RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1075
(624 letters)
>gnl|CDD|173805 cd07479, Peptidases_S8_SKI-1_like, Peptidase S8 family domain in
SKI-1-like proteins. SKI-1 (type I membrane-bound
subtilisin-kexin-isoenzyme) proteins are secretory
Ca2+-dependent serine proteinases cleave at nonbasic
residues: Thr, Leu, and Lys. SKI-1s play a critical
role in the regulation of the synthesis and metabolism
of cholesterol and fatty acid metabolism. Members of
the peptidases S8 and S35 clan include endopeptidases,
exopeptidases and also a tripeptidyl-peptidase. The S8
family has an Asp/His/Ser catalytic triad similar to
that found in trypsin-like proteases, but do not share
their three-dimensional structure and are not homologous
to trypsin. The S53 family contains a catalytic triad
Glu/Asp/Ser. The stability of these enzymes may be
enhanced by calcium, some members have been shown to
bind up to 4 ions via binding sites with different
affinity. Some members of this clan contain disulfide
bonds. These enzymes can be intra- and extracellular,
some function at extreme temperatures and pH values.
Length = 255
Score = 91.0 bits (226), Expect = 2e-20
Identities = 37/51 (72%), Positives = 41/51 (80%)
Query: 89 LGIRGSGVKVAVFDTGLSSGHTGFNNVAERTDWTNENTLEDKLGHGTFVAG 139
LG G+GVKVAVFDTGL+ H F NV ERT+WTNE TL+D LGHGTFVAG
Sbjct: 3 LGYTGAGVKVAVFDTGLAKDHPHFRNVKERTNWTNEKTLDDGLGHGTFVAG 53
Score = 76.7 bits (189), Expect = 1e-15
Identities = 35/51 (68%), Positives = 38/51 (74%), Gaps = 1/51 (1%)
Query: 1 CRTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRLPG 51
CR LSGTSVASPVVAG VALL S + + INPASMKQ L+ SA RLPG
Sbjct: 206 CRALSGTSVASPVVAGAVALLLSTVPEKRD-LINPASMKQALIESATRLPG 255
Score = 67.1 bits (164), Expect = 2e-12
Identities = 31/49 (63%), Positives = 35/49 (71%), Gaps = 1/49 (2%)
Query: 139 GCRTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGPVSNITR 187
GCR LSGTSVASPVVAG VALL S + + INPASMKQ + + TR
Sbjct: 205 GCRALSGTSVASPVVAGAVALLLSTVPEKRD-LINPASMKQALIESATR 252
>gnl|CDD|173806 cd07480, Peptidases_S8_12, Peptidase S8 family domain,
uncharacterized subfamily 12. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 297
Score = 52.0 bits (125), Expect = 3e-07
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 93 GSGVKVAVFDTGLSSGHTGFNNVAERT-DWTNENTLEDKLGHGTFVAGCRTLSGTSVASP 151
G+GV+VAV DTG+ H F T + ++D GHGT AG T+ G V P
Sbjct: 7 GAGVRVAVLDTGIDLTHPAFAGRDITTKSFVGGEDVQDGHGHGTHCAG--TIFGRDVPGP 64
Score = 38.1 bits (89), Expect = 0.010
Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 3/63 (4%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARR--LPGVNMFEQGS 59
R++SGTS+A+P VAGV AL A L G A ++ L A+ PG+++ ++G
Sbjct: 232 RSMSGTSMATPHVAGVAALWAEALPKA-GGRALAALLQARLTAARTTQFAPGLDLPDRGV 290
Query: 60 GKI 62
G
Sbjct: 291 GLG 293
Score = 35.8 bits (83), Expect = 0.057
Identities = 15/24 (62%), Positives = 19/24 (79%)
Query: 138 AGCRTLSGTSVASPVVAGVVALLA 161
G R++SGTS+A+P VAGV AL A
Sbjct: 229 GGYRSMSGTSMATPHVAGVAALWA 252
>gnl|CDD|173814 cd07489, Peptidases_S8_5, Peptidase S8 family domain,
uncharacterized subfamily 5. gap in seq This family is
a member of the Peptidases S8 or Subtilases serine endo-
and exo-peptidase clan. They have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. The
stability of subtilases may be enhanced by calcium, some
members have been shown to bind up to 4 ions via binding
sites with different affinity. Some members of this clan
contain disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 312
Score = 48.4 bits (116), Expect = 5e-06
Identities = 33/96 (34%), Positives = 49/96 (51%), Gaps = 20/96 (20%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRLPGVN-------- 53
LSGTS+A+P VAG ALL +PA ++ L ++A+ LP +
Sbjct: 225 AVLSGTSMATPYVAGAAALLIQ--ARHGKL--SPAELRDLLASTAKPLPWSDGTSALPDL 280
Query: 54 --MFEQGSGKIDLLRAYQILNSYTPQASLSPSSLFL 87
+ +QG+G L+ AY+ L + +LSPSSL L
Sbjct: 281 APVAQQGAG---LVNAYKALYA---TTTLSPSSLSL 310
Score = 38.4 bits (90), Expect = 0.009
Identities = 13/30 (43%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 141 RTLSGTSVASPVVAGVVALLASGLKHRPAG 170
LSGTS+A+P VAG ALL
Sbjct: 225 AVLSGTSMATPYVAGAAALLIQ--ARHGKL 252
Score = 36.0 bits (84), Expect = 0.042
Identities = 26/68 (38%), Positives = 31/68 (45%), Gaps = 18/68 (26%)
Query: 90 GIRGSGVKVAVFDTGLSSGHT--------------GFNNVAERTDWTNE----NTLEDKL 131
GI G GVKVAV DTG+ H G++ V + D TN + D
Sbjct: 9 GITGKGVKVAVVDTGIDYTHPALGGCFGPGCKVAGGYDFVGDDYDGTNPPVPDDDPMDCQ 68
Query: 132 GHGTFVAG 139
GHGT VAG
Sbjct: 69 GHGTHVAG 76
>gnl|CDD|173803 cd07477, Peptidases_S8_Subtilisin_subset, Peptidase S8 family
domain in Subtilisin proteins. This group is composed
of many different subtilisins: Pro-TK-subtilisin,
subtilisin Carlsberg, serine protease Pb92 subtilisin,
and BPN subtilisins just to name a few.
Pro-TK-subtilisin is a serine protease from the
hyperthermophilic archaeon Thermococcus kodakaraensis
and consists of a signal peptide, a propeptide, and a
mature domain. TK-subtilisin is matured from
pro-TK-subtilisin upon autoprocessing and degradation of
the propeptide. Unlike other subtilisins though, the
folding of the unprocessed form of pro-TK-subtilisin is
induced by Ca2+ binding which is almost completed prior
to autoprocessing. Ca2+ is required for activity unlike
the bacterial subtilisins. The propeptide is not
required for folding of the mature domain unlike the
bacterial subtilases because of the stability produced
from Ca2+ binding. Subtilisin Carlsberg is extremely
similar in structure to subtilisin BPN'/Novo thought it
has a 30% difference in amino acid sequence. The
substrate binding regions are also similar and 2
possible Ca2+ binding sites have been identified
recently. Subtilisin Carlsberg possesses the highest
commercial importance as a proteolytic additive for
detergents. Serine protease Pb92, the serine protease
from the alkalophilic Bacillus strain PB92, also
contains two calcium ions and the overall folding of
the polypeptide chain closely resembles that of the
subtilisins. Members of the peptidases S8 and S35 clan
include endopeptidases, exopeptidases and also a
tripeptidyl-peptidase. The S8 family has an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. The S53
family contains a catalytic triad Glu/Asp/Ser. The
stability of these enzymes may be enhanced by calcium,
some members have been shown to bind up to 4 ions via
binding sites with different affinity. Some members of
this clan contain disulfide bonds. These enzymes can be
intra- and extracellular, some function at extreme
temperatures and pH values.
Length = 229
Score = 47.1 bits (113), Expect = 7e-06
Identities = 21/53 (39%), Positives = 24/53 (45%), Gaps = 13/53 (24%)
Query: 95 GVKVAVFDTGLSSGH--------TGFNNVAERTDWTNENTLEDKLGHGTFVAG 139
GVKVAV DTG+ S H G N + + D GHGT VAG
Sbjct: 1 GVKVAVIDTGIDSSHPDLKLNIVGGANFTGDDNNDYQ-----DGNGHGTHVAG 48
Score = 38.3 bits (90), Expect = 0.007
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 5/44 (11%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMAS 45
LSGTS+A+P VAGV AL+ S RP + A ++Q L +
Sbjct: 191 AYLSGTSMATPHVAGVAALVWS---KRPE--LTNAQVRQALNKT 229
Score = 37.5 bits (88), Expect = 0.010
Identities = 16/29 (55%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 141 RTLSGTSVASPVVAGVVALLASGLKHRPA 169
LSGTS+A+P VAGV AL+ S RP
Sbjct: 191 AYLSGTSMATPHVAGVAALVWS---KRPE 216
>gnl|CDD|173800 cd07474, Peptidases_S8_subtilisin_Vpr-like, Peptidase S8 family
domain in Vpr-like proteins. The maturation of the
peptide antibiotic (lantibiotic) subtilin in Bacillus
subtilis ATCC 6633 includes posttranslational
modifications of the propeptide and proteolytic cleavage
of the leader peptide. Vpr was identified as one of the
proteases, along with WprA, that are capable of
processing subtilin. Asp, Ser, His triadPeptidases S8
or Subtilases are a serine endo- and exo-peptidase clan.
