RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13476
(177 letters)
>gnl|CDD|239072 cd02257, Peptidase_C19, Peptidase C19 contains ubiquitinyl
hydrolases. They are intracellular peptidases that
remove ubiquitin molecules from polyubiquinated peptides
by cleavage of isopeptide bonds. They hydrolyse bonds
involving the carboxyl group of the C-terminal Gly
residue of ubiquitin The purpose of the
de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 255
Score = 39.4 bits (92), Expect = 4e-04
Identities = 13/40 (32%), Positives = 16/40 (40%), Gaps = 5/40 (12%)
Query: 129 LVGVVTYYGK-----HYSTFFFHTKLKVWIYFDDATVREV 163
LV VV + G HY + W F+D V EV
Sbjct: 195 LVAVVVHSGTSADSGHYVAYVKDPSDGKWYKFNDDKVTEV 234
>gnl|CDD|215922 pfam00443, UCH, Ubiquitin carboxyl-terminal hydrolase.
Length = 313
Score = 37.4 bits (87), Expect = 0.002
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 128 QLVGVVTYYGK-----HYSTFFFHTKLKVWIYFDDATVREVGP 165
+LV VV + G HY + + W+ FDD V V
Sbjct: 258 ELVAVVVHSGSSLSGGHYIAYIKKREKNKWVKFDDEKVSVVTE 300
>gnl|CDD|239122 cd02657, Peptidase_C19A, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyse bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 305
Score = 33.8 bits (78), Expect = 0.031
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 9/57 (15%)
Query: 112 DVFHGCDNAAASTPLHQLVGVVTYYGK-----HYSTFFFHTKLKVWIYFDDATVREV 163
D++ C + ++LV V+T+ G+ HY + WI FDD V EV
Sbjct: 230 DLYELCTPSG----YYELVAVITHQGRSADSGHYVAWVRRKNDGKWIKFDDDKVSEV 282
>gnl|CDD|239139 cd02674, Peptidase_C19R, A subfamily of peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 230
Score = 33.4 bits (77), Expect = 0.035
Identities = 13/47 (27%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 128 QLVGVVTYYGK----HYSTFFFHTKLKVWIYFDDATVREVGPRWEQT 170
L VV +YG HY+ + + + W FDD+ V +V +
Sbjct: 175 DLYAVVNHYGSLNGGHYTAYCKNNETNDWYKFDDSRVTKVSESSVVS 221
>gnl|CDD|239130 cd02665, Peptidase_C19I, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 228
Score = 32.9 bits (75), Expect = 0.048
Identities = 35/178 (19%), Positives = 57/178 (32%), Gaps = 47/178 (26%)
Query: 16 ENQMVHYVSASALTAQARQSTTPSHPDLFGQLLKKAGGMGDIRDC-------------PS 62
+N MV + LT + + + FGQ + G G++ +C PS
Sbjct: 54 KNPMVQLFYGTFLTEGVLEGKPFCNCETFGQYPLQVNGYGNLHECLEAAMFEGEVELLPS 113
Query: 63 ACGAKIQIRRTLMNRPEIVSVGV---VWDSDRPSLEH--------IMAVLGTLRTSLRLS 111
K R P +++ + ++ RP H I V L L
Sbjct: 114 DHSVKSGQERWFTELPPVLTFELSRFEFNQGRPEKIHDKLEFPQIIQQVPYELHAVL--- 170
Query: 112 DVFHGCDNAAASTPLHQLVGVVTYYGKHYSTFFFHTKLKVWIYFDDATVREVGPRWEQ 169
V G NA HY + + + W ++D +V E WE+
Sbjct: 171 -VHEGQANAG-----------------HYWAYIYKQSRQEWEKYNDISVTESS--WEE 208
>gnl|CDD|132883 cd07062, Peptidase_S66_mccF_like, Microcin C7 self-immunity protein
determines resistance to exogenous microcin C7.
Microcin C7 self-immunity protein (mccF): MccF, a
homolog of the LD-carboxypeptidase family, mediates
resistance against exogenously added microcin C7
(MccC7), a ribosomally-encoded peptide antibiotic that
contains a phosphoramidate linkage to adenosine
monophosphate at its C-terminus. The plasmid-encoded
mccF gene is transcribed in the opposite direction to
the other five genes (mccA-E) and is required for the
full expression of immunity but not for production. The
catalytic triad residues (Ser, His, Glu) of
LD-carboxypeptidase are also conserved in MccF, strongly
suggesting that MccF shares the hydrolytic activity with
LD-carboxypeptidases. Substrates of MccF have not been
deduced, but could likely be microcin C7 precursors. The
possible role of MccF is to defend producer cells
against exogenous microcin from re-entering after having
been exported. It is suggested that MccF is involved in
microcin degradation or sequestration in the periplasm.
