RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7256
(398 letters)
>gnl|CDD|189008 cd09601, M1_APN_2, Peptidase M1 Aminopeptidase N family incudes
tricorn interacting factor F3, Endoplasmic reticulum
aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ). This
M1 peptidase family includes eukaryotic and bacterial
members: aminopeptidase N (APN), aminopeptidase Q (APQ,
laeverin), endoplasmic reticulum aminopeptidase 1
(ERAP1) as well as tricorn interacting factor F3.
Aminopeptidase N (APN; CD13; Alanyl aminopeptidase; EC
3.4.11.2), a Type II integral membrane protease,
consists of a small N-terminal cytoplasmic domain, a
single transmembrane domain and a large extracellular
ectodomain that contains the active site. It
preferentially cleaves neutral amino acids from the
N-terminus of oligopeptides and is present in a variety
of human tissues and cell types (leukocyte, fibroblast,
endothelial and epithelial cells). APN expression is
dysregulated in inflammatory diseases such as chronic
pain, rheumatoid arthritis, multiple sclerosis, systemic
sclerosis, systemic lupus erythematosus,
polymyositis/dermatomyosytis and pulmonary sarcoidosis,
and is enhanced in tumor cells such as melanoma, renal,
prostate, pancreas, colon, gastric and thyroid cancers.
It is considered a marker of differentiation since it is
predominantly expressed on stem cells and on cells of
the granulocytic and monocytic lineages at distinct
stages of differentiation. Thus, APN inhibition may lead
to the development of anti-cancer and anti-inflammatory
drugs. ERAP1 also known as endoplasmic reticulum
aminopeptidase associated with antigen processing
(ERAAP), adipocyte derived leucine aminopeptidase
(A-LAP) or aminopeptidase regulating tumor necrosis
factor receptor I (THFRI) shedding (ARTS-1), associates
with the closely related ER aminopeptidase ERAP2, for
the final trimming of peptides within the ER for
presentation by MHC class I molecules. ERAP1 is
associated with ankylosing spondylitis (AS), an
inflammatory arthritis that predominantly affects the
spine. ERAP1 also aids in the shedding of membrane-bound
cytokine receptors. The tricorn interacting factor F3,
together with factors F1 and F2, degrades the tricorn
protease products, producing free amino acids, thus
completing the proteasomal degradation pathway. F3 is
homologous to F2, but not F1, and shows a strong
preference for glutamate in the P1' position. APQ, also
known as laeverin, is specifically expressed in human
embryo-derived extravillous trophoblasts (EVTs) that
invade the uterus during early placentation. It cleaves
the N-terminal amino acid of various peptides such as
angiotensin III, endokinin C, and kisspeptin-10, all
expressed in the placenta in large quantities. APN is a
receptor for coronaviruses, although the virus receptor
interaction site seems to be distinct from the enzymatic
site and aminopeptidase activity is not necessary for
viral infection. APNs are also putative Cry toxin
receptors. Cry1 proteins are pore-forming toxins that
bind to the midgut epithelial cell membrane of
susceptible insect larvae, causing extensive damage.
Several different toxins, including Cry1Aa, Cry1Ab,
Cry1Ac, Cry1Ba, Cry1Ca and Cry1Fa, have been shown to
bind to APNs; however, a direct role of APN in
cytotoxicity has been yet to be firmly established.
Length = 446
Score = 67.6 bits (166), Expect = 3e-12
Identities = 21/39 (53%), Positives = 25/39 (64%)
Query: 137 HKYGNAETKDFWSVLSKHSNHSINVKAIMDTWSRQMGFP 175
H YGNA T D W LS+ S +VK IMDTW+ Q G+P
Sbjct: 408 HAYGNATTDDLWEALSEASKLGKDVKEIMDTWTLQPGYP 446
>gnl|CDD|223385 COG0308, PepN, Aminopeptidase N [Amino acid transport and
metabolism].
