RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy403
(233 letters)
>gnl|CDD|215726 pfam00112, Peptidase_C1, Papain family cysteine protease.
Length = 213
Score = 198 bits (507), Expect = 2e-64
Identities = 75/166 (45%), Positives = 91/166 (54%), Gaps = 34/166 (20%)
Query: 1 MDQAFQYIKDNHGIDTESSYPYEAMMSFLPSFLFRRLCYLLTICHKRSNQVTVTSGDDNC 60
D AF+YIK N GI TES YPY A D C
Sbjct: 68 PDNAFEYIKKNGGIVTESDYPYTAH-------------------------------DGTC 96
Query: 61 RYKRAKSGAV-DRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPEC 119
++K++ S +GY D+P DE L+AA+A GPVS+AIDA FQ Y GVY EC
Sbjct: 97 KFKKSNSKYAKIKGYGDVPYNDEEALQAALAKNGPVSVAIDAYEDDFQLYKSGVYKHTEC 156
Query: 120 NSTQLDHAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMARNR 165
S +LDHAVL+VGYGT ENG YW+VKNSW T WG+ GY ++AR
Sbjct: 157 -SGELDHAVLIVGYGT-ENGVPYWIVKNSWGTDWGENGYFRIARGV 200
>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 = 177 bits (452), Expect = 4e-56
Identities = 77/165 (46%), Positives = 98/165 (59%), Gaps = 34/165 (20%)
Query: 1 MDQAFQYIKDNHGIDTESSYPYEAMMSFLPSFLFRRLCYLLTICHKRSNQVTVTSGDDNC 60
D AF+Y+K N G+ +ES YPY D C
Sbjct: 68 PDNAFEYVK-NGGLASESDYPYTGK-------------------------------DGTC 95
Query: 61 RYKRAKSGAVDRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPECN 120
+Y +K GA GY ++P GDE LKAA+A GPVS+AIDAS SFQFY G+Y P C+
Sbjct: 96 KYNSSKVGAKITGYSNVPPGDEEALKAALANYGPVSVAIDASS-SFQFYKGGIYSGPCCS 154
Query: 121 STQLDHAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMARNR 165
+T L+HAVL+VGYGT ENG DYW+VKNSW T+WG++GYI++AR
Sbjct: 155 NTNLNHAVLLVGYGT-ENGVDYWIVKNSWGTSWGEKGYIRIARGS 198
>gnl|CDD|214761 smart00645, Pept_C1, Papain family cysteine protease.
Length = 175
Score = 120 bits (304), Expect = 2e-34
Identities = 44/71 (61%), Positives = 53/71 (74%), Gaps = 3/71 (4%)
Query: 96 SIAIDASHQSFQFYSEGVYYEPECNSTQLDHAVLVVGYGTD-ENGNDYWLVKNSWNTTWG 154
S+AIDAS FQFY G+Y P C S LDHAVL+VGYGT+ ENG DYW+VKNSW T WG
Sbjct: 93 SVAIDASD--FQFYKSGIYDHPGCGSGTLDHAVLIVGYGTEVENGKDYWIVKNSWGTDWG 150
Query: 155 DEGYIKMARNR 165
+ GY ++AR +
Sbjct: 151 ENGYFRIARGK 161
Score = 41.8 bits (99), Expect = 7e-05
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 1 MDQAFQYIKDNHGIDTESSYPYEA 24
D AF+YIK N G++TES YPY
Sbjct: 69 PDNAFEYIKKNGGLETESCYPYTG 92
>gnl|CDD|240232 PTZ00021, PTZ00021, falcipain-2; Provisional.
