RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy18239
(97 letters)
>gnl|CDD|130324 TIGR01257, rim_protein, retinal-specific rim ABC transporter. This
model describes the photoreceptor protein (rim protein)
in eukaryotes. It is the member of ABC transporter
superfamily. Rim protein is a membrane glycoprotein which
is localized in the photoreceptor outer segment discs.
Mutation/s in its genetic loci is implicated in the
recessive Stargardt's disease [Transport and binding
proteins, Other].
Length = 2272
Score = 67.0 bits (163), Expect = 2e-14
Identities = 29/46 (63%), Positives = 36/46 (78%), Gaps = 2/46 (4%)
Query: 25 SLEECEALCTRLAVMVNGRLSCLGSVQHLKNKFAVGY--QLQIKFP 68
S+EECEALCTRLA+MV G CLG++QHLK+KF GY ++IK P
Sbjct: 2129 SMEECEALCTRLAIMVKGAFQCLGTIQHLKSKFGDGYIVTMKIKSP 2174
Score = 33.8 bits (77), Expect = 0.008
Identities = 15/40 (37%), Positives = 24/40 (60%)
Query: 26 LEECEALCTRLAVMVNGRLSCLGSVQHLKNKFAVGYQLQI 65
++E + L R+A++ GRL C G+ LKN F G+ L +
Sbjct: 1120 MDEADLLGDRIAIISQGRLYCSGTPLFLKNCFGTGFYLTL 1159
>gnl|CDD|213230 cd03263, ABC_subfamily_A, ATP-binding cassette domain of the lipid
transporters, subfamily A. The ABCA subfamily mediates
the transport of a variety of lipid compounds. Mutations
of members of ABCA subfamily are associated with human
genetic diseases, such as, familial high-density
lipoprotein (HDL) deficiency, neonatal surfactant
deficiency, degenerative retinopathies, and congenital
keratinization disorders. The ABCA1 protein is involved
in disorders of cholesterol transport and high-density
lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein
transports vitamin A derivatives in the outer segments
of photoreceptor cells, and therefore, performs a
crucial step in the visual cycle. The ABCA genes are not
present in yeast. However, evolutionary studies of ABCA
genes indicate that they arose as transporters that
subsequently duplicated and that certain sets of ABCA
genes were lost in different eukaryotic lineages.
Length = 220
Score = 54.8 bits (133), Expect = 2e-10
Identities = 17/30 (56%), Positives = 24/30 (80%)
Query: 25 SLEECEALCTRLAVMVNGRLSCLGSVQHLK 54
S++E EALC R+A+M +G+L C+GS Q LK
Sbjct: 191 SMDEAEALCDRIAIMSDGKLRCIGSPQELK 220
>gnl|CDD|213232 cd03265, ABC_DrrA, Daunorubicin/doxorubicin resistance ATP-binding
protein. DrrA is the ATP-binding protein component of a
bacterial exporter complex that confers resistance to
the antibiotics daunorubicin and doxorubicin. In
addition to DrrA, the complex includes an integral
membrane protein called DrrB. DrrA belongs to the ABC
family of transporters and shares sequence and
functional similarities with a protein found in cancer
cells called P-glycoprotein. 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 = 220
Score = 36.6 bits (85), Expect = 5e-04
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 26 LEECEALCTRLAVMVNGRLSCLGSVQHLK 54
+EE E LC R+A++ +GR+ G+ + LK
Sbjct: 192 MEEAEQLCDRVAIIDHGRIIAEGTPEELK 220
>gnl|CDD|130256 TIGR01188, drrA, daunorubicin resistance ABC transporter
ATP-binding subunit. This model describes daunorubicin
resistance ABC transporter, ATP binding subunit in
bacteria and archaea. This model is restricted in its
scope to preferentially recognize the ATP binding
subunit associated with effux of the drug, daunorubicin.
