RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18030
(121 letters)
>gnl|CDD|202184 pfam02271, UCR_14kD, Ubiquinol-cytochrome C reductase complex 14kD
subunit. The ubiquinol-cytochrome C reductase complex
(cytochrome bc1 complex) is a respiratory multienzyme
complex. This Pfam family represents the 14kD (or VI)
subunit of the complex which is not directly involved in
electron transfer, but has a role in assembly of the
complex.
Length = 105
Score = 110 bits (276), Expect = 1e-32
Identities = 48/92 (52%), Positives = 64/92 (69%), Gaps = 1/92 (1%)
Query: 26 LQKWAWEYSGFRKYGLYYDDL-ANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSI 84
L KW + SG+R+ GL YDDL E P V+EALRRLP + R FR RA+QL++ +
Sbjct: 14 LAKWYFNASGYRQLGLRYDDLIPEENPDVQEALRRLPREESYARVFRIKRAMQLSLSHQL 73
Query: 85 LPKDQWTKYEDETRYLKPYIEQVEKEFKEKEE 116
LPK++WTK E++ YL PYI +VE+E KE+EE
Sbjct: 74 LPKEEWTKPEEDVPYLSPYILEVEREAKEREE 105
>gnl|CDD|224202 COG1283, NptA, Na+/phosphate symporter [Inorganic ion transport and
metabolism].
Length = 533
Score = 31.5 bits (72), Expect = 0.091
Identities = 16/57 (28%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 45 DLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSILPKDQWTKYEDETRYLK 101
+LA ++ +RRL E+ ++RH +LR +++ S L + D R LK
Sbjct: 468 ELARRLVERKKRVRRL-ERRSSKRHLDRLRDGAASVETSSL-------HLDILRDLK 516
>gnl|CDD|111927 pfam03086, DUF240, MG032/MG096/MG288 family 2. This family
consists entirely of mycoplasmal proteins. Their
function is unknown. Another related family, pfam03072,
also consists entirely of mycoplasmal proteins of the
MG032/MG096/MG288 family. Some proteins are included in
both families, but of course differ in the aligned
residues.
Length = 119
Score = 29.2 bits (66), Expect = 0.30
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 72 QLRAVQLNIQKSILPKD-QWTKYEDETRYLKPYIEQVEKEFKEKE 115
Q + +N+ KSI+ D + + E L P+ + E+ E E
Sbjct: 75 QFFDLNVNLTKSIIQLDLEAAETRFEEEILNPFKAEREEAKAEHE 119
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 27.6 bits (62), Expect = 1.6
Identities = 14/81 (17%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 41 LYYDDLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSILPKDQWTKYEDETRYL 100
Y VV L+ L ++++ E ++L +L +++ P + + ++E +
Sbjct: 170 EYISTDKGYVYVVVVVLKELSDEVEEE--LKKLGFERLELEEEGTPSELIREIKEELEEI 227
Query: 101 KPYIEQVEKEFKE-KEEWGKL 120
+ E + +E KE +++ +
Sbjct: 228 EKERESLLEELKELAKKYLEE 248
>gnl|CDD|133100 cd06242, M14-like_1_5, 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 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 = 268
Score = 27.0 bits (60), Expect = 2.7
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 11/53 (20%)
Query: 14 AWEYSGFRKYGALQKWAWEYSGFRKYGLYYDDL--ANETPVVEEALRRLPEKL 64
A EY FR++GA A GLY+D L A + + + +R L E L
Sbjct: 150 AHEYGAFRRFGARYGGA---------GLYHDGLFSAAKNLNIPKNIRTLSESL 193
>gnl|CDD|216531 pfam01496, V_ATPase_I, V-type ATPase 116kDa subunit family. This
family consists of the 116kDa V-type ATPase (vacuolar
(H+)-ATPases) subunits, as well as V-type ATP synthase
subunit i. The V-type ATPases family are proton pumps
that acidify intracellular compartments in eukaryotic
cells for example yeast central vacuoles,
clathrin-coated and synaptic vesicles. They have
important roles in membrane trafficking processes. The
116kDa subunit (subunit a) in the V-type ATPase is part
of the V0 functional domain responsible for proton
transport. The a subunit is a transmembrane glycoprotein
with multiple putative transmembrane helices it has a
hydrophilic amino terminal and a hydrophobic carboxy
terminal. It has roles in proton transport and assembly
of the V-type ATPase complex. This subunit is encoded by
two homologous gene in yeast VPH1 and STV1.