They have an Asp/His/Ser catalytic triad similar to that
found in trypsin-like proteases, but do not share their
three-dimensional structure and are not homologous to
trypsin. The stability of subtilases may be enhanced by
calcium, some members have been shown to bind up to 4
ions via binding sites with different affinity. Some
members of this clan contain disulfide bonds. These
enzymes can be intra- and extracellular, some function
at extreme temperatures and pH values.
Length = 295
Score = 47.7 bits (114), Expect = 9e-06
Identities = 27/69 (39%), Positives = 39/69 (56%), Gaps = 10/69 (14%)
Query: 4 LSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRL-----PGVNMFEQG 58
+SGTS+A+P VAG ALL + P +PA +K LM +A+ L + QG
Sbjct: 232 MSGTSMAAPHVAGAAALL---KQAHPD--WSPAQIKAALMNTAKPLYDSDGVVYPVSRQG 286
Query: 59 SGKIDLLRA 67
+G++D LRA
Sbjct: 287 AGRVDALRA 295
Score = 33.8 bits (78), Expect = 0.22
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 143 LSGTSVASPVVAGVVALL 160
+SGTS+A+P VAG ALL
Sbjct: 232 MSGTSMAAPHVAGAAALL 249
Score = 32.3 bits (74), Expect = 0.70
Identities = 23/76 (30%), Positives = 28/76 (36%), Gaps = 13/76 (17%)
Query: 93 GSGVKVAVFDTGLSSGHTGFNNVAERT------------DWTNENTLEDKLGHGTFVAGC 140
G GVKVAV DTG+ H D+ +T G AG
Sbjct: 1 GKGVKVAVIDTGIDYTHPDLGGPGFPNDKVKGGYDFVDDDYDPMDTRPYPSPLGDASAGD 60
Query: 141 RTLSGTSVASPVVAGV 156
T GT VA ++AG
Sbjct: 61 ATGHGTHVAG-IIAGN 75
>gnl|CDD|173791 cd04842, Peptidases_S8_Kp43_protease, Peptidase S8 family domain in
Kp43 proteases. Kp43 proteases are members of the
peptidase S8 or Subtilase clan of proteases. They have
an Asp/His/Ser catalytic triad similar to that found in
trypsin-like proteases, but do not share their
three-dimensional structure (an example of convergent
evolution). Kp43 is topologically similar to kexin and
furin both of which are proprotein convertases, but
differ in amino acids sequence and the position of its
C-terminal barrel. Kp43 has 3 Ca2+ binding sites that
differ from the corresponding sites in the other known
subtilisin-like proteases. KP-43 protease is known to
be an oxidation-resistant protease when compared with
the other subtilisin-like proteases.
Length = 293
Score = 46.9 bits (112), Expect = 1e-05
Identities = 25/75 (33%), Positives = 32/75 (42%), Gaps = 16/75 (21%)
Query: 89 LGIRGSGVKVAVFDTGLSSGHTGFNNVAERTDWTNEN------------TLEDKLGHGTF 136
LG+ G G V V DTGL + H F + + TN T +D GHGT
Sbjct: 2 LGLTGKGQIVGVADTGLDTNHCFFYD--PNFNKTNLFHRKIVRYDSLSDTKDDVDGHGTH 59
Query: 137 VAGCRTLSGTSVASP 151
VAG ++G S
Sbjct: 60 VAG--IIAGKGNDSS 72
Score = 33.5 bits (77), Expect = 0.26
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 3 TLSGTSVASPVVAGVVALLA---SGLKHRPAGHINPASMKQGLMASAR 47
+ SGTS+A+P+VAG ALL + + + A +K L+ SAR
Sbjct: 246 SKSGTSMATPLVAGAAALLRQYFVDGYYPTKFNPSAALLKALLINSAR 293
Score = 33.5 bits (77), Expect = 0.26
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 142 TLSGTSVASPVVAGVVALLA 161
+ SGTS+A+P+VAG ALL
Sbjct: 246 SKSGTSMATPLVAGAAALLR 265
>gnl|CDD|173812 cd07487, Peptidases_S8_1, Peptidase S8 family domain,
uncharacterized subfamily 1. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 264
Score = 46.0 bits (110), Expect = 2e-05
Identities = 24/70 (34%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 93 GSGVKVAVFDTGLSSGHTGFNN-----VAERTDWTNENTLEDKLGHGTFVAGCRTLSGTS 147
G G+ VAV DTG+ + H F+ T D GHGT VAG ++G+
Sbjct: 1 GKGITVAVLDTGIDAPHPDFDGRIIRFADFVNTVNGRTTPYDDNGHGTHVAGI--IAGSG 58
Query: 148 VAS-PVVAGV 156
AS GV
Sbjct: 59 RASNGKYKGV 68
Score = 39.5 bits (93), Expect = 0.003
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 5/45 (11%)
Query: 3 TLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASAR 47
+SGTS+A+P V+G +ALL L+ P P +K L +A
Sbjct: 225 EMSGTSMATPHVSGAIALL---LQANPIL--TPDEVKCILRDTAT 264
Score = 36.0 bits (84), Expect = 0.040
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 142 TLSGTSVASPVVAGVVALL 160
+SGTS+A+P V+G +ALL
Sbjct: 225 EMSGTSMATPHVSGAIALL 243
>gnl|CDD|215701 pfam00082, Peptidase_S8, Subtilase family. Subtilases are a family
of serine proteases. They appear to have independently
and convergently evolved an Asp/Ser/His catalytic triad,
like that found in the trypsin serine proteases (see
pfam00089). Structure is an alpha/beta fold containing a
7-stranded parallel beta sheet, order 2314567.
Length = 277
Score = 44.3 bits (105), Expect = 1e-04
Identities = 21/68 (30%), Positives = 37/68 (54%), Gaps = 6/68 (8%)
Query: 3 TLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRLPGVNM-FEQGSGK 61
+ SGTS+A+P+VAG ALL S + P +++ L+ +A L + + G G
Sbjct: 215 SHSGTSMAAPLVAGAAALLLSAN-----PSLTPETLRALLVTTATDLGSMGLDRSFGYGL 269
Query: 62 IDLLRAYQ 69
++L +A +
Sbjct: 270 LNLGKAVK 277
Score = 40.0 bits (94), Expect = 0.002
Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 12/70 (17%)
Query: 97 KVAVFDTGLSSGHTGFNNVA----ERTDWT------NENTLEDKLGHGTFVAGCRTLSGT 146
V V DTG+ H + R + + +D GHGT VAG ++
Sbjct: 1 TVGVLDTGIDVNHPDLSGRYIGLAYRNGYDFVDNDPDPTPDDDNNGHGTHVAG--IIAAG 58
Query: 147 SVASPVVAGV 156
GV
Sbjct: 59 DNNGSGGVGV 68
Score = 32.7 bits (75), Expect = 0.53
Identities = 13/21 (61%), Positives = 17/21 (80%)
Query: 142 TLSGTSVASPVVAGVVALLAS 162
+ SGTS+A+P+VAG ALL S
Sbjct: 215 SHSGTSMAAPLVAGAAALLLS 235
>gnl|CDD|173799 cd07473, Peptidases_S8_Subtilisin_like, Peptidase S8 family domain
in Subtilisin-like proteins. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 259
Score = 43.7 bits (104), Expect = 1e-04
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASAR 47
+SGTS+A+P VAG ALL S P + A +K +++SA
Sbjct: 219 GYMSGTSMATPHVAGAAALLLS---LNPN--LTAAQIKDAILSSAD 259
Score = 38.3 bits (90), Expect = 0.007
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 141 RTLSGTSVASPVVAGVVALLAS 162
+SGTS+A+P VAG ALL S
Sbjct: 219 GYMSGTSMATPHVAGAAALLLS 240
>gnl|CDD|173810 cd07484, Peptidases_S8_Thermitase_like, Peptidase S8 family domain
in Thermitase-like proteins. Thermitase is a
non-specific, trypsin-related serine protease with a
very high specific activity. It contains a subtilisin
like domain. The tertiary structure of thermitase is
similar to that of subtilisin BPN'. It contains a
Asp/His/Ser catalytic triad. Members of the peptidases
S8 (subtilisin and kexin) and S53 (sedolisin) clan
include endopeptidases and exopeptidases. The S8 family
has an Asp/His/Ser catalytic triad similar to that found
in trypsin-like proteases, but do not share their
three-dimensional structure and are not homologous to
trypsin. Serine acts as a nucleophile, aspartate as an
electrophile, and histidine as a base. The S53 family
contains a catalytic triad Glu/Asp/Ser with an
additional acidic residue Asp in the oxyanion hole,
similar to that of subtilisin. The serine residue here
is the nucleophilic equivalent of the serine residue in
the S8 family, while glutamic acid has the same role
here as the histidine base. However, the aspartic
acid residue that acts as an electrophile is quite
different. In S53 the it follows glutamic acid, while
in S8 it precedes histidine. The stability of these
enzymes may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. There is a great diversity in the
characteristics of their members: some contain disulfide
bonds, some are intracellular while others are
extracellular, some function at extreme temperatures,
and others at high or low pH values.