This transport system belong to the larger ATP-Binding
Cassette (ABC) transporter superfamily. The
characteristic feature of these transporter is the
obligatory coupling of ATP hydrolysis to substrate
translocation. The minimal configuration of bacterial
ABC transport system: an ATPase or ATP binding subunit;
An integral membrane protein; a hydrophilic polypetpide,
which likely functions as substrate binding protein. In
eukaryotes proteins of similar function include p-gyco
proteins, multidrug resistance protein etc [Transport
and binding proteins, Other].
Length = 302
Score = 35.1 bits (81), Expect = 0.002
Identities = 11/31 (35%), Positives = 21/31 (67%)
Query: 26 LEECEALCTRLAVMVNGRLSCLGSVQHLKNK 56
+EE + LC R+A++ +GR+ G+ + LK +
Sbjct: 184 MEEADKLCDRIAIIDHGRIIAEGTPEELKRR 214
>gnl|CDD|224054 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 35.0 bits (81), Expect = 0.003
Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 21 LFYSS--LEECEALCTRLAVMVNGRLSCLGSVQHLKNKFAVGYQLQIK 66
+ S+ LEE E LC R+ ++ +G++ G+ + LK KF ++++
Sbjct: 190 ILLSTHILEEAEELCDRVIILNDGKIIAEGTPEELKEKFGGKGVIELE 237
>gnl|CDD|224053 COG1129, MglA, ABC-type sugar transport system, ATPase component
[Carbohydrate transport and metabolism].
Length = 500
Score = 33.3 bits (77), Expect = 0.009
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 21 LFYSS-LEECEALCTRLAVMVNGRLS 45
L SS L E L R+ VM GR+
Sbjct: 455 LMISSELPELLGLSDRILVMREGRIV 480
>gnl|CDD|213182 cd03215, ABC_Carb_Monos_II, Second domain of the ATP-binding
cassette component of monosaccharide transport system.
This family represents domain II of the carbohydrate
uptake proteins that transport only monosaccharides
(Monos). The Carb_Monos family is involved in the uptake
of monosaccharides, such as pentoses (such as xylose,
arabinose, and ribose) and hexoses (such as xylose,
arabinose, and ribose), that cannot be broken down to
simple sugars by hydrolysis. In members of Carb_Monos
family the single hydrophobic gene product forms a
homodimer, while the ABC protein represents a fusion of
two nucleotide-binding domains. However, it is assumed
that two copies of the ABC domains are present in the
assembled transporter.
Length = 182
Score = 31.2 bits (72), Expect = 0.047
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 1/25 (4%)
Query: 21 LFYSS-LEECEALCTRLAVMVNGRL 44
L SS L+E LC R+ VM GR+
Sbjct: 158 LLISSELDELLGLCDRILVMYEGRI 182
>gnl|CDD|213197 cd03230, ABC_DR_subfamily_A, ATP-binding cassette domain of the
drug resistance transporter and related proteins,
subfamily A. This family of ATP-binding proteins
belongs to a multi-subunit transporter involved in drug
resistance (BcrA and DrrA), nodulation, lipid transport,
and lantibiotic immunity. In bacteria and archaea, these
transporters usually include an ATP-binding protein and
one or two integral membrane proteins. Eukaryotic
systems of the ABCA subfamily display ABC domains that
are quite similar to this family. The ATP-binding domain
shows the highest similarity between all members of the
ABC transporter 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 = 173
Score = 30.8 bits (71), Expect = 0.053
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 22 FYSS--LEECEALCTRLAVMVNGRL 44
SS LEE E LC R+A++ NGR+
Sbjct: 149 LLSSHILEEAERLCDRVAILNNGRI 173
>gnl|CDD|220198 pfam09353, DUF1995, Domain of unknown function (DUF1995). This
family of proteins are functionally uncharacterized.
Length = 205
Score = 30.7 bits (70), Expect = 0.059
Identities = 14/32 (43%), Positives = 17/32 (53%), Gaps = 4/32 (12%)
Query: 23 YSSLEECEALCT----RLAVMVNGRLSCLGSV 50
S LEE EALC R +M+N RL +V
Sbjct: 106 PSDLEEVEALCELAGGRPVIMLNPRLEDAAAV 137
>gnl|CDD|226364 COG3845, COG3845, ABC-type uncharacterized transport systems,
ATPase components [General function prediction only].
