLRL----PHADVPI 234
CLR+ E + + + F PV++ FLP P L VP+
Sbjct: 254 CLRKKSAEELLDAQL--LLLEEVGFFPFGPVVDGD-----FLPKDPEELLKSGWFNKVPL 306
Query: 235 IIGVNNKEGELSV 247
+IGV + EG L +
Sbjct: 307 LIGVTSDEGLLFL 319
>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 = 246 bits (630), Expect = 6e-79
Identities = 109/249 (43%), Positives = 139/249 (55%), Gaps = 42/249 (16%)
Query: 1 MVFVHGGGFLMGQATSNMYGPEYFMD--HNVVLVTIQYRLGVLAENSPDSIGIITRGFLS 58
MV++HGGGF+ G + ++Y + NV++V+I YRLGVL GFLS
Sbjct: 98 MVWIHGGGFMFG--SGSLYPGDGLAREGDNVIVVSINYRLGVL-------------GFLS 142
Query: 59 FGNAEVPGNLGMKDQVLALQWIQENIEEFGGNPDSVTIFGESAGAASVSYHLVSPLSKGK 118
G+ E+PGN G+KDQ LAL+W+Q+NI FGG+PDSVTIFGESAG ASVS L+SP SKG
Sbjct: 143 TGDIELPGNYGLKDQRLALKWVQDNIAAFGGDPDSVTIFGESAGGASVSLLLLSPDSKG- 201
Query: 119 FESRGGNNHFNFRLFHRAILQSGTASCSWASTPAWLARDRAHAFATLVGCPTQPIETVLD 178
LFHRAI QSG+A WA AR RA A L+GC +LD
Sbjct: 202 -------------LFHRAISQSGSALSPWAI--QENARGRAKRLARLLGCNDTSSAELLD 246
Query: 179 CLRQLPTETFVTTLNKFHIWFKNPMITFAPVIESPLSQNNFLPDHPLRL----PHADVPI 234
CLR E + K ++ +P + F PV++ F+PD P L A VP+
Sbjct: 247 CLRSKSAEELLDATRKLLLFSYSPFLPFGPVVDGD-----FIPDDPEELIKEGKFAKVPL 301
Query: 235 IIGVNNKEG 243
IIGV EG
Sbjct: 302 IIGVTKDEG 310
>gnl|CDD|225181 COG2272, PnbA, Carboxylesterase type B [Lipid metabolism].
Length = 491
Score = 179 bits (455), Expect = 5e-53
Identities = 94/270 (34%), Positives = 129/270 (47%), Gaps = 49/270 (18%)
Query: 1 MVFVHGGGFLMGQATSNMYGPEYFM-DHNVVLVTIQYRLGVLAENSPDSIGIITRGFL-- 57
MV++HGGG++MG + +Y +VV+V++ YRLG L GFL
Sbjct: 97 MVYIHGGGYIMGSGSEPLYDGSALAARGDVVVVSVNYRLGAL-------------GFLDL 143
Query: 58 -SFGNAE-VPGNLGMKDQVLALQWIQENIEEFGGNPDSVTIFGESAGAASVSYHLVSPLS 115
S + NLG+ DQ+LAL+W+++NIE FGG+P +VT+FGESAGAAS+ L P +
Sbjct: 144 SSLDTEDAFASNLGLLDQILALKWVRDNIEAFGGDPQNVTLFGESAGAASILTLLAVPSA 203
Query: 116 KGKFESRGGNNHFNFRLFHRAILQSGTASCSWASTPAWLARDRAHAFATLVGCPTQPIET 175
KG LFHRAI SG AS T AR++A AFA +G P E
Sbjct: 204 KG--------------LFHRAIALSGAASR---VTSREEAREKAAAFARALGIP----EA 242
Query: 176 VLDCLRQLPTETFVTTLNKFHIWFKNPMITFAPVIESPLSQNNFLPDHPLRLPHAD---- 231
LD LR L E V I + + PV ++ LP PL
Sbjct: 243 TLDKLRALSAEDLVKARLPL-IGRTFGAVPYGPV-----LGDSLLPRDPLEAIAQGRSHG 296
Query: 232 VPIIIGVNNKEGELSVVEAGPLESSVKKLR 261
VP++IG N+ EG L + ++
Sbjct: 297 VPLMIGTNHDEGSLFINFNPDSPPGLRDKV 326
>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 = 49.1 bits (118), Expect = 4e-07
Identities = 31/115 (26%), Positives = 52/115 (45%), Gaps = 34/115 (29%)
Query: 1 MVFVHGGGFLMGQATSNMYGPEYFMDH-----NVVLVTIQYRLGVLAENSPDSIGIITRG 55
+V+ HGGGF++G A + + V+V++ YRL +P
Sbjct: 1 LVYFHGGGFVLGSADT----HDRLCRRLAAAAGAVVVSVDYRL------AP--------- 41
Query: 56 FLSFGNAEVPGNLGMKDQVLALQWIQENIEEFGGNPDSVTIFGESAG---AASVS 107
E P ++D AL+W+ E+ E G +P + + G+SAG AA+V+
Sbjct: 42 -------EHPFPAAIEDAYAALRWLAEHAWELGADPSRIAVAGDSAGGNLAAAVA 89
>gnl|CDD|223730 COG0657, Aes, Esterase/lipase [Lipid metabolism].
