RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy571
(162 letters)
>gnl|CDD|193501 cd03880, M28_QC_like, M28 Zn-Peptidase Glutaminyl Cyclase.
Peptidase M28 family; Glutaminyl Cyclase (QC; EC
2.3.2.5) subfamily. QC is involved in N-terminal
glutamine cyclization of many endocrine peptides and is
typically abundant in brain tissue. N-terminal glutamine
residue cyclization is an important post-translational
event in the processing of numerous bioactive proteins,
including neuropeptides, hormones, and cytokines during
their maturation in the secretory pathway. The
N-terminal pGlu protects them from exopeptidase
degradation and/or enables them to have proper
conformation for binding to the receptors. QCs are
highly conserved from yeast to human. In humans, several
genetic diseases, such as osteoporosis, appear to result
from mutations of the QC gene. N-terminal glutamate
cyclization into pyroglutamate (pGlu) is a reaction that
may be related to the formation of several
plaque-forming peptides, such as amyloid-(A) peptides
and collagen-like Alzheimer amyloid plaque component,
which play a pivotal role in Alzheimer's disease.
Length = 304
Score = 214 bits (548), Expect = 1e-70
Identities = 88/164 (53%), Positives = 107/164 (65%), Gaps = 10/164 (6%)
Query: 5 FIGATDSAVPCAMLLYIARLMRQELSQ------LNQNLGLDLIFFDGEEAFNEWSAEDSI 58
FIGATDSAVPCAMLLY+AR + L++ +LGL LIFFDGEEAF EWS DS+
Sbjct: 100 FIGATDSAVPCAMLLYLARALDAALTRKWTDGIKESDLGLQLIFFDGEEAFKEWSDTDSL 159
Query: 59 WGARHLAAKWERSHLQHRGKTLTKLDRMDMLVLLDLLGTSNPRFYSYYPPTHKWYKQLVG 118
+G+RHLA KWE + + +LDR+D+ VLLDLLG NP F SY+P TH WYK+L
Sbjct: 160 YGSRHLAEKWESTPYPPNSEYSGELDRIDLFVLLDLLGAPNPTFPSYFPNTHWWYKRLAA 219
Query: 119 IESRLTAQGLLNMVNSNRSKKLTYFREMSTFPVAEDDHLPFYYR 162
IE RL GLL +S RS YF+ S + EDDH+PF R
Sbjct: 220 IEKRLRKLGLLESHSSERS----YFQPSSKYGGIEDDHIPFLRR 259
>gnl|CDD|218057 pfam04389, Peptidase_M28, Peptidase family M28.
Length = 173
Score = 82.3 bits (204), Expect = 2e-20
Identities = 31/160 (19%), Positives = 50/160 (31%), Gaps = 32/160 (20%)
Query: 3 SPFIGATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGAR 62
GATD+A A LL +AR++ + + + + +FFD E ED + G+R
Sbjct: 13 PIGPGATDNASGVAALLELARVLAAQGPRPKR--SVVFLFFDAE--------EDGLLGSR 62
Query: 63 HLAAKWERSHLQHRGKTLTKLDRMDMLVLLDLLGTSNPRFYSYYPPTHKWYKQLVGIESR 122
A L H L ++ ++ LD++G+ P
Sbjct: 63 AFAE------LPH-----PPLKKIRAVINLDMIGSGGPAVLFQDGGKLTSL--------- 102
Query: 123 LTAQGLLNMVNSNRSKKLTYFREMSTFPVAEDDHLPFYYR 162
+ L DH PF
Sbjct: 103 --LEAYARAAAKPYGTTLGLDPFPEGGGDGRSDHAPFLGA 140
>gnl|CDD|193569 cd08656, M28_like_6, M28 Zn-Peptidases. Peptidase family M28 (also
called aminopeptidase Y family), uncharacterized
subfamily. The M28 family contains aminopeptidases as
well as carboxypeptidases. They have co-catalytic zinc
ions; each zinc ion is tetrahedrally co-ordinated, with
three amino acid ligands plus activated water; one
aspartate residue binds both metal ions.
