RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13321
(144 letters)
>gnl|CDD|133118 cd06908, M14_AGBL4_like, Peptidase M14-like domain of ATP/GTP
binding protein AGBL-4 and related proteins. Peptidase
M14-like domain of ATP/GTP binding protein_like
(AGBL)-4, and related proteins. The Peptidase M14 family
of metallocarboxypeptidases are zinc-binding
carboxypeptidases (CPs) which hydrolyze single,
C-terminal amino acids from polypeptide chains, and have
a recognition site for the free C-terminal carboxyl
group, which is a key determinant of specificity. This
eukaryotic subgroup includes the human AGBL4 and the
mouse cytosolic carboxypeptidase (CCP)-6. ATP/GTP
binding protein (AGTPBP-1/Nna1)-like proteins are active
metallopeptidases that are thought to act on cytosolic
proteins such as alpha-tubulin, to remove a C-terminal
tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell
degeneration (pcd). AGTPBP-1/Nna1 however does not
belong to this subgroup. AGTPBP-1/Nna1-like proteins
from the different phyla are highly diverse, but they
all contain a unique N-terminal conserved domain right
before the CP domain. It has been suggested that this
N-terminal domain might act as a folding domain.
Length = 261
Score = 57.4 bits (139), Expect = 8e-11
Identities = 25/47 (53%), Positives = 31/47 (65%)
Query: 8 PGISTALTLITSLNQDKNLELDFIIDLHAHSSLKGLFIYGNSYDDIY 54
P + L+ L+ D +LDF IDLHAHSSL FIYGN+YDD+Y
Sbjct: 124 PTLHAVKNLLKELDNDSTTQLDFYIDLHAHSSLMNCFIYGNTYDDVY 170
>gnl|CDD|199860 cd06236, M14_AGBL5_like, Peptidase M14-like domain of ATP/GTP
binding protein (AGBL)-5 and related proteins.
Peptidase M14-like domain of ATP/GTP binding
protein_like (AGBL)-5, and related proteins. The
Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This eukaryotic subgroup includes the human
AGBL5 and the mouse cytosolic carboxypeptidase (CCP)-5.
ATP/GTP binding protein (AGTPBP-1/Nna1)-like proteins
are active metallopeptidases that are thought to act on
cytosolic proteins such as alpha-tubulin, to remove a
C-terminal tyrosine. Mutations in AGTPBP-1/Nna1 cause
Purkinje cell degeneration (pcd). AGTPBP-1/Nna1 however
does not belong to this subgroup. AGTPBP-1/Nna1-like
proteins from the different phyla are highly diverse,
but they all contain a unique N-terminal conserved
domain right before the CP domain. It has been suggested
that this N-terminal domain might act as a folding
domain.
Length = 308
Score = 51.2 bits (123), Expect = 2e-08
Identities = 24/53 (45%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 2 NPSKGN-PGISTALTLITSLNQDKNLELDFIIDLHAHSSLKGLFIYGNSYDDI 53
NP P I A L+ L++ L F IDLH H+S +G FIYGNS DD
Sbjct: 142 NPDPQLHPSIYAAKALLLYLHEHFESGLAFYIDLHGHASKRGCFIYGNSLDDE 194
>gnl|CDD|199859 cd06235, M14_Nna1_like_2, Peptidase M14-like domain of human
Nna1/AGTPBP-1, AGBL2 -5, and related proteins. Subgroup
of the Peptidase M14-like domain of Nna-1 (Nervous
system Nuclear protein induced by Axotomy), also known
as ATP/GTP binding protein (AGTPBP-1) and cytosolic
carboxypeptidase (CCP), and related proteins. The
Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This eukaryotic subgroup includes the human
Nna1/AGTPBP-1 and AGBL -2, -3, -4, and -5, and the mouse
Nna1/CCP-1 and CCP -2 through -6. Nna1-like proteins are
active metallopeptidases that are thought to act on
cytosolic proteins such as alpha-tubulin, to remove a
C-terminal tyrosine. Nna1 is widely expressed in the
developing and adult nervous systems, including
cerebellar Purkinje and granule neurons, miral cells of
the olfactory bulb and retinal photoreceptors. Nna1 is
also induced in axotomized motor neurons. Mutations in
Nna1 cause Purkinje cell degeneration (pcd). The Nna1 CP
domain is required to prevent the retinal photoreceptor
loss and cerebellar ataxia phenotypes of pcd mice, and a
functional zinc-binding domain is needed for Nna-1 to
support neuron survival in these mice. Nna1-like
proteins from the different phyla are highly diverse,
but they all contain a unique N-terminal conserved
domain right before the CP domain. It has been suggested
that this N-terminal domain might act as a folding
domain.