Length = 501
Score = 30.2 bits (69), Expect = 0.12
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 26 LEECEALCTRLAVMVNGRLS 45
L+E L R+AV+ GR+
Sbjct: 463 LDEILELSDRIAVIYEGRIV 482
>gnl|CDD|182036 PRK09700, PRK09700, D-allose transporter ATP-binding protein;
Provisional.
Length = 510
Score = 30.1 bits (68), Expect = 0.13
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 6/55 (10%)
Query: 20 GLFYSS--LEECEALCTRLAVMVNGRLSCLGSVQHLKN----KFAVGYQLQIKFP 68
+ Y S L E +C R VM +G C G V + N + VG +LQ +F
Sbjct: 197 AIVYISHKLAEIRRICDRYTVMKDGSSVCSGMVSDVSNDDIVRLMVGRELQNRFN 251
Score = 28.2 bits (63), Expect = 0.63
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 24 SSLEECEALCTRLAVMVNGRLS 45
S L E +C R+AV GRL+
Sbjct: 467 SELPEIITVCDRIAVFCEGRLT 488
>gnl|CDD|217619 pfam03571, Peptidase_M49, Peptidase family M49.
Length = 550
Score = 28.0 bits (63), Expect = 0.71
Identities = 13/27 (48%), Positives = 14/27 (51%), Gaps = 1/27 (3%)
Query: 11 KNSQTWIS-FGLFYSSLEECEALCTRL 36
K +TW S FG SS EEC A L
Sbjct: 339 KPGETWSSKFGALSSSYEECRAEAVAL 365
>gnl|CDD|130147 TIGR01075, uvrD, DNA helicase II. Designed to identify uvrD
members of the uvrD/rep subfamily [DNA metabolism, DNA
replication, recombination, and repair].
Length = 715
Score = 27.8 bits (62), Expect = 0.89
Identities = 13/23 (56%), Positives = 14/23 (60%), Gaps = 3/23 (13%)
Query: 62 QLQIKFPPTTQQNIKWFVAAYLK 84
+LQI F Q IKW VAAY K
Sbjct: 694 RLQIAFQ---GQGIKWLVAAYAK 713
>gnl|CDD|213225 cd03258, ABC_MetN_methionine_transporter, ATP-binding cassette
domain of methionine transporter. MetN (also known as
YusC) is an ABC-type transporter encoded by metN of the
metNPQ operon in Bacillus subtilis that is involved in
methionine transport. Other members of this system
include the MetP permease and the MetQ substrate binding
protein. 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 = 233
Score = 27.5 bits (62), Expect = 0.91
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 31 ALCTRLAVMVNGRLSCLGSVQHL 53
+C R+AVM G + G+V+ +
Sbjct: 206 RICDRVAVMEKGEVVEEGTVEEV 228
>gnl|CDD|236976 PRK11773, uvrD, DNA-dependent helicase II; Provisional.
Length = 721
Score = 27.5 bits (62), Expect = 0.94
Identities = 11/22 (50%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 63 LQIKFPPTTQQNIKWFVAAYLK 84
+Q+ F Q IKW VAAY K
Sbjct: 699 VQVAF---QGQGIKWLVAAYAK 717
>gnl|CDD|237420 PRK13537, PRK13537, nodulation ABC transporter NodI; Provisional.
Length = 306
Score = 27.1 bits (60), Expect = 1.3
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 26 LEECEALCTRLAVMVNGR 43
+EE E LC RL V+ GR
Sbjct: 198 MEEAERLCDRLCVIEEGR 215
>gnl|CDD|219255 pfam06990, Gal-3-0_sulfotr, Galactose-3-O-sulfotransferase. This
family consists of several mammalian
galactose-3-O-sulfotransferase proteins.
Gal-3-O-sulfotransferase is thought to play a critical
role in 3'-sulfation of N-acetyllactosamine in both O-
and N-glycans.