Length = 260
Score = 43.0 bits (102), Expect = 2e-04
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 6/47 (12%)
Query: 3 TLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRL 49
+SGTS+A+P VAGV ALL S G ++ + ++ L +A +
Sbjct: 219 YMSGTSMATPHVAGVAALLYS------QGPLSASEVRDALKKTADDI 259
Score = 41.9 bits (99), Expect = 5e-04
Identities = 22/58 (37%), Positives = 28/58 (48%), Gaps = 15/58 (25%)
Query: 91 IRGSGVKVAVFDTGLSSGH---------TGFNNVAERTDWTNENTLEDKLGHGTFVAG 139
GSGV VAV DTG+ H G++ V +D ++N GHGT VAG
Sbjct: 25 TGGSGVTVAVVDTGVDPTHPDLLKVKFVLGYDFVDNDSDAMDDN------GHGTHVAG 76
Score = 38.4 bits (90), Expect = 0.006
Identities = 14/21 (66%), Positives = 17/21 (80%)
Query: 142 TLSGTSVASPVVAGVVALLAS 162
+SGTS+A+P VAGV ALL S
Sbjct: 219 YMSGTSMATPHVAGVAALLYS 239
>gnl|CDD|173804 cd07478, Peptidases_S8_CspA-like, Peptidase S8 family domain in
CspA-like proteins. GSP (germination-specific protease)
converts the spore peptidoglycan hydrolase (SleC)
precursor to an active enzyme during germination of
Clostridium perfringens S40 spores. Analysis of an
enzyme fraction of GSP showed that it was composed of a
gene cluster containing the processed forms of products
of cspA, cspB, and cspC which are positioned in a tandem
array just upstream of the 5' end of sleC. The amino
acid sequences deduced from the nucleotide sequences of
the csp genes showed significant similarity and showed a
high degree of homology with those of the catalytic
domain and the oxyanion binding region of
subtilisin-like serine proteases. Members of the
peptidases S8 and S35 clan include endopeptidases,
exopeptidases and also a tripeptidyl-peptidase. The S8
family has an Asp/His/Ser catalytic triad similar to
that found in trypsin-like proteases, but do not share
their three-dimensional structure and are not homologous
to trypsin. The S53 family contains a catalytic triad
Glu/Asp/Ser. The stability of these enzymes may be
enhanced by calcium, some members have been shown to
bind up to 4 ions via binding sites with different
affinity. Some members of this clan contain disulfide
bonds. These enzymes can be intra- and extracellular,
some function at extreme temperatures and pH values.
Length = 455
Score = 43.4 bits (103), Expect = 3e-04
Identities = 21/52 (40%), Positives = 28/52 (53%), Gaps = 5/52 (9%)
Query: 3 TLSGTSVASPVVAGVVALL---ASGLKHRPAGHINPASMKQGLMASARRLPG 51
T SGTSVA+ +VAG ALL + P ++ +K L+ ARR PG
Sbjct: 395 TRSGTSVAAAIVAGACALLLQWGIVRGNDP--YLYGEKIKTYLIRGARRRPG 444
Score = 39.9 bits (94), Expect = 0.003
Identities = 14/28 (50%), Positives = 17/28 (60%), Gaps = 4/28 (14%)
Query: 133 HGTFVAGCRTLSGTSVASPVVAGVVALL 160
G + T SGTSVA+ +VAG ALL
Sbjct: 390 GGGYT----TRSGTSVAAAIVAGACALL 413
>gnl|CDD|173790 cd04077, Peptidases_S8_PCSK9_ProteinaseK_like, Peptidase S8 family
domain in ProteinaseK-like proteins. The peptidase S8
or Subtilase clan of proteases have a Asp/His/Ser
catalytic triad that is not homologous to trypsin. This
CD contains several members of this clan including:
PCSK9 (Proprotein convertase subtilisin/kexin type 9),
Proteinase_K, Proteinase_T, and other subtilisin-like
serine proteases. PCSK9 posttranslationally regulates
hepatic low-density lipoprotein receptors (LDLRs) by
binding to LDLRs on the cell surface, leading to their
degradation. The binding site of PCSK9 has been
localized to the epidermal growth factor-like repeat A
(EGF-A) domain of the LDLR. Characterized Proteinases K
are secreted endopeptidases with a high degree of
sequence conservation. Proteinases K are not
substrate-specific and function in a wide variety of
species in different pathways. It can hydrolyze keratin
and other proteins with subtilisin-like specificity. The
number of calcium-binding motifs found in these differ.
Proteinase T is a novel proteinase from the fungus
Tritirachium album Limber. The amino acid sequence of
proteinase T as deduced from the nucleotide sequence is
about 56% identical to that of proteinase K.
Length = 255
Score = 41.7 bits (99), Expect = 6e-04
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 5/47 (10%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARR 48
TLSGTS+A+P VAG+ A L S ++PA +K L+ A +
Sbjct: 214 ATLSGTSMAAPHVAGLAAYLLSL-----GPDLSPAEVKARLLNLATK 255
Score = 39.0 bits (92), Expect = 0.004
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 141 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQ 179
TLSGTS+A+P VAG+ A L S ++PA +K
Sbjct: 214 ATLSGTSMAAPHVAGLAAYLLSL-----GPDLSPAEVKA 247
Score = 38.7 bits (91), Expect = 0.005
Identities = 21/48 (43%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 93 GSGVKVAVFDTGLSSGHTGFNNVAERT-DWTNENTLEDKLGHGTFVAG 139
GSGV V V DTG+ + H F A D+ + D GHGT VAG
Sbjct: 24 GSGVDVYVLDTGIRTTHVEFGGRAIWGADFVGGDPDSDCNGHGTHVAG 71
>gnl|CDD|173787 cd00306, Peptidases_S8_S53, Peptidase domain in the S8 and S53
families. Members of the peptidases S8 (subtilisin and
kexin) and S53 (sedolisin) family include endopeptidases
and exopeptidases. The S8 family has an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. Serine acts
as a nucleophile, aspartate as an electrophile, and
histidine as a base. The S53 family contains a catalytic
triad Glu/Asp/Ser with an additional acidic residue Asp
in the oxyanion hole, similar to that of subtilisin.
The serine residue here is the nucleophilic equivalent
of the serine residue in the S8 family, while glutamic
acid has the same role here as the histidine base.
However, the aspartic acid residue that acts as an
electrophile is quite different. In S53, it follows
glutamic acid, while in S8 it precedes histidine. The
stability of these enzymes may be enhanced by calcium;
some members have been shown to bind up to 4 ions via
binding sites with different affinity. There is a great
diversity in the characteristics of their members: some
contain disulfide bonds, some are intracellular while
others are extracellular, some function at extreme
temperatures, and others at high or low pH values.
Length = 241
Score = 41.0 bits (96), Expect = 8e-04
Identities = 18/29 (62%), Positives = 21/29 (72%)
Query: 134 GTFVAGCRTLSGTSVASPVVAGVVALLAS 162
T G TLSGTS+A+P+VAGV ALL S
Sbjct: 196 TTGGGGYATLSGTSMAAPIVAGVAALLLS 224
Score = 40.6 bits (95), Expect = 0.001
Identities = 18/52 (34%), Positives = 22/52 (42%), Gaps = 8/52 (15%)
Query: 96 VKVAVFDTGLSSGHTGFNNVAERTDWTN--------ENTLEDKLGHGTFVAG 139
V VAV DTG+ H + + D N +D GHGT VAG
Sbjct: 1 VTVAVIDTGVDPDHPDLDGLFGGGDGGNDDDDNENGPTDPDDGNGHGTHVAG 52
Score = 40.3 bits (94), Expect = 0.002
Identities = 16/22 (72%), Positives = 19/22 (86%)
Query: 2 RTLSGTSVASPVVAGVVALLAS 23
TLSGTS+A+P+VAGV ALL S
Sbjct: 203 ATLSGTSMAAPIVAGVAALLLS 224
>gnl|CDD|173796 cd04857, Peptidases_S8_Tripeptidyl_Aminopeptidase_II, Peptidase S8
family domain in Tripeptidyl aminopeptidases_II.
Tripeptidyl aminopeptidases II are member of the
peptidase S8 or Subtilase family. Subtilases, or
subtilisin-like serine proteases, have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure (an example of convergent evolution).
Tripeptidyl aminopeptidase II removes tripeptides from
the free N terminus of oligopeptides as well as having
endoproteolytic activity. Some tripeptidyl
aminopeptidases have been shown to cleave tripeptides
and small peptides, e.g. angiotensin II and glucagon,
while others are believed to be involved in MHC I
processing.
Length = 412
Score = 41.9 bits (99), Expect = 9e-04
Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 4 LSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRL 49
++GTS++SP G +ALL SGLK P S+++ L +A++L
Sbjct: 368 MNGTSMSSPNACGGIALLLSGLKAE-GIPYTPYSVRRALENTAKKL 412
Score = 36.1 bits (84), Expect = 0.055
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 139 GCRTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMK 178
G + ++GTS++SP G +ALL SGLK P S++
Sbjct: 364 GSQLMNGTSMSSPNACGGIALLLSGLKAE-GIPYTPYSVR 402
>gnl|CDD|224322 COG1404, AprE, Subtilisin-like serine proteases [Posttranslational
modification, protein turnover, chaperones].
Length = 508
Score = 41.8 bits (97), Expect = 0.001
Identities = 22/54 (40%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 90 GIRGSGVKVAVFDTGLSSGHTGFNNVAER----TDWTNENTLEDKLGHGTFVAG 139
G+ G GV VAV DTG+ + H A D E D GHGT VAG
Sbjct: 138 GLTGKGVTVAVIDTGVDASHPDLAGSAVAGGDFVDGDPEPPFLDDNGHGTHVAG 191
Score = 32.2 bits (72), Expect = 0.84
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 3 TLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRLPG 51
TLSGTS+A+P V+GV AL+ S + PA ++ ++ +A P
Sbjct: 357 TLSGTSMAAPHVSGVAALVLS----ANPNELTPAQVRNLIVTTAGLTPL 401
Score = 31.4 bits (70), Expect = 1.7
Identities = 14/22 (63%), Positives = 18/22 (81%)
Query: 142 TLSGTSVASPVVAGVVALLASG 163
TLSGTS+A+P V+GV AL+ S
Sbjct: 357 TLSGTSMAAPHVSGVAALVLSA 378
>gnl|CDD|173794 cd04848, Peptidases_S8_Autotransporter_serine_protease_like,
Peptidase S8 family domain in Autotransporter serine
proteases. Autotransporter serine proteases belong to
Peptidase S8 or Subtilase family. Subtilases, or
subtilisin-like serine proteases, have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure (an example of convergent evolution).
