RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780567|ref|YP_003064980.1| hypothetical protein
CLIBASIA_02270 [Candidatus Liberibacter asiaticus str. psy62]
(246 letters)
>gnl|CDD|30938 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA
replication, recombination, and repair].
Length = 408
Score = 129 bits (325), Expect = 7e-31
Identities = 53/245 (21%), Positives = 101/245 (41%), Gaps = 25/245 (10%)
Query: 22 KNKEEQLFFSFPRCLGISRDDLLVHSAIEQAVRLIDSW---PSWPSRVVILVGPSGSGKS 78
+ QL + D+ +V + A + P + + G G GK+
Sbjct: 68 ASAPAQLPLPSGLNPKYTFDNFVVGPSNRLAYAAAKAVAENPGGAYNPLFIYGGVGLGKT 127
Query: 79 CLANIWSDKSR------------STRFSN-IAKSLDSILIDTRK------PVLLEDIDLL 119
L +++ S F+N K+L ++ K +L++DI L
Sbjct: 128 HLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYSLDLLLIDDIQFL 187
Query: 120 DFND---TQLFHIINSIHQYDSSLLMTARTFPVSWGVCLPDLCSRLKAATVVKISLPDDD 176
+ + FH N++ + +++T+ P L SRL+ VV+I PDD+
Sbjct: 188 AGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDE 247
Query: 177 FLEKVIVKMFADRQIFIDKKLAAYIVQRMERSLVFAEKLVDKMDNLALSRGMGITRSLAA 236
++ K DR I I ++ ++ +R++R++ E ++++D AL IT L
Sbjct: 248 TRLAILRKKAEDRGIEIPDEVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVK 307
Query: 237 EVLKE 241
E+LK+
Sbjct: 308 EILKD 312
>gnl|CDD|35281 KOG0058, KOG0058, KOG0058, Peptide exporter, ABC superfamily
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 716
Score = 35.7 bits (82), Expect = 0.013
Identities = 30/106 (28%), Positives = 44/106 (41%), Gaps = 29/106 (27%)
Query: 30 FSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANIWSDKSR 89
F++P +R D+ V + +R P VV LVGPSGSGKS +A++
Sbjct: 473 FAYP-----TRPDVPVLKNLSFTIR--------PGEVVALVGPSGSGKSTIASLL----- 514
Query: 90 STRFSNIAKSLDSILIDTRKPVLLEDIDLLDFNDTQLFHIINSIHQ 135
RF + IL+D + + D N L I + Q
Sbjct: 515 -LRFYDPTSG--RILLD--------GVPISDINHKYLRRKIGLVGQ 549
>gnl|CDD|146043 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 34.6 bits (79), Expect = 0.025
Identities = 30/129 (23%), Positives = 51/129 (39%), Gaps = 26/129 (20%)
Query: 26 EQLFFSF-PRCLGISRDDLLVH----SAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCL 80
E + PR RD+L +H + ++ + S +++L GPSG GK
Sbjct: 7 ELWTEKYKPRR----RDELAIHKKKIAEVDHWL-KAVFLESNKQLILLLTGPSGCGK--- 58
Query: 81 ANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLL----DFNDTQLFHIINSIHQY 136
ST ++K L +I+ P L + D DF + + ++ + Q+
Sbjct: 59 ---------STTVKVLSKELGIEIIEWSNPEYLHNPDNECQKPDFRGDCIVNSLSQMEQF 109
Query: 137 DSSLLMTAR 145
LL AR
Sbjct: 110 REFLLRGAR 118
>gnl|CDD|72987 cd03228, ABCC_MRP_Like, The MRP (Mutidrug Resistance Protein)-like
transporters are involved in drug, peptide, and lipid
export. They belong to the subfamily C of the
ATP-binding cassette (ABC) superfamily of transport
proteins. The ABCC subfamily contains transporters with
a diverse functional spectrum that includes ion
transport, cell surface receptor, and toxin secretion
activities. The MRP-like family, simlar to all ABC
proteins, have a common four-domain core structure
constituted by two membrane-spanning domains, each
composed of six transmembrane (TM) helices, and two
nucleotide-binding domains (NBD). 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 = 171
Score = 34.2 bits (79), Expect = 0.033
Identities = 23/77 (29%), Positives = 30/77 (38%), Gaps = 24/77 (31%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLD----SILIDTRKPVLLEDIDL 118
P V +VGPSGSGKS L + + + D ILID +DL
Sbjct: 27 PGEKVAIVGPSGSGKSTLLKL------------LLRLYDPTSGEILID--------GVDL 66
Query: 119 LDFNDTQLFHIINSIHQ 135
D + L I + Q
Sbjct: 67 RDLDLESLRKNIAYVPQ 83