Length = 859
Score = 48.2 bits (115), Expect = 6e-06
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 137 HKYGNAETKDFWSVLSKHSNHSINVKAIMDTWSRQMGFPVIRISR 181
H GNA T D W L S ++ A ++W Q G+PV+ +S
Sbjct: 430 HAGGNATTMDLWKALEDASG--KDLSAFFESWLSQAGYPVLTVSV 472
>gnl|CDD|234038 TIGR02865, spore_II_E, stage II sporulation protein E. Stage II
sporulation protein E (SpoIIE) is a multiple membrane
spanning protein with two separable functions. It plays
a role in the switch to polar cell division during
sporulation. By means of it protein phosphatase
activity, located in the C-terminal region, it activates
sigma-F. All proteins that score above the trusted
cutoff to this model are found in endospore-forming
Gram-positive bacteria. Surprisingly, a sequence from
the Cyanobacterium-like (and presumably
non-spore-forming) photosynthesizer Heliobacillus
mobilis is homologous, and scores between the trusted
and noise cutoffs [Cellular processes, Sporulation and
germination].
Length = 764
Score = 30.4 bits (69), Expect = 1.9
Identities = 31/144 (21%), Positives = 50/144 (34%), Gaps = 40/144 (27%)
Query: 282 KLIMKKDNPEEKEKLE-------------WERK--YLHKIMLKFLNVVEN-IPEEGDIPS 325
KL MK+ + E L W+R+ Y + M + + +E +P
Sbjct: 339 KLTMKRKSSYLLENLAERVCQSCNMKHRCWKREFDYTYSAMEELIENLEEKKDPNSKLPD 398
Query: 326 NIVRYCERFIEFNST----------------RVPSERKLLLKVKAFFKDMDVGSGARSLE 369
R C + E +T R+ R+L V K + A S+E
Sbjct: 399 EFERKCIKRKELINTTEDILNNYIINEMWRKRLEEGRRL---VAEQLKGV-----AESVE 450
Query: 370 QSLETIELNIHWVRRNEEPIFQWL 393
+ I L I + + EE I + L
Sbjct: 451 DIAKEINLEIVFHQLLEEKIIRAL 474
>gnl|CDD|233857 TIGR02412, pepN_strep_liv, aminopeptidase N, Streptomyces lividans
type. This family is a subset of the members of the
zinc metallopeptidase family M1 (pfam01433), with a
single member characterized in Streptomyces lividans 66
and designated aminopeptidase N. The spectrum of
activity may differ somewhat from the aminopeptidase N
clade of E. coli and most other Proteobacteria, well
separated phylogenetically within the M1 family. The M1
family also includes leukotriene A-4
hydrolase/aminopeptidase (with a bifunctional active
site).
Length = 831
Score = 29.8 bits (67), Expect = 2.9
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 2/42 (4%)
Query: 137 HKYGNAETKDFWSVLSKHSNHSINVKAIMDTWSRQMGFPVIR 178
H +GNA D L+K S ++ A D W G +
Sbjct: 409 HAFGNATLDDLIDSLAKASGR--DLSAWSDAWLETAGVNTLT 448
>gnl|CDD|218122 pfam04515, Choline_transpo, Plasma-membrane choline transporter.
This family represents a high-affinity plasma-membrane
choline transporter in C.elegans which is thought to be
rate-limiting for ACh synthesis in cholinergic nerve
terminals.
