RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2585
(80 letters)
>gnl|CDD|163712 cd08156, catalase_clade_3, Clade 3 of the heme-binding enzyme
catalase. Catalase is a ubiquitous enzyme found in both
prokaryotes and eukaryotes, which is involved in the
protection of cells from the toxic effects of peroxides.
It catalyzes the conversion of hydrogen peroxide to
water and molecular oxygen. Catalases also utilize
hydrogen peroxide to oxidize various substrates such as
alcohol or phenols. Clade 3 catalases are the most
abundant subfamily and are found in all three kingdoms
of life; they have a relatively small subunit size of 43
to 75 kDa, and bind a protoheme IX (heme b) group buried
deep inside the structure. Clade 3 catalases also bind
NADPH as a second redox-active cofactor. They form
tetramers, and in eukaryotic cells, catalases are
located in peroxisomes.
Length = 429
Score = 133 bits (336), Expect = 4e-39
Identities = 47/79 (59%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 3 GRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAF-NNQGGAPNYFPNSFSGP 61
GRLFSY D HR+RLG NY QLPVN P V NYQRDG M N GGAPNY PNSF GP
Sbjct: 286 GRLFSYADAHRYRLGVNYHQLPVNRPKC-PVNNYQRDGAMRVDGNGGGAPNYEPNSFGGP 344
Query: 62 QESERGRLSTFAVSGDVAR 80
E VSGD R
Sbjct: 345 PEDPEYAEPPLPVSGDADR 363
>gnl|CDD|215003 smart01060, Catalase, Catalases are antioxidant enzymes that
catalyse the conversion of hydrogen peroxide to water
and molecular oxygen, serving to protect cells from its
toxic effects. Hydrogen peroxide is produced as a
consequence of oxidative cellular metabolism and can be
converted to the highly reactive hydroxyl radical via
transition metals, this radical being able to damage a
wide variety of molecules within a cell, leading to
oxidative stress and cell death. Catalases act to
neutralise hydrogen peroxide toxicity, and are produced
by all aerobic organisms ranging from bacteria to man.
Most catalases are mono-functional, haem-containing
enzymes, although there are also bifunctional
haem-containing peroxidase/catalases that are closely
related to plant peroxidases, and non-haem,
manganese-containing catalases that are found in
bacteria.
Length = 373
Score = 101 bits (254), Expect = 2e-27
Identities = 37/52 (71%), Positives = 39/52 (75%), Gaps = 2/52 (3%)
Query: 3 GRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAFN-NQGGAPNY 53
GRLFSYPDT R+RLGPNY QLPVN P V NYQRDG M + NQGG PNY
Sbjct: 323 GRLFSYPDTQRYRLGPNYHQLPVNRPRC-PVHNYQRDGAMRVDGNQGGDPNY 373
>gnl|CDD|223824 COG0753, KatE, Catalase [Inorganic ion transport and metabolism].
Length = 496
Score = 98.9 bits (247), Expect = 3e-26
Identities = 40/81 (49%), Positives = 44/81 (54%), Gaps = 4/81 (4%)
Query: 3 GRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAFNNQGGAPNYFPNSFS-GP 61
GRLFSY DT R+RLGPNY Q+PVN P V N QRDG M G NY PNSF P
Sbjct: 342 GRLFSYGDTQRYRLGPNYHQIPVNRPKC-PVHNNQRDGQMRMGINTGPANYEPNSFGDNP 400
Query: 62 QESERGRLSTFA--VSGDVAR 80
+ E+ V GD R
Sbjct: 401 EAPEQPGFVEPPERVEGDKQR 421
>gnl|CDD|163710 cd08154, catalase_clade_1, Clade 1 of the heme-binding enzyme
catalase. Catalase is a ubiquitous enzyme found in both
prokaryotes and eukaryotes, which is involved in the
protection of cells from the toxic effects of peroxides.
It catalyzes the conversion of hydrogen peroxide to
water and molecular oxygen. Catalases also utilize
hydrogen peroxide to oxidize various substrates such as
alcohol or phenols. Clade 1 catalases are found in
bacteria, algae, and plants; they have a relatively
small subunit size of 55 to 69 kDa, and bind a protoheme
IX (heme b) group buried deep inside the structure. They
appear to form tetramers. In eukaryotic cells, catalases
are located in peroxisomes.