Length = 281
Score = 52.7 bits (127), Expect = 9e-09
Identities = 47/163 (28%), Positives = 72/163 (44%), Gaps = 39/163 (23%)
Query: 4 PFIGATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEE-AFNEWSAEDSIW--G 60
P GA D A A+LL +AR+ LS+L ++G+D++FFDGE+ F E ++ W G
Sbjct: 96 PIDGANDGASGVAVLLELARV----LSKLKPDVGVDIVFFDGEDYGFPEGDGDNDSWCLG 151
Query: 61 ARHLAAKWERSHLQHRGKTLTKLDRMDMLVLLDLLGTSNPRFYSYYPPTHKWYKQLVGIE 120
+++ A H+ + + +LLD++G + +FY E
Sbjct: 152 SQYWAKNP---HVSGY--------KAEYGILLDMVGDKDAQFY---------------KE 185
Query: 121 --SRLTAQGLLNMVNSNRSKKL--TYFREMSTFPVAEDDHLPF 159
S A L+ V S +KKL F DDHLP
Sbjct: 186 GYSLRYAPSLVKKVWST-AKKLGYGAFF-PEAGGEITDDHLPV 226
>gnl|CDD|193493 cd02690, M28, M28 Zn-peptidases include aminopeptidases and
carboxypeptidases. Peptidase M28 family (also called
aminopeptidase Y family) contains aminopeptidases as
well as carboxypeptidases. They have co-catalytic zinc
ions; each zinc ion is tetrahedrally co-ordinated, with
three amino acid ligands plus activated water; one
aspartate residue binds both metal ions. The
aminopeptidases in this family are also called bacterial
leucyl aminopeptidases, but are able to release a
variety of N-terminal amino acids. IAP aminopeptidase
and aminopeptidase Y preferentially release basic amino
acids while glutamate carboxypeptidase II preferentially
releases C-terminal glutamates. Plasma glutamate
carboxypeptidase (PGCP) and glutamate carboxypeptidase
II (NAALADase) hydrolyze dipeptides. Several members of
the M28 peptidase family have PA domain inserts which
may participate in substrate binding and/or in promoting
conformational changes, which influence the stability
and accessibility of the site to substrate. These
include prostate-specific membrane antigen (PSMA), yeast
aminopeptidase S (SGAP), human transferrin receptors
(TfR1 and TfR2), plasma glutamate carboxypeptidase
(PGCP) and several predicted aminopeptidases where
relatively little is known about them. Also included in
the M28 family are the glutaminyl cyclases (QC) which
are involved in N-terminal glutamine cyclization of many
endocrine peptides. Nicastrin and nicalin belong to this
family but lack the amino-acid conservation required for
catalytically active aminopeptidases.
Length = 252
Score = 52.0 bits (125), Expect = 1e-08
Identities = 32/157 (20%), Positives = 51/157 (32%), Gaps = 37/157 (23%)
Query: 3 SPFIGATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGAR 62
GA D+A A+LL +AR LS+L + + +FF EE G++
Sbjct: 83 GTAPGADDNASGVAVLLELAR----VLSKLPLDRTIRFVFFGAEEVGLL--------GSK 130
Query: 63 HLAAKWERSHLQHRGKTLTKLDRMDMLVLLDLLGTSNPRFYSYYPPTHKWYKQLVGIESR 122
+ A L + + + LD++G Y + P + L+ +R
Sbjct: 131 YYAE-------DLSSYELENIVAV---INLDMVGGGGDPLYVHAAPGNDD---LLLKLAR 177
Query: 123 LTAQGLLNMVNSNRSKKLTYFREMSTFPVAEDDHLPF 159
L P DH PF
Sbjct: 178 ALGHKLGTG----------DPVVSPGGPG--SDHEPF 202
>gnl|CDD|193519 cd05640, M28_like_1, M28 Zn-Peptidases. Peptidase family M28 (also
called aminopeptidase Y family), uncharacterized
subfamily. The M28 family contains aminopeptidases as
well as carboxypeptidases. They have co-catalytic zinc
ions; each zinc ion is tetrahedrally co-ordinated, with
three amino acid ligands plus activated water; one
aspartate residue binds both metal ions.