>gnl|CDD|32455 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 34.0 bits (78), Expect = 0.038
Identities = 20/73 (27%), Positives = 29/73 (39%), Gaps = 16/73 (21%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFN 122
P V +VG SGSGKS L K L + + +LL+ +DL D +
Sbjct: 498 PGEKVAIVGRSGSGKSTL----------------LKLLLGLYKPQQGRILLDGVDLNDID 541
Query: 123 DTQLFHIINSIHQ 135
L + + Q
Sbjct: 542 LASLRRQVGYVLQ 554
>gnl|CDD|73014 cd03255, ABC_MJ0796_Lo1CDE_FtsE, This family is comprised of
MJ0796 ATP-binding cassette, macrolide-specific
ABC-type efflux carrier (MacAB), and proteins involved
in cell division (FtsE), and release of liporoteins
from the cytoplasmic membrane (LolCDE). They are
clustered together phylogenetically. MacAB is an
exporter that confers resistance to macrolides, while
the LolCDE system is not a transporter at all. An FtsE
null mutants showed filamentous growth and appeared
viable on high salt medium only, indicating a role for
FtsE in cell division and/or salt transport. The
LolCDE complex catalyses the release of lipoproteins
from the cytoplasmic membrane prior to their targeting
to the outer membrane..
Length = 218
Score = 33.6 bits (77), Expect = 0.058
Identities = 15/30 (50%), Positives = 16/30 (53%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTR 92
V +VGPSGSGKS L NI R T
Sbjct: 29 KGEFVAIVGPSGSGKSTLLNILGGLDRPTS 58
>gnl|CDD|31331 COG1136, SalX, ABC-type antimicrobial peptide transport system,
ATPase component [Defense mechanisms].
Length = 226
Score = 33.2 bits (76), Expect = 0.063
Identities = 19/66 (28%), Positives = 27/66 (40%), Gaps = 16/66 (24%)
Query: 66 VVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFNDTQ 125
V +VGPSGSGKS L N+ L + T VL+ DL ++ +
Sbjct: 33 FVAIVGPSGSGKSTLLNL----------------LGGLDKPTSGEVLINGKDLTKLSEKE 76
Query: 126 LFHIIN 131
L +
Sbjct: 77 LAKLRR 82
>gnl|CDD|73007 cd03248, ABCC_TAP, TAP, the Transporter Associated with Antigen
Processing; TAP is essential for peptide delivery from
the cytosol into the lumen of the endoplasmic reticulum
(ER), where these peptides are loaded on major
histocompatibility complex (MHC) I molecules. Loaded
MHC I leave the ER and display their antigenic cargo on
the cell surface to cytotoxic T cells. Subsequently,
virus-infected or malignantly transformed cells can be
eliminated. TAP belongs to the large family of
ATP-binding cassette (ABC) transporters, which
translocate a vast variety of solutes across
membranes..
Length = 226
Score = 32.6 bits (74), Expect = 0.090
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 13/58 (22%)
Query: 26 EQLFFSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANI 83
+ + F++P R D LV + + P V LVGPSGSGKS + +
Sbjct: 15 QNVTFAYPT-----RPDTLVLQDVSFTLH--------PGEVTALVGPSGSGKSTVVAL 59
>gnl|CDD|37181 KOG1970, KOG1970, KOG1970, Checkpoint RAD17-RFC complex,
RAD17/RAD24 component [Energy production and conversion,
Replication, recombination and repair].
Length = 634
Score = 32.7 bits (74), Expect = 0.091
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 10/59 (16%)
Query: 26 EQLFFSF-PRCLGISRDDLLVH----SAIEQAVRLID-SWPSWPSRVVILVGPSGSGKS 78
E + PR L ++L VH S ++Q ++ + P SR+++L GPSG GKS
Sbjct: 70 ELWVEKYKPRTL----EELAVHKKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKS 124
>gnl|CDD|133313 cd04113, Rab4, Rab4 subfamily. Rab4 has been implicated in
numerous functions within the cell. It helps regulate
endocytosis through the sorting, recycling, and
degradation of early endosomes. Mammalian Rab4 is
involved in the regulation of many surface proteins
including G-protein-coupled receptors, transferrin
receptor, integrins, and surfactant protein A.
