RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4808
(156 letters)
>gnl|CDD|238279 cd00501, Peptidase_C15, Pyroglutamyl peptidase (PGP) type I, also
known as pyrrolidone carboxyl peptidase (pcp) type I:
Enzymes responsible for cleaving pyroglutamate (pGlu)
from the N-terminal end of specialized proteins. The
N-terminal pGlu protects these proteins from proteolysis
by other proteases until the pGlu is removed by a PGP.
PGPs are cysteine proteases with a Cys-His-Glu/Asp
catalytic triad. Type I PGPs are found in a wide variety
of prokaryotes and eukaryotes. It is not clear whether
the functional form is a monomer, a homodimer, or a
homotetramer.
Length = 194
Score = 105 bits (263), Expect = 4e-29
Identities = 48/150 (32%), Positives = 68/150 (45%), Gaps = 28/150 (18%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGFGPF +NPSWEAV LP I E+V ++ V + +P L +++
Sbjct: 2 KVLVTGFGPFGGEPVNPSWEAVKELPKLILG-GAEVVGLELPVVFQKAVEVLPELIEEHK 60
Query: 86 PDLVIHVGVSDMADKITLECKA----------AELCQ----CTDSI--DVIKTALDVESL 129
PDLVIHVG++ IT+E A E Q + L V+++
Sbjct: 61 PDLVIHVGLAGGRSTITIERVAINIDDARIPDNEGNQPIDEPIVPGGPAAYFSTLPVKAI 120
Query: 130 VKEFQTNKANINQVLDIDISRVD----VCN 155
VK +A I +S D +CN
Sbjct: 121 VKAL--REAGI----PARVSN-DAGTYLCN 143
>gnl|CDD|237299 PRK13197, PRK13197, pyrrolidone-carboxylate peptidase;
Provisional.
Length = 215
Score = 69.5 bits (171), Expect = 2e-15
Identities = 26/68 (38%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
K+L+TGF PF INPSWEAV LP + EI+K Q+ + + ++
Sbjct: 3 KILVTGFDPFGGEKINPSWEAVKQLPGKEIG-GAEIIKRQLPTVFGKSAEVLKEAIEEVQ 61
Query: 86 PDLVIHVG 93
PD VI +G
Sbjct: 62 PDAVICIG 69
>gnl|CDD|224950 COG2039, Pcp, Pyrrolidone-carboxylate peptidase (N-terminal
pyroglutamyl peptidase) [Posttranslational modification,
protein turnover, chaperones].
Length = 207
Score = 68.9 bits (169), Expect = 4e-15
Identities = 30/79 (37%), Positives = 39/79 (49%), Gaps = 1/79 (1%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGF PF INPSWEAV L RI E+ + V + + +
Sbjct: 2 KVLVTGFEPFGGEPINPSWEAVKELNGRIIGGA-EVKGRILPVVFKKSIDALVQAIAEVQ 60
Query: 86 PDLVIHVGVSDMADKITLE 104
PDLV+ +G + KIT E
Sbjct: 61 PDLVLAIGQAGGRTKITPE 79
>gnl|CDD|201814 pfam01470, Peptidase_C15, Pyroglutamyl peptidase.
Length = 203
Score = 62.0 bits (151), Expect = 2e-12
Identities = 27/79 (34%), Positives = 37/79 (46%), Gaps = 1/79 (1%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGF PF INP+WEA L R IV + S+ + +
Sbjct: 2 KVLVTGFEPFGGDPINPAWEAAKQLDGRT-IGGATIVGRILPTSFKKAADVLQQAIAEIK 60
Query: 86 PDLVIHVGVSDMADKITLE 104
PD+VI +G + IT+E
Sbjct: 61 PDIVIALGQAPGRSAITVE 79
>gnl|CDD|129595 TIGR00504, pyro_pdase, pyroglutamyl-peptidase I. Alternate names
include pyroglutamate aminopeptidase,
pyrrolidone-carboxylate peptidase, and
5-oxoprolyl-peptidase. It removes pyroglutamate
(pyrrolidone-carboxylate, a modified glutamine) that can
otherwise block hydrolysis of a polypeptide at the amino
end, and so can be extremely useful in the biochemical
studies of proteins. The biological role in the various
species in which it is found is not fully understood.