Length = 258
Score = 46.0 bits (110), Expect = 1e-06
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 16 LITSLNQDKNLELDFIIDLHAHSSLKGLFIYGNSYDDIYSSR 57
LI L+Q++N+ IDLH HS K F+YG D +
Sbjct: 134 LIKKLSQERNII--LFIDLHGHSRKKNSFMYGCENSDDPLNY 173
>gnl|CDD|112235 pfam03410, Peptidase_M44, Protein G1. Protein G1, named after the
vaccinia virus protein, is a glycoprotein expressed by
many Poxviridae.
Length = 590
Score = 29.4 bits (66), Expect = 0.58
Identities = 18/40 (45%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 44 FIYGNSYDDIYSSRASLVSLALPCK-RWVAGNLGRVDFTS 82
F GNS DI R SLVS A CK + V G R D +
Sbjct: 456 FASGNSIADILERRESLVSFARRCKNKIVFGKRARYDVVT 495
>gnl|CDD|199876 cd06909, M14_ASPA, Peptidase M14 Aspartoacylase (ASPA) subfamily.
Aspartoacylase (ASPA) belongs to the Succinylglutamate
desuccinylase/aspartoacylase subfamily of the M14 family
of metallocarboxypeptidases. ASPA (also known as
aminoacylase 2; EC:3.5.1.15) cleaves N-acetyl L-aspartic
acid (NAA) into aspartate and acetate. NAA is abundant
in the brain, and hydrolysis of NAA by ASPA may help
maintain white matter. ASPA is an NAA scavenger in other
tissues. Mutations in the gene encoding ASPA cause
Canavan disease (CD), a fatal progressive
neurodegenerative disorder involving dysmyelination and
spongiform degeneration of white matter in children.
This enzyme binds zinc which is necessary for activity.
Measurement of elevated NAA levels in urine is used in
the diagnosis of CD.
Length = 282
Score = 27.2 bits (61), Expect = 2.8
Identities = 12/42 (28%), Positives = 18/42 (42%)
Query: 29 DFIIDLHAHSSLKGLFIYGNSYDDIYSSRASLVSLALPCKRW 70
DFIIDLH ++ GL + A+ + L C +
Sbjct: 96 DFIIDLHNTTANMGLTLILYGRRPFDLHLAAYLQSKLGCPIY 137
>gnl|CDD|199841 cd03856, M14_Nna1_like, Peptidase M14-like domain of ATP/GTP
binding proteins, cytosolic carboxypeptidases and
related proteins. Peptidase M14-like domain of Nna-1
(Nervous system Nuclear protein induced by Axotomy),
also known as ATP/GTP binding protein (AGTPBP-1) and
cytosolic carboxypeptidase (CCP), and related proteins.
The Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This subfamily includes the human AGTPBP-1
and AGBL -2, -3, -4, and -5, and the mouse Nna1/CCP-1
and CCP -2 through -6. Nna1-like proteins are active
metallopeptidases that are thought to act on cytosolic
proteins such as alpha-tubulin, to remove a C-terminal
tyrosine. Nna1 is widely expressed in the developing and
adult nervous systems, including cerebellar Purkinje and
granule neurons, miral cells of the olfactory bulb and
retinal photoreceptors. Nna1 is also induced in
axotomized motor neurons. Mutations in Nna1 cause
Purkinje cell degeneration (pcd). The Nna1 CP domain is
required to prevent the retinal photoreceptor loss and
cerebellar ataxia phenotypes of pcd mice, and a
functional zinc-binding domain is needed for Nna-1 to
support neuron survival in these mice. Nna1-like
proteins from the different phyla are highly diverse,
but they all contain a characteristic N-terminal
conserved domain right before the CP domain. It has been
suggested that this N-terminal domain might act as a
folding domain.
Length = 258
Score = 27.3 bits (60), Expect = 3.5
Identities = 11/47 (23%), Positives = 17/47 (36%), Gaps = 2/47 (4%)
Query: 2 NPS-KGNPGISTALTLITSLNQDKNLELDFIIDLHAHSSLKGLFIYG 47
NP+ P +TS+ Q + F +D H +F G
Sbjct: 127 NPNPFAQPETYLVRDKMTSIVQGGGK-IVFAVDFHGTFRKHDVFYTG 172
>gnl|CDD|215816 pfam00246, Peptidase_M14, Zinc carboxypeptidase.