Experimental data implicate Rab4 in regulation of the
recycling of internalized receptors back to the plasma
membrane. It is also believed to influence
receptor-mediated antigen processing in B-lymphocytes,
in calcium-dependent exocytosis in platelets, in
alpha-amylase secretion in pancreatic cells, and in
insulin-induced translocation of Glut4 from internal
vesicles to the cell surface. Rab4 is known to share
effector proteins with Rab5 and Rab11. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the
GTP-bound state. Rabs are further regulated by guanine
nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 161
Score = 32.6 bits (75), Expect = 0.11
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 5/30 (16%)
Query: 67 VILVGPSGSGKSCL-----ANIWSDKSRST 91
I++G SG+GKSCL N + + S+ T
Sbjct: 3 FIIIGSSGTGKSCLLHRFVENKFKEDSQHT 32
>gnl|CDD|72972 cd03213, ABCG_EPDR, ABCG transporters are involved in eye pigment
(EP) precursor transport, regulation of
lipid-trafficking mechanisms, and pleiotropic drug
resistance (DR). DR is a well-described phenomenon
occurring in fungi and shares several similarities with
processes in bacteria and higher eukaryotes. Compared
to other members of the ABC transporter subfamilies,
the ABCG transporter family is composed of proteins
that have an ATP-binding cassette domain at the
N-terminus and a TM (transmembrane) domain at the
C-terminus..
Length = 194
Score = 32.4 bits (74), Expect = 0.13
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFS 94
P + ++GPSG+GKS L N + + S
Sbjct: 34 PGELTAIMGPSGAGKSTLLNALAGRRTGLGVS 65
>gnl|CDD|72971 cd00267, ABC_ATPase, ABC (ATP-binding cassette) transporter
nucleotide-binding domain; 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 = 157
Score = 31.8 bits (72), Expect = 0.18
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
+V LVGP+GSGKS L
Sbjct: 24 AGEIVALVGPNGSGKSTLLRA 44
>gnl|CDD|146027 pfam03193, DUF258, Protein of unknown function, DUF258.
Length = 161
Score = 31.8 bits (73), Expect = 0.19
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 64 SRVVILVGPSGSGKSCLAN 82
+ +L G SG GKS L N
Sbjct: 35 GKTSVLAGQSGVGKSTLLN 53
>gnl|CDD|35958 KOG0739, KOG0739, KOG0739, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 439
Score = 31.5 bits (71), Expect = 0.21
Identities = 20/53 (37%), Positives = 30/53 (56%), Gaps = 6/53 (11%)
Query: 48 AIEQAVRLIDSWPSW------PSRVVILVGPSGSGKSCLANIWSDKSRSTRFS 94
A+++AV L +P P R ++L GP G+GKS LA + ++ ST FS
Sbjct: 144 ALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFS 196
>gnl|CDD|35279 KOG0056, KOG0056, KOG0056, Heavy metal exporter HMT1, ABC
superfamily [Inorganic ion transport and metabolism].
Length = 790
Score = 31.5 bits (71), Expect = 0.22
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILID-----------TRKPV 111
P + V LVGPSG+GKS + + RF ++ SI ID R +
Sbjct: 563 PGKTVALVGPSGAGKSTIMRLL------FRFFDVNSG--SITIDGQDIRNVTQSSLRSSI 614
Query: 112 LLEDIDLLDFNDTQLFHI 129
+ D + FNDT L++I
Sbjct: 615 GVVPQDTVLFNDTILYNI 632
>gnl|CDD|73010 cd03251, ABCC_MsbA, MsbA is an essential ABC transporter, closely
related to eukaryotic MDR proteins. 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 = 234
Score = 31.3 bits (71), Expect = 0.28
Identities = 13/19 (68%), Positives = 14/19 (73%)
Query: 65 RVVILVGPSGSGKSCLANI 83
V LVGPSGSGKS L N+
Sbjct: 29 ETVALVGPSGSGKSTLVNL 47
>gnl|CDD|35284 KOG0061, KOG0061, KOG0061, Transporter, ABC superfamily (Breast
cancer resistance protein) [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 613
Score = 31.1 bits (70), Expect = 0.33
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
P ++ ++GPSGSGK+ L N
Sbjct: 55 PGELLAIMGPSGSGKTTLLNA 75
>gnl|CDD|57925 cd01854, YjeQ_engC, YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis)
represents a protein family whose members are broadly
conserved in bacteria and have been shown to be
essential to the growth of E. coli and B. subtilis.
