RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4809
(89 letters)
>gnl|CDD|215811 pfam00235, Profilin, Profilin.
Length = 121
Score = 101 bits (255), Expect = 7e-30
Identities = 36/84 (42%), Positives = 54/84 (64%)
Query: 1 LSKDELGKLVQGFEKQDILTSSGVTLAGNRYIYLSGTDKVIRAKLGKVGVHCMKTQQAVV 60
LS +E+ + F+ L ++G+TL G +Y+ + D I K GK GV +KT+QA++
Sbjct: 38 LSPEEIKAIAAAFKDPGSLAATGLTLGGQKYMVIRADDGSIYGKKGKGGVVIVKTKQALI 97
Query: 61 ISLYEDPIQPQQAASVVEKLGDYL 84
I +Y++P+QP QA VVEKL DYL
Sbjct: 98 IGMYDEPVQPGQANKVVEKLADYL 121
>gnl|CDD|238085 cd00148, PROF, Profilin binds actin monomers, membrane
polyphosphoinositides such as PI(4,5)P2, and
poly-L-proline. Profilin can inhibit actin
polymerization into F-actin by binding to monomeric
actin (G-actin) and terminal F-actin subunits, but - as
a regulator of the cytoskeleton - it may also promote
actin polymerization. It plays a role in the assembly of
branched actin filament networks, by activating WASP via
binding to WASP's proline rich domain. Profilin may link
the cytoskeleton with major signalling pathways by
interacting with components of the phosphatidylinositol
cycle and Ras pathway.
Length = 127
Score = 100 bits (252), Expect = 2e-29
Identities = 43/89 (48%), Positives = 60/89 (67%)
Query: 1 LSKDELGKLVQGFEKQDILTSSGVTLAGNRYIYLSGTDKVIRAKLGKVGVHCMKTQQAVV 60
L+ +E+G LV GF+ D + S+G+TL G +Y+ + D+ I K G GV +KT+QA+V
Sbjct: 39 LTPEEVGTLVAGFKDPDGVFSTGLTLGGQKYMVIRADDRSIYGKKGAGGVVIVKTKQALV 98
Query: 61 ISLYEDPIQPQQAASVVEKLGDYLVSCGY 89
I +YE+ +QP QA VVEKL DYL S GY
Sbjct: 99 IGMYEEGVQPGQANKVVEKLADYLRSQGY 127
>gnl|CDD|214646 smart00392, PROF, Profilin. Binds actin monomers, membrane
polyphosphoinositides and poly-L-proline.
Length = 129
Score = 95.1 bits (237), Expect = 5e-27
Identities = 34/85 (40%), Positives = 51/85 (60%)
Query: 5 ELGKLVQGFEKQDILTSSGVTLAGNRYIYLSGTDKVIRAKLGKVGVHCMKTQQAVVISLY 64
E+ + F + S+G+TL G +Y+ + D+ I K G GV +KT+QA++I +Y
Sbjct: 45 EIAAIAALFNSLAAVFSNGLTLGGQKYMVIRADDRSIMGKKGAGGVVIVKTKQALIIGMY 104
Query: 65 EDPIQPQQAASVVEKLGDYLVSCGY 89
++ +QP QA VEKL DYL S GY
Sbjct: 105 KEGVQPGQANKTVEKLADYLRSSGY 129
>gnl|CDD|140337 PTZ00316, PTZ00316, profilin; Provisional.
Length = 150
Score = 37.6 bits (87), Expect = 1e-04
Identities = 26/109 (23%), Positives = 50/109 (45%), Gaps = 23/109 (21%)
Query: 4 DELGKLVQGFEKQDILTSSGVTLAGNRYIYL-SGTD---KVIRAKLGKVGVHCMKTQQAV 59
+E+ +++ ++ SSGVT+ G ++ L SGT+ K I K G G ++Q
Sbjct: 42 EEVAHILKCLGNFSLVQSSGVTIYGVKFFGLQSGTEGDMKYIFFKKGAAGGCIYTSKQTA 101
Query: 60 VISLYEDP-------------------IQPQQAASVVEKLGDYLVSCGY 89
+I++Y +P + P + V+++ +YL+S Y
Sbjct: 102 IIAVYGNPGDTSSLQQDLEKNEAHAVAVNPADCNTTVKRIAEYLISLDY 150
>gnl|CDD|224483 COG1567, COG1567, CRISPR system related protein, RAMP superfamily
[Defense mechanisms].
