RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15915
(99 letters)
>gnl|CDD|128594 smart00299, CLH, Clathrin heavy chain repeat homology.
Length = 140
Score = 40.3 bits (95), Expect = 2e-05
Identities = 10/49 (20%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 36 ATKYHEQLTTKALIDLFESFKSYEGLFYFLGSIVN-YSQDQEVHFKYIQ 83
+ + + +++LFE E L +L S + S++ + K I+
Sbjct: 1 LLEVSDPIDVSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIE 49
>gnl|CDD|216037 pfam00637, Clathrin, Region in Clathrin and VPS. Each region is
about 140 amino acids long. The regions are composed of
multiple alpha helical repeats. They occur in the arm
region of the Clathrin heavy chain.
Length = 143
Score = 33.7 bits (78), Expect = 0.005
Identities = 8/50 (16%), Positives = 20/50 (40%), Gaps = 2/50 (4%)
Query: 36 ATKYHEQLTTKALIDLFESFKSYEGLFYFLGSIV--NYSQDQEVHFKYIQ 83
+ + + ++ LFE E L +L S + N ++ + ++
Sbjct: 1 LIELTDPIDISRVVKLFEKRGLLEELIPYLESALKENSRENPALQTALLE 50
>gnl|CDD|199839 cd00596, Peptidase_M14_like, M14 family of metallocarboxypeptidases
and related proteins. The M14 family of
metallocarboxypeptidases (MCPs), also known as
funnelins, are zinc-binding carboxypeptidases (CPs)
which hydrolyze single, C-terminal amino acids from
polypeptide chains, and have a recognition site for the
free C-terminal carboxyl group, which is a key
determinant of specificity. Two major subfamilies of the
M14 family, defined based on sequence and structural
homology, are the A/B and N/E subfamilies. Enzymes
belonging to the A/B subfamily are normally synthesized
as inactive precursors containing preceding signal
peptide, followed by an N-terminal pro-region linked to
the enzyme; these proenzymes are called
procarboxypeptidases. The A/B enzymes can be further
divided based on their substrate specificity;
Carboxypeptidase A-like (CPA-like) enzymes favor
hydrophobic residues while carboxypeptidase B-like
(CPB-like) enzymes only cleave the basic residues lysine
or arginine. The A forms have slightly different
specificities, with Carboxypeptidase A1 (CPA1)
preferring aliphatic and small aromatic residues, and
CPA2 preferring the bulky aromatic side chains. Enzymes
belonging to the N/E subfamily enzymes are not produced
as inactive precursors and instead rely on their
substrate specificity and subcellular
compartmentalization to prevent inappropriate cleavage.
They contain an extra C-terminal transthyretin-like
domain, thought to be involved in folding or formation
of oligomers. MCPs can also be classified based on their
involvement in specific physiological processes; the
pancreatic MCPs participate only in alimentary digestion
and include carboxypeptidase A and B (A/B subfamily),
while others, namely regulatory MCPs or the N/E
subfamily, are involved in more selective reactions,
mainly in non-digestive tissues and fluids, acting on
blood coagulation/fibrinolysis, inflammation and local
anaphylaxis, pro-hormone and neuropeptide processing,
cellular response and others. Another MCP subfamily, is
that of succinylglutamate desuccinylase /aspartoacylase,
which hydrolyzes N-acetyl-L-aspartate (NAA), and
deficiency in which is the established cause of Canavan
disease. Another subfamily (referred to as subfamily C)
includes an exceptional type of activity in the MCP
family, that of dipeptidyl-peptidase activity of
gamma-glutamyl-(L)-meso-diaminopimelate peptidase I
which is involved in bacterial cell wall metabolism.
Length = 211
Score = 29.4 bits (66), Expect = 0.20
Identities = 14/68 (20%), Positives = 21/68 (30%), Gaps = 5/68 (7%)
Query: 33 SQIATKYHEQLTTKALIDLFESFKSY-EGLFYFLGSIVNYSQD----QEVHFKYIQVQGK 87
S+ T+ L + DL + S + Y G N D +E+ K
Sbjct: 92 SEPETRALAALIKQRKFDLVINLHSGSLAILYPYGHSDNDPDDFSNPKEIAQSLAIAADK 151
Query: 88 MHYTTKVG 95
VG
Sbjct: 152 HGGKEGVG 159
>gnl|CDD|199863 cd06239, M14-like_1_2, Peptidase M14-like domain; uncharacterized
subgroup. Peptidase M14-like domain of a functionally
uncharacterized subgroup of the M14 family of
metallocarboxypeptidases (MCPs). The M14 family are
zinc-binding carboxypeptidases (CPs) which hydrolyze
single, C-terminal amino acids from polypeptide chains,
and have a recognition site for the free C-terminal
carboxyl group, which is a key determinant of
specificity. Two major subfamilies of the M14 family,
defined based on sequence and structural homology, are
the A/B and N/E subfamilies. Enzymes belonging to the
A/B subfamily are normally synthesized as inactive
precursors containing preceding signal peptide,
followed by an N-terminal pro-region linked to the
enzyme; these proenzymes are called
procarboxypeptidases. The A/B enzymes can be further
divided based on their substrate specificity;
Carboxypeptidase A-like (CPA-like) enzymes favor
hydrophobic residues while carboxypeptidase B-like
(CPB-like) enzymes only cleave the basic residues
lysine or arginine. The A forms have slightly different
specificities, with Carboxypeptidase A1 (CPA1)
preferring aliphatic and small aromatic residues, and
CPA2 preferring the bulky aromatic side chains. Enzymes
belonging to the N/E subfamily enzymes are not produced
as inactive precursors and instead rely on their
substrate specificity and subcellular
compartmentalization to prevent inappropriate cleavage.