Length = 469
Score = 97.0 bits (242), Expect = 2e-25
Identities = 37/80 (46%), Positives = 48/80 (60%), Gaps = 1/80 (1%)
Query: 1 MKGRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAFNNQGGAPNYFPNSFSG 60
++GRLFSY DT R+RLGPNYLQLP+N P A V N QRDG M + + NY P+ G
Sbjct: 326 LQGRLFSYSDTQRYRLGPNYLQLPINAPKAA-VHNNQRDGQMNYGHDTSDVNYEPSRLDG 384
Query: 61 PQESERGRLSTFAVSGDVAR 80
E+ + S +SG +
Sbjct: 385 LPEAPKYPYSQPPLSGTTQQ 404
>gnl|CDD|215783 pfam00199, Catalase, Catalase.
Length = 383
Score = 93.5 bits (233), Expect = 2e-24
Identities = 37/60 (61%), Positives = 40/60 (66%), Gaps = 2/60 (3%)
Query: 3 GRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAFNNQGGAPNYFPNSFSGPQ 62
RLF+Y D+ R RLGPNY QLPVN P + QRDG M F N GG PNY PNSF GPQ
Sbjct: 326 ARLFAYADSQRRRLGPNYQQLPVNRPRCP--VHNQRDGAMRFGNYGGEPNYEPNSFGGPQ 383
>gnl|CDD|163713 cd08157, catalase_fungal, Fungal catalases similar to yeast
catalases A and T. Catalase is a ubiquitous enzyme
found in both prokaryotes and eukaryotes, which is
involved in the protection of cells from the toxic
effects of peroxides. It catalyzes the conversion of
hydrogen peroxide to water and molecular oxygen.
Catalases also utilize hydrogen peroxide to oxidize
various substrates such as alcohol or phenols. This
family of fungal catalases has a relatively small
subunit size, and binds a protoheme IX (heme b) group
buried deep inside the structure. Fungal catalases also
bind NADPH as a second redox-active cofactor. They form
tetramers; in eukaryotic cells, catalases are typically
located in peroxisomes. Saccharomyces cerevisiae
catalase T is found in the cytoplasm, though.
Length = 451
Score = 92.4 bits (230), Expect = 6e-24
Identities = 38/52 (73%), Positives = 40/52 (76%), Gaps = 2/52 (3%)
Query: 4 RLFSYPDTHRHRLGPNYLQLPVNCPFATKVAN-YQRDGPMAFN-NQGGAPNY 53
RLFSYPD HRHRLGPNY QLPVN P + V N YQRDGPM+ N N GG PNY
Sbjct: 303 RLFSYPDAHRHRLGPNYQQLPVNRPKTSPVYNPYQRDGPMSVNGNYGGDPNY 354
>gnl|CDD|163705 cd00328, catalase, Catalase heme-binding enzyme. Catalase is a
ubiquitous enzyme found in both prokaryotes and
eukaryotes, which is involved in the protection of cells
from the toxic effects of peroxides. It catalyzes the
conversion of hydrogen peroxide to water and molecular
oxygen. Catalases also utilize hydrogen peroxide to
oxidize various substrates such as alcohol or phenols.
Most catalases exist as tetramers of 65KD subunits
containing a protoheme IX group buried deep inside the
structure. In eukaryotic cells, catalases are located in
peroxisomes.
Length = 433
Score = 86.0 bits (213), Expect = 1e-21
Identities = 37/77 (48%), Positives = 46/77 (59%), Gaps = 7/77 (9%)
Query: 1 MKGRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAFNNQGGAPNYFPNSFS- 59
++GRLFSY DT +RLGPN+ QLPVN P+A V N QRDG N+ G PNY PN+
Sbjct: 284 LQGRLFSYADTQLYRLGPNFQQLPVNRPYA-PVHNNQRDGAGNMNDNTGVPNYEPNAKDV 342
Query: 60 -----GPQESERGRLST 71
G + +RG S
Sbjct: 343 RYPAQGAPKFDRGHFSH 359
>gnl|CDD|215328 PLN02609, PLN02609, catalase.