Length = 400
Score = 27.2 bits (60), Expect = 1.4
Identities = 10/52 (19%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 49 SVQHLKNKFAVGYQLQIKFPPTTQQNIKW---FVAAYLKGNTRRLGSICSSL 97
+V ++ +FA + L++ P + + + F A+ ++ IC+ L
Sbjct: 81 TVLNILFRFAEKHNLKVALPNGCRNDFDYPTFFAASLVQDYRACFNIICNHL 132
>gnl|CDD|226927 COG4555, NatA, ABC-type Na+ transport system, ATPase component
[Energy production and conversion / Inorganic ion
transport and metabolism].
Length = 245
Score = 27.0 bits (60), Expect = 1.4
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 21 LFYS-SLEECEALCTRLAVMVNGRLSCLGSVQHLKNK 56
+F S ++E EALC R+ V+ G + GS++ L +
Sbjct: 187 IFSSHIMQEVEALCDRVIVLHKGEVVLEGSIEALDAR 223
>gnl|CDD|185336 PRK15439, PRK15439, autoinducer 2 ABC transporter ATP-binding
protein LsrA; Provisional.
Length = 510
Score = 26.9 bits (60), Expect = 1.6
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 21 LFYSS-LEECEALCTRLAVMVNGRLS 45
LF SS LEE E + R+ VM G +S
Sbjct: 457 LFISSDLEEIEQMADRVLVMHQGEIS 482
>gnl|CDD|213233 cd03266, ABC_NatA_sodium_exporter, ATP-binding cassette domain of
the Na+ transporter. NatA is the ATPase component of a
bacterial ABC-type Na+ transport system called NatAB,
which catalyzes ATP-dependent electrogenic Na+ extrusion
without mechanically coupled proton or K+ uptake. NatB
possess six putative membrane spanning regions at its
C-terminus. In B. subtilis, NatAB is inducible by agents
such as ethanol and protonophores, which lower the
proton-motive force across the membrane. The closest
sequence similarity to NatA is exhibited by DrrA of the
two-component daunorubicin- and doxorubicin-efflux
system. Hence, the functional NatAB is presumably
assembled with two copies of a single ATP-binding
protein and a single integral membrane protein.
Length = 218
Score = 26.6 bits (59), Expect = 2.3
Identities = 9/26 (34%), Positives = 17/26 (65%), Gaps = 2/26 (7%)
Query: 21 LFYSS--LEECEALCTRLAVMVNGRL 44
+ +S+ ++E E LC R+ V+ GR+
Sbjct: 189 ILFSTHIMQEVERLCDRVVVLHRGRV 214
>gnl|CDD|132533 TIGR03494, salicyl_syn, salicylate synthase. Members of this
protein family are salicylate synthases, bifunctional
enzymes that make salicylate, in two steps, from
chorismate. Members are homologous to anthranilate
synthase component I from Trp biosynthesis. Members
typically are found in gene regions associated with
siderophore or other secondary metabolite biosynthesis.
Length = 425
Score = 26.7 bits (59), Expect = 2.4
Identities = 12/32 (37%), Positives = 18/32 (56%), Gaps = 2/32 (6%)
Query: 24 SSLEECEALCTRLAVMVNGRLSC--LGSVQHL 53
++EE E +C V+V ++ GSVQHL
Sbjct: 281 EAIEELEQVCEPGTVVVEDFMTVRERGSVQHL 312
>gnl|CDD|224058 COG1135, AbcC, ABC-type metal ion transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 339
Score = 26.4 bits (59), Expect = 2.6
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 30 EALCTRLAVMVNGRLSCLGSVQHL 53
+ +C R+AV+ GRL G+V +
Sbjct: 206 KRICDRVAVLDQGRLVEEGTVSEV 229
>gnl|CDD|213266 cd03299, ABC_ModC_like, ATP-binding cassette domain similar to the
molybdate transporter. Archaeal protein closely related
to ModC. ModC is an ABC-type transporter and the ATPase
component of a molybdate transport system that also
includes the periplasmic binding protein ModA and the
membrane protein ModB. 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 = 235
Score = 26.1 bits (58), Expect = 2.6
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 4/37 (10%)
Query: 25 SLEECEALCTRLAVMVNGRLSCLGSVQ----HLKNKF 57
EE AL ++A+M+NG+L +G + KN+F
Sbjct: 189 DFEEAWALADKVAIMLNGKLIQVGKPEEVFKKPKNEF 225
>gnl|CDD|176254 cd08294, leukotriene_B4_DH_like, 13-PGR is a bifunctional enzyme
with delta-13 15-prostaglandin reductase and leukotriene
B4 12 hydroxydehydrogenase activity. Prostaglandins and
related eicosanoids are metabolized by the oxidation of
the 15(S)-hydroxyl group of the NAD+-dependent (type I
15-PGDH) 15-prostaglandin dehydrogenase (15-PGDH)
followed by reduction by NADPH/NADH-dependent (type II
15-PGDH) delta-13 15-prostaglandin reductase (13-PGR) to
15-keto- 13,14,-dihydroprostaglandins. 13-PGR is a
bifunctional enzyme, since it also has leukotriene B(4)
12-hydroxydehydrogenase activity. These 15-PGDH and
related enzymes are members of the medium chain
dehydrogenase/reductase family. The medium chain
dehydrogenases/reductase (MDR)/zinc-dependent alcohol
dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES.
