RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13169
(129 letters)
>gnl|CDD|189018 cd09839, M1_TAF2, TATA binding protein (TBP) associated factor 2.
This family includes TATA binding protein (TBP)
associated factor 2 (TAF2, TBP-associated factor
TAFII150, transcription initiation factor TFIID subunit
2, RNA polymerase II TBP-associated factor subunit B),
and has homology to the aminopeptidase N (APN)
subfamily, belonging to the M1 gluzincin family. TAF2 is
part of the TFIID multidomain subunit complex essential
for transcription of most protein-encoded genes by RNA
polymerase II. TAF2 is known to interact with the
initiator element (Inr) found at the transcription start
site of many genes, thus possibly playing a key role in
promoter binding as well as start-site selection. Image
analysis has shown TAF2 to form a complex with TAF1 and
TBP, inferring its role in promoter recognition.
Peptidases in the M1 family bind a single catalytic zinc
ion which is tetrahedrally co-ordinated by three amino
acid ligands and a water molecule that forms the
nucleophile on activation during catalysis. TAF2,
however, does not seem to contain any of the active site
residues.
Length = 507
Score = 125 bits (315), Expect = 8e-35
Identities = 46/90 (51%), Positives = 60/90 (66%), Gaps = 5/90 (5%)
Query: 36 GVHFVVPEGDGTLVDRNAHLFTCPHE-NSARLWFPCIDTYSEVCTWRLEFTVDENLTAVS 94
G+HFV P+ + +R H+FT SAR WFPC+D S++CTW LEFTV N+ AVS
Sbjct: 131 GLHFVGPDPEA---ERYPHVFTYNSIHGSARCWFPCVDDPSQLCTWELEFTVPANMVAVS 187
Query: 95 CGDLIEVVY-TPDMRRKTFFYSLNIPAPAP 123
GDL+E VY T DMR+KT+ Y+L +P A
Sbjct: 188 SGDLLEQVYDTEDMRKKTYHYALTVPTAAQ 217
>gnl|CDD|189002 cd09595, M1, Peptidase M1 family contains aminopeptidase N and
leukotriene A4 hydrolase. M1 Peptidase family includes
aminopeptidase N (APN) and leukotriene A4 hydrolase
(LTA4H). All peptidases in this family bind a single
catalytic zinc ion which is tetrahedrally co-ordinated
by three amino acid ligands and a water molecule that
forms the nucleophile on activation during catalysis.
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 is present in a variety
of human tissues and cell types. APN expression is
dysregulated in many inflammatory diseases and is
enhanced in numerous tumor cells, making it a lead
target in the development of anti-cancer and
anti-inflammatory drugs. LTA4H is a bifunctional enzyme,
possessing an aminopeptidase as well as an epoxide
hydrolase activity. The two activities occupy different,
but overlapping sites. The activity and physiological
relevance of the aminopeptidase in LTA4H is as yet
unknown while the epoxide hydrolase converts leukotriene
A4 (LTA4) into leukotriene B4 (LTB4), a potent
chemotaxin that is fundamental to the inflammatory
response of mammals.
Length = 407
Score = 63.6 bits (155), Expect = 6e-13
Identities = 24/82 (29%), Positives = 32/82 (39%), Gaps = 5/82 (6%)
Query: 42 PEGDGTLVDRNAHLFTCPHENSARLWFPCIDTYSEV-CTWRLEFTVDENLTAVSCGDLIE 100
G T A LF+ AR WFPC D V + D+ L A S G+ +
Sbjct: 94 GLGWQTAGAEGAFLFSQGEAIGARSWFPCQDRPDSVATYYTTVTVPDKTLVAASNGNKDD 153
Query: 101 VVYTPDMRRKTFFYSLNIPAPA 122
++RRK +S IP
Sbjct: 154 G----EVRRKWVEFSPPIPIAP 171
>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 = 54.5 bits (132), Expect = 1e-09
Identities = 22/81 (27%), Positives = 33/81 (40%), Gaps = 2/81 (2%)
Query: 42 PEGDGTLVDRNAHLFTCPHENSARLWFPCIDTYSEVCTWRLEFTVDENLTAVSCGDLIEV 101
GDG + ++T A WFPC D S+ T+ + TV T VS G L+
Sbjct: 94 WGGDGGWEEGPDGVWTAGQPEGASTWFPCNDHPSDKATFDISVTVPAGYTVVSNGRLVSR 153
Query: 102 VYTPDMRRKTFFYSLNIPAPA 122
R T+ + ++ P
Sbjct: 154 TDLGG--RTTWHWRMDEPMAT 172
>gnl|CDD|216501 pfam01433, Peptidase_M1, Peptidase family M1. Members of this
family are aminopeptidases. The members differ widely in
specificity, hydrolysing acidic, basic or neutral
N-terminal residues. This family includes leukotriene-A4
hydrolase, this enzyme also has an aminopeptidase
activity.