Proteins of the YjeQ family contain all sequence motifs
typical of the vast class of P-loop-containing GTPases,
but show a circular permutation, with a G4-G1-G3 pattern
of motifs as opposed to the regular G1-G3-G4 pattern
seen in most GTPases. All YjeQ family proteins display a
unique domain architecture, which includes an N-terminal
OB-fold RNA-binding domain, the central permuted GTPase
domain, and a zinc knuckle-like C-terminal cysteine
domain. This domain architecture suggests a role for
YjeQ as a regulator of translation..
Length = 287
Score = 30.9 bits (70), Expect = 0.33
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 65 RVVILVGPSGSGKSCLAN 82
+ +LVG SG GKS L N
Sbjct: 162 KTSVLVGQSGVGKSTLIN 179
>gnl|CDD|33631 COG3839, MalK, ABC-type sugar transport systems, ATPase
components [Carbohydrate transport and metabolism].
Length = 338
Score = 30.6 bits (69), Expect = 0.36
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 67 VILVGPSGSGKSCLANI 83
V+L+GPSG GKS L +
Sbjct: 32 VVLLGPSGCGKSTLLRM 48
>gnl|CDD|32436 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA
replication, recombination, and repair].
Length = 332
Score = 30.9 bits (70), Expect = 0.37
Identities = 26/74 (35%), Positives = 32/74 (43%), Gaps = 21/74 (28%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDL------LD 120
V+L GP G GK+ LA+I IA L L T P L + DL L+
Sbjct: 55 VLLFGPPGLGKTTLAHI------------IANELGVNLKITSGPALEKPGDLAAILTNLE 102
Query: 121 FNDTQLFHIINSIH 134
D LF I+ IH
Sbjct: 103 EGDV-LF--IDEIH 113
>gnl|CDD|34624 COG5019, CDC3, Septin family protein [Cell division and chromosome
partitioning / Cytoskeleton].
Length = 373
Score = 30.6 bits (69), Expect = 0.38
Identities = 19/67 (28%), Positives = 25/67 (37%), Gaps = 6/67 (8%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSNI---AKSLDSIL-IDTRKPVLLEDIDLLDFN 122
+++VG SG GK+ N S A+ L I K L ED L+
Sbjct: 26 IMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLT 85
Query: 123 --DTQLF 127
DT F
Sbjct: 86 VIDTPGF 92
>gnl|CDD|31323 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 30.8 bits (70), Expect = 0.39
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 63 PSRVVILVGPSGSGKSCL 80
VV+++GPSGSGKS L
Sbjct: 27 KGEVVVIIGPSGSGKSTL 44
>gnl|CDD|35957 KOG0738, KOG0738, KOG0738, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 491
Score = 30.7 bits (69), Expect = 0.39
Identities = 14/40 (35%), Positives = 25/40 (62%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDS 102
P + V++VGP G+GK+ LA + + +T F+ + +L S
Sbjct: 244 PWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTS 283
>gnl|CDD|35278 KOG0055, KOG0055, KOG0055, Multidrug/pheromone exporter, ABC
superfamily [Secondary metabolites biosynthesis,
transport and catabolism].
Length = 1228
Score = 30.6 bits (69), Expect = 0.40
Identities = 28/108 (25%), Positives = 41/108 (37%), Gaps = 29/108 (26%)
Query: 28 LFFSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANIWSDK 87
+ FS+P SR D+ + + + + V LVGPSGSGKS L +
Sbjct: 356 VCFSYP-----SRPDVKILKGVSLKIP--------SGQTVALVGPSGSGKSTLIQLL--- 399
Query: 88 SRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFNDTQLFHIINSIHQ 135
RF + +LID D+ + N L I + Q
Sbjct: 400 ---ARFYDPTSG--EVLID--------GEDIRNLNLKWLRSQIGLVSQ 434
Score = 29.0 bits (65), Expect = 1.3
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 13/53 (24%)
Query: 26 EQLFFSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKS 78
+ F++P +R D+ V + + ++R + V LVGPSGSGKS
Sbjct: 991 RNVSFAYP-----TRPDVPVLNNLSLSIR--------AGQTVALVGPSGSGKS 1030
>gnl|CDD|73005 cd03246, ABCC_Protease_Secretion, This family represents the ABC
component of the protease secretion system PrtD, a
60-kDa integral membrane protein sharing 37% identity
with HlyB, the ABC component of the alpha-hemolysin
secretion pathway, in the C-terminal domain. They
export degradative enzymes by using a type I protein
secretion system and lack an N-terminal signal peptide,
but contain a C-terminal secretion signal. The Type I
secretion apparatus is made up of three components, an
ABC transporter, a membrane fusion protein (MFP), and an
outer membrane protein (OMP). For the HlyA transporter
complex, HlyB (ABC transporter) and HlyD (MFP) reside in
the inner membrane of E. coli. The OMP component is
TolC, which is thought to interact with the MFP to form
a continuous channel across the periplasm from the
cytoplasm to the exterior. HlyB belongs to the family
of ABC transporters, which are ubiquitous, ATP-dependent
transmembrane pumps or channels. The spectrum of
transport substrates ranges from inorganic ions,
nutrients such as amino acids, sugars, or peptides,
hydrophobic drugs, to large polypeptides, such as HlyA..