Length = 329
Score = 26.1 bits (58), Expect = 3.1
Identities = 14/63 (22%), Positives = 25/63 (39%), Gaps = 20/63 (31%)
Query: 42 GRLSCLGSV--------------------QHLKNKFAVGYQLQIKFPPTTQQNIKWFVAA 81
GR++ GS+ + LK + + Y+ Q ++P +Q +KW
Sbjct: 235 GRVAVCGSISTYNDKEPKKGPYVQETIIFKQLKMEGFIVYRWQDRWPEALKQLLKWIKEG 294
Query: 82 YLK 84
LK
Sbjct: 295 KLK 297
>gnl|CDD|240972 cd12528, RRM2_MEI2_fungi, RNA recognition motif 2 in fungal
Mei2-like proteins. This subgroup corresponds to the
RRM2 of fungal Mei2-like proteins.The Mei2 protein is
an essential component of the switch from mitotic to
meiotic growth in the fission yeast Schizosaccharomyces
pombe. It is an RNA-binding protein that contains three
RNA recognition motifs (RRMs), also termed RBDs (RNA
binding domains) or RNPs (ribonucleoprotein domains).
In the nucleus, S. pombe Mei2 stimulates meiosis upon
binding a specific non-coding RNA through its
C-terminal RRM motif. .
Length = 81
Score = 25.1 bits (55), Expect = 3.2
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 41 NGRLSCLGSVQHLKNKFAVGYQLQIKFPPTTQQNIKWFVAAYLKGNTR 88
N L S+Q+L + F G K P+ Q N+K F+ + +TR
Sbjct: 17 NSDLVKN-SLQNLLSTF--GDLKAFKSLPSQQDNVKEFICEFF--DTR 59
>gnl|CDD|236863 PRK11153, metN, DL-methionine transporter ATP-binding subunit;
Provisional.
Length = 343
Score = 25.9 bits (58), Expect = 3.5
Identities = 14/53 (26%), Positives = 24/53 (45%), Gaps = 9/53 (16%)
Query: 32 LCTRLAVMVNGRLSCLGSV-------QH-LKNKFAVGYQLQIKFPPTTQQNIK 76
+C R+AV+ GRL G+V +H L +F + L + P ++
Sbjct: 207 ICDRVAVIDAGRLVEQGTVSEVFSHPKHPLTREF-IQSTLHLDLPEDYLARLQ 258
>gnl|CDD|226631 COG4152, COG4152, ABC-type uncharacterized transport system, ATPase
component [General function prediction only].
