RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2211
(100 letters)
>gnl|CDD|178101 PLN02483, PLN02483, serine palmitoyltransferase.
Length = 489
Score = 95.6 bits (238), Expect = 1e-24
Identities = 41/96 (42%), Positives = 50/96 (52%)
Query: 1 GYPDLYEKFVLFYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTC 60
GY + FY R +Y RI DCFNRP+ S P A + +R + D T K T C
Sbjct: 43 GYAPICLGLEDFYIRRLYLRIQDCFNRPIASAPDAWFDVVERVSNDNNKTLKRTTKTRRC 102
Query: 61 LNLASYNYLGFGENTGLCTERSKESVKQSGCALCSP 96
LNL SYNYLGF CT R ES+K+ + CS
Sbjct: 103 LNLGSYNYLGFAAADEYCTPRVIESLKKYSASTCSS 138
>gnl|CDD|99747 cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The major groups in this CD
corresponds to serine palmitoyltransferase (SPT),
5-aminolevulinate synthase (ALAS),
8-amino-7-oxononanoate synthase (AONS), and
2-amino-3-ketobutyrate CoA ligase (KBL). SPT is
responsible for the condensation of L-serine with
palmitoyl-CoA to produce 3-ketodihydrospingosine, the
reaction of the first step in sphingolipid
biosynthesis. ALAS is involved in heme biosynthesis; it
catalyzes the synthesis of 5-aminolevulinic acid from
glycine and succinyl-coenzyme A. AONS catalyses the
decarboxylative condensation of l-alanine and
pimeloyl-CoA in the first committed step of biotin
biosynthesis. KBL catalyzes the second reaction step of
the metabolic degradation pathway for threonine
converting 2-amino-3-ketobutyrate, to glycine and
acetyl-CoA. The members of this CD are widely found in
all three forms of life.
Length = 349
Score = 36.4 bits (85), Expect = 9e-04
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 58 STCLNLASYNYLGFGENTGLCTERSKESVKQSGCALCS 95
LN S +YLG + E +KE++ + G
Sbjct: 1 KKVLNFCSNDYLGLANH-PEVIEAAKEALDKYGVGAGG 37
>gnl|CDD|130884 TIGR01825, gly_Cac_T_rel, pyridoxal phosphate-dependent
acyltransferase, putative. This model represents an
enzyme subfamily related to three known enzymes; it
appears closest to glycine C-acteyltransferase, shows
no overlap with it in species distribution, and may
share that function. The three closely related enzymes
are glycine C-acetyltransferase (2-amino-3-ketobutyrate
coenzyme A ligase), 5-aminolevulinic acid synthase, and
8-amino-7-oxononanoate synthase. All transfer the
R-group (acetyl, succinyl, or 6-carboxyhexanoyl) from
coenzyme A to an amino acid (Gly, Gly, Ala,
respectively), with release of CO2 for the latter two
reactions.
Length = 385
Score = 32.9 bits (75), Expect = 0.014
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 4/57 (7%)
Query: 34 GAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGFGENTGLCTERSKESVKQSG 90
G I+I+ E+ + G E +NL+S NYLGF ++ L E + ++++Q G
Sbjct: 12 GLYISIRVLESAQGPRV-RVNGKE--VINLSSNNYLGFADHPRL-KEAAAQAIQQYG 64
>gnl|CDD|223234 COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related
enzymes [Coenzyme metabolism].
Length = 388
Score = 32.6 bits (75), Expect = 0.018
Identities = 9/41 (21%), Positives = 16/41 (39%), Gaps = 1/41 (2%)
Query: 56 TESTCLNLASYNYLGFGENTGLCTERSKESVKQSGCALCSP 96
LN S +YLG + E +K ++++ G
Sbjct: 37 DGRKVLNFCSNDYLGLA-SHPELIEAAKAAIRRYGVGAGGS 76
>gnl|CDD|239492 cd03398, PAP2_haloperoxidase, PAP2, haloperoxidase_like subfamily.
Haloperoxidases catalyze the oxidation of halides such
as bromide or chloride by hydrogen peroxide, which
results in subsequent halogenation of organic
substrates, or halide-assisted disproportionation of
hydrogen peroxide forming dioxygen. They are likely to
participate in the biosynthesis of halogenated natural
products, such as volatile halogenated hydrocarbons,
chiral halogenated terpenes, acetogenins and indoles.