Length = 327
Score = 29.5 bits (67), Expect = 3.4
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 42 RALIIASVVLSILFLSSLIIAYV 64
RAL+ + +LFL L ++ +
Sbjct: 241 RALVNDGLGGFVLFLGKLFVSAL 263
>gnl|CDD|189010 cd09603, M1_APN_4, Peptidase M1 family Aminopeptidase N. This
family contains mostly bacterial and some archaeal
aminopeptidase N (APN; CD13; Alanyl aminopeptidase; EC
3.4.11.2), a Type II integral membrane protease
belonging to the M1 gluzincin family. APN consists of a
small N-terminal cytoplasmic domain, a single
transmembrane domain and a large extracellular
ectodomain that contains the active site. It
preferentially cleaves neutral amino acids from the
N-terminus of oligopeptides and, in higher eukaryotes,
is present in a variety of human tissues and cell types
(leukocyte, fibroblast, endothelial and epithelial
cells). APN expression is dysregulated in inflammatory
diseases such as chronic pain, rheumatoid arthritis,
multiple sclerosis, systemic sclerosis, systemic lupus
erythematosus, polymyositis/dermatomyosytis and
pulmonary sarcoidosis, and is enhanced in tumor cells
such as melanoma, renal, prostate, pancreas, colon,
gastric and thyroid cancers. It is predominantly
expressed on stem cells and on cells of the granulocytic
and monocytic lineages at distinct stages of
differentiation, thus considered a marker of
differentiation. Thus, APN inhibition may lead to the
development of anti-cancer and anti-inflammatory drugs.
APNs are also present in many pathogenic bacteria and
represent potential drug targets, Some APNs have been
used commercially, such as one from Lactococcus lactis
used in the food industry. APN also serves as a receptor
for coronaviruses, although the virus receptor
interaction site seems to be distinct from the enzymatic
site and aminopeptidase activity is not necessary for
viral infection. APNs have also been extensively studied
as putative Cry toxin receptors. Cry1 proteins are
pore-forming toxins that bind to the midgut epithelial
cell membrane of susceptible insect larvae, causing
extensive damage. Several different toxins, including
Cry1Aa, Cry1Ab, Cry1Ac, Cry1Ba, Cry1Ca and Cry1Fa, have
been shown to bind to APNs; however, a direct role of
APN in cytotoxicity has been yet to be firmly
established.
Length = 415
Score = 29.5 bits (67), Expect = 3.7
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 134 TSSHKYGNAETKDFWSVLSKHSNHSINVKAIMDTWSRQMGFP 175
+ H+ GN T+DF ++ + S ++ A D W G P
Sbjct: 376 LAEHRGGNVTTEDFRALAEEVS--GRDLDAFFDQWLYGAGLP 415
>gnl|CDD|236903 PRK11380, PRK11380, hypothetical protein; Provisional.
Length = 353
Score = 29.1 bits (65), Expect = 3.7
Identities = 21/81 (25%), Positives = 32/81 (39%), Gaps = 12/81 (14%)
Query: 186 HSSNS---STTPAPPPMIEYSATQTRFLL------TNEPYGRNDSKLLLPRSPYDYKWYV 236
H +N+ + AP MI A F N G++ +KL+ D W +
Sbjct: 196 HGANTFKANMEEAPEQMIALLAKLAVFPSDYISDCANHSSGKSPAKLIWA---ADLSWMI 252
Query: 237 PLSYYTDQTGYKEQEIVWMNM 257
LS Q G E+E+ W +
Sbjct: 253 SLSRTAFQAGTIEEELAWHYI 273
>gnl|CDD|189009 cd09602, M1_APN_3, Peptidase M1 family containing Aminopeptidase N.
This family contains bacterial and eukaryotic
aminopeptidase N (APN; CD13; Alanyl aminopeptidase; EC
3.4.11.2), a Type II integral membrane protease
belonging to the M1 gluzincin family. APN consists of a
small N-terminal cytoplasmic domain, a single
transmembrane domain and a large extracellular
ectodomain that contains the active site. It
preferentially cleaves neutral amino acids from the
N-terminus of oligopeptides and, in higher eukaryotes,
is present in a variety of human tissues and cell types
(leukocyte, fibroblast, endothelial and epithelial
cells). APN expression is dysregulated in inflammatory
diseases such as chronic pain, rheumatoid arthritis,
multiple sclerosis, systemic sclerosis, systemic lupus
erythematosus, polymyositis/dermatomyosytis and
pulmonary sarcoidosis, and is enhanced in tumor cells
such as melanoma, renal, prostate, pancreas, colon,
gastric and thyroid cancers. It is predominantly
expressed on stem cells and on cells of the granulocytic
and monocytic lineages at distinct stages of
differentiation, thus considered a marker of
differentiation. Thus, APN inhibition may lead to the
development of anti-cancer and anti-inflammatory drugs.