Length = 312
Score = 48.4 bits (115), Expect = 1e-06
Identities = 24/104 (23%), Positives = 45/104 (43%), Gaps = 23/104 (22%)
Query: 1 MVFVHGGGFLMGQATSNMY-GPEYFMDHNVVLVTIQYRLGVLAENSPDSIGIITRGFLSF 59
++++HGGG+++G ++ V+V++ YRL +P+
Sbjct: 82 VLYLHGGGWVLGSLRTHDALVARLAAAAGAVVVSVDYRL------APE------------ 123
Query: 60 GNAEVPGNLGMKDQVLALQWIQENIEEFGGNPDSVTIFGESAGA 103
P L D A +W++ N E G +P + + G+SAG
Sbjct: 124 --HPFPAALE--DAYAAYRWLRANAAELGIDPSRIAVAGDSAGG 163
>gnl|CDD|215228 PLN02408, PLN02408, phospholipase A1.
Length = 365
Score = 36.7 bits (85), Expect = 0.008
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 51 IITRGFLSFGNAEVPGNLGMKDQVLALQWIQENIEEFGGNPDSVTIFGESAGAA 104
++ GFLS + +++ V + I ++ +G P S+TI G S GAA
Sbjct: 161 MVESGFLSLYTSGTAMGPSLQEMVR--EEIARLLQSYGDEPLSLTITGHSLGAA 212
>gnl|CDD|216421 pfam01299, Lamp, Lysosome-associated membrane glycoprotein (Lamp).
Length = 305
Score = 30.9 bits (70), Expect = 0.63
Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 16/56 (28%)
Query: 185 TETFVTTLNKFHIW---FKNPMITFAPVIESPLSQNNFLPDHPLRLPHADVPIIIG 237
+ F LN F++ F+ F+ E L + L VPI +G
Sbjct: 235 SPAF--QLNTFNLQVQAFQVTGDKFSTAEECSLDDTSML-----------VPIAVG 277
>gnl|CDD|236020 PRK07449, PRK07449,
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylate synthase; Validated.
Length = 568
Score = 29.8 bits (68), Expect = 1.7
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 208 PVIESPLSQNNFLPDHPLRLPHAD 231
P++ PLS N+ P HP +P D
Sbjct: 249 PLLADPLSPRNYAPLHPQPIPCYD 272
>gnl|CDD|217984 pfam04244, DPRP, Deoxyribodipyrimidine photo-lyase-related protein.
This family appears to be related to pfam00875.
Length = 223
Score = 27.9 bits (63), Expect = 4.6
Identities = 10/49 (20%), Positives = 18/49 (36%), Gaps = 10/49 (20%)
Query: 153 WLARDRAHAFATLVGCPTQPIETVLDCLRQLPTETFVTTLNKFHIWFKN 201
+ + A +G P + L E F+T+ ++F W K
Sbjct: 103 YRLEQQLKELAESLGIP----------VEILDDEHFLTSRDEFEAWAKG 141
>gnl|CDD|115572 pfam06924, DUF1281, Protein of unknown function (DUF1281). This
family consists of several hypothetical enterobacterial
proteins of around 170 residues in length. Members of
this family are found in Escherichia coli, Salmonella
typhimurium and Shigella species. The function of this
family is unknown.
Length = 134
Score = 27.5 bits (61), Expect = 4.7
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 129 NFRLFHRAILQSGTASCSWASTP 151
R R LQSG AS W + P
Sbjct: 90 TIRQIDRLYLQSGIASVKWETIP 112
>gnl|CDD|211974 TIGR04251, SCM_rSAM_ScmF, SynChlorMet cassette radical SAM/SPASM
protein ScmF. A biosynthesis cassette found in
Syntrophobacter fumaroxidans MPOB, Chlorobium limicola
DSM 245, Methanocella paludicola SANAE, and delta
proteobacterium NaphS2 contains two PqqE-like radical
SAM/SPASM domain proteins, a PqqD homolog, and a
conserved hypothetical protein. These components suggest
modification of a ribosomally produced peptide
precursor, but the precursor has not been identified. Of
the two PqqE homologs of the cassette, this family is
the more distant in sequence.