Length = 390
Score = 44.6 bits (106), Expect = 3e-06
Identities = 17/52 (32%), Positives = 21/52 (40%)
Query: 63 SARLWFPCIDTYSEVCTWRLEFTVDENLTAVSCGDLIEVVYTPDMRRKTFFY 114
AR FPC D S T+ + + TA+S IE D R T F
Sbjct: 134 DARRAFPCFDEPSVKATFDITINHPADYTALSNMPEIESEPLDDGRVITEFE 185
>gnl|CDD|223385 COG0308, PepN, Aminopeptidase N [Amino acid transport and
metabolism].
Length = 859
Score = 41.3 bits (97), Expect = 4e-05
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 3/67 (4%)
Query: 62 NSARLWFPCIDTYSEVCTWRLEFTVDENLTAVSCGDLIEVVYTPDMRRKTFFYSLNIPAP 121
AR FPCID T+ L D+ +S G+LI+ D R+ F P
Sbjct: 143 EGARRIFPCIDEPDVKATFTLTIRADKGPKLISNGNLIDGGTLVDGRKIVKF---EDTPP 199
Query: 122 APSLEIY 128
P+
Sbjct: 200 MPTYLFA 206
>gnl|CDD|189006 cd09599, M1_LTA4H, Peptidase M1 family contains leukotriene A4
hydrolase. This family includes leukotriene A4
hydrolase (LTA4H; E.C. 3.3.2.6) and the close homolog
cold-active aminopeptidase (Colwellia
psychrerythraea-type peptidase; ColAP), both members of
the aminopeptidase M1 family. LTA4H, is a bifunctional
enzyme possessing an aminopeptidase as well as an
epoxide hydrolase activity. The two activities occupy
different, but overlapping sites. The activity and
physiological relevance of the aminopeptidase is as yet
unknown while the epoxide hydrolase converts leukotriene
A4 (LTA4) into leukotriene B4 (LTB4), a potent
chemotaxin that is fundamental to the inflammatory
response of mammals. It accepts a variety of substrates,
including some opioid, di- and tripeptides, as well as
chromogenic aminoacyl-p-nitroanilide derivatives. The
aminopeptidase activity of LTA4H is possibly involved in
the processing of peptides related to inflammation and
host defense. Kinetic analysis shows that LTA4H
hydrolyzes arginyl tripeptides with high efficiency and
specificity, indicating its function as an arginyl
aminopeptidase. LTA4H is overexpressed in certain human
cancers, and has been identified as a functionally
important target for mediating anticancer properties of
resveratrol, a well known red wine polyphenolic compound
with cancer chemopreventive activity.
Length = 442
Score = 39.0 bits (92), Expect = 3e-04
Identities = 23/68 (33%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 55 LFTCPHENSARLWFPCIDTYSEVCTWRLEFTVDENLTAVSCGDLIEVVYTPDMRRKTFFY 114
LF+ AR FPC DT S T+ TV + LTA+ I V + RKT+ +
Sbjct: 127 LFSQCQAIHARSLFPCQDTPSVKSTYSATVTVPKELTALMSA--IPPVEDGEEPRKTYHF 184
Query: 115 SLNIPAPA 122
+P P+
Sbjct: 185 EQPVPIPS 192
>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 = 32.9 bits (76), Expect = 0.029
Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 6/54 (11%)
Query: 63 SARLWFPCIDTYSEVC---TWRLEFTVDENLTAVSCGDLIEVVYTPDMRRKTFF 113
AR FPC D E T+ + T TA+S + D + T F
Sbjct: 125 DARRAFPCFD---EPAFKATFTITITHPAGYTALSNMPVESEEVLGDGWKTTEF 175
>gnl|CDD|189011 cd09604, M1_APN_5, Peptidase M1 family containing bacterial
Aminopeptidase N. This family contains bacterial
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 = 435
Score = 29.2 bits (66), Expect = 0.48
Identities = 9/42 (21%), Positives = 15/42 (35%)
Query: 74 YSEVCTWRLEFTVDENLTAVSCGDLIEVVYTPDMRRKTFFYS 115
YS+ + + TV V+ G L E + F +
Sbjct: 153 YSDFADYDVTLTVPAGYIVVATGRLQEETTEDGGTKTWEFEA 194
>gnl|CDD|235454 PRK05421, PRK05421, hypothetical protein; Provisional.
Length = 263
Score = 26.8 bits (60), Expect = 2.9
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 97 DLIEVVYTPDMRRKTFFYSL 116
L EV +T D RR+ F L
Sbjct: 210 GLKEVRFTDDQRRRAFGRPL 229
>gnl|CDD|100041 cd03350, LbH_THP_succinylT,
2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP)
N-succinyltransferase (also called THP
succinyltransferase): THDP N-succinyltransferase
catalyzes the conversion of tetrahydrodipicolinate and
succinyl-CoA to N-succinyltetrahydrodipicolinate and
CoA. It is the committed step in the succinylase
pathway by which bacteria synthesize L-lysine and
meso-diaminopimelate, a component of peptidoglycan. The
enzyme is homotrimeric and each subunit contains an
N-terminal region with alpha helices and hairpin loops,
as well as a C-terminal region with a left-handed
parallel alpha-helix (LbH) structural motif encoded by
hexapeptide repeat motifs.