Length = 489
Score = 79.8 bits (197), Expect = 2e-17
Identities = 51/179 (28%), Positives = 85/179 (47%), Gaps = 45/179 (25%)
Query: 4 AFQYIKDNHGIDTESSYPYEAMMSFLPSFLFRRLCYLLTICHKRSNQVTVTSGDDNCRYK 63
AF+ + + G+ +E YPY +S P LC + C ++ + S
Sbjct: 336 AFEDMIELGGLCSEDDYPY---VSDTP-----ELCNI-DRCKEK---YKIKS-------- 375
Query: 64 RAKSGAVDRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPECNSTQ 123
YV IPE K K A+ +GP+S++I S F FY G++ + EC +
Sbjct: 376 ----------YVSIPE---DKFKEAIRFLGPISVSIAVS-DDFAFYKGGIF-DGEC-GEE 419
Query: 124 LDHAVLVVGYGTDENGND---------YWLVKNSWNTTWGDEGYIKMARNRVYYEPECN 173
+HAV++VGYG +E N Y+++KNSW +WG++G+I++ + C+
Sbjct: 420 PNHAVILVGYGMEEIYNSDTKKMEKRYYYIIKNSWGESWGEKGFIRIETDENGLMKTCS 478
>gnl|CDD|240310 PTZ00200, PTZ00200, cysteine proteinase; Provisional.
Length = 448
Score = 78.2 bits (193), Expect = 8e-17
Identities = 48/164 (29%), Positives = 68/164 (41%), Gaps = 40/164 (24%)
Query: 2 DQAFQYIKDNHGIDTESSYPYEAMMSFLPSFLFRRLCYLLTICHKRSNQVTVTSGDDNCR 61
D A +Y+K N G+ + S PY + D C
Sbjct: 303 DTALEYVK-NKGLSSSSDVPY-------------------------------LAKDGKCV 330
Query: 62 YKRAKSGAVDRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPECNS 121
K +D + +G + K+ V I P + I A + Y GVY EC
Sbjct: 331 VSSTKKVYID--SYLVAKGKDVLNKSLV--ISPTVVYI-AVSRELLKYKSGVY-NGEC-G 383
Query: 122 TQLDHAVLVVGYGTDEN-GNDYWLVKNSWNTTWGDEGYIKMARN 164
L+HAVL+VG G DE YW++KNSW T WG+ GY+++ R
Sbjct: 384 KSLNHAVLLVGEGYDEKTKKRYWIIKNSWGTDWGENGYMRLERT 427
Score = 64.7 bits (158), Expect = 4e-12
Identities = 28/62 (45%), Positives = 38/62 (61%), Gaps = 4/62 (6%)
Query: 168 YEPECNSTQLDHAVLVVGYGTDEN-GNDYWLVKNSWNTTWGDEGYIKMARNRENN--CGV 224
Y EC L+HAVL+VG G DE YW++KNSW T WG+ GY+++ R E CG+
Sbjct: 378 YNGEC-GKSLNHAVLLVGEGYDEKTKKRYWIIKNSWGTDWGENGYMRLERTNEGTDKCGI 436
Query: 225 AS 226
+
Sbjct: 437 LT 438
>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 = 75.5 bits (186), Expect = 1e-16
Identities = 46/160 (28%), Positives = 70/160 (43%), Gaps = 21/160 (13%)
Query: 4 AFQYIKDNHGIDTESSYPYEAMMSFLPSFLFRRLCYLLTICHKRSNQVTVTSGDDNCRYK 63
++Y HGI E+ PY+A F C C N Y
Sbjct: 79 VYEYAH-KHGIPDETCNPYQAKDGECNPFNRCGTCNPFGECFAIKN------------YT 125
Query: 64 RAKSGAVDRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPECNSTQ 123
D G V G + K+ A + GP+S I A ++ + Y+ GVY E +
Sbjct: 126 LYFVS--DYGSV---SGRD-KMMAEIYARGPISCGIMA-TEALENYTGGVYKEYVQDPL- 177
Query: 124 LDHAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMAR 163
++H + V G+G DENG +YW+V+NSW WG+ G+ ++
Sbjct: 178 INHIISVAGWGVDENGVEYWIVRNSWGEPWGERGWFRIVT 217
Score = 57.8 bits (140), Expect = 4e-10
Identities = 20/51 (39%), Positives = 32/51 (62%), Gaps = 1/51 (1%)
Query: 166 VYYEPECNSTQLDHAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMAR 216
VY E + ++H + V G+G DENG +YW+V+NSW WG+ G+ ++
Sbjct: 168 VYKEYVQDPL-INHIISVAGWGVDENGVEYWIVRNSWGEPWGERGWFRIVT 217
>gnl|CDD|185513 PTZ00203, PTZ00203, cathepsin L protease; Provisional.
