RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15348
(298 letters)
>gnl|CDD|239111 cd02620, Peptidase_C1A_CathepsinB, Cathepsin B group; composed of
cathepsin B and similar proteins, including
tubulointerstitial nephritis antigen (TIN-Ag). Cathepsin
B is a lysosomal papain-like cysteine peptidase which is
expressed in all tissues and functions primarily as an
exopeptidase through its carboxydipeptidyl activity.
Together with other cathepsins, it is involved in the
degradation of proteins, proenzyme activation, Ag
processing, metabolism and apoptosis. Cathepsin B has
been implicated in a number of human diseases such as
cancer, rheumatoid arthritis, osteoporosis and
Alzheimer's disease. The unique carboxydipeptidyl
activity of cathepsin B is attributed to the presence of
an occluding loop in its active site which favors the
binding of the C-termini of substrate proteins. Some
members of this group do not possess the occluding loop.
TIN-Ag is an extracellular matrix basement protein which
was originally identified as a target Ag involved in
anti-tubular basement membrane antibody-mediated
interstitial nephritis. It plays a role in renal
tubulogenesis and is defective in hereditary
tubulointerstitial disorders. TIN-Ag is exclusively
expressed in kidney tissues. .
Length = 236
Score = 98.9 bits (247), Expect = 1e-24
Identities = 55/186 (29%), Positives = 75/186 (40%), Gaps = 30/186 (16%)
Query: 80 CSSGISSSTWAWVHKRGLVTGGAHHSNTGCQPVSFPPCNHANYTTSEPECKTLATPQPKC 139
C+ G + W ++ G+VTGG CQP + PPC H PKC
Sbjct: 69 CNGGYPDAAWKYLTTTGVVTGG-------CQPYTIPPCGHHPEGPPPCCGTP--YCTPKC 119
Query: 140 HTRCTNDNYGRGFFQDKYQ---INGLGLYFDP------HFGPFWPAFWRSFCTKYTRPLF 190
C + +DK++ + GP AF T Y
Sbjct: 120 QDGCEKT-----YEEDKHKGKSAYSVPSDETDIMKEIMTNGPVQAAF-----TVY-EDFL 168
Query: 191 QTNGRVYAVSASAEIVAYATVKIVGWGEENGRPYWTIVSTFGEQFGDKGTIKILRGRNEA 250
VY S + + VKI+GWG ENG PYW +++G +G+ G +ILRG NE
Sbjct: 169 YYKSGVY-QHTSGKQLGGHAVKIIGWGVENGVPYWLAANSWGTDWGENGYFRILRGSNEC 227
Query: 251 IIESLV 256
IES V
Sbjct: 228 GIESEV 233
>gnl|CDD|215726 pfam00112, Peptidase_C1, Papain family cysteine protease.
Length = 213
Score = 58.7 bits (143), Expect = 3e-10
Identities = 21/50 (42%), Positives = 31/50 (62%)
Query: 211 VKIVGWGEENGRPYWTIVSTFGEQFGDKGTIKILRGRNEAIIESLVNGAL 260
V IVG+G ENG PYW + +++G +G+ G +I RG NE I S + +
Sbjct: 164 VLIVGYGTENGVPYWIVKNSWGTDWGENGYFRIARGVNECGIASEASYPI 213
>gnl|CDD|239112 cd02621, Peptidase_C1A_CathepsinC, Cathepsin C; also known as
Dipeptidyl Peptidase I (DPPI), an atypical papain-like
cysteine peptidase with chloride dependency and
dipeptidyl aminopeptidase activity, resulting from its
tetrameric structure which limits substrate access. Each
subunit of the tetramer is composed of three peptides:
the heavy and light chains, which together adopts the
papain fold and forms the catalytic domain; and the
residual propeptide region, which forms a beta barrel
and points towards the substrate's N-terminus. The
subunit composition is the result of the unique
characteristic of procathepsin C maturation involving
the cleavage of the catalytic domain and the
non-autocatalytic excision of an activation peptide
within its propeptide region. By removing N-terminal
dipeptide extensions, cathepsin C activates granule
serine peptidases (granzymes) involved in cell-mediated
apoptosis, inflammation and tissue remodelling.
Loss-of-function mutations in cathepsin C are associated
with Papillon-Lefevre and Haim-Munk syndromes, rare
diseases characterized by hyperkeratosis and early-onset
periodontitis. Cathepsin C is widely expressed in many
tissues with high levels in lung, kidney and placenta.
It is also highly expressed in cytotoxic lymphocytes and
mature myeloid cells.