APNs are also present in many pathogenic bacteria and
represent potential drug targets, Some APNs have been
used commercially, such as one from Lactococcus lactis
used in the food industry. APN also serves as a receptor
for coronaviruses, although the virus receptor
interaction site seems to be distinct from the enzymatic
site and aminopeptidase activity is not necessary for
viral infection. APNs have also been extensively studied
as putative Cry toxin receptors. Cry1 proteins are
pore-forming toxins that bind to the midgut epithelial
cell membrane of susceptible insect larvae, causing
extensive damage. Several different toxins, including
Cry1Aa, Cry1Ab, Cry1Ac, Cry1Ba, Cry1Ca and Cry1Fa, have
been shown to bind to APNs; however, a direct role of
APN in cytotoxicity has been yet to be firmly
established.
Length = 438
Score = 29.5 bits (67), Expect = 3.9
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 137 HKYGNAETKDFWSVLSKHSNHSINVKAIMDTWSRQM 172
H +GNA DF L + S + WS+
Sbjct: 404 HAFGNATLADFLGALDEASGRD------LSAWSQVW 433
>gnl|CDD|131473 TIGR02420, dksA, RNA polymerase-binding protein DksA. The model
that is the basis for this family describes a small,
pleiotropic protein, DksA (DnaK suppressor A),
originally named as a multicopy suppressor of
temperature sensitivity of dnaKJ mutants. DksA mutants
are defective in quorum sensing, virulence, etc. DksA is
now understood to bind RNA polymerase directly and
modulate its response to small molecules to control the
level of transcription of rRNA. Nearly all members of
this family are in the Proteobacteria. Whether the
closest homologs outside the Proteobacteria function
equivalently is unknown. The low value set for the noise
cutoff allows identification of possible DksA proteins
from outside the proteobacteria. TIGR02419 describes a
closely related family of short sequences usually found
in prophage regions of proteobacterial genomes or in
known phage [Transcription, Transcription factors,
Regulatory functions, Small molecule interactions].
Length = 110
Score = 28.0 bits (63), Expect = 3.9
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 296 LEWERKYLHKI--MLKFL-NVVENIPEEGDIPSNIVRYCERFIEF-NSTRVPSERKLLLK 351
L W+++ L + L+ L EN P+ D + + ER +E R ERKL+ K
Sbjct: 14 LRWKQELLEEADKTLEHLQEESENFPDPADRAT---QEEERALELRTRDR---ERKLIKK 67
Query: 352 VKAFFKDMDVGS 363
+ K ++ G
Sbjct: 68 IDEALKRIEDGE 79
>gnl|CDD|240404 PTZ00402, PTZ00402, glutamyl-tRNA synthetase; Provisional.
Length = 601
Score = 29.2 bits (65), Expect = 4.4
Identities = 27/88 (30%), Positives = 39/88 (44%), Gaps = 11/88 (12%)
Query: 143 ETKDFWSVLSKHSNHS----INVKAIMDTWSRQMGFPVIRISRITPQHSSNSSTTPAPP- 197
ETK W+ + K S + K +D ++ M PVI +TP H+ + A P
Sbjct: 174 ETKRLWNEMKKGSAEGQETCLRAKISVDNENKAMRDPVIYRVNLTP-HARQGTKYKAYPT 232
Query: 198 -----PMIEYSATQTRFLLTNEPYGRND 220
P+I+ T L TNE + RND
Sbjct: 233 YDFCCPIIDSVEGVTHALRTNEYHDRND 260
>gnl|CDD|182589 PRK10614, PRK10614, multidrug efflux system subunit MdtC;
Provisional.