Length = 348
Score = 77.0 bits (189), Expect = 1e-16
Identities = 54/165 (32%), Positives = 74/165 (44%), Gaps = 35/165 (21%)
Query: 1 MDQAFQYIKDNHG--IDTESSYPYEAMMSFLPSFLFRRLCYLLTICHKRSNQVTVTSGDD 58
M QAF+++ N + TE SYPY + +P C S
Sbjct: 193 MLQAFEWVLRNMNGTVFTEKSYPYVSGNGDVPE------------CSNSSELAP------ 234
Query: 59 NCRYKRAKSGAVDRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPE 118
GA GYV + E + A +A GP+SIA+DAS SF Y GV
Sbjct: 235 ---------GARIDGYVSMES-SERVMAAWLAKNGPISIAVDAS--SFMSYHSGVL--TS 280
Query: 119 CNSTQLDHAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMAR 163
C QL+H VL+VGY YW++KNSW WG++GY+++
Sbjct: 281 CIGEQLNHGVLLVGYNM-TGEVPYWVIKNSWGEDWGEKGYVRVTM 324
Score = 55.1 bits (132), Expect = 5e-09
Identities = 36/112 (32%), Positives = 52/112 (46%), Gaps = 7/112 (6%)
Query: 109 YSEGVYYEPEC-NSTQLDHAVLVVGYGTDENGNDY---WLVKNSWNTTWGDEGYIKMARN 164
Y G PEC NS++L + GY + E+ WL KN + D +
Sbjct: 216 YVSGNGDVPECSNSSELAPGARIDGYVSMESSERVMAAWLAKNGPISIAVDASSFMSYHS 275
Query: 165 RVYYEPECNSTQLDHAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMAR 216
V C QL+H VL+VGY YW++KNSW WG++GY+++
Sbjct: 276 GVL--TSCIGEQLNHGVLLVGYNM-TGEVPYWVIKNSWGEDWGEKGYVRVTM 324
>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 = 72.7 bits (179), Expect = 2e-15
Identities = 46/168 (27%), Positives = 65/168 (38%), Gaps = 26/168 (15%)
Query: 2 DQAFQYIKDNHGIDTESSYPYEA-----MMSFLPSFLFRRLCYLLTICHKRSNQVTVTSG 56
D A++Y+ G+ T PY P C C
Sbjct: 75 DAAWKYLT-TTGVVTGGCQPYTIPPCGHHPEGPPPCCGTPYC--TPKCQD-----GCEKT 126
Query: 57 DDNCRYKRAKSGAVDRGYVDIPEGDEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYE 116
+ ++K + +V DI + T GPV A ++ F +Y GVY
Sbjct: 127 YEEDKHKGKSAYSVPSDETDI--------MKEIMTNGPVQAAFTV-YEDFLYYKSGVYQH 177
Query: 117 PECNSTQLD-HAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMAR 163
QL HAV ++G+G ENG YWL NSW T WG+ GY ++ R
Sbjct: 178 TS--GKQLGGHAVKIIGWGV-ENGVPYWLAANSWGTDWGENGYFRILR 222
Score = 69.2 bits (170), Expect = 2e-14
Identities = 23/45 (51%), Positives = 29/45 (64%), Gaps = 2/45 (4%)
Query: 179 HAVLVVGYGTDENGNDYWLVKNSWNTTWGDEGYIKMARNRENNCG 223