The enzyme appears to be a homodimer. It does not
closely resemble any other peptidases [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 212
Score = 58.3 bits (141), Expect = 4e-11
Identities = 27/88 (30%), Positives = 41/88 (46%), Gaps = 2/88 (2%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGF PF +NPSWEA L R +V E + ++ + +
Sbjct: 1 KVLLTGFEPFGVDPVNPSWEAAEELDGRTI--GATVVAEILPNTFFEAIEALQQAIDEIE 58
Query: 86 PDLVIHVGVSDMADKITLECKAAELCQC 113
PD+VI +G++ IT+E A +
Sbjct: 59 PDIVIMLGLAPGRSMITVERVAINVNDA 86
>gnl|CDD|183887 PRK13194, PRK13194, pyrrolidone-carboxylate peptidase; Provisional.
Length = 208
Score = 44.9 bits (106), Expect = 3e-06
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 1/79 (1%)
Query: 26 KVLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYN 85
KVL+TGF PF NP+ + V L + + ++ + VS+ + + +
Sbjct: 2 KVLVTGFEPFGGDKKNPTMDIVKALDGKKIG-DAKVFGRVLPVSFKRAREELEKVLDEIK 60
Query: 86 PDLVIHVGVSDMADKITLE 104
PD+ I++G++ I++E
Sbjct: 61 PDITINLGLAPGRTHISVE 79
>gnl|CDD|171895 PRK13196, PRK13196, pyrrolidone-carboxylate peptidase; Provisional.
Length = 211
Score = 41.5 bits (97), Expect = 5e-05
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 1/78 (1%)
Query: 27 VLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQVSYNYVDVTVPALWKKYNP 86
+L+TGF PF TH +NPS +A L + + + V + L + P
Sbjct: 4 LLLTGFEPFHTHPVNPSAQAAQALNGEQAG-ALRVHSALLPVEPRAAMAALSRLLDELQP 62
Query: 87 DLVIHVGVSDMADKITLE 104
V+ G++ ++TLE
Sbjct: 63 SAVLLTGLAAGRPQVTLE 80
>gnl|CDD|237298 PRK13193, PRK13193, pyrrolidone-carboxylate peptidase; Provisional.
Length = 209
Score = 33.4 bits (76), Expect = 0.027
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 11/83 (13%)
Query: 27 VLITGFGPFKTHTINPSWEAVSLLPDRIPNTNIEIVKEQIQ-----VSYNYVDVTVPALW 81
VL+ GF PF + NPS V L N + I+KE+++ V Y ++ +
Sbjct: 3 VLLFGFEPFLEYKENPSQLIVEAL-----NGST-ILKEEVKGVILPVEYEKIEDLIVTKI 56
Query: 82 KKYNPDLVIHVGVSDMADKITLE 104
++ P L + +GV+ KIT E
Sbjct: 57 REMKPILTLGIGVAPGRAKITPE 79
>gnl|CDD|185734 cd08993, GH43_DUF377, Glycosyl hydrolase family 43 containing a
domain of unknown function. This subfamily has
sequences similar to the glycosyl hydrolase family 43
(GH43) and contains uncharacterized proteins. GH43
proteins 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. Many of the
GH43 enzymes display both alpha-L-arabinofuranosidase
and beta-D-xylosidase activity using aryl-glycosides as
substrates. 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 = 268
Score = 30.8 bits (70), Expect = 0.24
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 43 SWEAVSLLPDRIPNTNIEIVKEQIQVSY-------NYVDVTVPALWKKYNPDLV 89
++E + N + + E+I Y Y + P +W ++PDLV
Sbjct: 97 TFERLGTSLV-PNNRDGILFPEKINGKYVMLHRPFEYGGTSPPDMWLSFSPDLV 149
>gnl|CDD|224250 COG1331, COG1331, Highly conserved protein containing a thioredoxin
domain [Posttranslational modification, protein
turnover, chaperones].