Length = 243
Score = 58.6 bits (142), Expect = 4e-10
Identities = 24/54 (44%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 210 TVKIVGWGEE--NGRPYWTIVSTFGEQFGDKGTIKILRGRNEAIIESLVNGALP 261
V +VGWGE+ G YW + +++G +G+KG KI RG NE IES A P
Sbjct: 189 AVLLVGWGEDEIKGEKYWIVKNSWGSSWGEKGYFKIRRGTNECGIESQAVFAYP 242
>gnl|CDD|214761 smart00645, Pept_C1, Papain family cysteine protease.
Length = 175
Score = 51.4 bits (124), Expect = 5e-08
Identities = 20/47 (42%), Positives = 31/47 (65%), Gaps = 3/47 (6%)
Query: 211 VKIVGWGE--ENGRPYWTIVSTFGEQFGDKGTIKILRGR-NEAIIES 254
V IVG+G ENG+ YW + +++G +G+ G +I RG+ NE IE+
Sbjct: 123 VLIVGYGTEVENGKDYWIVKNSWGTDWGENGYFRIARGKNNECGIEA 169
>gnl|CDD|239068 cd02248, Peptidase_C1A, Peptidase C1A subfamily (MEROPS database
nomenclature); composed of cysteine peptidases (CPs)
similar to papain, including the mammalian CPs
(cathepsins B, C, F, H, L, K, O, S, V, X and W). Papain
is an endopeptidase with specific substrate preferences,
primarily for bulky hydrophobic or aromatic residues at
the S2 subsite, a hydrophobic pocket in papain that
accommodates the P2 sidechain of the substrate (the
second residue away from the scissile bond). Most
members of the papain subfamily are endopeptidases. Some
exceptions to this rule can be explained by specific
details of the catalytic domains like the occluding loop
in cathepsin B which confers an additional
carboxydipeptidyl activity and the mini-chain of
cathepsin H resulting in an N-terminal exopeptidase
activity. Papain-like CPs have different functions in
various organisms. Plant CPs are used to mobilize
storage proteins in seeds. Parasitic CPs act
extracellularly to help invade tissues and cells, to
hatch or to evade the host immune system. Mammalian CPs
are primarily lysosomal enzymes with the exception of
cathepsin W, which is retained in the endoplasmic
reticulum. They are responsible for protein degradation
in the lysosome. Papain-like CPs are synthesized as
inactive proenzymes with N-terminal propeptide regions,
which are removed upon activation. In addition to its
inhibitory role, the propeptide is required for proper
folding of the newly synthesized enzyme and its
stabilization in denaturing pH conditions. Residues
within the propeptide region also play a role in the
transport of the proenzyme to lysosomes or acidified
vesicles. Also included in this subfamily are proteins
classified as non-peptidase homologs, which lack
peptidase activity or have missing active site residues.
Length = 210
Score = 46.8 bits (112), Expect = 3e-06
Identities = 18/38 (47%), Positives = 27/38 (71%)
Query: 211 VKIVGWGEENGRPYWTIVSTFGEQFGDKGTIKILRGRN 248
V +VG+G ENG YW + +++G +G+KG I+I RG N
Sbjct: 162 VLLVGYGTENGVDYWIVKNSWGTSWGEKGYIRIARGSN 199
>gnl|CDD|240244 PTZ00049, PTZ00049, cathepsin C-like protein; Provisional.
Length = 693
Score = 46.9 bits (111), Expect = 8e-06
Identities = 25/55 (45%), Positives = 37/55 (67%), Gaps = 5/55 (9%)
Query: 204 EIVAYATVKIVGWGEE--NGRP--YWTIVSTFGEQFGDKGTIKILRGRNEAIIES 254
E V +A V +VGWGEE NG+ YW +++G+ +G +G KI+RG+N + IES
Sbjct: 616 EKVNHAIV-LVGWGEEEINGKLYKYWIGRNSWGKNWGKEGYFKIIRGKNFSGIES 669
>gnl|CDD|240381 PTZ00364, PTZ00364, dipeptidyl-peptidase I precursor; Provisional.
Length = 548
Score = 44.1 bits (104), Expect = 6e-05
Identities = 24/53 (45%), Positives = 29/53 (54%), Gaps = 3/53 (5%)
Query: 210 TVKIVGWGE-ENGRPYWTIVSTFGEQFG--DKGTIKILRGRNEAIIESLVNGA 259
TV I+GWG ENG YW ++ +G + D GT KI RG N IES V
Sbjct: 405 TVLIIGWGTDENGGDYWLVLDPWGSRRSWCDGGTRKIARGVNAYNIESEVVVM 457
>gnl|CDD|239149 cd02698, Peptidase_C1A_CathepsinX, Cathepsin X; the only
papain-like lysosomal cysteine peptidase exhibiting
carboxymonopeptidase activity. It can also act as a
carboxydipeptidase, like cathepsin B, but has been shown
to preferentially cleave substrates through a
monopeptidyl carboxypeptidase pathway. The propeptide
region of cathepsin X, the shortest among papain-like
peptidases, is covalently attached to the active site
cysteine in the inactive form of the enzyme. Little is
known about the biological function of cathepsin X. Some
studies point to a role in early tumorigenesis. A more
recent study indicates that cathepsin X expression is
restricted to immune cells suggesting a role in
phagocytosis and the regulation of the immune response.