Length = 279
Score = 32.2 bits (74), Expect = 0.092
Identities = 22/68 (32%), Positives = 30/68 (44%), Gaps = 9/68 (13%)
Query: 3 SPFIGATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGAR 62
SP GA D+A A+LL +ARL L+ L L L+ FD EE + G+
Sbjct: 82 SP--GADDNASGVAVLLELARL----LAALPPARTLRLVAFDLEEPPFFRTGL---MGSA 132
Query: 63 HLAAKWER 70
A +
Sbjct: 133 AYARSLRQ 140
>gnl|CDD|193495 cd03873, Zinc_peptidase_like, Zinc peptidases M18, M20, M28, and
M42. Zinc peptidases play vital roles in metabolic and
signaling pathways throughout all kingdoms of life. This
family corresponds to several clans in the MEROPS
database, including the MH clan, which contains 4
families (M18, M20, M28, M42). The peptidase M20 family
includes carboxypeptidases such as the glutamate
carboxypeptidase from Pseudomonas, the thermostable
carboxypeptidase Ss1 of broad specificity from archaea
and yeast Gly-X carboxypeptidase. The dipeptidases
include bacterial dipeptidase, peptidase V (PepV), a
eukaryotic, non-specific dipeptidase, and two Xaa-His
dipeptidases (carnosinases). There is also the bacterial
aminopeptidase, peptidase T (PepT) that acts only on
tripeptide substrates and has therefore been termed a
tripeptidase. Peptidase family M28 contains
aminopeptidases and carboxypeptidases, and has
co-catalytic zinc ions. However, several enzymes in this
family utilize other first row transition metal ions
such as cobalt and manganese. Each zinc ion is
tetrahedrally co-ordinated, with three amino acid
ligands plus activated water; one aspartate residue
binds both metal ions. The aminopeptidases in this
family are also called bacterial leucyl aminopeptidases,
but are able to release a variety of N-terminal amino
acids. IAP aminopeptidase and aminopeptidase Y
preferentially release basic amino acids while glutamate
carboxypeptidase II preferentially releases C-terminal
glutamates. Glutamate carbxypeptidase II and plasma
glutamate carboxypeptidase hydrolyze dipeptides.
Peptidase families M18 and M42 contain
metalloaminopeptidases. M18 is widely distributed in
bacteria and eukaryotes. However, only yeast
aminopeptidase I and mammalian aspartyl aminopeptidase
have been characterized in detail. Some of M42 (also
known as glutamyl aminopeptidase) enzymes exhibit
aminopeptidase specificity while others also have
acylaminoacylpeptidase activity (i.e. hydrolysis of
acylated N-terminal residues).
Length = 237
Score = 31.6 bits (72), Expect = 0.12
Identities = 13/58 (22%), Positives = 20/58 (34%), Gaps = 2/58 (3%)
Query: 7 GATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGARHL 64
GA D A LL R +++ + + F EEA A ++W
Sbjct: 89 GAADDKGSVAALLEALRDLKENGFKPKGTII--FAFTADEEAGGSAGAGLALWLLEEG 144
>gnl|CDD|143272 cd05864, Ig2_VEGFR-2, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 2 (VEGFR-2).
Ig2_VEGF-2: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor 2 (VEGFR-2).
The VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. VEGFRs bind VEGFs with high
affinity at the Ig-like domains. VEGFR-2 (KDR/Flk-1) is
a major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A;
VEGF-A is important to the growth and maintenance of
vascular endothelial cells and to the development of new
blood- and lymphatic-vessels in physiological and
pathological states. VEGF-A also interacts with VEGFR-1,
which it binds more strongly than VEGFR-2. VEGFR-2 and
-1 may mediate a chemotactic and a survival signal in
hematopoietic stem cells or leukemia cells.
Length = 70
Score = 29.9 bits (67), Expect = 0.12
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 101 RFYSYYPPTHKWYKQLVGIESRLT 124
++Y Y PP KWYK I T
Sbjct: 6 KYYGYPPPEVKWYKNGQLIVLNHT 29
>gnl|CDD|193497 cd03875, M28_Fxna_like, M28 Zn-peptidase Endoplasmic reticulum
metallopeptidase 1. Peptidase family M28; Endoplasmic
reticulum metallopeptidase 1 (ERMP1; Felix-ina, FXNA or
Fxna peptidase; KIAA1815) subfamily. ERMP1 is a
multi-pass membrane protein located in the endoplasmic
reticulum membrane. In humans, Fxna may play a crucial
role in processing proteins required for the
organization of somatic cells and oocytes into discrete
follicular structures, although which proteins are
hydrolyzed has not yet been determined. Another member
of this cluster is the 24-kDa vacuolar protein (VP24)
which is probably involved in the formation of
intravacuolar pigmented globules (cyanoplasts) in highly
anthocyanin-containing vacuoles; however, the biological
function of the C-terminal region which includes the
putative transmembrane metallopeptidase domain is
unknown.