Length = 1025
Score = 28.9 bits (65), Expect = 5.9
Identities = 26/77 (33%), Positives = 34/77 (44%), Gaps = 16/77 (20%)
Query: 78 VFLQDEDLNGAKRPV---IPIATSGEVFPWNNVRLPTSTGMP-RPKTSGVSSANIP-TIL 132
F D D+NGA R V I A S LP +GMP RP + ++ P IL
Sbjct: 94 QFDFDRDINGAARDVQAAINAAQS---------LLP--SGMPSRPTYRKANPSDAPIMIL 142
Query: 133 STSSHKYGNAETKDFWS 149
+ +S Y + DF S
Sbjct: 143 TLTSDTYSQGQLYDFAS 159
>gnl|CDD|221257 pfam11838, DUF3358, Domain of unknown function (DUF3358). This
domain is functionally uncharacterized. This domain is
found in eukaryotes and bacteria. This domain is found
to the C-terminus of an aminopeptidase domain.
Length = 323
Score = 28.4 bits (64), Expect = 6.7
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 344 SERKLLLKVKAFFKDMDVGSGA--RSLEQSLETIE 376
S +LL +V+AF + RSL Q+L+TI
Sbjct: 289 SSAELLDEVEAFLARKPKDTPGLRRSLAQALDTIR 323
>gnl|CDD|218031 pfam04335, VirB8, VirB8 protein. VirB8 is a bacterial virulence
protein with cytoplasmic, transmembrane, and
periplasmic regions. It is thought that it is a primary
constituent of a DNA transporter. The periplasmic
region interacts with VirB9, VirB10, and itself. This
family also includes the conjugal transfer protein
family TrbF, a family of proteins known to be involved
in conjugal transfer. The TrbF protein is thought to
compose part of the pilus required for transfer. This
domain has a similar fold to the NTF2 protein.
Length = 208
Score = 28.0 bits (63), Expect = 7.9
Identities = 8/37 (21%), Positives = 17/37 (45%)
Query: 31 EHNGVAVCSQNRALIIASVVLSILFLSSLIIAYVGPQ 67
+ G A + R ++A L++ L+ +A + P
Sbjct: 8 DRIGSARVQRRRWWLVAFGSLALAVLAVGAVAVLAPL 44
>gnl|CDD|218439 pfam05109, Herpes_BLLF1, Herpes virus major outer envelope
glycoprotein (BLLF1). This family consists of the BLLF1
viral late glycoprotein, also termed gp350/220. It is
the most abundantly expressed glycoprotein in the viral
envelope of the Herpesviruses and is the major antigen
responsible for stimulating the production of
neutralising antibodies in vivo.
Length = 830
Score = 28.2 bits (62), Expect = 8.9
Identities = 22/114 (19%), Positives = 42/114 (36%), Gaps = 8/114 (7%)
Query: 92 VIPIATSGEVFPWNNVRLPTSTGMPRPKTSGVSSANIPTILSTSSHKYGNAETKDFWSVL 151
VI + T V P +PT+ +P T S PT S + ++ + S
Sbjct: 432 VIFVYTLVHVEPHKTTAVPTTPSLPPASTGPTVSTADPT--SGTPTGTTSSTLPEDTSPT 489
Query: 152 SKHSNHSINVKAIMDTWSRQMGFPVIRISRITPQHSSNSSTTPAPPPMIEYSAT 205
S+ ++ + N + + T Q +S++ +P P++ T
Sbjct: 490 SRTTSATPNATSPTPA------VTTPNATSPTTQKTSDTPNATSPTPIVIGVTT 537
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
0.317 0.133 0.407
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,318,685
Number of extensions: 1934130
Number of successful extensions: 1872
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1871
Number of HSP's successfully gapped: 25
Length of query: 398
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 299
Effective length of database: 6,546,556
Effective search space: 1957420244
Effective search space used: 1957420244
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 (21.7 bits)
S2: 60 (26.8 bits)