Length = 667
Score = 29.6 bits (67), Expect = 0.64
Identities = 16/62 (25%), Positives = 26/62 (41%), Gaps = 10/62 (16%)
Query: 77 VPALWKKYNPDLVIHVG----VSDMADKITLECKAAELCQ---C---TDSIDVIKTALDV 126
+ A + Y P+ V+ VG VS + D + K A +C C S + + L V
Sbjct: 606 LRAALRLYLPEKVLVVGTEGYVSLLVDGMLGGGKTAYVCTGDACLPPVTSPEELAELLAV 665
Query: 127 ES 128
+
Sbjct: 666 LA 667
>gnl|CDD|171894 PRK13195, PRK13195, pyrrolidone-carboxylate peptidase;
Provisional.
Length = 222
Score = 28.5 bits (63), Expect = 1.3
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 26 KVLITGFGPFKTHTINPS 43
KVL+TGFGP+ +NP+
Sbjct: 3 KVLVTGFGPYGVTPVNPA 20
>gnl|CDD|236325 PRK08654, PRK08654, pyruvate carboxylase subunit A; Validated.
Length = 499
Score = 26.9 bits (60), Expect = 5.4
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 57 TNIEIVKEQIQVSY 70
T I+IVKEQI+++
Sbjct: 303 TGIDIVKEQIKIAA 316
>gnl|CDD|133157 cd05490, Cathepsin_D2, Cathepsin_D2, pepsin family of proteinases.
Cathepsin D is the major aspartic proteinase of the
lysosomal compartment where it functions in protein
catabolism. It is a member of the pepsin family of
proteinases. This enzyme is distinguished from other
members of the pepsin family by two features that are
characteristic of lysosomal hydrolases. First, mature
Cathepsin D is found predominantly in a two-chain form
due to a posttranslational cleavage event. Second, it
contains phosphorylated, N-linked oligosaccharides that
target the enzyme to lysosomes via mannose-6-phosphate
receptors. Cathepsin D preferentially attacks peptide
bonds flanked by bulky hydrophobic amino acids and its
pH optimum is between pH 2.8 and 4.0. Two active site
aspartic acid residues are essential for the catalytic
activity of aspartic proteinases. Like other aspartic
proteinases, Cathepsin D is a bilobed molecule; the two
evolutionary related lobes are mostly made up of
beta-sheets and flank a deep active site cleft. Each of
the two related lobes contributes one active site
aspartic acid residue and contains a single carbohydrate
group. Cathepsin D is an essential enzyme. Mice
deficient for proteinase cathepsin D, generated by gene
targeting, develop normally during the first 2 weeks,
stop thriving in the third week and die in a state of
anorexia in the fourth week. The mice develop atrophy of
ileal mucosa followed by other degradation of intestinal
organs. In these knockout mice, lysosomal proteolysis
was normal. These results suggest that vital functions
of cathepsin D are exerted by limited proteolysis of
proteins regulating cell growth and/or tissue
homeostasis, while its contribution to bulk proteolysis
in lysosomes appears to be non-critical. This family of
aspartate proteases is classified by MEROPS as the
peptidase family A1 (pepsin A, clan AA).
Length = 325
Score = 26.3 bits (58), Expect = 6.9
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 10/44 (22%)
Query: 69 SYNYVDVTVPALWKKYNPDLVIHVGVSDMADKITLECKAAELCQ 112
+YV+VT A W+ IH+ D+ +TL CK C+
Sbjct: 175 DLHYVNVTRKAYWQ-------IHMDQVDVGSGLTL-CKGG--CE 208
>gnl|CDD|237216 PRK12821, PRK12821, aspartyl/glutamyl-tRNA amidotransferase subunit
C-like protein; Provisional.
Length = 477
Score = 26.4 bits (58), Expect = 8.8
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 125 DVESLVKEFQTNKANINQVLDIDISRVDVCN 155
++E L EF+ ++ QV ID + V
Sbjct: 409 ELEKLQVEFKDITSSFKQVEKIDTTNVKPMY 439
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 0.132 0.382
Gapped
Lambda K H
0.267 0.0744 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,614,237
Number of extensions: 668481
Number of successful extensions: 654
Number of sequences better than 10.0: 1
Number of HSP's gapped: 647
Number of HSP's successfully gapped: 28
Length of query: 156
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 67
Effective length of database: 6,990,096
Effective search space: 468336432
Effective search space used: 468336432
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: 55 (24.9 bits)