Length = 300
Score = 25.8 bits (57), Expect = 3.6
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 23 YSS--LEECEALCTRLAVMVNGRLSCLGSVQHLKNKFA 58
+SS +E E LC RL ++ G+ G+V+ ++ F
Sbjct: 185 FSSHRMEHVEELCDRLLMLKKGQTVLYGTVEDIRRSFG 222
>gnl|CDD|132561 TIGR03522, GldA_ABC_ATP, gliding motility-associated ABC
transporter ATP-binding subunit GldA. Members of this
protein family are exclusive to the Bacteroidetes phylum
(previously Cytophaga-Flavobacteria-Bacteroides). GldA
is an ABC transporter ATP-binding protein (pfam00005)
linked to a type of rapid surface gliding motility found
in certain Bacteroidetes, such as Flavobacterium
johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA
abolish the gliding phenotype. Gliding motility appears
closely linked to chitin utilization in the model
species Flavobacterium johnsoniae. Bacteroidetes with
members of this protein family appear to have all of the
genes associated with gliding motility.
Length = 301
Score = 25.9 bits (57), Expect = 3.8
Identities = 10/53 (18%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 26 LEECEALCTRLAVMVNGRLSCLGSVQHLKNKFAVGYQLQIKFPPTTQQNIKWF 78
++E EA+C R+ ++ G++ + L ++++F Q +++ F
Sbjct: 192 MQEVEAICDRVIIINKGKIVADKKLDELSA-ANKKQVIEVEF--EEQIDLQLF 241
>gnl|CDD|213264 cd03297, ABC_ModC_molybdenum_transporter, ATP-binding cassette
domain of the molybdenum transport system. ModC is an
ABC-type transporter and the ATPase component of a
molybdate transport system that also includes the
periplasmic binding protein ModA and the membrane
protein ModB. 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 = 214
Score = 25.7 bits (57), Expect = 3.8
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 25 SLEECEALCTRLAVMVNGRL 44
L E E L R+ VM +GRL
Sbjct: 191 DLSEAEYLADRIVVMEDGRL 210
>gnl|CDD|213231 cd03264, ABC_drug_resistance_like, ABC-type multidrug transport
system, ATPase component. The biological function of
this family is not well characterized, but display ABC
domains similar to members of ABCA subfamily. 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 = 211
Score = 25.6 bits (57), Expect = 4.4
Identities = 8/19 (42%), Positives = 15/19 (78%)
Query: 26 LEECEALCTRLAVMVNGRL 44
+E+ E+LC ++AV+ G+L
Sbjct: 189 VEDVESLCNQVAVLNKGKL 207
>gnl|CDD|237419 PRK13536, PRK13536, nodulation factor exporter subunit NodI;
Provisional.
Length = 340
Score = 25.6 bits (56), Expect = 4.8
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 26 LEECEALCTRLAVMVNGR 43
+EE E LC RL V+ GR
Sbjct: 232 MEEAERLCDRLCVLEAGR 249
>gnl|CDD|131197 TIGR02142, modC_ABC, molybdenum ABC transporter, ATP-binding
protein. This model represents the ATP-binding cassette
(ABC) protein of the three subunit molybdate ABC
transporter. The three proteins of this complex are
homologous to proteins of the sulfate ABC transporter.
Molybdenum may be used in nitrogenases of
nitrogen-fixing bacteria and in molybdopterin cofactors.
In some cases, molybdate may be transported by a sulfate
transporter rather than by a specific molybdate
transporter [Transport and binding proteins, Anions].
Length = 354
Score = 25.5 bits (56), Expect = 5.9
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 21 LFYS-SLEECEALCTRLAVMVNGRLSCLGSVQHL 53
L+ S SL+E L R+ V+ +GR++ G + +
Sbjct: 186 LYVSHSLQEVLRLADRVVVLEDGRVAAAGPIAEV 219
>gnl|CDD|130355 TIGR01288, nodI, ATP-binding ABC transporter family nodulation
protein NodI. This protein is required for normal
nodulation by nitrogen-fixing root nodule bacteria such
as Mesorhizobium loti. It is a member of the family of
ABC transporter ATP binding proteins and works with NodJ
to export a nodulation signal molecule. This model does
not recognize the highly divergent NodI from
Azorhizobium caulinodans [Cellular processes, Other,
Transport and binding proteins, Other].
