RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4859
(102 letters)
>gnl|CDD|201070 pfam00191, Annexin, Annexin. This family of annexins also includes
giardin that has been shown to function as an annexin.
Length = 66
Score = 78.6 bits (195), Expect = 5e-21
Identities = 36/85 (42%), Positives = 48/85 (56%), Gaps = 19/85 (22%)
Query: 16 YLARRLKDAMAGIGTDDKTLIRIIVTRSEIDLGDIKQNFLKLYVTRSEIDLGDIKQNFLK 75
Y A L+ AM G+GTD+ TLIRI+ TRS L I++ + KLY
Sbjct: 1 YDAELLRAAMKGLGTDEDTLIRILATRSNAQLQAIREAYKKLY----------------- 43
Query: 76 LYGKTLEEYIKDDCSGDYKRLLLAL 100
GK LE+ IK + SGD+++LLLAL
Sbjct: 44 --GKDLEKDIKSETSGDFEKLLLAL 66
>gnl|CDD|197661 smart00335, ANX, Annexin repeats.
Length = 53
Score = 67.4 bits (166), Expect = 9e-17
Identities = 30/72 (41%), Positives = 39/72 (54%), Gaps = 19/72 (26%)
Query: 29 GTDDKTLIRIIVTRSEIDLGDIKQNFLKLYVTRSEIDLGDIKQNFLKLYGKTLEEYIKDD 88
GTD+KTLI I+ +RS L IKQ + K Y GK LE+ IK +
Sbjct: 1 GTDEKTLIEILASRSNAQLQAIKQAYKKRY-------------------GKDLEDDIKSE 41
Query: 89 CSGDYKRLLLAL 100
SGD+++LLLAL
Sbjct: 42 TSGDFEKLLLAL 53
>gnl|CDD|182293 PRK10189, PRK10189, MATE family multidrug exporter; Provisional.
Length = 478
Score = 27.0 bits (60), Expect = 1.9
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 14 SSYLARRL-KDAMAGIGTDDKTLIRIIVTRSEIDLG 48
S++L L K+AMAG+G D + I+ + IDLG
Sbjct: 52 STFLVSWLGKEAMAGVGLADSFNMVIMAFFAAIDLG 87
>gnl|CDD|133086 cd06228, M14-like_3, Peptidase M14-like domain; uncharacterized
subfamily. 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 cleavages.
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 = 332
Score = 26.3 bits (58), Expect = 3.4
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 3 GSYVVQCVKDKSSYLARRLKDAMAGIGTD 31
G Y+ D + LA R+ AMA
Sbjct: 233 GEYIDSDDWDAAVNLAARMGLAMAAARGR 261
>gnl|CDD|129331 TIGR00228, ruvC, crossover junction endodeoxyribonuclease RuvC.
Endonuclease that resolves Holliday junction
intermediates in genetic recombination. The active form
of the protein is a dimer. Structure studies reveals
that the catalytic center, comprised of four acidic
residues, lies at the bottom of a cleft that fits a DNA
duplex. The model hits a single Synechocystis PCC6803
protein at a score of 30, below the trusted cutoff, that
appears orthologous and may act as authentic RuvC [DNA
metabolism, DNA replication, recombination, and repair].
Length = 156
Score = 26.0 bits (57), Expect = 3.7
Identities = 10/27 (37%), Positives = 19/27 (70%)
Query: 16 YLARRLKDAMAGIGTDDKTLIRIIVTR 42
Y AR++K + GIG+ +K+ ++ +V R
Sbjct: 99 YAARQVKQTVVGIGSAEKSQVQHMVRR 125
>gnl|CDD|235511 PRK05574, holA, DNA polymerase III subunit delta; Reviewed.
Length = 340
Score = 25.9 bits (58), Expect = 4.1
Identities = 13/58 (22%), Positives = 26/58 (44%), Gaps = 5/58 (8%)
Query: 16 YLARRLKDAMAGIGTDDKTLIRIIVTRSEIDLGDIKQN--FLKLYVTRSEIDLGDIKQ 71
++ +RLK I ++++ R E +L + Q L L +I L D+++
Sbjct: 154 WIQQRLKQQGLQIDAAA---LQLLAERVEGNLLALAQELEKLALLYPDGKITLEDVEE 208
>gnl|CDD|223001 PHA03148, PHA03148, hypothetical protein; Provisional.
Length = 289
Score = 25.8 bits (57), Expect = 4.2
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 9/53 (16%)
Query: 39 IVTRS--------EIDLGDIKQNFLKLYVTRSEIDLGDIKQNFLKLYGKTLEE 83
I+ RS +D+ ++ FLK +V + L +I Q+F LYG L
Sbjct: 123 IMNRSHNSLRLVPSLDINPLQHLFLK-HVLLKRLGLENIVQDFEALYGSVLPP 174
>gnl|CDD|179427 PRK02471, PRK02471, bifunctional glutamate--cysteine
ligase/glutathione synthetase; Provisional.
Length = 752
Score = 25.7 bits (57), Expect = 5.5
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 62 SEIDLGDIKQNFLKLYGKTLEEYIKDD 88
+I LG+I++ LK G T + K
Sbjct: 627 EKIQLGEIERLMLKQQGLTPDSIPKKG 653
>gnl|CDD|235564 PRK05691, PRK05691, peptide synthase; Validated.
Length = 4334
Score = 25.5 bits (56), Expect = 6.4
Identities = 9/11 (81%), Positives = 11/11 (100%)
Query: 91 GDYKRLLLALV 101
G++KRLLLALV
Sbjct: 3674 GEFKRLLLALV 3684
>gnl|CDD|233280 TIGR01128, holA, DNA polymerase III, delta subunit. DNA polymerase
III delta (holA) and delta prime (holB) subunits are
distinct proteins encoded by separate genes. The delta
prime subunit (holB) exhibits sequence homology to the
tau and gamma subunits (dnaX), but the delta subunit
(holA) does not demonstrate this same homology with
dnaX. The delta, delta prime, gamma, chi and psi
subunits form the gamma complex subassembly of DNA
polymerase III holoenzyme, which couples ATP to assemble
the ring-shaped beta subunit around DNA forming a DNA
sliding clamp [DNA metabolism, DNA replication,
recombination, and repair].
Length = 302
Score = 25.3 bits (56), Expect = 7.5
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 16 YLARRLKDAMAGIGTDDKTLIRIIVTRSEIDLGDIKQN--FLKLYVTRSEIDLGDIKQ 71
++ RLK G+ D ++++ E +L I Q L LY +I L D+++
Sbjct: 119 WIQARLK--KLGLRIDPDA-VQLLAELVEGNLLAIAQELEKLALYAPDGKITLEDVEE 173
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
0.322 0.141 0.391
Gapped
Lambda K H
0.267 0.0891 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,240,540
Number of extensions: 449134
Number of successful extensions: 453
Number of sequences better than 10.0: 1
Number of HSP's gapped: 448
Number of HSP's successfully gapped: 33
Length of query: 102
Length of database: 10,937,602
Length adjustment: 68
Effective length of query: 34
Effective length of database: 7,921,530
Effective search space: 269332020
Effective search space used: 269332020
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 (21.9 bits)
S2: 53 (23.9 bits)