HAV ++G+G ENG YWL NSW T WG+ GY ++ R N CG
Sbjct: 186 HAVKIIGWGV-ENGVPYWLAANSWGTDWGENGYFRILRG-SNECG 228
>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 = 72.0 bits (177), Expect = 3e-15
Identities = 35/96 (36%), Positives = 55/96 (57%), Gaps = 14/96 (14%)
Query: 81 DEYKLKAAVATIGPVSIAIDASHQSFQFYSEGVYYEPECNST------------QLDHAV 128
+E ++K + GP+ +A + + F FY EGVY+ + + +HAV
Sbjct: 132 NEDEMKWEIYRNGPIVVAFEV-YSDFDFYKEGVYHHTDNDEVSDGDNDNFNPFELTNHAV 190
Query: 129 LVVGYGTDE-NGNDYWLVKNSWNTTWGDEGYIKMAR 163
L+VG+G DE G YW+VKNSW ++WG++GY K+ R
Sbjct: 191 LLVGWGEDEIKGEKYWIVKNSWGSSWGEKGYFKIRR 226
>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 = 67.5 bits (165), Expect = 1e-13
Identities = 30/88 (34%), Positives = 41/88 (46%), Gaps = 7/88 (7%)
Query: 80 GDEYKLKAAVATIGPVSIAIDASH-----QSFQFYSEGVYYEPECNSTQLDHAVLVVGYG 134
+ +K A+A GPV D + Y E VY E HAV++VGY
Sbjct: 123 NNIEDIKEALAKGGPVVAGFDVYSGFDRLKEGIIYEEIVYLLYEDGDL-GGHAVVIVGYD 181
Query: 135 TDE-NGNDYWLVKNSWNTTWGDEGYIKM 161
+ G ++VKNSW T WGD GY ++
Sbjct: 182 DNYVEGKGAFIVKNSWGTDWGDNGYGRI 209
Score = 58.3 bits (141), Expect = 2e-10
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 2/64 (3%)
Query: 152 TWGDEGYIKMARNRVYYEPECNSTQLDHAVLVVGYGTDE-NGNDYWLVKNSWNTTWGDEG 210
+ + VY E HAV++VGY + G ++VKNSW T WGD G
Sbjct: 147 GFDRLKEGIIYEEIVYLLYEDGDL-GGHAVVIVGYDDNYVEGKGAFIVKNSWGTDWGDNG 205
Query: 211 YIKM 214
Y ++
Sbjct: 206 YGRI 209
>gnl|CDD|240244 PTZ00049, PTZ00049, cathepsin C-like protein; Provisional.
Length = 693
Score = 59.2 bits (143), Expect = 3e-10
Identities = 31/109 (28%), Positives = 52/109 (47%), Gaps = 24/109 (22%)
Query: 93 GPVSIAIDASHQSFQFYSEGVYYEPECNSTQ--------------------LDHAVLVVG 132
GP+ + +AS F Y++GVYY + + ++HA+++VG
Sbjct: 568 GPIVASFEAS-PDFYDYADGVYYVEDFPHARRCTVDLPKHNGVYNITGWEKVNHAIVLVG 626
Query: 133 YG-TDENGN--DYWLVKNSWNTTWGDEGYIKMARNRVYYEPECNSTQLD 178
+G + NG YW+ +NSW WG EGY K+ R + + E S ++
Sbjct: 627 WGEEEINGKLYKYWIGRNSWGKNWGKEGYFKIIRGKNFSGIESQSLFIE 675
>gnl|CDD|240381 PTZ00364, PTZ00364, dipeptidyl-peptidase I precursor; Provisional.