Length = 139
Score = 26.6 bits (59), Expect = 3.2
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 16 GDGTLVDRNAHLFTCPHENSGVH 38
+GT+VD A + +C VH
Sbjct: 35 DEGTMVDSWATVGSCAQIGKNVH 57
>gnl|CDD|215230 PLN02418, PLN02418, delta-1-pyrroline-5-carboxylate synthase.
Length = 718
Score = 27.0 bits (60), Expect = 3.9
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 43 EGDGTLVDRNAHLFTCPHENSAR 65
E GTL ++AHL+ E AR
Sbjct: 275 ERVGTLFHQDAHLWAPSKEVGAR 297
>gnl|CDD|233915 TIGR02539, SepCysS, O-phospho-L-seryl-tRNA:Cys-tRNA synthase.
Aminoacylation of tRNA(Cys) with Cys, and cysteine
biosynthesis in the process, happens in
Methanocaldococcus jannaschii and several other archaea
by misacylation of tRNA(Cys) with O-phosphoserine (Sep),
followed by modification of the phosphoserine to
cysteine. In some species, direct tRNA-cys
aminoacylation also occurs but this pathway is required
for Cys biosynthesis. Members of this protein catalyze
the second step in this two step pathway, using
pyridoxal phosphate and a sulfur donor to synthesize Cys
from Sep while attached to the tRNA.
Length = 370
Score = 26.3 bits (58), Expect = 5.0
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 6 FCGVHFVVPEGDGTLVDRNAHLFT-------------CPHENSGVHFVVPEGDGTLVD 50
F +H + EGD ++D AH + PH + V PEG G +++
Sbjct: 80 FAVMHALCKEGDWVVLDGLAHYTSYVAAERAGLNVKEVPHTGHPEYKVDPEGYGEVIE 137
>gnl|CDD|224893 COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid
transport and metabolism].
Length = 557
Score = 26.5 bits (59), Expect = 5.0
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 9 VHFVVPEGDGTLVDRNAH 26
++ V+ GD LVDRN H
Sbjct: 103 INAVLTPGDKVLVDRNCH 120
Score = 26.5 bits (59), Expect = 5.0
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 37 VHFVVPEGDGTLVDRNAH 54
++ V+ GD LVDRN H
Sbjct: 103 INAVLTPGDKVLVDRNCH 120
>gnl|CDD|216035 pfam00632, HECT, HECT-domain (ubiquitin-transferase). The name
HECT comes from Homologous to the E6-AP Carboxyl
Terminus.
Length = 298
Score = 26.1 bits (58), Expect = 5.5
Identities = 9/37 (24%), Positives = 12/37 (32%)
Query: 48 LVDRNAHLFTCPHENSARLWFPCIDTYSEVCTWRLEF 84
L + + LF NS LW S +F
Sbjct: 7 LFNPDYGLFFYVTPNSGLLWPNPGSPESSADEELFKF 43
>gnl|CDD|165890 PLN02247, PLN02247, indole-3-acetic acid-amido synthetase.
Length = 606
Score = 26.1 bits (57), Expect = 7.1
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 106 DMRRKTFFYSLNIP 119
++ RKTFFY+L +P
Sbjct: 114 ELDRKTFFYNLLVP 127
>gnl|CDD|146888 pfam04468, PSP1, PSP1 C-terminal conserved region. This region is
present in both eukaryotes and eubacteria. The yeast
PSP1 protein is involved in suppressing mutations in the
DNA polymerase alpha subunit in yeast.
Length = 88
Score = 24.7 bits (55), Expect = 8.6
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 98 LIEVVYTPDMRRKTFFYS 115
L++V Y D + TF+Y+
Sbjct: 44 LVDVEYQFDRSKLTFYYT 61
>gnl|CDD|184487 PRK14071, PRK14071, 6-phosphofructokinase; Provisional.
Length = 360
Score = 25.4 bits (56), Expect = 9.2
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 34 NSGVHFVVPEGDGTLVDRNAHLFTCPHE 61
N G F P DG+L DR+ + H
Sbjct: 78 NKGDPFAFPMPDGSLRDRSQEIIDGYHS 105
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
0.324 0.140 0.467
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: 6,601,442
Number of extensions: 551941
Number of successful extensions: 601
Number of sequences better than 10.0: 1
Number of HSP's gapped: 596
Number of HSP's successfully gapped: 22
Length of query: 129
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 43
Effective length of database: 7,123,158
Effective search space: 306295794
Effective search space used: 306295794
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.0 bits)