Length = 307
Score = 30.6 bits (70), Expect = 0.30
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 1 MASPFIGATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIF-F-DGEEAF 49
SP GA+D A++L + R + + + D+IF F EE
Sbjct: 106 PTSP--GASDDGSGVAVMLEVLRALAKSGEPPKR----DVIFLFNGAEENG 150
>gnl|CDD|219232 pfam06934, CTI, Fatty acid cis/trans isomerase (CTI). This family
consists of several fatty acid cis/trans isomerase
proteins which appear to be found exclusively in
bacteria of the orders Vibrionales and Pseudomonadales.
Cis/trans isomerase (CTI) catalyzes the cis-trans
isomerisation of esterified fatty acids in
phospholipids, mainly cis-oleic acid (C(16:1,9)) and
cis-vaccenic acid (C(18:1,11)), in response to solvents.
The CTI protein has been shown to be involved in solvent
resistance in Pseudomonas putida.
Length = 688
Score = 29.9 bits (68), Expect = 0.54
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 8/39 (20%)
Query: 98 SNPRFYSYYPPTHKWYKQLVGIESRLTAQGLLNMVNSNR 136
SNP+F+ Y H WYK+ +E+ GLL+ NR
Sbjct: 654 SNPQFWQYSDDLHAWYKKTQPVEA-----GLLDY---NR 684
>gnl|CDD|225143 COG2234, Iap, Predicted aminopeptidases [General function
prediction only].
Length = 435
Score = 29.9 bits (67), Expect = 0.67
Identities = 21/94 (22%), Positives = 34/94 (36%), Gaps = 22/94 (23%)
Query: 7 GATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGARHLAA 66
GA D+A A LL +AR+ L + + F EE+ G+
Sbjct: 225 GADDNASGVAALLELARV----LKGNPPKRTVRFVAFGAEESGLL--------GSEAYVK 272
Query: 67 KWERSHLQHRGKTLTKLDRMDMLVLLDLLGTSNP 100
+ K+ + + LD+LG+ NP
Sbjct: 273 R-------LSKDLDKKIALV---INLDMLGSPNP 296
>gnl|CDD|219982 pfam08707, PriCT_2, Primase C terminal 2 (PriCT-2). This alpha
helical domain is found at the C terminal of primases.
Length = 74
Score = 28.1 bits (63), Expect = 0.69
Identities = 11/38 (28%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 44 DGEEAFNEWSAEDSIWGARHLAAKWERSHLQHRGKTLT 81
+G E ++EWSA+ S + KW+ R +T
Sbjct: 32 EGLELWDEWSAKSSKYDPGECERKWDS---FKRPGGIT 66
>gnl|CDD|185554 PTZ00323, PTZ00323, NAD+ synthase; Provisional.
Length = 294
Score = 28.6 bits (64), Expect = 1.4
Identities = 14/32 (43%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 7 GATDSAVPCAMLLYIARLMRQELSQLNQNLGL 38
G DSAV A+ AR MR S + +N+GL
Sbjct: 55 GGIDSAVVLALC---ARAMRMPNSPIQKNVGL 83
>gnl|CDD|236523 PRK09452, potA, putrescine/spermidine ABC transporter ATPase
protein; Reviewed.
Length = 375
Score = 28.4 bits (64), Expect = 1.6
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 25 MRQELSQLNQNLGLDLIFF--DGEEAF 49
M+ EL L + LG+ +F D EEA
Sbjct: 183 MQNELKALQRKLGITFVFVTHDQEEAL 209
>gnl|CDD|173961 cd08551, Fe-ADH, iron-containing alcohol dehydrogenases
(Fe-ADH)-like. Large metal-containing alcohol
dehydrogenases (ADH), known as iron-containing alcohol
dehydrogenases. They contain a dehydroquinate
synthase-like protein structural fold and mostly contain
iron. They are distinct from other alcohol
dehydrogenases which contains different protein domains.
There are several distinct families of alcohol
dehydrogenases: Zinc-containing long-chain alcohol
dehydrogenases; insect-type, or short-chain alcohol
dehydrogenases; iron-containing alcohol dehydrogenases,
and others. The iron-containing family has a Rossmann
fold-like topology that resembles the fold of the
zinc-dependent alcohol dehydrogenases, but lacks
sequence homology, and differs in strand arrangement.
ADH catalyzes the reversible oxidation of alcohol to
acetaldehyde with the simultaneous reduction of NAD(P)+
to NAD(P)H.