Length = 277
Score = 26.9 bits (60), Expect = 3.6
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 28 LDFIIDLHAHSSLKGLFIYGNSYDDIYSSRASLVSLALP 66
IDLH +S L L+ YG +Y + L SLA
Sbjct: 166 FKLYIDLHGYSQLI-LYPYGYTYSSLPPDDEELKSLAKR 203
>gnl|CDD|133116 cd06906, M14_Nna1, Peptidase M14-like domain of ATP/GTP binding
proteins and cytosolic carboxypeptidases. Peptidase
M14-like domain of Nna-1 (Nervous system Nuclear protein
induced by Axotomy), also known as ATP/GTP binding
protein (AGTPBP-1) and cytosolic carboxypeptidase (CCP),
and related proteins. The Peptidase M14 family of
metallocarboxypeptidases are zinc-binding
carboxypeptidases (CPs) which hydrolyze single,
C-terminal amino acids from polypeptide chains, and have
a recognition site for the free C-terminal carboxyl
group, which is a key determinant of specificity. This
eukaryotic subgroup includes the mouse Nna1/CCP-1, and
-4 proteins, and the human Nna1/AGTPBP-1 protein.
Nna1-like proteins are active metallopeptidases that are
thought to act on cytosolic proteins such as
alpha-tubulin, to remove a C-terminal tyrosine. Nna1 is
widely expressed in the developing and adult nervous
systems, including cerebellar Purkinje and granule
neurons, miral cells of the olfactory bulb and retinal
photoreceptors. Nna1 is also induced in axotomized motor
neurons. Mutations in Nna1 cause Purkinje cell
degeneration (pcd). The Nna1 CP domain is required to
prevent the retinal photoreceptor loss and cerebellar
ataxia phenotypes of pcd mice, and a functional
zinc-binding domain is needed for Nna-1 to support
neuron survival in these mice. Nna1-like proteins from
the different phyla are highly diverse, but they all
contain a unique N-terminal conserved domain right
before the CP domain. It has been suggested that this
N-terminal domain might act as a folding domain.
Length = 278
Score = 27.1 bits (60), Expect = 3.7
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 8 PGISTALTLITSLNQDKNLELDFIIDLHAHSSLKGLFIYGNS 49
P I L+ L K L + D H HS K +F+YG S
Sbjct: 133 PTIYHTKGLLQYLAAIKRSPLVYC-DYHGHSRKKNVFMYGCS 173
>gnl|CDD|185753 cd09214, GH64-like, glycosyl hydrolase 64 family. This family is
represented by the laminaripentaose-producing,
beta-1,3-glucanase (LPHase) of Streptomyces matensis and
related bacterial and ascomycete proteins. LPHase is a
member of glycoside hydrolase family 64 (GH64), it is an
inverting enzyme involved in the cleavage of long-chain
polysaccharide beta-1,3-glucans, into specific
pentasaccharide oligomers. LPHase is a two-domain
crescent fold structure: one domain is composed of 10
beta-strands, eight coming from the N-terminus of the
protein and two from the C-terminal region, and the
protein has a second inserted domain; this cd includes
both domains. This protein has an electronegative,
substrate-binding cleft, and conserved Glu and Asp
residues involved in the cleavage of the
beta-1,3-glucan, laminarin, a plant and fungal cell wall
component. Among bacteria, many beta-1,3-glucanases are
implicated in fungal cell wall degradation. Also
included in this family is GluB , the beta-1,3-glucanase
B from Lysobacter enzymogenes Strain N4-7. Recombinant
GluB demonstrated higher relative activity toward the
branched-chain beta-1,3 glucan substrate zymosan A than
toward linear beta-1,3 glucan substrates. Sometimes
these two domains are found associated with other
domains such as in the Catenulispora acidiphila DSM
44928 carbohydrate binding family 6 protein in which
they are positioned N-terminal of a carbohydrate binding
module, family 6 (CBM_6) domain. In the
Cellulosimicrobium cellulans, glucan
endo-1,3-beta-glucosidase, they are positioned
N-terminal of a RICIN, carbohydrate-binding domain, and
in the Salinispora tropica CNB-440, coagulation factor
5/8 C-terminal domain (FA58C) protein, they are
positioned C-terminal of two FA58C domains which are
proposed to function as cell surface-attached,
carbohydrate-binding domain. This FA58C-containing
protein has an internal peptide deletion (of approx. 44
residues) in the LPHase domain II.