Length = 173
Score = 30.5 bits (69), Expect = 0.41
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 5/63 (7%)
Query: 63 PSRVVILVGPSGSGKSCLAN----IWSDKSRSTRFSNIA-KSLDSILIDTRKPVLLEDID 117
P + ++GPSGSGKS LA + S R D + L +D +
Sbjct: 27 PGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNELGDHVGYLPQDDE 86
Query: 118 LLD 120
L
Sbjct: 87 LFS 89
>gnl|CDD|31320 COG1123, COG1123, ATPase components of various ABC-type transport
systems, contain duplicated ATPase [General function
prediction only].
Length = 539
Score = 30.5 bits (69), Expect = 0.42
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 62 WPSRVVILVGPSGSGKSCLANI 83
+ LVG SGSGKS LA I
Sbjct: 315 REGETLGLVGESGSGKSTLARI 336
Score = 29.8 bits (67), Expect = 0.68
Identities = 18/67 (26%), Positives = 29/67 (43%), Gaps = 12/67 (17%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFN 122
P ++ +VG SGSGKS LA + L T V+L+ DLL +
Sbjct: 34 PGEILGIVGESGSGKSTLALA------------LMGLLPEGGRITSGEVILDGRDLLGLS 81
Query: 123 DTQLFHI 129
+ ++ +
Sbjct: 82 EREMRKL 88
>gnl|CDD|73052 cd03293, ABC_NrtD_SsuB_transporters, NrtD and SsuB are the
ATP-binding subunits of the bacterial ABC-type nitrate
and sulfonate transport systems, respectively. 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 = 30.4 bits (69), Expect = 0.43
Identities = 12/21 (57%), Positives = 12/21 (57%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
V LVGPSG GKS L I
Sbjct: 29 EGEFVALVGPSGCGKSTLLRI 49
>gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein.
Length = 219
Score = 30.3 bits (69), Expect = 0.44
Identities = 28/120 (23%), Positives = 53/120 (44%), Gaps = 11/120 (9%)
Query: 93 FSNIAKSLDSILIDTRKPVLLEDIDLL-DFNDTQ--LFHIINSIHQYDSSLLMTARTFPV 149
F +++D +LID DI L TQ FH N++H+ + +++T+ P
Sbjct: 91 FKKSYRNVDLLLID--------DIQFLAGKEKTQEEFFHTFNALHENNKQIVLTSDRPPK 142
Query: 150 SWGVCLPDLCSRLKAATVVKISLPDDDFLEKVIVKMFADRQIFIDKKLAAYIVQRMERSL 209
L SR + ++ I PD + ++ K + I I ++ +I QR+ ++
Sbjct: 143 ELEGFEDRLRSRFEWGLIIAIEPPDLETRLAILRKKAEEENINIPNEVLNFIAQRITDNV 202
>gnl|CDD|73012 cd03253, ABCC_ATM1_transporter, ATM1 is an ABC transporter that is
expressed in the mitochondria. Although the specific
function of ATM1 is unknown, its disruption results in
the accumulation of excess mitochondrial iron, loss of
mitochondrial cytochromes, oxidative damage to
mitochondrial DNA, and decreased levels of cytosolic
heme proteins. 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 = 236
Score = 30.5 bits (69), Expect = 0.44
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 19/78 (24%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTR--KPVLLEDI---- 116
+ V +VGPSGSGKS + + RF +++ SILID + + V L+ +
Sbjct: 26 AGKKVAIVGPSGSGKSTILRLL------FRFYDVSSG--SILIDGQDIREVTLDSLRRAI 77
Query: 117 -----DLLDFNDTQLFHI 129
D + FNDT ++I
Sbjct: 78 GVVPQDTVLFNDTIGYNI 95
>gnl|CDD|34592 COG4987, CydC, ABC-type transport system involved in cytochrome bd
biosynthesis, fused ATPase and permease components
[Energy production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 573
Score = 30.6 bits (69), Expect = 0.46
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 67 VILVGPSGSGKSCLANI----WSDKSRSTRFSNIA-KSLDSILIDTRKPVLLEDIDLLDF 121
V ++G SGSGKS L + W + S + + SLD + VL + + L F
Sbjct: 367 VAILGRSGSGKSTLLQLLAGAWDPQQGSITLNGVEIASLDEQALRETISVLTQRVHL--F 424
Query: 122 NDT 124
+ T
Sbjct: 425 SGT 427
>gnl|CDD|110677 pfam01695, IstB, IstB-like ATP binding protein. This protein
contains an ATP/GTP binding P-loop motif. It is found
associated with IS21 family insertion sequences. The
function of this protein is unknown, but it may perform
a transposase function.