Length = 707
Score = 26.6 bits (59), Expect = 3.5
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 91 TKYEDETRYLKPYIEQVEKEFKEKEEWG 118
E E + ++ +E +EKE E EEW
Sbjct: 77 LDLEAEIKEVEENLESLEKEINELEEWL 104
>gnl|CDD|111257 pfam02346, Vac_Fusion, Chordopoxvirus fusion protein. This is a
family of viral fusion proteins from the
chordopoxviruses. A 14-kDa Vaccinia Virus protein has
been demonstrated to function as a viral fusion protein
mediating cell fusion at endosmomal (low) pH.
Length = 57
Score = 25.0 bits (55), Expect = 3.9
Identities = 13/42 (30%), Positives = 17/42 (40%), Gaps = 6/42 (14%)
Query: 43 YDDLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSI 84
+ + + EAL RL E H LR LN+ K I
Sbjct: 17 FQLIVKCCKRLNEALDRL------ENHAETLRKAMLNLAKKI 52
>gnl|CDD|226930 COG4564, COG4564, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 459
Score = 26.3 bits (58), Expect = 5.0
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 11/65 (16%)
Query: 1 MASKRAGSALQKWAWEYSGFRK------YGA-LQKWAWEYSGFRKYGLYYDDLANETPVV 53
+A + G L ++ WE + Y A L KW W GLY DD++ ET
Sbjct: 136 IAKAQEGGGLHQYLWEKPSSHETVDKLSYAAGLDKWEWMIGT----GLYLDDVSAETAAA 191
Query: 54 EEALR 58
+ A+R
Sbjct: 192 QAAVR 196
>gnl|CDD|216689 pfam01765, RRF, Ribosome recycling factor. The ribosome recycling
factor (RRF / ribosome release factor) dissociates the
ribosome from the mRNA after termination of translation,
and is essential bacterial growth. Thus ribosomes are
"recycled" and ready for another round of protein
synthesis.
Length = 165
Score = 25.5 bits (57), Expect = 5.7
Identities = 9/36 (25%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 81 QKSILPKDQWTKYEDETRYL-KPYIEQVEKEFKEKE 115
+ + +D+ + E E + L YI+++++ K+KE
Sbjct: 126 KDKEISEDEVKRAEKEIQKLTDKYIKKIDELLKKKE 161
>gnl|CDD|218808 pfam05913, DUF871, Bacterial protein of unknown function (DUF871).
This family consists of several conserved hypothetical
proteins from bacteria and archaea. The function of this
family is unknown.
Length = 357
Score = 25.6 bits (57), Expect = 6.8
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 54 EEALRRLPEKLKNERHFRQLRAVQL----NIQKSILPKDQWTKYEDETRYL 100
EE L++L E NE LR +K IL ++ T D RY+
Sbjct: 225 EEELKQLSE-YFNEDVI-TLRVEPAEDITEEEKKILFEEPHTNRGDVARYV 273
>gnl|CDD|113903 pfam05150, Legionella_OMP, Legionella pneumophila major outer
membrane protein precursor. This family consists of
major outer membrane protein precursors from Legionella
pneumophila.
Length = 297
Score = 25.8 bits (56), Expect = 7.5
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 6/43 (13%)
Query: 15 WEYSGFRKYGALQKW-----AWEYSGFRKYGLYYDDLANETPV 52
W Y+GF G + W W++ GF+ G Y+ + N+ V
Sbjct: 59 WGYNGFTDVGGWRHWHDVDHEWDW-GFKLEGSYHFNTGNDINV 100
>gnl|CDD|216659 pfam01715, IPPT, IPP transferase. This is a family of IPP
transferases EC:2.5.1.8 also known as tRNA
delta(2)-isopentenylpyrophosphate transferase. These
enzymes modify both cytoplasmic and mitochondrial tRNAs
at A(37) to give isopentenyl A(37).
Length = 253
Score = 25.3 bits (56), Expect = 8.6
Identities = 12/46 (26%), Positives = 17/46 (36%)
Query: 43 YDDLANETPVVEEALRRLPEKLKNERHFRQLRAVQLNIQKSILPKD 88
D + P V L E+L N+ +L +V I P D
Sbjct: 76 LSDTPSADPKVRAKLEEQLEELGNDYLHAELASVDPEAAAKIHPND 121
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
0.316 0.133 0.416
Gapped
Lambda K H
0.267 0.0741 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,550,207
Number of extensions: 586463
Number of successful extensions: 797
Number of sequences better than 10.0: 1
Number of HSP's gapped: 794
Number of HSP's successfully gapped: 64
Length of query: 121
Length of database: 10,937,602
Length adjustment: 84
Effective length of query: 37
Effective length of database: 7,211,866
Effective search space: 266839042
Effective search space used: 266839042
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.2 bits)