Length = 232
Score = 29.3 bits (66), Expect = 0.25
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 12 FYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETPDYGWT 50
+ ++Y YRR RPVT++ A D W
Sbjct: 103 WDAKYHYRRW-----RPVTAIRLADTDGNPATEADPYWL 136
>gnl|CDD|212808 cd11875, SH3_CD2AP-like_3, Third Src Homology 3 domain (SH3C) of
CD2-associated protein and similar proteins. This
subfamily is composed of the third SH3 domain (SH3C) of
CD2AP, CIN85 (Cbl-interacting protein of 85 kDa), and
similar domains. CD2AP and CIN85 are adaptor proteins
that bind to protein partners and assemble complexes
that have been implicated in T cell activation, kidney
function, and apoptosis of neuronal cells. They also
associate with endocytic proteins, actin cytoskeleton
components, and other adaptor proteins involved in
receptor tyrosine kinase (RTK) signaling. CD2AP and the
main isoform of CIN85 contain three SH3 domains, a
proline-rich region, and a C-terminal coiled-coil
domain. All of these domains enable CD2AP and CIN85 to
bind various protein partners and assemble complexes
that have been implicated in many different functions.
SH3C of both proteins have been shown to bind to
ubiquitin. SH3 domains are protein interaction domains
that bind to proline-rich ligands with moderate
affinity and selectivity, preferentially to PxxP
motifs. They play versatile and diverse roles in the
cell including the regulation of enzymes, changing the
subcellular localization of signaling pathway
components, and mediating the formation of multiprotein
complex assemblies.
Length = 55
Score = 26.9 bits (60), Expect = 0.54
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 34 GAIITIKDRETPDYGW 49
G I+TI ++ D GW
Sbjct: 21 GDIVTILSKDCEDKGW 36
>gnl|CDD|178417 PLN02822, PLN02822, serine palmitoyltransferase.
Length = 481
Score = 28.2 bits (63), Expect = 0.71
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 61 LNLASYNYLGFGENTGLCTERSKESVKQSGCALCSPSG 98
+N AS NYLG N + E ++++ G C P G
Sbjct: 112 VNFASANYLGLIGNEKI-KESCTSALEKYGVGSCGPRG 148
>gnl|CDD|216366 pfam01208, URO-D, Uroporphyrinogen decarboxylase (URO-D).
Length = 338
Score = 27.9 bits (63), Expect = 0.72
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 3 PDLYEKFVLFYSRYVYRRIVDCFNRPVT 30
P+ + +FVL Y + + + PV
Sbjct: 209 PEDFREFVLPYLKRIVDEVKARGPGPVI 236
>gnl|CDD|235893 PRK06939, PRK06939, 2-amino-3-ketobutyrate coenzyme A ligase;
Provisional.
Length = 397
Score = 27.9 bits (63), Expect = 0.85
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 15/45 (33%)
Query: 27 RPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLGF 71
R +TS GA IT+ D G E +N + NYLG
Sbjct: 26 RVITSPQGADITVAD-------------GKE--VINFCANNYLGL 55
>gnl|CDD|225990 COG3459, COG3459, Cellobiose phosphorylase [Carbohydrate transport
and metabolism].
Length = 1056
Score = 27.8 bits (62), Expect = 0.99
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 12 FYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETPDYGWT 50
F+ ++ N PV + PG I I+D T + WT
Sbjct: 318 FFRNSRDYQLTPWKNDPVENRPGEAIYIRDDATGRF-WT 355
>gnl|CDD|235655 PRK05958, PRK05958, 8-amino-7-oxononanoate synthase; Reviewed.
Length = 385
Score = 27.0 bits (61), Expect = 1.6
Identities = 13/53 (24%), Positives = 17/53 (32%), Gaps = 21/53 (39%)
Query: 18 YRRIVDCFNRPVTSVPGAIITIKDRETPDYGWTFKYTGTESTCLNLASYNYLG 70
YR + RP G + + R LN AS +YLG
Sbjct: 20 YRSL-----RPREGGAGRWLVVDGR----------------RMLNFASNDYLG 51
>gnl|CDD|235512 PRK05576, PRK05576, cobalt-precorrin-2 C(20)-methyltransferase;
Validated.