Length = 370
Score = 28.0 bits (63), Expect = 2.0
Identities = 22/130 (16%), Positives = 44/130 (33%), Gaps = 31/130 (23%)
Query: 1 MASPFIGA---TDSAVPCAMLL-----YIARLMRQELSQLNQ------NLGLDLIFFDGE 46
MA P +GA + A+LL + A + ++ + + + D
Sbjct: 257 MAHP-LGALYHIPHGLANAILLPHVMRFNAEAIPEKYADIARAMGKVSGGSDDEAANAAI 315
Query: 47 EAFNEWSAEDSIWGARHLAAKWERSHLQHRGKTLTKLDRMDMLVLLDLLGTSNPRFYSYY 106
A + + E I + L G +D++ L + D +NPR
Sbjct: 316 AAIRKLNKELGIP-----------TSLADLGVKEEDIDKLAELAMEDACLLNNPR----- 359
Query: 107 PPTHKWYKQL 116
T + +++
Sbjct: 360 IITREDIREI 369
>gnl|CDD|193521 cd05643, M28_like_7, M28 Zn-Peptidases. Peptidase family M28 (also
called aminopeptidase Y family), uncharacterized
subfamily. The M28 family contains aminopeptidases as
well as carboxypeptidases. They typically have
co-catalytic zinc ions; each zinc ion is tetrahedrally
co-ordinated, with three amino acid ligands plus
activated water; one aspartate residue binds both metal
ions. This protein subfamily conserves some of the
metal-coordinating residues of the typically
co-catalytic M28 family which might suggest binding of a
single metal ion.
Length = 288
Score = 28.1 bits (63), Expect = 2.0
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 4 PFIGATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIF 42
P GA D+A A+LL +AR+ L++L + F
Sbjct: 93 PKPGANDNASGSALLLELARV----LAKLLNRPKRGICF 127
>gnl|CDD|193539 cd05663, M28_like_PA_PDZ_associated, M28 Zn-Peptidases containing a
PA domain insert and associated with a PDZ domain.
Peptidase family M28 (also called aminopeptidase Y
family), uncharacterized subfamily. The M28 family
contains aminopeptidases as well as carboxypeptidases.
They have co-catalytic zinc ions; each zinc ion is
tetrahedrally co-ordinated, with three amino acid
ligands plus activated water; one aspartate residue
binds both metal ions. This subfamily is composed of
uncharacterized proteins, many of which contain a
protease-associated (PA) domain insert which may
participate in substrate binding and/or promote
conformational changes, influencing the stability and
accessibility of the site to substrate. Proteins in this
subfamily are also associated with the PDZ domain, a
widespread protein module that has been recruited to
serve multiple functions during the course of evolution.
Length = 260
Score = 28.0 bits (63), Expect = 2.2
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 7 GATDSAVPCAMLLYIARLMRQELSQLNQNLGLDLIFFDGEE 47
GA D+A A LL +AR + +L +N + I F GEE
Sbjct: 97 GADDNASGTAALLELARYLAANKEKLQRN--ILFIAFSGEE 135
>gnl|CDD|147574 pfam05462, Dicty_CAR, Slime mold cyclic AMP receptor. This family
consists of cyclic AMP receptor (CAR) proteins from
slime molds. CAR proteins are responsible for
controlling development in Dictyostelium discoideum.
Length = 305
Score = 27.8 bits (62), Expect = 2.8
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 116 LVGIESRLTAQGLLNMVNSNRSKKLTY 142
LVG+ SR T Q + N V+ N+ K +TY
Sbjct: 175 LVGLTSRYTYQVIRNSVSDNKDKHMTY 201
>gnl|CDD|216562 pfam01546, Peptidase_M20, Peptidase family M20/M25/M40. This
family includes a range of zinc metallopeptidases
belonging to several families in the peptidase
classification. Family M20 are Glutamate
carboxypeptidases. Peptidase family M25 contains X-His
dipeptidases.
Length = 310
Score = 27.5 bits (61), Expect = 3.5
Identities = 11/52 (21%), Positives = 15/52 (28%), Gaps = 7/52 (13%)
Query: 16 AMLLYIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGARHLAAK 67
LL +R + + L+F EE GAR L
Sbjct: 40 GGLLAALEALRALKAGGKLKGTIKLLFQPDEEG-------GGFEGARALIED 84
>gnl|CDD|227536 COG5211, SSU72, RNA polymerase II-interacting protein involved in
transcription start site selection [Transcription].