Length = 492
Score = 82.5 bits (204), Expect = 2e-20
Identities = 33/76 (43%), Positives = 45/76 (59%), Gaps = 1/76 (1%)
Query: 1 MKGRLFSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMAFNNQGGAPNYFPNSFSG 60
++ R+F+Y DT RHRLGPNYLQLPVN P N +G M F ++ NYFP+ F
Sbjct: 341 LQTRIFAYADTQRHRLGPNYLQLPVNAPKC-AHHNNHHEGFMNFMHRDEEVNYFPSRFDP 399
Query: 61 PQESERGRLSTFAVSG 76
+ +ER + +SG
Sbjct: 400 VRHAERVPIPHPPLSG 415
>gnl|CDD|163711 cd08155, catalase_clade_2, Clade 2 of the heme-binding enzyme
catalase. Catalase is a ubiquitous enzyme found in both
prokaryotes and eukaryotes, which is involved in the
protection of cells from the toxic effects of peroxides.
It catalyzes the conversion of hydrogen peroxide to
water and molecular oxygen. Catalases also utilize
hydrogen peroxide to oxidize various substrates such as
alcohol or phenols. Clade 2 catalases are mostly found
in bacteria and fungi; they have a large subunit size of
75 to 84 kDa, and bind a heme d group buried deep inside
the structure. They appear to form tetramers. In
eukaryotic cells, catalases are located in peroxisomes.
Length = 443
Score = 69.7 bits (171), Expect = 9e-16
Identities = 31/59 (52%), Positives = 36/59 (61%), Gaps = 2/59 (3%)
Query: 1 MKGRLFSYPDTHRHRLG-PNYLQLPVNCPFATKVANYQRDGPMAFNNQGGAPNYFPNSF 58
++GRLFSY DT RLG PN+ +LP+N P V N QRDG M G NYFPNS
Sbjct: 291 LQGRLFSYLDTQLSRLGGPNFHELPINRPVC-PVHNNQRDGHMRMTINKGRVNYFPNSL 348
>gnl|CDD|236886 PRK11249, katE, hydroperoxidase II; Provisional.
Length = 752
Score = 60.4 bits (147), Expect = 2e-12
Identities = 31/70 (44%), Positives = 42/70 (60%), Gaps = 10/70 (14%)
Query: 1 MKGRLFSYPDTHRHRL-GPNYLQLPVN---CPFATKVANYQRDGPMAFNNQGGAPNYFPN 56
++GRLFSY DT RL GPN+ ++P+N CP+ N+QRDG G NY PN
Sbjct: 405 LQGRLFSYTDTQISRLGGPNFHEIPINRPTCPY----HNFQRDGMHRMTIDTGPANYEPN 460
Query: 57 SFSG--PQES 64
S +G P+E+
Sbjct: 461 SINGNWPRET 470
>gnl|CDD|240122 cd04818, PA_subtilisin_1, PA_subtilisin_1: Protease-associated
domain containing subtilisin-like proteases, subgroup
1. A subgroup of PA domain-containing subtilisin-like
proteases. The significance of the PA domain to many of
the proteins in which it is inserted is undetermined.
It may be a protein-protein interaction domain. At
peptidase active sites, the PA domain may participate
in substrate binding and/or promoting conformational
changes, which influence the stability and
accessibility of the site to substrate. Proteins into
which the PA domain is inserted include the following
subtilisin-like proteases: i) melon cucumisin, ii)
Arabidopsis thaliana Ara12, iii) Alnus glutinosa ag12,
iv) members of the tomato P69 family, and v) tomato
LeSBT2. However, these proteins belong to other
subtilisin-like subgroups. Relatively little is known
about proteins in this subgroup.
Length = 118
Score = 26.9 bits (60), Expect = 0.73
Identities = 13/38 (34%), Positives = 15/38 (39%), Gaps = 6/38 (15%)
Query: 27 CPFATKVANYQRDGPMA---FNNQGGAPNYFPNSFSGP 61
C F KV N Q G +A NN G P + G
Sbjct: 51 CNFTVKVLNAQNAGAIAVIVANNVAGGA---PITMGGD 85
>gnl|CDD|221248 pfam11827, DUF3347, Protein of unknown function (DUF3347). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are typically between 169 to 570 amino acids in
length.