Autotransporters are a superfamily of outer
membrane/secreted proteins of gram-negative bacteria.
The presence of these subtilisin-like domains in these
autotransporters are may enable them to be
auto-catalytic and may also serve to allow them to act
as a maturation protease cleaving other outer membrane
proteins at the cell surface.
Length = 267
Score = 40.8 bits (96), Expect = 0.001
Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 92 RGSGVKVAVFDTGLSSGHTGFNN-VAERTDWTNENTLE-----DKLGHGTFVAG 139
G+GVKV V D+G+ H F V+E + + N D HGT VAG
Sbjct: 1 TGAGVKVGVIDSGIDLSHPEFAGRVSEASYYVAVNDAGYASNGDGDSHGTHVAG 54
Score = 37.3 bits (87), Expect = 0.017
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 139 GCRTLSGTSVASPVVAGVVALLAS 162
G +SGTS A+P V+G ALLA
Sbjct: 225 GYGRVSGTSFAAPHVSGAAALLAQ 248
Score = 35.8 bits (83), Expect = 0.054
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 1 CRTLSGTSVASPVVAGVVALLAS 23
+SGTS A+P V+G ALLA
Sbjct: 226 YGRVSGTSFAAPHVSGAAALLAQ 248
>gnl|CDD|173793 cd04847, Peptidases_S8_Subtilisin_like_2, Peptidase S8 family
domain in Subtilisin-like proteins. This family is a
member of the Peptidases S8 or Subtilases serine endo-
and exo-peptidase clan. They have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. The
stability of subtilases may be enhanced by calcium, some
members have been shown to bind up to 4 ions via binding
sites with different affinity. Some members of this clan
contain disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 291
Score = 40.4 bits (95), Expect = 0.002
Identities = 17/46 (36%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 97 KVAVFDTGLSSGHTGFNNVAERTDWT---NENTLEDKLGHGTFVAG 139
V V D+G++ GH A D D LGHGT VAG
Sbjct: 2 IVCVLDSGINRGH-PLLAPALAEDDLDSDEPGWTADDLGHGTAVAG 46
>gnl|CDD|173795 cd04852, Peptidases_S8_3, Peptidase S8 family domain,
uncharacterized subfamily 3. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 307
Score = 39.9 bits (94), Expect = 0.003
Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 5/43 (11%)
Query: 4 LSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASA 46
+SGTS+ASP VAGV ALL S P +PA++K LM +A
Sbjct: 269 ISGTSMASPHVAGVAALLKS---AHP--DWSPAAIKSALMTTA 306
Score = 39.5 bits (93), Expect = 0.004
Identities = 18/40 (45%), Positives = 20/40 (50%), Gaps = 4/40 (10%)
Query: 121 WTNENTLEDKLGHGTFVAGCRTLSGTSVASPVVAGVVALL 160
WT E F +SGTS+ASP VAGV ALL
Sbjct: 251 WTPEGADPGDARGEDFAF----ISGTSMASPHVAGVAALL 286
Score = 28.7 bits (65), Expect = 9.1
Identities = 27/140 (19%), Positives = 38/140 (27%), Gaps = 46/140 (32%)
Query: 68 YQILNSYTPQ---ASLSPSSLFLPLGIRGSGVKVAVFDTGLSSGHTGFNNVA-------- 116
YQ+ + +P + L G G+ + V DTG+ H F +V
Sbjct: 1 YQLHTTRSPDFLGLPGAWGGSLLGAANAGEGIIIGVLDTGIWPEHPSFADVGGGPYPHTW 60
Query: 117 ---------------------------------ERTDWTNENTLEDKLGHGTFVAGCRTL 143
+ D GHGT A T
Sbjct: 61 PGDCVTGEDFNPFSCNNKLIGARYFSDGYDAYGGFNSDGEYRSPRDYDGHGTHTAS--TA 118
Query: 144 SGTSVASPVVAGVVALLASG 163
+G V + V G ASG
Sbjct: 119 AGNVVVNASVGGFAFGTASG 138
>gnl|CDD|173801 cd07475, Peptidases_S8_C5a_Peptidase, Peptidase S8 family domain in
Streptococcal C5a peptidases. Streptococcal C5a
peptidase (SCP), is a highly specific protease and
adhesin/invasin. The subtilisin-like protease domain is
located at the N-terminus and contains a
protease-associated domain inserted into a loop. There
are three fibronectin type III (Fn) domains at the
C-terminus. SCP binds to integrins with the help of
Arg-Gly-Asp motifs which are thought to stabilize
conformational changes required for substrate binding.
Peptidases S8 or Subtilases are a serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 346
Score = 39.9 bits (94), Expect = 0.003
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 10/75 (13%)
Query: 3 TLSGTSVASPVVAGVVALLASGLKHRP---AGHINPASMKQGLMASARR---LPGVNMF- 55
+SGTS+ASP VAG AL+ LK + +G +K LM +A +
Sbjct: 270 YMSGTSMASPHVAGASALVKQRLKEKYPKLSGEELVDLVKNLLMNTATPPLDSEDTKTYY 329
Query: 56 ---EQGSGKIDLLRA 67
QG+G ID+ +A
Sbjct: 330 SPRRQGAGLIDVAKA 344
Score = 36.9 bits (86), Expect = 0.025
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 142 TLSGTSVASPVVAGVVALLASGLK 165
+SGTS+ASP VAG AL+ LK
Sbjct: 270 YMSGTSMASPHVAGASALVKQRLK 293
>gnl|CDD|173815 cd07490, Peptidases_S8_6, Peptidase S8 family domain,
uncharacterized subfamily 6. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 254
Score = 39.1 bits (91), Expect = 0.004
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 5/46 (10%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASAR 47
LSGTS+A+P VAGV ALLA+ ++P +K L +A
Sbjct: 214 TRLSGTSMAAPHVAGVAALLAAA-----HPDLSPEQIKDALTETAY 254
Score = 36.4 bits (84), Expect = 0.034
Identities = 15/22 (68%), Positives = 18/22 (81%)
Query: 141 RTLSGTSVASPVVAGVVALLAS 162
LSGTS+A+P VAGV ALLA+
Sbjct: 214 TRLSGTSMAAPHVAGVAALLAA 235
Score = 33.7 bits (77), Expect = 0.20
Identities = 24/76 (31%), Positives = 31/76 (40%), Gaps = 6/76 (7%)
Query: 95 GVKVAVFDTGLSSGHTGFN-NVAERTDWTNENTLE-----DKLGHGTFVAGCRTLSGTSV 148
GV VAV DTG+ + H VA+ D+ + D GHGT V+G G
Sbjct: 1 GVTVAVLDTGVDADHPDLAGRVAQWADFDENRRISATEVFDAGGHGTHVSGTIGGGGAKG 60
Query: 149 ASPVVAGVVALLASGL 164
VA LL +
Sbjct: 61 VYIGVAPEADLLHGKV 76
>gnl|CDD|235455 PRK05422, smpB, SsrA-binding protein; Validated.
Length = 148
Score = 36.9 bits (87), Expect = 0.008
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 7/32 (21%)
Query: 446 LLLVDPEEEYHREEIDKLRRDVEQDGLALIVL 477
LLL H++EIDKL VE+ G L+ L
Sbjct: 81 LLL-------HKKEIDKLIGKVERKGYTLVPL 105
>gnl|CDD|173802 cd07476, Peptidases_S8_thiazoline_oxidase_subtilisin-like_protease,
Peptidase S8 family domain in Thiazoline
oxidase/subtilisin-like proteases. Thiazoline
oxidase/subtilisin-like protease is produced by the
symbiotic bacteria Prochloron spp. that inhabit didemnid
family ascidians. The cyclic peptides of the
patellamide class found in didemnid extracts are now
known to be synthesized by the Prochloron spp. The
prepatellamide is heterocyclized to form thiazole and
oxazoline rings and the peptide is cleaved to form the
two cyclic patellamides A and C. Subtilases, or
subtilisin-like serine proteases, have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure (an example of convergent evolution).
Length = 267
Score = 37.3 bits (87), Expect = 0.014
Identities = 17/46 (36%), Positives = 27/46 (58%), Gaps = 1/46 (2%)
Query: 4 LSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRL 49
SGTS A+ +VAG+ ALL S R A +P ++++ L+ +A
Sbjct: 208 RSGTSFAAAIVAGIAALLLSLQLRRGAPP-DPLAVRRALLETATPC 252
Score = 35.4 bits (82), Expect = 0.071
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 143 LSGTSVASPVVAGVVALLAS 162
SGTS A+ +VAG+ ALL S
Sbjct: 208 RSGTSFAAAIVAGIAALLLS 227
>gnl|CDD|234398 TIGR03921, T7SS_mycosin, type VII secretion-associated serine
protease mycosin. Members of this family are
subtilisin-related serine proteases, found strictly in
the Actinobacteria and associated with type VII
secretion operons. The designation mycosin is used for
members from Mycobacterium [Protein fate, Protein and
peptide secretion and trafficking, Protein fate, Protein
modification and repair].