Length = 319
Score = 26.9 bits (60), Expect = 3.7
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 5/42 (11%)
Query: 35 HAHSSLKGLFIYGNSYDDIYSSRASLVSLALPCKRWVAGNLG 76
HAHS YG YDD+ ++S +S P LG
Sbjct: 283 HAHS--INGLAYGFPYDDVN-GQSSTLSTTDP--THATITLG 319
>gnl|CDD|133117 cd06907, M14_AGBL2-3_like, Peptidase M14-like domain of ATP/GTP
binding protein AGBL-2 and AGBL-3, and related proteins.
Peptidase M14-like domain of ATP/GTP binding
protein_like (AGBL)-2, and related proteins. The
Peptidase M14 family of metallocarboxypeptidases are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. This subgroup includes the human AGBL-2,
and -3, and the mouse cytosolic carboxypeptidase
(CCPs)-2, and -3. ATP/GTP binding protein
(AGTPBP-1/Nna1)-like proteins are active
metallopeptidases that are thought to act on cytosolic
proteins such as alpha-tubulin, to remove a C-terminal
tyrosine. Mutations in AGTPBP-1/Nna1 cause Purkinje cell
degeneration (pcd). AGTPBP-1/Nna1 however does not
belong to this subgroup. AGTPBP-1/Nna1-like proteins
from the different phyla are highly diverse, but they
all contain a unique N-terminal conserved domain right
before the CP domain. It has been suggested that this
N-terminal domain might act as a folding domain.
Length = 261
Score = 26.9 bits (60), Expect = 3.7
Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 16 LITSLNQDKNLELDFIIDLHAHSSLKGLFIYG 47
++ L +++ E+ DLH HS +F+YG
Sbjct: 135 MVKRLLEER--EVILYCDLHGHSRKNNVFMYG 164
>gnl|CDD|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term
repeat retroelements. Ribonuclease H (RNase H) enzymes
are divided into two major families, Type 1 and Type 2,
based on amino acid sequence similarities and
biochemical properties. RNase H is an endonuclease that
cleaves the RNA strand of an RNA/DNA hybrid in a
sequence non-specific manner in the presence of divalent
cations. RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote. RNase HI has
also been observed as adjunct domains to the reverse
transcriptase gene in retroviruses, in long-term repeat
(LTR)-bearing retrotransposons and non-LTR
retrotransposons. RNase HI in LTR retrotransposons
perform degradation of the original RNA template,
generation of a polypurine tract (the primer for
plus-strand DNA synthesis), and final removal of RNA
primers from newly synthesized minus and plus strands.
The catalytic residues for RNase H enzymatic activity,
three aspartatic acids and one glutamatic acid residue
(DEDD), are unvaried across all RNase H domains.
Phylogenetic patterns of RNase HI of LTR retroelements
is classified into five major families, Ty3/Gypsy,
Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate
retroviruses. Bel/Pao family has been described only in
metazoan genomes. RNase H inhibitors have been explored
as an anti-HIV drug target because RNase H inactivation
inhibits reverse transcription.
Length = 135
Score = 26.5 bits (59), Expect = 4.0
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 30 FIIDLHAHSSLKGLFIYGNSYDDIYSSRA 58
+I + AHS L G GN+ D + +A
Sbjct: 106 AVIHIRAHSGLPGPLALGNARADQAARQA 134
>gnl|CDD|182445 PRK10420, PRK10420, L-lactate permease; Provisional.
Length = 551
Score = 26.7 bits (59), Expect = 4.9
Identities = 12/19 (63%), Positives = 12/19 (63%)
Query: 52 DIYSSRASLVSLALPCKRW 70
DI SS SLV L L KRW
Sbjct: 251 DIISSLVSLVCLTLFLKRW 269
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
0.323 0.140 0.426
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,323,074
Number of extensions: 645347
Number of successful extensions: 455
Number of sequences better than 10.0: 1
Number of HSP's gapped: 455
Number of HSP's successfully gapped: 16
Length of query: 144
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 56
Effective length of database: 7,034,450
Effective search space: 393929200
Effective search space used: 393929200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.5 bits)