Length = 175
Score = 26.6 bits (59), Expect = 1.2
Identities = 6/9 (66%), Positives = 7/9 (77%)
Query: 41 PMAFNNQGG 49
PMA NN+G
Sbjct: 141 PMANNNKGA 149
>gnl|CDD|119385 cd06525, GH25_Lyc-like, Lyc muramidase is an autolytic lysozyme
(autolysin) from Clostridium acetobutylicum encoded by
the lyc gene. Lyc has a glycosyl hydrolase family 25
(GH25) catalytic domain. Endo-N-acetylmuramidases are
lysozymes (also referred to as peptidoglycan hydrolases)
that degrade bacterial cell walls by catalyzing the
hydrolysis of 1,4-beta-linkages between N-acetylmuramic
acid and N-acetyl-D-glucosamine residues.
Length = 184
Score = 26.5 bits (59), Expect = 1.3
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 8/46 (17%)
Query: 33 VANYQRDGPMAFNNQGGAPNYFPNSFSGPQESERGRLSTFAVSGDV 78
+ANY P N NS+ G Q SE GR++ + S D+
Sbjct: 144 IANYGVSPPS--------SNGIWNSWVGFQYSETGRVNGVSGSVDL 181
>gnl|CDD|240117 cd04813, PA_1, PA_1: Protease-associated (PA) domain subgroup 1.
A subgroup of PA-domain containing proteins. Proteins
in this subgroup contain a RING-finger (Really
Interesting New Gene) domain C-terminal to this PA
domain. The PA domain is an insert domain in a diverse
fraction of proteases. The significance of the PA
domain to many of the proteins in which it is inserted
is undetermined. It may be a protein-protein
interaction domain. At peptidase active sites, the PA
domain may participate in substrate binding and/or
promoting conformational changes, which influence the
stability and accessibility of the site to substrate.
Proteins in this group contain a C-terminal RING-finger
domain. Proteins into which the PA domain is inserted
include the following: i) various signal peptide
peptidases: such as hSPPL2a and 2b, ii) various E3
ubiquitin ligases similar to human GRAIL (gene related
to anergy in lymphocytes) protein, iii) various
proteins containing a RING finger motif such as
Arabidopsis ReMembR-H2 protein, iv) EDEM3
(ER-degradation-enhancing mannosidase-like 3 protein),
v) various plant vacuolar sorting receptors such as
Pisum sativum BP-80, vi) prostate-specific membrane
antigen (PSMA), vii) yeast aminopeptidase Y viii)
Vibrio metschnikovii VapT, a sodium dodecyl sulfate
(SDS) resistant extracellular alkaline serine protease,
ix) various subtilisin-like proteases such as Cucumisin
from the juice of melon fruits, and x) human TfR
(transferrin receptor) 1 and human TfR2. The proteins
listed above belong to other subgroups; relatively
little is known about proteins in this subgroup.
Length = 117
Score = 26.2 bits (58), Expect = 1.4
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 3/29 (10%)
Query: 26 NCPFATKVANYQRDGPMAF---NNQGGAP 51
C F KV QR G A +++ G
Sbjct: 49 GCGFLDKVMWAQRRGAKAVIVGDDEPGRG 77
>gnl|CDD|185202 PRK15302, PRK15302, hypothetical protein; Provisional.
Length = 229
Score = 26.6 bits (58), Expect = 1.4
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 4 RLFSYPDTHRHRLGPNYLQLPVNCPFATKVA 34
RL + T ++LG + L ++CP ATK A
Sbjct: 54 RLATLSATDVNQLGTKDVSLSISCPSATKAA 84
>gnl|CDD|181888 PRK09473, oppD, oligopeptide transporter ATP-binding component;
Provisional.
Length = 330
Score = 26.2 bits (58), Expect = 1.8
Identities = 8/12 (66%), Positives = 9/12 (75%)
Query: 18 PNYLQLPVNCPF 29
PN L+LP CPF
Sbjct: 283 PNLLRLPKGCPF 294
>gnl|CDD|224328 COG1410, MetH, Methionine synthase I, cobalamin-binding domain
[Amino acid transport and metabolism].
Length = 842
Score = 25.8 bits (57), Expect = 2.8
Identities = 5/38 (13%), Positives = 10/38 (26%)
Query: 6 FSYPDTHRHRLGPNYLQLPVNCPFATKVANYQRDGPMA 43
F R L +L ++ + N +
Sbjct: 236 FGLRGAVREVLNSVFLYEAISAGLDMAIVNAGKLLIYD 273
>gnl|CDD|222508 pfam14033, DUF4246, Protein of unknown function (DUF4246). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria and fungi.