Length = 197
Score = 26.7 bits (59), Expect = 5.7
Identities = 12/41 (29%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 100 PRFYSYYPPTHKWYKQLVGIESRL-TAQGLLNMVNSNRSKK 139
P Y++ P + Y L GLL M++ NR K
Sbjct: 53 PNVYNFGVPYQQIYDDLCMQNEDHYRENGLLYMLDRNRRVK 93
>gnl|CDD|226361 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and metabolism].
Length = 352
Score = 26.5 bits (59), Expect = 6.9
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 25 MRQELSQLNQNLGLDLIFF--DGEEAF 49
MR+EL +L + LG+ ++ D EEA
Sbjct: 175 MRKELKELQRELGITFVYVTHDQEEAL 201
>gnl|CDD|213267 cd03300, ABC_PotA_N, ATP-binding cassette domain of the polyamine
transporter. PotA is an ABC-type transporter and the
ATPase component of the
spermidine/putrescine-preferential uptake system
consisting of PotA, -B, -C, and -D. PotA has two domains
with the N-terminal domain containing the ATPase
activity and the residues required for homodimerization
with PotA and heterdimerization with PotB. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides, and more complex organic
molecules. The nucleotide binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing proteins.
Length = 232
Score = 26.4 bits (59), Expect = 7.2
Identities = 11/26 (42%), Positives = 16/26 (61%), Gaps = 2/26 (7%)
Query: 25 MRQELSQLNQNLGLDLIFF--DGEEA 48
M+ EL +L + LG+ +F D EEA
Sbjct: 169 MQLELKRLQKELGITFVFVTHDQEEA 194
>gnl|CDD|152652 pfam12217, End_beta_propel, Catalytic beta propeller domain of
bacteriophage endosialidase. This domain family is
found in bacteria and viruses, and is typically between
443 and 460 amino acids in length. This domain is the
highly conserved beta propeller of bacteriophage
endosialidase which represents the catalytically active
part of the enzymes. This core domain forms stable
SDS-resistant trimers. There is a nested beta barrel
domain in this domain (pfam12195). The endosialidase
protein complexes to form a homotrimeric molecule.
Length = 449
Score = 26.4 bits (58), Expect = 7.6
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 36 LGLDLIFFDGEEAFNEWSA 54
+G DLI F E AF EW
Sbjct: 331 VGDDLIIFGSERAFGEWEG 349
>gnl|CDD|217867 pfam04062, P21-Arc, ARP2/3 complex ARPC3 (21 kDa) subunit. The
seven component ARP2/3 actin-organising complex is
involved in actin assembly and function.
Length = 175
Score = 26.1 bits (58), Expect = 7.8
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 22 ARLMRQELSQLNQNLG---LDLIFFDGEEAFNEW 52
A L+RQ L QL Q L L+ ++ D + ++W
Sbjct: 128 AELLRQYLQQLRQELAIRLLERVYADEDGKPSKW 161
>gnl|CDD|165155 PHA02792, PHA02792, ankyrin-like protein; Provisional.
Length = 631
Score = 26.5 bits (58), Expect = 8.5
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 14/89 (15%)
Query: 82 KLDRMDMLVLLDLLG-------TSNPRFYSYYPPTHKWYKQLVGIESRLTAQG--LLNMV 132
K++ DML ++ L +NP F + +K+Y Q++ ++L Q + NM+
Sbjct: 545 KINGTDMLTVMYKLNKPTKKRYVNNPVFTEWAKKQYKFYNQIIYNANKLIEQSKKIDNMI 604
Query: 133 NSNRSKKLTYFREMSTFPVAEDDHLPFYY 161
+ + +ST P+ E HL F Y
Sbjct: 605 DEVSADN----NRLSTLPL-ELRHLIFSY 628
>gnl|CDD|216307 pfam01120, Alpha_L_fucos, Alpha-L-fucosidase.
Length = 320
Score = 26.0 bits (58), Expect = 9.6
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 5/49 (10%)
Query: 20 YIARLMRQELSQLNQNLGLDLIFFDGEEAFNEWSAEDSIWGARHLAAKW 68
Y+ +L +L N D+++FDG +W W + A
Sbjct: 161 YVKEFTFNQLKELVTNYKPDILWFDG-----DWDNPSEYWDSAEFYALL 204
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 0.136 0.419
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,369,077
Number of extensions: 743195
Number of successful extensions: 635
Number of sequences better than 10.0: 1
Number of HSP's gapped: 628
Number of HSP's successfully gapped: 33
Length of query: 162
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 73
Effective length of database: 6,990,096
Effective search space: 510277008
Effective search space used: 510277008
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: 55 (24.9 bits)