Length = 548
Score = 53.7 bits (129), Expect = 2e-08
Identities = 26/66 (39%), Positives = 39/66 (59%), Gaps = 8/66 (12%)
Query: 164 NRVYYEPECNSTQLDHAVLVVGYGTDENGNDYWLVKNSWNT--TWGDEGYIKMARNRENN 221
R Y+ ++ ++H VL++G+GTDENG DYWLV + W + +W D G K+AR N
Sbjct: 394 LRHYF-----ASNVNHTVLIIGWGTDENGGDYWLVLDPWGSRRSWCDGGTRKIARGV-NA 447
Query: 222 CGVASS 227
+ S
Sbjct: 448 YNIESE 453
Score = 53.7 bits (129), Expect = 2e-08
Identities = 24/50 (48%), Positives = 33/50 (66%), Gaps = 2/50 (4%)
Query: 124 LDHAVLVVGYGTDENGNDYWLVKNSWNT--TWGDEGYIKMARNRVYYEPE 171
++H VL++G+GTDENG DYWLV + W + +W D G K+AR Y E
Sbjct: 402 VNHTVLIIGWGTDENGGDYWLVLDPWGSRRSWCDGGTRKIARGVNAYNIE 451
>gnl|CDD|185641 PTZ00462, PTZ00462, Serine-repeat antigen protein; Provisional.
Length = 1004
Score = 52.8 bits (126), Expect = 4e-08
Identities = 24/47 (51%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 119 CNSTQLDHAVLVVGYGTDENGND----YWLVKNSWNTTWGDEGYIKM 161
C DHAV +VGYG N D YW+V+NSW WGDEGY K+
Sbjct: 716 CGDDTADHAVNIVGYGNYINDEDEKKSYWIVRNSWGKYWGDEGYFKV 762
Score = 52.8 bits (126), Expect = 4e-08
Identities = 24/47 (51%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 172 CNSTQLDHAVLVVGYGTDENGND----YWLVKNSWNTTWGDEGYIKM 214
C DHAV +VGYG N D YW+V+NSW WGDEGY K+
Sbjct: 716 CGDDTADHAVNIVGYGNYINDEDEKKSYWIVRNSWGKYWGDEGYFKV 762
>gnl|CDD|227207 COG4870, COG4870, Cysteine protease [Posttranslational
modification, protein turnover, chaperones].
Length = 372
Score = 41.7 bits (98), Expect = 2e-04
Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 13/44 (29%)
Query: 126 HAVLVVGYGTDEN-----------GNDYWLVKNSWNTTWGDEGY 158
HAVL+VGY D++ G+ +++KNSW T WG+ GY
Sbjct: 266 HAVLIVGY--DDSFDINNFKYGPPGDGAFIIKNSWGTNWGENGY 307
Score = 41.7 bits (98), Expect = 2e-04
Identities = 18/44 (40%), Positives = 26/44 (59%), Gaps = 13/44 (29%)
Query: 179 HAVLVVGYGTDEN-----------GNDYWLVKNSWNTTWGDEGY 211
HAVL+VGY D++ G+ +++KNSW T WG+ GY
Sbjct: 266 HAVLIVGY--DDSFDINNFKYGPPGDGAFIIKNSWGTNWGENGY 307
>gnl|CDD|226107 COG3579, PepC, Aminopeptidase C [Amino acid transport and
metabolism].
Length = 444
Score = 35.5 bits (82), Expect = 0.016
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 124 LDHAVLVVGYGTDENGNDY-WLVKNSWNTTWGDEGYIKMA 162
+ HA+++ G DE GN W V+NSW G +GY +
Sbjct: 361 MTHAMVLTGVDLDETGNPLRWKVENSWGKDVGKKGYFVAS 400
Score = 35.5 bits (82), Expect = 0.016
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 177 LDHAVLVVGYGTDENGNDY-WLVKNSWNTTWGDEGYIKMA 215
+ HA+++ G DE GN W V+NSW G +GY +
Sbjct: 361 MTHAMVLTGVDLDETGNPLRWKVENSWGKDVGKKGYFVAS 400
>gnl|CDD|118100 pfam09564, RE_NgoBV, NgoBV restriction endonuclease. This family
includes the NgoBV (recognises GGNNCC but cleavage site
is unknown) restriction endonuclease.