Proteins in this family are typically between 392 and
644 amino acids in length.
Length = 496
Score = 25.7 bits (57), Expect = 3.2
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 3 GRLFSYPDTHRHRLGP 18
GRL ++P+T +HR+ P
Sbjct: 436 GRLLAFPNTLQHRVEP 451
>gnl|CDD|239038 cd02123, PA_C_RZF_like, PA_C-RZF_ like: Protease-associated (PA)
domain C_RZF-like. This group includes various PA
domain-containing proteins similar to C-RZF (chicken
embryo RING zinc finger) protein. These proteins
contain a C3H2C3 RING finger. C-RZF is expressed in
embryo cells and is restricted mainly to brain and
heart, it is localized to both the nucleus and
endosomes. Additional C3H2C3 RING finger proteins
belonging to this group, include Arabidopsis ReMembR-H2
protein and mouse sperizin. ReMembR-H2 is likely to be
an integral membrane protein, and to traffic through
the endosomal pathway. Sperizin is expressed in haploid
germ cells and localized in the cytoplasm, it may
participate in spermatogenesis. The significance of the
PA domain to these proteins has not been ascertained.
It may be a protein-protein interaction domain. At
peptidase active sites, the PA domain may participate
in substrate binding and/or promoting conformational
changes, which influence the stability and
accessibility of the site to substrate.
Length = 153
Score = 24.6 bits (54), Expect = 5.1
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 26 NCPFATKVANYQRDGPMA 43
NC F TKV N QR G A
Sbjct: 77 NCSFETKVRNAQRAGYKA 94
>gnl|CDD|239040 cd02125, PA_VSR, PA_VSR: Protease-associated (PA)
domain-containing plant vacuolar sorting receptor
(VSR). This group includes various PA domain-containing
VSRs such as garden pea BP-80, pumpkin PV72, and
various Arabidopsis VSRs including AtVSR1. In contrast
to most eukaryotes, which only have one or two VSRs,
plants have several. This may in part be a reflection
of having a more complex vacuolar system with both
lytic vacuoles and storage vacuoles. The lytic vacuole
is thought to be equivalent to the mammalian lysosome
and the yeast vacuole. Pea BP-80 is a type 1
transmembrane protein, involved in the targeting of
proteins to the lytic vacuole; it has been suggested
that this protein also mediates targeting to the
storage vacuole. PV72 and AtVSR1 may mediate transport
of seed storage proteins to protein storage vacuoles.
The significance of the PA domain to VSRs has not been
ascertained. It may be a protein-protein interaction
domain. At peptidase active sites, the PA domain may
participate in substrate binding and/or promoting
conformational changes, which influence the stability
and accessibility of the site to substrate.
Length = 127
Score = 24.4 bits (53), Expect = 5.9
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 27 CPFATKVANYQRDGPMA 43
C F K N Q+ G A
Sbjct: 53 CFFTLKAWNAQQAGAAA 69
>gnl|CDD|236549 PRK09528, lacY, galactoside permease; Reviewed.
Length = 420
Score = 24.5 bits (54), Expect = 7.2
Identities = 10/26 (38%), Positives = 17/26 (65%), Gaps = 2/26 (7%)
Query: 51 PNYFPNSFSGPQESER--GRLSTFAV 74
PN+F + F+ P++ R G L++F V
Sbjct: 247 PNFFASFFATPEQGTRVFGYLNSFQV 272
>gnl|CDD|184640 PRK14351, ligA, NAD-dependent DNA ligase LigA; Provisional.
Length = 689
Score = 24.3 bits (53), Expect = 9.2
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 20 YLQLPVNCPFATKVANYQRDGPMAF 44
+ P CP + +RDGP+AF
Sbjct: 419 TFEFPDTCPVCD--SAVERDGPLAF 441
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
0.319 0.137 0.429
Gapped
Lambda K H
0.267 0.0853 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,009,411
Number of extensions: 291928
Number of successful extensions: 205
Number of sequences better than 10.0: 1
Number of HSP's gapped: 192
Number of HSP's successfully gapped: 22
Length of query: 80
Length of database: 10,937,602
Length adjustment: 49
Effective length of query: 31
Effective length of database: 8,764,256
Effective search space: 271691936
Effective search space used: 271691936
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 (21.7 bits)
S2: 53 (24.0 bits)