Length = 239
Score = 43.2 bits (102), Expect = 7e-05
Identities = 40/178 (22%), Positives = 63/178 (35%), Gaps = 41/178 (23%)
Query: 80 CSSGISSSTWAWVHKRGLVTGGAHHSNTGCQPVSFPPCNHANYTTSEPECKTLATPQPKC 139
C G + + HK G+ CN Y + EC P +C
Sbjct: 71 CHGGDPGGVYEYAHKHGIPDET---------------CN--PYQAKDGECN----PFNRC 109
Query: 140 HTRCTND-------NYGRGFFQDKYQINGLGLYFDPHF--GPFWPAFWRSFCTKY-TRPL 189
T C NY F D ++G + GP C T L
Sbjct: 110 GT-CNPFGECFAIKNYTLYFVSDYGSVSGRDKMMAEIYARGPI-------SCGIMATEAL 161
Query: 190 FQTNGRVYAVSASAEIVAYATVKIVGWG-EENGRPYWTIVSTFGEQFGDKGTIKILRG 246
G VY ++ + + + GWG +ENG YW + +++GE +G++G +I+
Sbjct: 162 ENYTGGVYKEYVQDPLINH-IISVAGWGVDENGVEYWIVRNSWGEPWGERGWFRIVTS 218
>gnl|CDD|185513 PTZ00203, PTZ00203, cathepsin L protease; Provisional.
Length = 348
Score = 40.1 bits (93), Expect = 0.001
Identities = 14/43 (32%), Positives = 26/43 (60%)
Query: 211 VKIVGWGEENGRPYWTIVSTFGEQFGDKGTIKILRGRNEAIIE 253
V +VG+ PYW I +++GE +G+KG +++ G N ++
Sbjct: 290 VLLVGYNMTGEVPYWVIKNSWGEDWGEKGYVRVTMGVNACLLT 332
>gnl|CDD|239110 cd02619, Peptidase_C1, C1 Peptidase family (MEROPS database
nomenclature), also referred to as the papain family;
composed of two subfamilies of cysteine peptidases
(CPs), C1A (papain) and C1B (bleomycin hydrolase).
Papain-like enzymes are mostly endopeptidases with some
exceptions like cathepsins B, C, H and X, which are
exopeptidases. Papain-like CPs have different functions
in various organisms. Plant CPs are used to mobilize
storage proteins in seeds while mammalian CPs are
primarily lysosomal enzymes responsible for protein
degradation in the lysosome. Papain-like CPs are
synthesized as inactive proenzymes with N-terminal
propeptide regions, which are removed upon activation.
Bleomycin hydrolase (BH) is a CP that detoxifies
bleomycin by hydrolysis of an amide group. It acts as a
carboxypeptidase on its C-terminus to convert itself
into an aminopeptidase and peptide ligase. BH is found
in all tissues in mammals as well as in many other
eukaryotes. It forms a hexameric ring barrel structure
with the active sites imbedded in the central channel.
Some members of the C1 family are proteins classified as
non-peptidase homologs which lack peptidase activity or
have missing active site residues.
Length = 223
Score = 30.9 bits (70), Expect = 0.54
Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 213 IVGWGEEN--GRPYWTIVSTFGEQFGDKGTIKI 243
IVG+ + G+ + + +++G +GD G +I
Sbjct: 177 IVGYDDNYVEGKGAFIVKNSWGTDWGDNGYGRI 209
>gnl|CDD|238567 cd01147, HemV-2, Metal binding protein HemV-2. These proteins are
predicted to function as initial receptors in ABC
transport of metal ions. They belong to the TroA
superfamily of helical backbone metal receptor proteins
that share a distinct fold and ligand binding mechanism.
A typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind the
metal ion in the cleft between these domains. In
addition, these proteins sometimes have a low complexity
region containing a metal-binding histidine-rich motif
(repetitive HDH sequence).
Length = 262
Score = 30.8 bits (70), Expect = 0.65
Identities = 19/71 (26%), Positives = 25/71 (35%), Gaps = 15/71 (21%)
Query: 195 RVYAVSASA-EIVAY--ATVKIVGWG----EENGRPYWTIVSTFGEQFGDKGTI-KILRG 246
RV A A ++ A KIVG + GRPY+ + D I + RG
Sbjct: 7 RVVAAGPGALRLLYALAAPDKIVGVDDAEKSDEGRPYFLA----SPELKDLPVIGRGGRG 62
Query: 247 RN---EAIIES 254
E I
Sbjct: 63 NTPNYEKIAAL 73
>gnl|CDD|237008 PRK11880, PRK11880, pyrroline-5-carboxylate reductase; Reviewed.