They contain an extra C-terminal transthyretin-like
domain, thought to be involved in folding or formation
of oligomers. MCPs can also be classified based on
their involvement in specific physiological processes;
the pancreatic MCPs participate only in alimentary
digestion and include carboxypeptidase A and B (A/B
subfamily), while others, namely regulatory MCPs or the
N/E subfamily, are involved in more selective
reactions, mainly in non-digestive tissues and fluids,
acting on blood coagulation/fibrinolysis, inflammation
and local anaphylaxis, pro-hormone and neuropeptide
processing, cellular response and others. Another MCP
subfamily, is that of succinylglutamate desuccinylase
/aspartoacylase, which hydrolyzes N-acetyl-L-aspartate
(NAA), and deficiency in which is the established cause
of Canavan disease. Another subfamily (referred to as
subfamily C) includes an exceptional type of activity
in the MCP family, that of dipeptidyl-peptidase
activity of gamma-glutamyl-(L)-meso-diaminopimelate
peptidase I which is involved in bacterial cell wall
metabolism.
Length = 231
Score = 29.6 bits (67), Expect = 0.22
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 10/61 (16%)
Query: 1 MEVGGKRDRGRPKTRYMHTVFPQDLKEKKLEVSQIATKYH--EQLTTKALIDLFESFKSY 58
+EV G+ GRP +++V K L SQ+ H E TTKAL+DL +
Sbjct: 12 VEVIGQSVEGRP----IYSVKFGTGPRKILLWSQM----HGNESTTTKALLDLLNFLGTN 63
Query: 59 E 59
Sbjct: 64 S 64
>gnl|CDD|182218 PRK10063, PRK10063, putative glycosyl transferase; Provisional.
Length = 248
Score = 27.8 bits (62), Expect = 0.67
Identities = 10/33 (30%), Positives = 20/33 (60%)
Query: 54 SFKSYEGLFYFLGSIVNYSQDQEVHFKYIQVQG 86
+F++ EG+ S+ + +QD + F++I V G
Sbjct: 9 AFRNLEGIVKTHASLRHLAQDPGISFEWIVVDG 41
>gnl|CDD|236631 PRK09885, PRK09885, putative toxin YafO; Provisional.
Length = 132
Score = 27.1 bits (60), Expect = 1.0
Identities = 10/45 (22%), Positives = 15/45 (33%), Gaps = 2/45 (4%)
Query: 45 TKALIDLFESFKSYEGLFYFLGSIVNYSQDQEVHFKYIQVQGKMH 89
AL F S+K L G Y D + ++ + H
Sbjct: 19 LDALTADFISYKRDGVLPDIFGRDALY--DDSFTWPLLKFERVAH 61
>gnl|CDD|188524 TIGR04009, wcaE, colanic acid biosynthesis glycosyl transferase
WcaE. This gene is one of the glycosyl transferases
involved in the biosynthesis of colanic acid, an
exopolysaccharide expressed in Enterobacteraceae
species.
Length = 248
Score = 26.8 bits (59), Expect = 1.6
Identities = 11/33 (33%), Positives = 21/33 (63%)
Query: 54 SFKSYEGLFYFLGSIVNYSQDQEVHFKYIQVQG 86
+F++YEG+ S+ N ++D + F++I V G
Sbjct: 9 AFRNYEGVVKTWRSLRNLARDPSLSFEWIVVDG 41
>gnl|CDD|226294 COG3771, COG3771, Predicted membrane protein [Function unknown].
Length = 97
Score = 24.3 bits (53), Expect = 9.1
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 64 FLGSIVNYSQ-DQEVHFKYIQVQGKMHYTTKVGDL 97
FL ++ +Q DQ+V F Y+ QG+ +T + L
Sbjct: 14 FLIAVTLGAQNDQQVTFNYLLAQGEFRLSTLLATL 48
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 0.394
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,822,989
Number of extensions: 382222
Number of successful extensions: 329
Number of sequences better than 10.0: 1
Number of HSP's gapped: 329
Number of HSP's successfully gapped: 19
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
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 (24.2 bits)