Length = 308
Score = 31.8 bits (73), Expect = 0.13
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 118 DNAAASTPLHQLVGVVTYYGKHYSTFF 144
D A +++ G+VTYYG + FF
Sbjct: 103 DITALHLAIYKKTGLVTYYGPNLLDFF 129
>gnl|CDD|239138 cd02673, Peptidase_C19Q, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 245
Score = 27.9 bits (62), Expect = 3.1
Identities = 20/120 (16%), Positives = 37/120 (30%), Gaps = 34/120 (28%)
Query: 58 RDCPSACGAKIQI-RRTLMNRPE-IVSVGVVWDSDRPSLEHIMAVLGTLRTSLRLSDVFH 115
+DC S+C + I +M PE + + + +++
Sbjct: 127 KDC-SSCKCESAISSERIMTFPECLSINLKRYKLRIATSDYLK----------------- 168
Query: 116 GCDNAAASTPL------HQLVGVVTYYGK-----HYSTFFFH-TKLKVWIYFDDATVREV 163
N + LV V+ + G+ HY + W+Y D +R V
Sbjct: 169 --KNEEIMKKYCGTDAKYSLVAVICHLGESPYDGHYIAYTKELYNGSSWLYCSDDEIRPV 226
>gnl|CDD|185297 PRK15399, PRK15399, lysine decarboxylase LdcC; Provisional.
Length = 713
Score = 27.4 bits (61), Expect = 5.4
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 118 DNAAASTPLHQLVGVVTYYGKHYSTFFFHTKLKV-WIYFDDATV 160
A P+H ++ TY G Y+T + L V I+FD A V
Sbjct: 291 ATTQAQWPVHAVITNSTYDGLLYNTDWIKQTLDVPSIHFDSAWV 334
>gnl|CDD|227820 COG5533, UBP5, Ubiquitin C-terminal hydrolase [Posttranslational
modification, protein turnover, chaperones].
Length = 415
Score = 26.9 bits (59), Expect = 7.3
Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 127 HQLVGVVTYYGKHYSTFFFHTKLK--VWIYFDDATVREVG 164
+ L+GVV + G +F + W +DD+ VR+
Sbjct: 357 YSLLGVVCHNGTLNGGHYFSEVKRSGTWNVYDDSQVRKGS 396
>gnl|CDD|185298 PRK15400, PRK15400, lysine decarboxylase CadA; Provisional.
Length = 714
Score = 26.7 bits (59), Expect = 8.1
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 122 ASTPLHQLVGVVTYYGKHYSTFFFHTKLKV-WIYFDDATV 160
A+ P+H ++ TY G Y+T F L V I+FD A V
Sbjct: 295 ATWPVHAVITNSTYDGLLYNTDFIKKTLDVKSIHFDSAWV 334
>gnl|CDD|239125 cd02660, Peptidase_C19D, A subfamily of Peptidase C19. Peptidase
C19 contains ubiquitinyl hydrolases. They are
intracellular peptidases that remove ubiquitin molecules
from polyubiquinated peptides by cleavage of isopeptide
bonds. They hydrolyze bonds involving the carboxyl group
of the C-terminal Gly residue of ubiquitin. The purpose
of the de-ubiquitination is thought to be editing of the
ubiquitin conjugates, which could rescue them from
degradation, as well as recycling of the ubiquitin. The
ubiquitin/proteasome system is responsible for most
protein turnover in the mammalian cell, and with over 50
members, family C19 is one of the largest families of
peptidases in the human genome.
Length = 328
Score = 26.2 bits (58), Expect = 9.4
Identities = 12/40 (30%), Positives = 16/40 (40%), Gaps = 5/40 (12%)
Query: 128 QLVGVVTYYGK----HYSTFFFHTKLKVWIYFDDATVREV 163
L VV + G HY+ + W FDDA + V
Sbjct: 274 DLFAVVVHKGTLDTGHYTAYCRQGD-GQWFKFDDAMITRV 312
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
0.323 0.136 0.420
Gapped
Lambda K H
0.267 0.0746 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,999,897
Number of extensions: 807051
Number of successful extensions: 651
Number of sequences better than 10.0: 1
Number of HSP's gapped: 651
Number of HSP's successfully gapped: 18
Length of query: 177
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 86
Effective length of database: 6,901,388
Effective search space: 593519368
Effective search space used: 593519368
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.3 bits)