Length = 194
Score = 32.0 bits (72), Expect = 0.18
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 9/57 (15%)
Query: 106 FQFYSEGVYYEPECNSTQLDHAVLVVGYGTDENGN----DYWLVKNSWNTTWGDEGY 158
F+ YS+ ++++P LD + + GY D+NGN D WL K W T +G+
Sbjct: 104 FKMYSDEIFHKP----YILDCDLFIFGYDMDDNGNVTIKDLWL-KKVWQITRSMDGW 155
Score = 28.5 bits (63), Expect = 2.6
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 9/56 (16%)
Query: 160 KMARNRVYYEPECNSTQLDHAVLVVGYGTDENGN----DYWLVKNSWNTTWGDEGY 211
KM + ++++P LD + + GY D+NGN D WL K W T +G+
Sbjct: 105 KMYSDEIFHKP----YILDCDLFIFGYDMDDNGNVTIKDLWL-KKVWQITRSMDGW 155
>gnl|CDD|202517 pfam03051, Peptidase_C1_2, Peptidase C1-like family. This family
is closely related to the Peptidase_C1 family pfam00112,
containing several prokaryotic and eukaryotic
aminopeptidases and bleomycin hydrolases.
Length = 438
Score = 31.9 bits (73), Expect = 0.26
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 124 LDHAVLVVGYGTDENGN-DYWLVKNSWNTTWGDEGYIKM 161
+ HA+++ G D++G W V+NSW G +GY M
Sbjct: 359 MTHAMVLTGVDEDDDGKPTKWKVENSWGDDSGKKGYFVM 397
Score = 31.9 bits (73), Expect = 0.26
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 177 LDHAVLVVGYGTDENGN-DYWLVKNSWNTTWGDEGYIKM 214
+ HA+++ G D++G W V+NSW G +GY M
Sbjct: 359 MTHAMVLTGVDEDDDGKPTKWKVENSWGDDSGKKGYFVM 397
>gnl|CDD|224897 COG1986, COG1986, Inosine/xanthosine triphosphatase [Nucleotide
transport and metabolism].
Length = 175
Score = 28.8 bits (65), Expect = 1.7
Identities = 22/81 (27%), Positives = 28/81 (34%), Gaps = 19/81 (23%)
Query: 154 GDEGYIKMARNRVYYEPECNSTQLDHAVLVVGY--GTDENGNDYWLVKNSWNTTWGDEGY 211
GDE ++ ARNR N+ + A VG G G Y V W
Sbjct: 45 GDEETVQGARNRAK-----NALRAVDADYGVGIEAGIIRVGTKY--VDFHW-------AV 90
Query: 212 IKMARNRENNCGVASSASFPL 232
+ +RE SA F L
Sbjct: 91 V---VDREGRRTEGRSAGFEL 108
>gnl|CDD|238328 cd00585, Peptidase_C1B, Peptidase C1B subfamily (MEROPS database
nomenclature); composed of eukaryotic bleomycin
hydrolases (BH) and bacterial aminopeptidases C (pepC).
The proteins of this subfamily contain a large insert
relative to the C1A peptidase (papain) subfamily. BH is
a cysteine peptidase 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. Bleomycin, a glycopeptide derived from the
fungus Streptomyces verticullus, is an effective
anticancer drug due to its ability to induce DNA strand
breaks. Human BH is the major cause of tumor cell
resistance to bleomycin chemotherapy, and is also
genetically linked to Alzheimer's disease. In addition
to its peptidase activity, the yeast BH (Gal6) binds DNA
and acts as a repressor in the Gal4 regulatory system.
BH forms a hexameric ring barrel structure with the
active sites imbedded in the central channel. The
bacterial homolog of BH, called pepC, is a cysteine
aminopeptidase possessing broad specificity. Although
its crystal structure has not been solved, biochemical
analysis shows that pepC also forms a hexamer. .