Length = 313
Score = 28.6 bits (64), Expect = 0.40
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 1 LSKDELGKLVQGFEKQDILTSSGVTLAGNRYIY 33
L E+ L++ F K + SS + GN Y+
Sbjct: 43 LYGREIDDLIENFAKSPLRISSLLPYIGNDYLV 75
>gnl|CDD|163676 cd07938, DRE_TIM_HMGL, 3-hydroxy-3-methylglutaryl-CoA lyase,
catalytic TIM barrel domain.
3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes
the cleavage of HMG-CoA to acetyl-CoA and acetoacetate,
one of the terminal steps in ketone body generation and
leucine degradation, and is a key enzyme in the pathway
that supplies metabolic fuel to extrahepatic tissues.
Mutations in HMGL cause a human autosomal recessive
disorder called primary metabolic aciduria that affects
ketogenesis and leucine catabolism and can be fatal due
to an inability to tolerate hypoglycemia. HMGL has a
TIM barrel domain with a catalytic center containing a
divalent cation-binding site formed by a cluster of
invariant residues that cap the core of the barrel. The
cleavage of HMG-CoA requires the presence of a divalent
cation like Mg2+ or Mn2+, and the reaction is thought to
involve general acid/base catalysis. This family
belongs to the DRE-TIM metallolyase superfamily.
DRE-TIM metallolyases include 2-isopropylmalate synthase
(IPMS), alpha-isopropylmalate synthase (LeuA),
3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate
synthase, citramalate synthase, 4-hydroxy-2-oxovalerate
aldolase, re-citrate synthase, transcarboxylase 5S,
pyruvate carboxylase, AksA, and FrbC. These members all
share a conserved triose-phosphate isomerase (TIM)
barrel domain consisting of a core beta(8)-alpha(8)
motif with the eight parallel beta strands forming an
enclosed barrel surrounded by eight alpha helices. The
domain has a catalytic center containing a divalent
cation-binding site formed by a cluster of invariant
residues that cap the core of the barrel. In addition,
the catalytic site includes three invariant residues -
an aspartate (D), an arginine (R), and a glutamate (E) -
which is the basis for the domain name "DRE-TIM".
Length = 274
Score = 26.2 bits (59), Expect = 2.2
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 3/26 (11%)
Query: 64 YEDPIQPQQAASVVEKL---GDYLVS 86
YE + P++ A V E+L G +S
Sbjct: 142 YEGEVPPERVAEVAERLLDLGCDEIS 167
>gnl|CDD|185743 cd09002, GH43_XYL_3, Glycosyl hydrolase family 43,
beta-D-xylosidase. This glycosyl hydrolase family 43
(GH43) includes enzymes that have been characterized to
have beta-1,4-xylosidase (beta-D-xylosidase;xylan
1,4-beta-xylosidase; EC 3.2.1.37) activity. They are
part of an array of hemicellulases that are involved in
the final breakdown of plant cell-wall whereby they
degrade xylan. They hydrolyze beta-1,4 glycosidic bonds
between two xylose units in short xylooligosaccharides.
These are inverting enzymes (i.e. they invert the
stereochemistry of the anomeric carbon atom of the
substrate) that have an aspartate as the catalytic
general base, a glutamate as the catalytic general acid
and another aspartate that is responsible for pKa
modulation and orienting the catalytic acid. A common
structural feature of GH43 enzymes is a 5-bladed
beta-propeller domain that contains the catalytic acid
and catalytic base. A long V-shaped groove, partially
enclosed at one end, forms a single extended
substrate-binding surface across the face of the
propeller.
Length = 280
Score = 25.8 bits (57), Expect = 2.9
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 27 AGNRYIYLSGTDKV 40
GNRY++LSG D+V
Sbjct: 125 DGNRYLFLSGGDRV 138
>gnl|CDD|180605 PRK06524, PRK06524, biotin carboxylase-like protein; Validated.