Length = 350
Score = 37.7 bits (88), Expect = 0.015
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 6/66 (9%)
Query: 3 TLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRLPGVNM-FEQGSGK 61
T SGTS A+P V+G AL+ S + P + A +++ + A+A G G
Sbjct: 221 TTSGTSFAAPFVSGTAALVRS--RF-P--DLTAAQVRRRIEATADHPARGGRDDYVGYGV 275
Query: 62 IDLLRA 67
+D + A
Sbjct: 276 VDPVAA 281
Score = 36.9 bits (86), Expect = 0.025
Identities = 19/49 (38%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 92 RGSGVKVAVFDTGLSSGHTGFNNVAERTDWTNE-NTLEDKLGHGTFVAG 139
G+GV VAV DTG+ V D+ + +D GHGT VAG
Sbjct: 11 TGAGVTVAVIDTGVDDHPRLPGLVLPGGDFVGSGDGTDDCDGHGTLVAG 59
Score = 30.8 bits (70), Expect = 2.0
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 142 TLSGTSVASPVVAGVVALLAS 162
T SGTS A+P V+G AL+ S
Sbjct: 221 TTSGTSFAAPFVSGTAALVRS 241
>gnl|CDD|234383 TIGR03895, protease_PatA, cyanobactin maturation protease,
PatA/PatG family. This model describes a protease
domain associated with the maturation of various members
of the cyanobactin family of ribosomally produced,
heavily modified bioactive metabolites. Members include
the PatA protein and C-terminal domain of the PatG
protein of Prochloron didemni, TenA and a region of TenG
from Nostoc spongiaeforme var. tenue, etc.
Length = 602
Score = 37.8 bits (88), Expect = 0.016
Identities = 20/46 (43%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASAR 47
LSGTS A+PVV GV ALL S L+ + +P +++ L+ SA
Sbjct: 155 VRLSGTSFATPVVTGVAALLLS-LQLQQGETPDPQAVRTALLNSAI 199
Score = 37.8 bits (88), Expect = 0.018
Identities = 20/39 (51%), Positives = 22/39 (56%), Gaps = 5/39 (12%)
Query: 124 ENTLEDKLGHGTFVAGCRTLSGTSVASPVVAGVVALLAS 162
EN L + G T LSGTS A+PVV GV ALL S
Sbjct: 143 ENILGAQPGGET-----VRLSGTSFATPVVTGVAALLLS 176
>gnl|CDD|173788 cd04056, Peptidases_S53, Peptidase domain in the S53 family.
Members of the peptidases S53 (sedolisin) family include
endopeptidases and exopeptidases sedolisin, kumamolysin,
and (PSCP) Pepstatin-insensitive Carboxyl Proteinase.
The S53 family contains a catalytic triad Glu/Asp/Ser
with an additional acidic residue Asp in the oxyanion
hole, similar to that of Asn in subtilisin. The
stability of these enzymes may be enhanced by calcium,
some members have been shown to bind up to 4 ions via
binding sites with different affinity. Some members of
this clan contain disulfide bonds. These enzymes can be
intra- and extracellular, some function at extreme
temperatures and pH values. Characterized sedolisins
include Kumamolisin, an extracellular calcium-dependent
thermostable endopeptidase from Bacillus. The enzyme is
synthesized with a 188 amino acid N-terminal preprotein
region which is cleaved after the extraction into the
extracellular space with low pH. One kumamolysin
paralog, kumamolisin-As, is believed to be a
collagenase. TPP1 is a serine protease that functions as
a tripeptidyl exopeptidase as well as an endopeptidase.
Less is known about PSCP from Pseudomonas which is
thought to be an aspartic proteinase.
Length = 361
Score = 37.3 bits (87), Expect = 0.017
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 5 SGTSVASPVVAGVVALLASGLKH---RPAGHINPA 36
GTS A+P+ AG++AL+ P G +NP
Sbjct: 278 GGTSAAAPLFAGLIALINQARLAAGKPPLGFLNPL 312
Score = 37.3 bits (87), Expect = 0.017
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 144 SGTSVASPVVAGVVALLASGLKH---RPAGHINPA 175
GTS A+P+ AG++AL+ P G +NP
Sbjct: 278 GGTSAAAPLFAGLIALINQARLAAGKPPLGFLNPL 312
>gnl|CDD|220425 pfam09822, ABC_transp_aux, ABC-type uncharacterized transport
system. This domain is found in various eukaryotic and
prokaryotic intra-flagellar transport proteins involved
in gliding motility, as well as in several hypothetical
proteins.
Length = 268
Score = 36.9 bits (86), Expect = 0.019
Identities = 24/135 (17%), Positives = 41/135 (30%), Gaps = 18/135 (13%)
Query: 393 YYIEVLGTPFTCFDARHYGVLLLDLYQHLRNIGYYIEVLGTPFTCFDARHYGVLLLVDPE 452
Y++ G L L GY +E L +L++ P
Sbjct: 149 YFLSGHGELPDEGGGESLS----TLIDELEKEGYDVEPLNLDSVGEIPDDADLLVIAGPT 204
Query: 453 EEYHREEIDKLRRDVEQDGLALIVLADWYNTDVMRKIKFYDENTRQWWLPETGGSNIPAL 512
+ EE+ L + + + G L+ L + SN L
Sbjct: 205 SDLSEEELYALDQYLMRGGKLLVFLDP-----------VSVDLDSLLNTGGKRDSN---L 250
Query: 513 NELLAVHGIRLGDRV 527
+LL +G+RL +
Sbjct: 251 EDLLESYGVRLNPGL 265
>gnl|CDD|173822 cd07498, Peptidases_S8_15, Peptidase S8 family domain,
uncharacterized subfamily 15. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 242
Score = 36.9 bits (86), Expect = 0.021
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 5 SGTSVASPVVAGVVALLAS 23
SGTS ASPV AGV AL+ S
Sbjct: 207 SGTSFASPVAAGVAALILS 225
Score = 36.9 bits (86), Expect = 0.021
Identities = 14/19 (73%), Positives = 15/19 (78%)
Query: 144 SGTSVASPVVAGVVALLAS 162
SGTS ASPV AGV AL+ S
Sbjct: 207 SGTSFASPVAAGVAALILS 225
Score = 33.5 bits (77), Expect = 0.27
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 96 VKVAVFDTGLSSGHTGF----NNVAERTDWTNENTLEDKLGHGTFVAG 139
V VA+ DTG+ H V +N + D GHGT AG
Sbjct: 1 VVVAIIDTGVDLNHPDLSGKPKLVPGWNFVSNNDPTSDIDGHGTACAG 48
>gnl|CDD|173808 cd07482, Peptidases_S8_Lantibiotic_specific_protease, Peptidase S8
family domain in Lantiobiotic (lanthionine-containing
antibiotics) specific proteases. Lantiobiotic
(lanthionine-containing antibiotics) specific proteases
are very similar in structure to serine proteases.
Lantibiotics are ribosomally synthesised antimicrobial
agents derived from ribosomally synthesised peptides
with antimicrobial activities against Gram-positive
bacteria. The proteases that cleave the N-terminal
leader peptides from lantiobiotics include: epiP, nsuP,
mutP, and nisP. EpiP, from Staphylococcus, is thought
to cleave matured epidermin. NsuP, a dehydratase from
Streptococcus and NisP, a membrane-anchored
subtilisin-like serine protease from Lactococcus cleave
nisin. MutP is highly similar to epiP and nisP and is
thought to process the prepeptide mutacin III of S.
mutans. Members of the peptidases S8 (subtilisin and
kexin) and S53 (sedolisin) clan include endopeptidases
and exopeptidases. The S8 family has an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure and are not homologous to trypsin. Serine acts
as a nucleophile, aspartate as an electrophile, and
histidine as a base. The S53 family contains a catalytic
triad Glu/Asp/Ser with an additional acidic residue Asp
in the oxyanion hole, similar to that of subtilisin.
The serine residue here is the nucleophilic equivalent
of the serine residue in the S8 family, while glutamic
acid has the same role here as the histidine base.
However, the aspartic acid residue that acts as an
electrophile is quite different. In S53 the it follows
glutamic acid, while in S8 it precedes histidine. The
stability of these enzymes may be enhanced by calcium,
some members have been shown to bind up to 4 ions via
binding sites with different affinity. There is a great
diversity in the characteristics of their members: some
contain disulfide bonds, some are intracellular while
others are extracellular, some function at extreme
temperatures, and others at high or low pH values.
Length = 294
Score = 37.0 bits (86), Expect = 0.025
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 16/60 (26%)
Query: 96 VKVAVFDTGLSSGHTGF-NNVA---------------ERTDWTNENTLEDKLGHGTFVAG 139
V VAV D+G+ H N+++ E + + N + DKLGHGT VAG
Sbjct: 2 VTVAVIDSGIDPDHPDLKNSISSYSKNLVPKGGYDGKEAGETGDINDIVDKLGHGTAVAG 61
Score = 31.2 bits (71), Expect = 1.7
Identities = 13/52 (25%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 112 FNNVAERTDWTNENTLEDKLGHGTFVAGC-RTLSGTSVASPVVAGVVALLAS 162
+ + W N + + T G + GTS+A+P V+G +AL+
Sbjct: 225 LLDQYGKEKWVNNGLMTKEQILTTAPEGGYAYMYGTSLAAPKVSGALALIID 276
Score = 29.6 bits (67), Expect = 5.1
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 2 RTLSGTSVASPVVAGVVALLAS 23
+ GTS+A+P V+G +AL+
Sbjct: 255 AYMYGTSLAAPKVSGALALIID 276
>gnl|CDD|173820 cd07496, Peptidases_S8_13, Peptidase S8 family domain,
uncharacterized subfamily 13. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 285
Score = 36.5 bits (85), Expect = 0.027
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 2 RTLSGTSVASPVVAGVVALLAS 23
L GTS+A+P VAGV AL+ S
Sbjct: 247 GFLQGTSMAAPHVAGVAALMKS 268
Score = 36.5 bits (85), Expect = 0.027
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 141 RTLSGTSVASPVVAGVVALLAS 162
L GTS+A+P VAGV AL+ S
Sbjct: 247 GFLQGTSMAAPHVAGVAALMKS 268
>gnl|CDD|173789 cd04059, Peptidases_S8_Protein_convertases_Kexins_Furin-like,
Peptidase S8 family domain in Protein convertases.