Length = 229
Score = 26.4 bits (59), Expect = 2.3
Identities = 7/24 (29%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 12 FYSRYVY-RRIVDCFNRPVTSVPG 34
YS + + + C + V +VPG
Sbjct: 103 LYSTFSHLLEYLKCHDIEVETVPG 126
>gnl|CDD|187731 cd08703, FDH_Hydrolase_C, The C-terminal subdomain of the
hydrolase domain on the bi-functional protein
10-formyltetrahydrofolate dehydrogenase. The family
represents the C-terminal subdomain of the hydrolase
domain on the bi-functional protein,
10-formyltetrahydrofolate dehydrogenase (FDH). FDH
catalyzes the conversion of 10-formyltetrahydrofolate,
a precursor for nucleotide biosynthesis, to
tetrahydrofolate. The protein comprises two functional
domains: the N-terminal hydrolase domain that removes a
formyl group from 10-formyltetrahydrofolate and the
C-terminal NADP-dependent dehydrogenase domain that
reduces the formyl group to carbon dioxide. The
hydrolase domain contains an N-terminal formyl
transferase catalytic core subdomain and this
C-terminal subdomain, which may be involved in
substrate binding.
Length = 100
Score = 25.8 bits (57), Expect = 2.3
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 25 FNRPVTSVPGAIITIKDRETPDYGWTF 51
F R VPGA TI + +G +
Sbjct: 18 FIRGNDKVPGAWATIDGEQVTLFGSSL 44
>gnl|CDD|235154 PRK03739, PRK03739, 2-isopropylmalate synthase; Validated.
Length = 552
Score = 26.3 bits (59), Expect = 3.3
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 19/55 (34%)
Query: 17 VYRRIVDCFNRPVTSVPG--AIIT-----IKD--RETPDYGWTFKY-----TGTE 57
+ RR+V F G AI +K+ + P+ W F+Y TGTE
Sbjct: 134 LQRRVV--FG---KDRDGIKAIAVDGARLVKELAAKYPETEWRFEYSPESFTGTE 183
>gnl|CDD|178766 PLN03227, PLN03227, serine palmitoyltransferase-like protein;
Provisional.
Length = 392
Score = 26.0 bits (57), Expect = 3.4
Identities = 12/38 (31%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 61 LNLASYNYLGFGENTGLCTERSKESVKQSGCALCSPSG 98
LN A++++L + L + + ES+ GC C P G
Sbjct: 1 LNFATHDFLSTSSSPTL-RQTALESLSHYGCGSCGPRG 37
>gnl|CDD|104071 PRK09629, PRK09629, bifunctional thiosulfate
sulfurtransferase/phosphatidylserine decarboxylase;
Provisional.
Length = 610
Score = 26.2 bits (57), Expect = 3.4
Identities = 18/63 (28%), Positives = 28/63 (44%), Gaps = 10/63 (15%)
Query: 6 YEKFVLFYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETP-----DYGWTFKYTGTESTC 60
YE F F++R + RP+ + PGAI++ D D+G F+ G +
Sbjct: 383 YEHFNAFFTR-----ALKADARPLDTTPGAILSPADGAISQLGPIDHGRIFQAKGHSFSV 437
Query: 61 LNL 63
L L
Sbjct: 438 LEL 440
>gnl|CDD|131247 TIGR02192, HtrL_YibB, protein YibB. The protein from this rare,
uncharacterized protein family is designated HtrL or
YibB in E. coli, where its gene is found in a region of
LPS core biosynthesis genes. Homologs are found in
Shigella flexneri, Campylobacter jejuni, and
Caenorhabditis elegans only. The htrL gene may
represent an insertion to the LPS core biosynthesis
region, rather than an LPS biosynthetic protein
[Hypothetical proteins, Conserved].
Length = 270
Score = 25.6 bits (56), Expect = 4.4
Identities = 6/45 (13%), Positives = 12/45 (26%)
Query: 5 LYEKFVLFYSRYVYRRIVDCFNRPVTSVPGAIITIKDRETPDYGW 49
L ++F +V + +I + P Y
Sbjct: 39 LENNMIIFTDESSKDFVVKTRTKLGLMDKTIVIKKTLDDLPLYSA 83
>gnl|CDD|215444 PLN02830, PLN02830, UDP-sugar pyrophosphorylase.
Length = 615
Score = 25.8 bits (57), Expect = 5.2
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 29 VTSVPGAIITIKDRETPDYGWTFKYTGTEST 59
V +VPGA +T+ + GWT++ ++
Sbjct: 554 VRAVPGAEVTVGGLRVKNKGWTWEPVDKGTS 584
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 0.139 0.439
Gapped
Lambda K H
0.267 0.0614 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,940,067
Number of extensions: 386462
Number of successful extensions: 284
Number of sequences better than 10.0: 1
Number of HSP's gapped: 284
Number of HSP's successfully gapped: 21
Length of query: 100
Length of database: 10,937,602
Length adjustment: 66
Effective length of query: 34
Effective length of database: 8,010,238
Effective search space: 272348092
Effective search space used: 272348092
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: 53 (24.4 bits)