Length = 493
Score = 25.9 bits (57), Expect = 3.0
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 67 PIQPQQAASVVEKLGDYLVSCGY 89
P Q ++A +V KLGD L GY
Sbjct: 275 PAQTRKAREMVRKLGDVLSREGY 297
>gnl|CDD|132048 TIGR03003, ectoine_ehuD, ectoine/hydroxyectoine ABC transporter,
permease protein EhuD. Members of this family are
presumed to act as permease subunits of ectoine ABC
transporters. Operons containing this gene also contain
the other genes of the ABC transporter and typically are
found next to either ectoine utilization or ectoine
biosynthesis operons.
Length = 212
Score = 25.6 bits (56), Expect = 3.7
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 32 IYLSGTDKVIRAKLGKVGVHCMKTQQAVVISLYEDPIQPQQAASVVEKLGDYLVS 86
+Y +G + V R + + +Q Y I PQ ++ LG+YLV+
Sbjct: 104 VYRAGIEAVPRGQWEAATALNLTARQT-----YRHIILPQAIPPIIPALGNYLVA 153
>gnl|CDD|226947 COG4581, COG4581, Superfamily II RNA helicase [DNA replication,
recombination, and repair].
Length = 1041
Score = 25.4 bits (56), Expect = 4.8
Identities = 9/41 (21%), Positives = 16/41 (39%)
Query: 46 GKVGVHCMKTQQAVVISLYEDPIQPQQAASVVEKLGDYLVS 86
G+ G + V++ +P +AA + D L S
Sbjct: 517 GRAGRRGLDVLGTVIVIEPPFESEPSEAAGLASGKLDPLRS 557
>gnl|CDD|225309 COG2511, GatE, Archaeal Glu-tRNAGln amidotransferase subunit E
(contains GAD domain) [Translation, ribosomal structure
and biogenesis].
Length = 631
Score = 25.0 bits (55), Expect = 6.8
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 59 VVISLYEDPIQPQQAASVVEKLGDYLVSCG 88
+ IS D P+QA V E++G L S G
Sbjct: 186 IEISTEPDIRSPEQAREVAERIGYILRSTG 215
>gnl|CDD|182539 PRK10549, PRK10549, signal transduction histidine-protein kinase
BaeS; Provisional.
Length = 466
Score = 25.0 bits (55), Expect = 7.3
Identities = 8/12 (66%), Positives = 10/12 (83%)
Query: 2 SKDELGKLVQGF 13
S+DELG+L Q F
Sbjct: 215 SRDELGRLAQDF 226
>gnl|CDD|173799 cd07473, Peptidases_S8_Subtilisin_like, 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 = 259
Score = 24.5 bits (54), Expect = 8.7
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 16 QDILTSSGVTLAGNRYIYLSGT 37
DIL+ T G Y Y+SGT
Sbjct: 207 VDILS----TSPGGGYGYMSGT 224
>gnl|CDD|180206 PRK05692, PRK05692, hydroxymethylglutaryl-CoA lyase; Provisional.
Length = 287
Score = 24.5 bits (54), Expect = 9.3
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 64 YEDPIQPQQAASVVEKLGDY 83
YE + P+ A V E+L
Sbjct: 148 YEGEVPPEAVADVAERLFAL 167
>gnl|CDD|225301 COG2461, COG2461, Uncharacterized conserved protein [Function
unknown].
Length = 409
Score = 24.7 bits (54), Expect = 9.4
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 50 VHCMKTQQAVVISLYEDPIQPQQAASVVEKL 80
V +K + + SL + +Q + EKL
Sbjct: 88 VRTLKRENKAIRSLLANLLQFPPKKEIKEKL 118
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
0.316 0.135 0.378
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,285,023
Number of extensions: 338692
Number of successful extensions: 274
Number of sequences better than 10.0: 1
Number of HSP's gapped: 273
Number of HSP's successfully gapped: 22
Length of query: 89
Length of database: 10,937,602
Length adjustment: 57
Effective length of query: 32
Effective length of database: 8,409,424
Effective search space: 269101568
Effective search space used: 269101568
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)