Length = 267
Score = 29.7 bits (68), Expect = 1.4
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 249 EAIIESLVN-GALPKDNYGVEFGEESGERLSEEFGVRAESS 288
AII L+ G KD + E L+EE+GVRA +
Sbjct: 15 SAIIGGLLASGVPAKDIIVSDPSPEKRAALAEEYGVRAATD 55
>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 = 30.0 bits (68), Expect = 1.4
Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 2/63 (3%)
Query: 77 IWVCSSGISSST--WAWVHKRGLVTGGAHHSNTGCQPVSFPPCNHANYTTSEPECKTLAT 134
I+V GI ST W +V G + + N ++ N+AN + E
Sbjct: 16 IYVTVLGIDPSTGNWVYVDATGNLVPISVADNDAPGHLTKNGGNYANIFFTLSEASNKIL 75
Query: 135 PQP 137
P P
Sbjct: 76 PPP 78
>gnl|CDD|185641 PTZ00462, PTZ00462, Serine-repeat antigen protein; Provisional.
Length = 1004
Score = 30.4 bits (68), Expect = 1.4
Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 5/38 (13%)
Query: 211 VKIVGWG-----EENGRPYWTIVSTFGEQFGDKGTIKI 243
V IVG+G E+ + YW + +++G+ +GD+G K+
Sbjct: 725 VNIVGYGNYINDEDEKKSYWIVRNSWGKYWGDEGYFKV 762
>gnl|CDD|213521 TIGR00281, TIGR00281, segregation and condensation protein B.
Shown to be required for chromosome segregation and
condensation in B. subtilis [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 186
Score = 29.0 bits (65), Expect = 2.2
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 204 EIVAYATVKIVGWGEENGRPYW-TIVSTFGEQFG 236
++V V +G + GR + F + FG
Sbjct: 121 DLVEKGLVVELGRKDTPGRSFIYETTPKFYDYFG 154
>gnl|CDD|212668 cd10225, MreB_like, MreB and similar proteins. MreB is a bacterial
protein which assembles into filaments resembling those
of eukaryotic F-actin. It is involved in determining the
shape of rod-like bacterial cells, by assembling into
large fibrous spirals beneath the cell membrane. MreB
has also been implicated in chromosome segregation;
specifically MreB is thought to bind to and segregate
the replication origin of bacterial chromosomes.
Length = 320
Score = 28.5 bits (65), Expect = 3.7
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 6/43 (13%)
Query: 248 NEAIIESLVNGALPKDNYGVEFGEESGERLSEEFGVRAESSEE 290
+EAII + + Y + GE + E + E G EE
Sbjct: 178 DEAIIRYV------RRKYNLLIGERTAEEIKIEIGSAYPLDEE 214
>gnl|CDD|182906 PRK11022, dppD, dipeptide transporter ATP-binding subunit;
Provisional.
Length = 326
Score = 28.2 bits (63), Expect = 5.3
Identities = 15/46 (32%), Positives = 18/46 (39%), Gaps = 4/46 (8%)
Query: 98 VTGGAHHSNTGCQPVSFPPCNHANYT--TSEPECKTLATPQPKCHT 141
V G + GC + P C +A EP LA Q KCH
Sbjct: 273 VVPGKYDRPNGC--LLNPRCPYATDRCRAEEPALNMLAGRQSKCHY 316
>gnl|CDD|215868 pfam00343, Phosphorylase, Carbohydrate phosphorylase. The members
of this family catalyze the formation of glucose
1-phosphate from one of the following polyglucoses;
glycogen, starch, glucan or maltodextrin.
Length = 712
Score = 27.7 bits (62), Expect = 7.9
Identities = 18/45 (40%), Positives = 20/45 (44%), Gaps = 3/45 (6%)
Query: 257 NGAL---PKDNYGVEFGEESGERLSEEFGVRAESSEEFRENGEEE 298
NGAL D VE EE GE FG+ AE E R+ G
Sbjct: 567 NGALTIGTLDGANVEIAEEVGEENIFIFGLTAEEVEALRKKGYRS 611
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
0.320 0.134 0.438
Gapped
Lambda K H
0.267 0.0789 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,051,326
Number of extensions: 1375348
Number of successful extensions: 1101
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1095
Number of HSP's successfully gapped: 23
Length of query: 298
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 202
Effective length of database: 6,679,618
Effective search space: 1349282836
Effective search space used: 1349282836
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 (21.8 bits)
S2: 59 (26.4 bits)