RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3162
(91 letters)
>gnl|CDD|239123 cd02658, Peptidase_C19B, 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 = 311
Score = 60.8 bits (148), Expect = 1e-12
Identities = 16/40 (40%), Positives = 28/40 (70%)
Query: 32 TTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTID 71
TT +FPDYL+ ++K+F + E+W KLDV +++P+ +
Sbjct: 209 TTGFKTFPDYLVINMKRFQLLENWVPKKLDVPIDVPEELG 248
>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 = 54.0 bits (130), Expect = 3e-10
Identities = 17/55 (30%), Positives = 29/55 (52%)
Query: 31 RTTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTIDLTPLRGSGPQPGEE 85
+ ++ P L+ HLK+F+ ED T KL+ +V P +DL+P G + +
Sbjct: 132 KRLKIKKLPPVLIIHLKRFSFNEDGTKEKLNTKVSFPLELDLSPYLSEGEKDSDS 186
>gnl|CDD|215922 pfam00443, UCH, Ubiquitin carboxyl-terminal hydrolase.
Length = 313
Score = 54.0 bits (130), Expect = 4e-10
Identities = 14/57 (24%), Positives = 24/57 (42%)
Query: 29 TLRTTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTIDLTPLRGSGPQPGEE 85
++ ++ P L+ HLK+F T K+ VE P +DL+ + E
Sbjct: 197 AIKKLDISRLPPVLIIHLKRFEDFNRETEKKISDRVEFPLELDLSSYLEEELEGEEP 253
>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 = 34.7 bits (80), Expect = 0.002
Identities = 13/44 (29%), Positives = 22/44 (50%)
Query: 31 RTTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTIDLTP 74
+ + P L F LK+F + T K+D V+ P +++TP
Sbjct: 209 KQLSIKKLPPVLCFQLKRFEHSLNKTSRKIDTYVQFPLELNMTP 252
>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 = 0.008
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 35 LASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTI-DLTPLRGSGPQPG 83
++ P L+ HLK+F+ T KL V P DLTP + G
Sbjct: 122 ISRLPKVLIIHLKRFSFSRGST-RKLTTPVTFPLNDLDLTPYVDTRSFTG 170
>gnl|CDD|239132 cd02667, Peptidase_C19K, 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 = 279
Score = 33.1 bits (76), Expect = 0.008
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 32 TTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTIDLTP 74
++ P L+ HLK+F L K+ V P+ +DL P
Sbjct: 143 QYLISKLPPVLVIHLKRFQQPRSANLRKVSRHVSFPEILDLAP 185
>gnl|CDD|239124 cd02659, peptidase_C19C, 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 = 334
Score = 32.2 bits (74), Expect = 0.018
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 5/45 (11%)
Query: 33 TRLASFPDYLMFHLKKFTMKEDWTLA---KLDVEVEMPDTIDLTP 74
P L LK+F D+ K++ E P +D+ P
Sbjct: 187 VCFKKLPPVLTLQLKRFEF--DFETMMRIKINDRFEFPLELDMEP 229
>gnl|CDD|239126 cd02661, Peptidase_C19E, 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 = 304
Score = 30.3 bits (69), Expect = 0.083
Identities = 12/36 (33%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 39 PDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTIDLTP 74
P+ L HLK+F+ + K++ ++ P+T+DL+P
Sbjct: 204 PNVLTIHLKRFSN---FRGGKINKQISFPETLDLSP 236
>gnl|CDD|239134 cd02669, Peptidase_C19M, 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 = 440
Score = 29.6 bits (67), Expect = 0.17
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 30 LRTTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTID 71
L+ ++ P YL+FH+K+F+ K ++ K V P
Sbjct: 324 LKRYLISRLPKYLIFHIKRFS-KNNFFKEKNPTIVNFPIKNL 364
>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 = 28.1 bits (63), Expect = 0.55
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 31 RTTRLASFPDYLMFHLKKFTMKEDW-TLAKLDVEVEMPDTIDLTPL 75
+T+R++ P YL +F K D AK+ +V+ P +DL L
Sbjct: 189 KTSRISRLPKYLTVQFVRFFWKRDIQKKAKILRKVKFPFELDLYEL 234
>gnl|CDD|185013 PRK15053, dpiB, sensor histidine kinase DpiB; Provisional.
Length = 545
Score = 27.1 bits (60), Expect = 1.4
Identities = 13/41 (31%), Positives = 20/41 (48%)
Query: 25 FVLSTLRTTRLASFPDYLMFHLKKFTMKEDWTLAKLDVEVE 65
FV++ L ASF DYL H++ M + +A D +
Sbjct: 32 FVIAALAQYFSASFEDYLTLHVRDMAMNQAKIIASNDSVIS 72
>gnl|CDD|227409 COG5077, COG5077, Ubiquitin carboxyl-terminal hydrolase
[Posttranslational modification, protein turnover,
chaperones].