Length = 353
Score = 28.3 bits (63), Expect = 5.3
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 99 ESAGAASVSYHLVSPLSKGKFESRGG 124
ES GA SV ++ V P S+G G
Sbjct: 170 ESLGAESVKFNHVQPTSRGSKMHENG 195
>gnl|CDD|234040 TIGR02867, spore_II_P, stage II sporulation protein P. Stage II
sporulation protein P is a protein of the endospore
formation program in a number of lineages in the
Firmicutes (low-GC Gram-positive bacteria). It is
expressed in the mother cell compartment, under control
of Sigma-E. SpoIIP, along with SpoIIM and SpoIID, is one
of three major proteins involved in engulfment of the
forespore by the mother cell. This protein family is
named for the single member in Bacillus subtilis,
although most sporulating bacteria have two members
[Cellular processes, Sporulation and germination].
Length = 196
Score = 27.7 bits (62), Expect = 5.9
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 114 LSKGKFESRGGNNHFNFRLFHRAIL 138
LS+G F GN +N L AIL
Sbjct: 143 LSRGIFYKDYGNGVYNQDLSPNAIL 167
>gnl|CDD|176164 cd08475, PBP2_CrgA_like_6, The C-terminal substrate binding domain
of an uncharacterized LysR-type transcriptional
regulator CrgA-like, contains the type 2 periplasmic
binding fold. This CD represents the substrate binding
domain of an uncharacterized LysR-type transcriptional
regulator (LTTR) CrgA-like 6. The LTTRs are acting as
both auto-repressors and activators of target promoters,
controlling operons involved in a wide variety of
cellular processes such as amino acid biosynthesis, CO2
fixation, antibiotic resistance, degradation of aromatic
compounds, nodule formation of nitrogen-fixing bacteria,
and synthesis of virulence factors, to name a few. In
contrast to the tetrameric form of other LTTRs, CrgA
from Neisseria meningitides assembles into an octameric
ring, which can bind up to four 63-bp DNA
oligonucleotides. Phylogenetic cluster analysis showed
that the CrgA-like regulators form a subclass of the
LTTRs that function as octamers. The CrgA is an
auto-repressor of its own gene and activates the
expression of the mdaB gene which coding for an
NADPH-quinone reductase and that its action is increased
by MBL (alpha-methylene-gamma-butyrolactone), an inducer
of NADPH-quinone oxidoreductase. The structural
topology of this substrate-binding domain is most
similar to that of the type 2 periplasmic binding
proteins (PBP2), which are responsible for the uptake of
a variety of substrates such as phosphate, sulfate,
polysaccharides, lysine/arginine/ornithine, and
histidine. The PBP2 bind their ligand in the cleft
between these domains in a manner resembling a Venus
flytrap. After binding their specific ligand with high
affinity, they can interact with a cognate membrane
transport complex comprised of two integral membrane
domains and two cytoplasmically located ATPase domains.
This interaction triggers the ligand translocation
across the cytoplasmic membrane energized by ATP
hydrolysis.
Length = 199
Score = 27.5 bits (62), Expect = 6.1
Identities = 10/43 (23%), Positives = 13/43 (30%), Gaps = 5/43 (11%)
Query: 136 AILQSGTASCSWASTPAWLARDRAHAFATLV----GCPTQPIE 174
AI + A A P WL D LV + +
Sbjct: 136 AIADAALAGLGIAQLPTWLVADHLQR-GELVEVLPELAPEGLP 177
>gnl|CDD|233542 TIGR01713, typeII_sec_gspC, type II secretion system protein C.
This model represents GspC, protein C of the main
terminal branch of the general secretion pathway, also
called type II secretion. This system transports folded
proteins across the bacterial outer membrane and is
widely distributed in Gram-negative pathogens [Protein
fate, Protein and peptide secretion and trafficking].
Length = 259
Score = 27.1 bits (60), Expect = 9.8
Identities = 19/92 (20%), Positives = 32/92 (34%), Gaps = 13/92 (14%)
Query: 183 LPTETFVTTLNKFHIWFKNPMITFAPVIESPLSQNNFLPDHPLRLPHADVPI-------- 234
+ L F ++ + + V SP+S N P PL L +
Sbjct: 41 NLANLQPSDLKLFELFGVFNEKSVSEVKTSPVSVN--APVSPLSLKLTGIVASSDRIRSI 98
Query: 235 -IIGVNNKEGELSVVEAGPLESSVKKLRKISK 265
II +++ L + E+ E K+ KI
Sbjct: 99 AIIEEGSEQVSLGINES--FEGYKAKIAKIEP 128
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
0.320 0.137 0.417
Gapped
Lambda K H
0.267 0.0790 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,172,478
Number of extensions: 1353033
Number of successful extensions: 1105
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1085
Number of HSP's successfully gapped: 20
Length of query: 274
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 179
Effective length of database: 6,723,972
Effective search space: 1203590988
Effective search space used: 1203590988
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: 58 (26.0 bits)