Protein convertases, whose members include furins and
kexins, are members of the peptidase S8 or Subtilase
clan of proteases. They have an Asp/His/Ser catalytic
triad that is not homologous to trypsin. Kexins are
involved in the activation of peptide hormones, growth
factors, and viral proteins. Furin cleaves cell surface
vasoactive peptides and proteins involved in
cardiovascular tissue remodeling in the TGN, at cell
surface, or in endosomes but rarely in the ER. Furin
also plays a key role in blood pressure regulation
though the activation of transforming growth factor
(TGF)-beta. High specificity is seen for cleavage after
dibasic (Lys-Arg or Arg-Arg) or multiple basic residues
in protein convertases. There is also strong sequence
conservation.
Length = 297
Score = 36.8 bits (86), Expect = 0.028
Identities = 21/59 (35%), Positives = 25/59 (42%), Gaps = 8/59 (13%)
Query: 89 LGIRGSGVKVAVFDTGLSSGHTGF-NNVAERTDW-TNENT------LEDKLGHGTFVAG 139
GI G GV VAV D GL H +N + N+N +D HGT AG
Sbjct: 34 QGITGKGVTVAVVDDGLEITHPDLKDNYDPEASYDFNDNDPDPTPRYDDDNSHGTRCAG 92
Score = 31.4 bits (72), Expect = 1.3
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 1 CRTLSGTSVASPVVAGVVALLAS 23
+ +GTS A+P+ AGV+AL+
Sbjct: 256 TSSHNGTSAAAPLAAGVIALMLE 278
Score = 31.4 bits (72), Expect = 1.3
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 140 CRTLSGTSVASPVVAGVVALLAS 162
+ +GTS A+P+ AGV+AL+
Sbjct: 256 TSSHNGTSAAAPLAAGVIALMLE 278
>gnl|CDD|173792 cd04843, Peptidases_S8_11, Peptidase S8 family domain,
uncharacterized subfamily 11. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 277
Score = 36.5 bits (85), Expect = 0.033
Identities = 16/42 (38%), Positives = 23/42 (54%)
Query: 5 SGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASA 46
SGTS ASP+VAG A + K + + P M++ L A+
Sbjct: 235 SGTSSASPIVAGAAASIQGIAKQKGGTPLTPIEMRELLTATG 276
Score = 33.4 bits (77), Expect = 0.29
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 144 SGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQ 179
SGTS ASP+VAG A + K + + P M++
Sbjct: 235 SGTSSASPIVAGAAASIQGIAKQKGGTPLTPIEMRE 270
>gnl|CDD|187755 cd09294, SmpB, Small protein B (SmpB) is a component of the
trans-translation system in prokaryotes for releasing
stalled ribosome from damaged messenger RNAs. Small
protein B (SmpB) is a component of the trans-translation
system in prokaryotes for releasing stalled ribosome
from damaged messenger RNAs and targeting incompletely
synthesized protein fragments for degradation.
Trans-translation system is composed of a
ribonucleoprotein complex of tmRNA, a specialized RNA
with properties of both tRNA and mRNA, and SmpB. SmpB is
highly conserved and present in all bacterial kingdoms
and is also found in some chloroplasts and mitochondria.
This is suggesting Trans-translation arose early in
bacterial evolution and its mechanism is a quality
control for protein synthesis in spite of challenges
such as transcription errors, mRNA damage, and
translation frame shifting. SmpB deletion results in
phage development defects phenotype and absence of
tagged proteins translated from defective mRNAs.
Length = 116
Score = 34.6 bits (81), Expect = 0.033
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 7/32 (21%)
Query: 446 LLLVDPEEEYHREEIDKLRRDVEQDGLALIVL 477
LLL H++EIDKL VEQ GL ++ L
Sbjct: 73 LLL-------HKKEIDKLIGKVEQKGLTIVPL 97
>gnl|CDD|222630 pfam14258, DUF4350, Domain of unknown function (DUF4350). This
domain family is found in bacteria, archaea and
eukaryotes, and is approximately 70 amino acids in
length.
Length = 69
Score = 32.9 bits (76), Expect = 0.044
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 417 LYQHLRNIGYYIEVLGTPFTCFDARHYGVLLLVDPEEEYHREEIDKLRRDVEQDGLALIV 476
L + L G +E + +P+ D G LL++ P EEI+ L VE G ++
Sbjct: 10 LAELLEERGVEVERVTSPYDALDGSD-GTLLVIGPSLNLSPEEIEALLEFVEAGGTLVVA 68
>gnl|CDD|173798 cd05562, Peptidases_S53_like, Peptidase domain in the S53 family.
Members of the peptidase S53 (sedolisin) family include
endopeptidases and exopeptidases. The S53 family
contains a catalytic triad Glu/Asp/Ser with an
additional acidic residue Asp in the oxyanion hole,
similar to that of Asn in subtilisin. The stability of
these enzymes may be enhanced by calcium, some members
have been shown to bind up to 4 ions via binding sites
with different affinity. Some members of this clan
contain disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values. Characterized sedolisins include Kumamolisin,
an extracellular calcium-dependent thermostable
endopeptidase from Bacillus. The enzyme is synthesized
with a 188 amino acid N-terminal preprotein region which
is cleaved after the extraction into the extracellular
space with low pH. One kumamolysin paralog,
kumamolisin-As, is believed to be a collagenase. TPP1 is
a serine protease that functions as a tripeptidyl
exopeptidase as well as an endopeptidase. Less is known
about PSCP from Pseudomonas which is thought to be an
aspartic proteinase.
Length = 275
Score = 35.3 bits (82), Expect = 0.062
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 8/67 (11%)
Query: 5 SGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASA--RRLPGVNMFEQGSGKI 62
GTS A+P AGV AL+ S + PA ++ L ++A PG + GSG +
Sbjct: 214 FGTSAAAPHAAGVAALVLSA-----NPGLTPADIRDALRSTALDMGEPGYD-NASGSGLV 267
Query: 63 DLLRAYQ 69
D RA
Sbjct: 268 DADRAVA 274
Score = 29.2 bits (66), Expect = 6.2
Identities = 11/19 (57%), Positives = 13/19 (68%)
Query: 144 SGTSVASPVVAGVVALLAS 162
GTS A+P AGV AL+ S
Sbjct: 214 FGTSAAAPHAAGVAALVLS 232
>gnl|CDD|173809 cd07483, Peptidases_S8_Subtilisin_Novo-like, Peptidase S8 family
domain in Subtilisin_Novo-like proteins. Subtilisins
are a group of alkaline proteinases originating from
different strains of Bacillus subtilis. Novo is one of
the strains that produced enzymes belonging to this
group. The enzymes obtained from the Novo and BPN'
strains are identical. The Carlsburg and Novo
subtilisins are thought to have arisen from a common
ancestral protein. They have similar peptidase and
esterase activities, pH profiles, catalyze
transesterification reactions, and are both inhibited by
diispropyl fluorophosphate, though they differ in 85
positions in the amino acid sequence. Members of the
peptidases S8 and S35 clan include endopeptidases,
exopeptidases and also a tripeptidyl-peptidase. The S8
family has an Asp/His/Ser catalytic triad similar to
that found in trypsin-like proteases, but do not share
their three-dimensional structure and are not homologous
to trypsin. The S53 family contains a catalytic triad
Glu/Asp/Ser with an additional acidic residue Asp in the
oxyanion hole, similar to that of subtilisin.. The
stability of these enzymes may be enhanced by calcium,
some members have been shown to bind up to 4 ions via
binding sites with different affinity. Some members of
this clan contain disulfide bonds. These enzymes can be
intra- and extracellular, some function at extreme
temperatures and pH values.
Length = 291
Score = 35.4 bits (82), Expect = 0.066
Identities = 14/22 (63%), Positives = 18/22 (81%)
Query: 2 RTLSGTSVASPVVAGVVALLAS 23
T SGTS+A+PVV+GV AL+ S
Sbjct: 251 ETDSGTSMAAPVVSGVAALIWS 272
Score = 35.4 bits (82), Expect = 0.066
Identities = 14/22 (63%), Positives = 18/22 (81%)
Query: 141 RTLSGTSVASPVVAGVVALLAS 162
T SGTS+A+PVV+GV AL+ S
Sbjct: 251 ETDSGTSMAAPVVSGVAALIWS 272
>gnl|CDD|173817 cd07492, Peptidases_S8_8, Peptidase S8 family domain,
uncharacterized subfamily 8. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 222
Score = 34.6 bits (80), Expect = 0.097
Identities = 19/52 (36%), Positives = 25/52 (48%), Gaps = 7/52 (13%)
Query: 95 GVKVAVFDTGLSSGHTGFNNVAERTDWT-------NENTLEDKLGHGTFVAG 139
GV+VAV D+G+ + H N+A + T DK GHGT AG
Sbjct: 1 GVRVAVIDSGVDTDHPDLGNLALDGEVTIDLEIIVVSAEGGDKDGHGTACAG 52
Score = 28.8 bits (65), Expect = 6.6
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 2 RTLSGTSVASPVVAGVVALLAS 23
T+SG S A+P V G+VALL S
Sbjct: 182 LTVSGNSFAAPHVTGMVALLLS 203
Score = 28.8 bits (65), Expect = 6.6
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 141 RTLSGTSVASPVVAGVVALLAS 162
T+SG S A+P V G+VALL S
Sbjct: 182 LTVSGNSFAAPHVTGMVALLLS 203
>gnl|CDD|173807 cd07481, Peptidases_S8_BacillopeptidaseF-like, Peptidase S8 family
domain in BacillopeptidaseF-like proteins. Bacillus
subtilis produces and secretes proteases and other types
of exoenzymes at the end of the exponential phase of
growth. The ones that make up this group is known as
bacillopeptidase F, encoded by bpr, a serine protease
with high esterolytic activity which is inhibited by
PMSF. Like other members of the peptidases S8 family
these have a Asp/His/Ser catalytic triad similar to that
found in trypsin-like proteases, but do not share their
three-dimensional structure and are not homologous to
trypsin. The stability of these enzymes may be enhanced
by calcium, some members have been shown to bind up to 4
ions via binding sites with different affinity.