Length = 1089
Score = 27.1 bits (60), Expect = 1.5
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 37 SFPDYLMFHLKKFT--MKEDWTLAKLDVEVEMPDTIDLTP 74
S P L LK+F + D + K++ E P IDL P
Sbjct: 377 SLPPVLHLQLKRFEYDFERD-MMVKINDRYEFPLEIDLLP 415
>gnl|CDD|233752 TIGR02153, gatD_arch, glutamyl-tRNA(Gln) amidotransferase, subunit
D. This peptide is found only in the Archaea. It is
part of a heterodimer, with GatE (TIGR00134), that acts
as an amidotransferase on misacylated Glu-tRNA(Gln) to
produce Gln-tRNA(Gln). The analogous amidotransferase
found in bacteria is the GatABC system, although GatABC
homologs in the Archaea appear to act instead on
Asp-tRNA(Asn) [Protein synthesis, tRNA aminoacylation].
Length = 404
Score = 26.6 bits (59), Expect = 1.9
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 75 LRGSGPQPGEEMLPEVA 91
L +G P E+MLPEVA
Sbjct: 353 LLKAGVIPCEDMLPEVA 369
>gnl|CDD|239133 cd02668, Peptidase_C19L, 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 = 324
Score = 26.6 bits (59), Expect = 1.9
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 31 RTTRLASFPDYLMFHLKKFTMKEDWTLA--KLDVEVEMPDTIDLTP 74
R RL + P L F L +F T A KL+ + P+ +D+
Sbjct: 190 RRIRLTTLPPTLNFQLLRFVFDRK-TGAKKKLNASISFPEILDMGE 234
>gnl|CDD|214618 smart00324, RhoGAP, GTPase-activator protein for Rho-like GTPases.
GTPase activator proteins towards Rho/Rac/Cdc42-like
small GTPases. etter domain limits and outliers.
Length = 174
Score = 26.5 bits (59), Expect = 1.9
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 22 ALDFVLSTLRTTRLASFPDYLMFHLKKFTMKEDWTL 57
AL +LS L A+ YL+ HL + +
Sbjct: 98 ALRELLSLLPPANRATL-RYLLAHLNRVAEHSEENK 132
>gnl|CDD|235245 PRK04183, PRK04183, glutamyl-tRNA(Gln) amidotransferase subunit D;
Validated.
Length = 419
Score = 26.0 bits (58), Expect = 2.7
Identities = 9/10 (90%), Positives = 10/10 (100%)
Query: 82 PGEEMLPEVA 91
PGE+MLPEVA
Sbjct: 373 PGEDMLPEVA 382
>gnl|CDD|235303 PRK04517, PRK04517, hypothetical protein; Provisional.
Length = 216
Score = 25.2 bits (55), Expect = 5.8
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 57 LAKLDVEVEMPDTIDLTPLRGSGPQ 81
A DV +E+PD +DL GS P+
Sbjct: 18 SASADVTMEVPDDVDLLVANGSKPK 42
>gnl|CDD|227847 COG5560, UBP12, Ubiquitin C-terminal hydrolase [Posttranslational
modification, protein turnover, chaperones].
Length = 823
Score = 25.2 bits (55), Expect = 6.8
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 39 PDYLMFHLKKFTMKEDWTLAKLDVEVEMP-DTIDL 72
P L+ HLK+F+ + K+D VE P D +DL
Sbjct: 717 PMILIIHLKRFSSVRSFRD-KIDDLVEYPIDDLDL 750
>gnl|CDD|235037 PRK02427, PRK02427, 3-phosphoshikimate 1-carboxyvinyltransferase;
Provisional.
Length = 435
Score = 25.1 bits (56), Expect = 6.9
Identities = 5/13 (38%), Positives = 10/13 (76%)
Query: 62 VEVEMPDTIDLTP 74
+++++PD ID P
Sbjct: 312 IDIDIPDIIDEAP 324
>gnl|CDD|199206 cd08962, GatD, GatD subunit of archaeal Glu-tRNA amidotransferase.
GatD is involved in the alternative synthesis of
Gln-tRNA(Gln) in archaea via the transamidation of
incorrectly charged Glu-tRNA(Gln). GatD is active as a
dimer, and it provides the amino group required for this
reaction. GatD is related to bacterial L-asparaginases
(amidohydrolases), which catalyze the hydrolysis of
asparagine to aspartic acid and ammonia. This CD spans
both the L-asparaginase_like domain and an N-terminal
supplementary domain.
Length = 402
Score = 24.9 bits (55), Expect = 7.7
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 82 PGEEMLPEVA 91
PGE+MLPE A
Sbjct: 368 PGEDMLPETA 377
>gnl|CDD|227820 COG5533, UBP5, Ubiquitin C-terminal hydrolase [Posttranslational
modification, protein turnover, chaperones].
Length = 415
Score = 24.6 bits (53), Expect = 9.6
Identities = 8/36 (22%), Positives = 12/36 (33%), Gaps = 11/36 (30%)
Query: 39 PDYLMFHLKKFTMKEDWTLAKLDVEVEMPDTIDLTP 74
PD L+ H+ +F + V ID
Sbjct: 306 PDVLIIHISRF-----------HISVMGRKKIDTPQ 330
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 0.138 0.420
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,714,689
Number of extensions: 378827
Number of successful extensions: 242
Number of sequences better than 10.0: 1
Number of HSP's gapped: 240
Number of HSP's successfully gapped: 22
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
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: 53 (24.1 bits)