Length = 437
Score = 28.7 bits (65), Expect = 2.9
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 126 HAVLVVGYGTDENGN-DYWLVKNSWNTTWGDEGYIKM 161
HA+++ G DE+G W V+NSW G +GY M
Sbjct: 360 HAMVLTGVDLDEDGKPVKWKVENSWGEKVGKKGYFVM 396
Score = 28.7 bits (65), Expect = 2.9
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 179 HAVLVVGYGTDENGN-DYWLVKNSWNTTWGDEGYIKM 214
HA+++ G DE+G W V+NSW G +GY M
Sbjct: 360 HAMVLTGVDLDEDGKPVKWKVENSWGEKVGKKGYFVM 396
>gnl|CDD|233950 TIGR02608, delta_60_rpt, delta-60 repeat domain. This domain
occurs in tandem repeats, as many as 13, in proteins
from Bdellovibrio bacteriovorus, Azotobacter vinelandii,
Geobacter sulfurreducens, Pirellula sp. 1, Myxococcus
xanthus, and others, many of which are
Deltaproteobacteria. The periodicity of the repeat
ranges from about 57 to 61 amino acids, and a core
region of about 54 is represented by this model and seed
alignment.
Length = 54
Score = 26.0 bits (58), Expect = 2.9
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 122 TQLDHAVLVVGYGTDENGNDYWLVK----NSWNTTWGDEGY 158
Q D +LV GY + ND+ L + S +TT+G G
Sbjct: 8 VQSDGKILVAGYVDNSGNNDFVLARLNADGSLDTTFGTGGK 48
Score = 26.0 bits (58), Expect = 2.9
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 175 TQLDHAVLVVGYGTDENGNDYWLVK----NSWNTTWGDEGY 211
Q D +LV GY + ND+ L + S +TT+G G
Sbjct: 8 VQSDGKILVAGYVDNSGNNDFVLARLNADGSLDTTFGTGGK 48
>gnl|CDD|197263 cd09166, PLDc_PPK1_C1_unchar, Catalytic C-terminal domain, first
repeat, of uncharacterized prokaryotic polyphosphate
kinases. Catalytic C-terminal domain, first repeat (C1
domain), of a group of uncharacterized prokaryotic
polyphosphate kinases (Poly P kinase 1 or PPK1, EC
2.7.4.1). Inorganic polyphosphate (Poly P) plays an
important role in bacterial stress responses and
stationary-phase survival. PPK1 is the key enzyme
responsible for the synthesis of Poly P in bacteria. It
can catalyze the reversible conversion of the
terminal-phosphate of ATP to Poly P. Therefore, PPK1 is
essential for bacterial motility, quorum sensing,
biofilm formation, and the production of virulence
factors and may serve as an attractive antimicrobial
drug target. Dimerization is crucial for the enzymatic
activity of PPK1. Each PPK1 monomer includes four
structural domains, the N-terminal (N) domain, the head
(H) domain, and two closely related C-terminal (C1 and
C2) domains. The N domain provides the upper binding
interface for the adenine ring of the ATP. The H domain
is involved in dimerization, while both the C1 and C2
domains contain residues crucial for catalytic
activity. The intersection of the N, C1, and C2 domains
forms a structural tunnel in which the PPK catalytic
reactions are carried out. In spite of the lack of
sequence homology, the C1 and C2 domains of PPK1 are
structurally similar to the two repetitive catalytic
domains of phospholipase D (PLD). Moreover, some
residues in the HKD motif (H-x-K-x(4)-D, where x
represents any amino acid residue) of the PLD
superfamily are spatially conserved in the active site
of PPK1. It is possible that the bacterial PPK1 family
and the PLD family have a common ancestor and diverged
early in evolution.
Length = 162
Score = 27.0 bits (60), Expect = 6.9
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 19 SYPYEAMMSFL 29
SYPYE+M FL
Sbjct: 14 SYPYESMDPFL 24
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 0.421
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: 11,682,313
Number of extensions: 1047816
Number of successful extensions: 908
Number of sequences better than 10.0: 1
Number of HSP's gapped: 870
Number of HSP's successfully gapped: 50
Length of query: 233
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 139
Effective length of database: 6,768,326
Effective search space: 940797314
Effective search space used: 940797314
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 (21.6 bits)
S2: 57 (25.6 bits)