Length = 264
Score = 34.7 bits (80), Expect = 0.11
Identities = 14/21 (66%), Positives = 17/21 (80%)
Query: 3 TLSGTSVASPVVAGVVALLAS 23
+ SGTS+A+P VAGV ALL S
Sbjct: 223 SSSGTSMAAPHVAGVAALLWS 243
Score = 34.7 bits (80), Expect = 0.11
Identities = 14/21 (66%), Positives = 17/21 (80%)
Query: 142 TLSGTSVASPVVAGVVALLAS 162
+ SGTS+A+P VAGV ALL S
Sbjct: 223 SSSGTSMAAPHVAGVAALLWS 243
>gnl|CDD|173819 cd07494, Peptidases_S8_10, Peptidase S8 family domain,
uncharacterized subfamily 10. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 298
Score = 34.0 bits (78), Expect = 0.20
Identities = 21/89 (23%), Positives = 30/89 (33%), Gaps = 10/89 (11%)
Query: 90 GIRGSGVKVAVFDTGLSSGHT-GFNNVAERT--DWTNENTLEDKLGHGTF-------VAG 139
GI G GV+VA+ DTG + R + D+ GHGT +A
Sbjct: 17 GITGRGVRVAMVDTGFYAHPFFESRGYQVRVVLAPGATDPACDENGHGTGESANLFAIAP 76
Query: 140 CRTLSGTSVASPVVAGVVALLASGLKHRP 168
G + P + V + P
Sbjct: 77 GAQFIGVKLGGPDLVNSVGAFKKAISLSP 105
Score = 31.7 bits (72), Expect = 1.1
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 5/43 (11%)
Query: 5 SGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASAR 47
SGTS A+P VAGV AL+ L+ P ++P + L +AR
Sbjct: 246 SGTSAAAPQVAGVCALM---LQANP--GLSPERARSLLNKTAR 283
Score = 31.7 bits (72), Expect = 1.2
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 144 SGTSVASPVVAGVVALL 160
SGTS A+P VAGV AL+
Sbjct: 246 SGTSAAAPQVAGVCALM 262
>gnl|CDD|173797 cd05561, Peptidases_S8_4, Peptidase S8 family domain,
uncharacterized subfamily 4. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 239
Score = 33.8 bits (78), Expect = 0.20
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 2 RTLSGTSVASPVVAGVVALLASGLKHRPAGHINPASMKQGLMASARRL 49
R +SGTS A+P V +ALL A + P + L A+A+ L
Sbjct: 186 RYVSGTSFAAPFVTAALALL------LQASPLAPDDARARLAATAKDL 227
Score = 33.4 bits (77), Expect = 0.28
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 137 VAGCRTLSGTSVASPVVAGVVALL 160
G R +SGTS A+P V +ALL
Sbjct: 182 GGGYRYVSGTSFAAPFVTAALALL 205
>gnl|CDD|227270 COG4934, COG4934, Predicted protease [Posttranslational
modification, protein turnover, chaperones].
Length = 1174
Score = 34.3 bits (79), Expect = 0.22
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 6/43 (13%)
Query: 132 GHGTFVAGCRTLSGTSVASPVVAGVVALLASGLKHRPAGHINP 174
G+ T+VAG GTS+A+P+ AG++A + + G +NP
Sbjct: 470 GNQTYVAG-----GTSLATPLTAGIIADIEQYIGTLL-GLVNP 506
Score = 32.8 bits (75), Expect = 0.64
Identities = 11/30 (36%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 6 GTSVASPVVAGVVALLASGLKHRPAGHINP 35
GTS+A+P+ AG++A + + G +NP
Sbjct: 478 GTSLATPLTAGIIADIEQYIGTLL-GLVNP 506
>gnl|CDD|129194 TIGR00086, smpB, SsrA-binding protein. This model describes the
SsrA-binding protein, also called tmRNA binding protein,
small protein B, and SmpB. The small, stable RNA SsrA
(also called tmRNA or 10Sa RNA) recognizes stalled
ribosomes such as occur during translation from message
that lacks a stop codon. It becomes charged with Ala
like a tRNA, then acts as mRNA to resume translation
started with the defective mRNA. The short C-terminal
peptide tag added by the SsrA system marks the
abortively translated protein for degradation. SmpB
binds SsrA after its aminoacylation but before the
coupling of the Ala to the nascent polypeptide chain and
is an essential part of the SsrA peptide tagging system.
SmpB has been associated with the survival of bacterial
pathogens in conditions of stress. It is universal in
the first 100 sequenced bacterial genomes [Protein
synthesis, Other].
Length = 144
Score = 32.6 bits (75), Expect = 0.23
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 10/55 (18%)
Query: 423 NIGYYIEVLGTPFTCFDARHYGVLLLVDPEEEYHREEIDKLRRDVEQDGLALIVL 477
+I Y G F D R LLL H++EIDKL+ V++ GL L+ L
Sbjct: 57 HIAPY--KFGNYFNH-DPRRPRKLLL-------HKKEIDKLQGKVKEKGLTLVPL 101
>gnl|CDD|223763 COG0691, SmpB, tmRNA-binding protein [Posttranslational
modification, protein turnover, chaperones].
Length = 153
Score = 32.5 bits (75), Expect = 0.29
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 7/32 (21%)
Query: 446 LLLVDPEEEYHREEIDKLRRDVEQDGLALIVL 477
LLL H+ EIDKL VEQ+G L+ L
Sbjct: 83 LLL-------HKREIDKLIGKVEQEGYTLVPL 107
>gnl|CDD|173821 cd07497, Peptidases_S8_14, Peptidase S8 family domain,
uncharacterized subfamily 14. This family is a member
of the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 311
Score = 33.6 bits (77), Expect = 0.29
Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 6 GTSVASPVVAGVVALLASGLKHRP-AGHINPASMKQGLMASA 46
GTS+A+P+ AG AL+ S LK + G +P ++ LM++A
Sbjct: 270 GTSMATPMTAGSAALVISALKEKEGVGEYDPFLVRTILMSTA 311
Score = 30.9 bits (70), Expect = 1.9
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 145 GTSVASPVVAGVVALLASGLK 165
GTS+A+P+ AG AL+ S LK
Sbjct: 270 GTSMATPMTAGSAALVISALK 290
>gnl|CDD|206748 cd01855, YqeH, Circularly permuted YqeH GTPase. YqeH is an
essential GTP-binding protein. Depletion of YqeH induces
an excess initiation of DNA replication, suggesting that
it negatively controls initiation of chromosome
replication. The YqeH subfamily is common in eukaryotes
and sporadically present in bacteria with probable
acquisition by plants from chloroplasts. Proteins of the
YqeH family contain all sequence motifs typical of the
vast class of P-loop-containing GTPases, but show a
circular permutation, with a G4-G1-G3 pattern of motifs
as opposed to the regular G1-G3-G4 pattern seen in most
GTPases.
Length = 191
Score = 31.5 bits (72), Expect = 0.85
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 437 CFDARHYGVLLLVDPEEEYHREEIDKLRRDVEQDGLALIVL 477
CF +HY LL V+ +E E + L D AL+V
Sbjct: 4 CFKLKHYNKLLDVEIPDEDFLEILSTLLNDN-----ALVVH 39
>gnl|CDD|173818 cd07493, Peptidases_S8_9, Peptidase S8 family domain,
uncharacterized subfamily 9. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 261
Score = 31.1 bits (71), Expect = 1.3
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 2 RTLSGTSVASPVVAGVVALL 21
+GTS + P++AG++A L
Sbjct: 221 TYANGTSFSCPLIAGLIACL 240
Score = 31.1 bits (71), Expect = 1.3
Identities = 8/20 (40%), Positives = 14/20 (70%)
Query: 141 RTLSGTSVASPVVAGVVALL 160
+GTS + P++AG++A L
Sbjct: 221 TYANGTSFSCPLIAGLIACL 240
>gnl|CDD|173813 cd07488, Peptidases_S8_2, Peptidase S8 family domain,
uncharacterized subfamily 2. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 247
Score = 31.3 bits (71), Expect = 1.3
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 4 LSGTSVASPVVAGVVALL 21
+SGTS ++P+V G++ALL
Sbjct: 204 VSGTSFSAPLVTGIIALL 221
Score = 31.3 bits (71), Expect = 1.3
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 143 LSGTSVASPVVAGVVALL 160
+SGTS ++P+V G++ALL
Sbjct: 204 VSGTSFSAPLVTGIIALL 221
>gnl|CDD|181382 PRK08317, PRK08317, hypothetical protein; Provisional.
Length = 241
Score = 30.7 bits (70), Expect = 1.7
Identities = 11/51 (21%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 460 IDKLRRDVEQDGLALIVLADW----YNTD---VMRKI-KFYDENTRQWWLP 502
+ ++ R + G +++ DW +++ +MRKI F+ ++ WL
Sbjct: 107 LAEIARVLRPGGRVVVLDTDWDTLVWHSGDRALMRKILNFWSDHFADPWLG 157
>gnl|CDD|216780 pfam01910, DUF77, Domain of unknown function DUF77. Domain of
unknown function. The crystal structure of two of these
members shows that this domain has a ferredoxin like
fold and is likely to exists as at least homodimers.