Length = 303
Score = 25.3 bits (55), Expect = 6.1
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 26 LEECEALCTRLAVMVNGR 43
+EE E LC RL V+ +GR
Sbjct: 195 MEEAERLCDRLCVLESGR 212
>gnl|CDD|227812 COG5525, COG5525, Phage terminase, large subunit GpA [Replication,
recombination and repair].
Length = 611
Score = 25.1 bits (55), Expect = 6.7
Identities = 10/55 (18%), Positives = 19/55 (34%), Gaps = 4/55 (7%)
Query: 19 FGLFYSSLEECEALC----TRLAVMVNGRLSCLGSVQHLKNKFAVGYQLQIKFPP 69
GL + E C + +NGR CL + + +++ G +
Sbjct: 248 RGLKDTPAEAAFIQCEHCGCVIRPKLNGRGVCLRTGEWIRDGMTWGSARGSRIAS 302
>gnl|CDD|224049 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 24.9 bits (55), Expect = 7.7
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 29 CEALCTRLAVMVNGRLSCLGSVQHLKNKFAVGY 61
E +C R+AVM NG++ +G + L + + Y
Sbjct: 205 VEHMCDRIAVMDNGQIVEIGPTEELLSHPSHPY 237
>gnl|CDD|221229 pfam11799, IMS_C, impB/mucB/samB family C-terminal. These
proteins are involved in UV protection.
Length = 136
Score = 24.8 bits (54), Expect = 7.9
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 18 SFGLFYSSLEECEALCTRLAVMVNGRL 44
+F + EE EAL RLA + RL
Sbjct: 41 TFPRDLTDREELEALLLRLAEELAERL 67
>gnl|CDD|213236 cd03269, ABC_putative_ATPase, ATP-binding cassette domain of an
uncharacterized transporter. This subgroup is related
to the subfamily A transporters involved in drug
resistance, nodulation, lipid transport, and bacteriocin
and lantibiotic immunity. In eubacteria and archaea, the
typical organization consists of one ABC and one or two
integral membranes. 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 = 210
Score = 24.9 bits (55), Expect = 8.0
Identities = 8/25 (32%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 21 LFYSS--LEECEALCTRLAVMVNGR 43
+ S+ +E E LC R+ ++ GR
Sbjct: 181 VILSTHQMELVEELCDRVLLLNKGR 205
>gnl|CDD|215305 PLN02562, PLN02562, UDP-glycosyltransferase.
Length = 448
Score = 24.8 bits (54), Expect = 8.6
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 7 QHSRKNSQTWISFGLFYSSLEECEALCTRLAVMVNGR 43
Q + NS +ISFG + S + E LA+ +GR
Sbjct: 268 QEQKPNSVIYISFGSWVSPIGESNVRTLALALEASGR 304
>gnl|CDD|193058 pfam12507, HCMV_UL139, Human Cytomegalovirus UL139 protein. This
family of proteins is found in eukaryotes and viruses.
Proteins in this family are approximately 140 amino
acids in length. UL139 product shared sequence homology
with human CD24, a signal transducer modulating B-cell
activation responses, and the sequences in the G1c
variant of UL139 contained a specific attachment site
of prokaryotic membrane lipoprotein lipid.
Length = 100
Score = 24.0 bits (52), Expect = 9.9
Identities = 12/71 (16%), Positives = 23/71 (32%), Gaps = 5/71 (7%)
Query: 13 SQTWISFGLFY-SSLEECEALCTR-LAVMVNGRLSCLGSVQHLKNKFAVGYQLQIKFPPT 70
S W L + E C R +A G + L S + + ++ Y+ +
Sbjct: 20 SSGWTLSKLALIFTCEFCCFWLVRKIARSCCGEIEELESKEEERERY---YEAKFLEMTA 76
Query: 71 TQQNIKWFVAA 81
+ V+
Sbjct: 77 FLPMGETGVSY 87
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
0.325 0.135 0.425
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,680,284
Number of extensions: 354968
Number of successful extensions: 403
Number of sequences better than 10.0: 1
Number of HSP's gapped: 403
Number of HSP's successfully gapped: 43
Length of query: 97
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 33
Effective length of database: 8,098,946
Effective search space: 267265218
Effective search space used: 267265218
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.4 bits)