Sulphate ions are are located at the dimer interfaces,
which are thought to confer additional stability.
Although the function of this domain remains to be
identified, its structure suggests a role in
protein-protein interactions possibly regulated by the
binding of small-molecule ligands.
Length = 92
Score = 28.6 bits (65), Expect = 2.7
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 5 SGTSVASPVVAGVVALL-ASGLKHRP 29
GTSV S VA V+ +L SGLK+
Sbjct: 11 GGTSV-SKYVAAVIEVLKESGLKYEL 35
Score = 28.6 bits (65), Expect = 2.7
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 144 SGTSVASPVVAGVVALL-ASGLKHRP 168
GTSV S VA V+ +L SGLK+
Sbjct: 11 GGTSV-SKYVAAVIEVLKESGLKYEL 35
>gnl|CDD|225990 COG3459, COG3459, Cellobiose phosphorylase [Carbohydrate transport
and metabolism].
Length = 1056
Score = 30.8 bits (70), Expect = 2.9
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 11/51 (21%)
Query: 465 RDVEQDGLALIVLADWYNTDVMRKI-------KFYDENTRQWWLPETGGSN 508
RD QD L ++ + RK +F + + + W+LP+T
Sbjct: 615 RDQLQDTLEFLL----ARPALARKQILDAASRQFVEGDVQHWFLPDTYAGV 661
>gnl|CDD|215421 PLN02787, PLN02787, 3-oxoacyl-[acyl-carrier-protein] synthase II.
Length = 540
Score = 30.3 bits (68), Expect = 3.2
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 11/50 (22%)
Query: 411 GVLLLDLYQHLRNIG--YYIEVLGTPFTCFDARHY--------GVLLLVD 450
GVLLL+ +H + G Y E LG FTC DA H GV+L ++
Sbjct: 364 GVLLLEELEHAKKRGANIYAEFLGGSFTC-DAYHMTEPHPEGAGVILCIE 412
>gnl|CDD|240338 PTZ00262, PTZ00262, subtilisin-like protease; Provisional.
Length = 639
Score = 29.9 bits (67), Expect = 4.7
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 2 RTLSGTSVASPVVAGVVALLAS 23
R L+GTS+A+P VA + +L+ S
Sbjct: 551 RKLNGTSMAAPHVAAIASLILS 572
Score = 29.9 bits (67), Expect = 4.7
Identities = 11/22 (50%), Positives = 17/22 (77%)
Query: 141 RTLSGTSVASPVVAGVVALLAS 162
R L+GTS+A+P VA + +L+ S
Sbjct: 551 RKLNGTSMAAPHVAAIASLILS 572
>gnl|CDD|173811 cd07485, Peptidases_S8_Fervidolysin_like, Peptidase S8 family
domain in Fervidolysin. Fervidolysin found in
Fervidobacterium pennivorans is an extracellular
subtilisin-like keratinase. It is contains a signal
peptide, a propeptide, and a catalytic region. The
tertiary structure of fervidolysin is similar to that of
subtilisin. It contains a Asp/His/Ser catalytic triad
and is a member of the peptidase S8 (subtilisin and
kexin) family. The catalytic triad is similar to that
found in trypsin-like proteases, but it does not share
their three-dimensional structure and are not homologous
to trypsin. Serine acts as a nucleophile, aspartate as
an electrophile, and histidine as a base. The S53 family
contains a catalytic triad Glu/Asp/Ser with an
additional acidic residue Asp in the oxyanion hole,
similar to that of subtilisin. The serine residue here
is the nucleophilic equivalent of the serine residue in
the S8 family, while glutamic acid has the same role
here as the histidine base. However, the aspartic acid
residue that acts as an electrophile is quite different.
In S53, it follows glutamic acid, while in S8 it
precedes histidine. The stability of these enzymes may
be enhanced by calcium; some members have been shown to
bind up to 4 ions via binding sites with different
affinity. There is a great diversity in the
characteristics of their members: some contain disulfide
bonds, some are intracellular while others are
extracellular, some function at extreme temperatures,
and others at high or low pH values.
Length = 273
Score = 29.4 bits (66), Expect = 5.2
Identities = 13/20 (65%), Positives = 17/20 (85%)
Query: 4 LSGTSVASPVVAGVVALLAS 23
LSGTS+A+P V+GV AL+ S
Sbjct: 236 LSGTSMAAPHVSGVAALVLS 255
Score = 29.4 bits (66), Expect = 5.2
Identities = 13/20 (65%), Positives = 17/20 (85%)
Query: 143 LSGTSVASPVVAGVVALLAS 162
LSGTS+A+P V+GV AL+ S
Sbjct: 236 LSGTSMAAPHVSGVAALVLS 255
>gnl|CDD|224803 COG1891, COG1891, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 235
Score = 28.6 bits (64), Expect = 7.9
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 79 SLSPSSLFLPLGIRGSGVKVAVFDTGLSSGHTGFN-----NVAERTDWTNENTLEDKL 131
S+SP L LP +G VA+ DT + G + F+ + E D +E+ LE L
Sbjct: 130 SVSP--LLLPEVAAEAGADVAMVDTAIKDGKSLFDFMDEEELEEFVDLAHEHGLEVAL 185
>gnl|CDD|233698 TIGR02049, gshA_ferroox, glutamate--cysteine ligase, T.
ferrooxidans family. This family consists of a rare
family of glutamate--cysteine ligases, demonstrated
first in Thiobacillus ferrooxidans and present in a few
other Proteobacteria. It is the first of two enzymes for
glutathione biosynthesis. It is also called
gamma-glutamylcysteine synthetase [Biosynthesis of
cofactors, prosthetic groups, and carriers, Glutathione
and analogs].
Length = 403
Score = 29.1 bits (65), Expect = 8.5
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 70 ILNSYTPQASLSPSSLFLPLGIRGSGVKVAVFDTGLSSGHTGFNNVAE 117
I + Q + + +R +G K+A DT L GFNN+
Sbjct: 11 IERWFRAQWQGHTPPFYSSVDLRNAGYKIAPVDTNLFPA--GFNNLNP 56
>gnl|CDD|218128 pfam04523, Herpes_U30, Herpes virus tegument protein U30. This
family is named after the human herpesvirus protein, but
has been characterized in cytomegalovirus as UL47.
Cytomegalovirus UL47 is a component of the tegument,
which is a protein layer surrounding the viral capsid.
UL47 co-precipitates with UL48 and UL69 tegument
proteins, and the major capsid protein UL86. A
UL47-containing complex is thought to be involved in the
release of viral DNA from the disassembling virus
particle.
Length = 883
Score = 29.2 bits (66), Expect = 9.3
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 373 NGDHVHTNFKDLYQHLRNIGYYIEVLGTPFTC 404
+GD V FK+L +++ I +I L P T
Sbjct: 588 HGDLVPGAFKNLLDYIQEIATHISELVPPATF 619
>gnl|CDD|234315 TIGR03695, menH_SHCHC,
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
synthase. This protein catalyzes the formation of
SHCHC, or (1 R,6
R)-2-succinyl-6-hydroxy-2,
4-cyclohexadiene-1-carboxylate, by elmination of
pyruvate from
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylate (SEPHCHC). Note that SHCHC synthase activity
previously was attributed to MenD, which in fact is
SEPHCHC synthase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 252
Score = 28.3 bits (64), Expect = 9.7
Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 448 LVDPEEEYHREEIDKLRRDV-EQDGLALIVLADWYNTDVMRKIKFYDENTRQ 498
L EE R + D+ EQ+G+ L DWY + K RQ
Sbjct: 108 LATEEERAARRQNDEQLAQRFEQEGIE-AFLDDWYQQPLFASQKNLPPEQRQ 158
>gnl|CDD|107305 cd06310, PBP1_ABC_sugar_binding_like_2, Periplasmic sugar-binding
domain of uncharacterized ABC-type transport systems.
Periplasmic sugar-binding domain of uncharacterized
ABC-type transport systems that share homology with a
family of pentose/hexose sugar-binding proteins of the
type I periplasmic binding protein superfamily, which
consists of two domains connected by a three-stranded
hinge. The substrate specificity of this group is not
known, but it is predicted to be involved in the
transport of sugar-containing molecules and chemotaxis.
Length = 273
Score = 28.3 bits (64), Expect = 10.0
Identities = 25/93 (26%), Positives = 44/93 (47%), Gaps = 14/93 (15%)
Query: 37 SMKQGLMASARRLPGVNMFEQG-SGKIDLLRAYQILNSYTPQ-------ASLSPSSLFLP 88
++K G A+A+ L GV + QG + + D+ +L + + A +L P
Sbjct: 16 AVKAGAEAAAKEL-GVKVTFQGPASETDVAGQVNLLENAIARGPDAILLAPTDAKALVPP 74
Query: 89 L-GIRGSGVKVAVFDTGLSS-GHTGF---NNVA 116
L + +G+ V + D+GL+S F +NVA
Sbjct: 75 LKEAKDAGIPVVLIDSGLNSDIAVSFVATDNVA 107
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 0.137 0.429
Gapped
Lambda K H
0.267 0.0694 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 32,840,608
Number of extensions: 3298187
Number of successful extensions: 3135
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3109
Number of HSP's successfully gapped: 127
Length of query: 624
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 521
Effective length of database: 6,369,140
Effective search space: 3318321940
Effective search space used: 3318321940
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: 62 (27.7 bits)