Length = 178
Score = 30.3 bits (69), Expect = 0.46
Identities = 26/122 (21%), Positives = 43/122 (35%), Gaps = 24/122 (19%)
Query: 67 VILVGPSGSGKSCLANIWS----DKSRSTRFSNIAK------------SLDSILID-TRK 109
++L+GP G GK+ LA S F+ L L +
Sbjct: 50 LLLLGPPGVGKTHLACALGHQACRAGYSVLFTRTPDLVEQLKRARGDGRLARTLQRLAKA 109
Query: 110 PVL-LEDIDLLDFNDTQ---LFHIINSIHQYDSSLLMTARTFPVSWGVCLPDLCSRLKAA 165
+L L+DI L + LF +I+ ++ S ++T+ W D L A
Sbjct: 110 DLLILDDIGYLPLSQEAAHLLFELISDRYE-RRSTILTSNLPFGEWHEVFGD--PTLATA 166
Query: 166 TV 167
+
Sbjct: 167 IL 168
>gnl|CDD|73021 cd03262, ABC_HisP_GlnQ_permeases, HisP and GlnQ are the
ATP-binding components of the bacterial periplasmic
histidine and glutamine permeases, repectively.
Histidine permease is a multisubunit complex containing
the HisQ and HisM integral membrane subunits and two
copies of HisP. HisP has properties intermediate
between those of integral and peripheral membrane
proteins and is accessible from both sides of the
membrane, presumably by its interaction with HisQ and
HisM. The two HisP subunits form a homodimer within
the complex. The domain structure of the amino acid
uptake systems is typical for prokaryote extracellular
solute binding protein-dependent uptake systems. All
of the amino acid uptake systems also have at least
one, and in a few cases, two extracellular solute
binding proteins located in the periplasm of
Gram-negative bacteria, or attached to the cell
membrane of Gram-positive bacteria. The best-studied
member of the PAAT (polar amino acid transport) family
is the HisJQMP system of S. typhimurium, where HisJ is
the extracellular solute binding proteins and HisP is
the ABC protein..
Length = 213
Score = 30.5 bits (69), Expect = 0.47
Identities = 11/15 (73%), Positives = 14/15 (93%)
Query: 66 VVILVGPSGSGKSCL 80
VV+++GPSGSGKS L
Sbjct: 28 VVVIIGPSGSGKSTL 42
>gnl|CDD|33731 COG3950, COG3950, Predicted ATP-binding protein involved in
virulence [General function prediction only].
Length = 440
Score = 30.4 bits (68), Expect = 0.49
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 7/55 (12%)
Query: 63 PSRVVILVGPSGSGKSCL-------ANIWSDKSRSTRFSNIAKSLDSILIDTRKP 110
S I+VGP+GSGK+ + N + D RF ++ LD I +
Sbjct: 23 ESETTIIVGPNGSGKTTVLDAIRNALNKFIDFFIYLRFKSLKIELDDIELCIMSQ 77
>gnl|CDD|72984 cd03225, ABC_cobalt_CbiO_domain1, Domain I of the ABC component of
a cobalt transport family found in bacteria, archaea,
and eukaryota. The transition metal cobalt is an
essential component of many enzymes and must be
transported into cells in appropriate amounts when
needed. This ABC transport system of the CbiMNQO family
is involved in cobalt transport in association with the
cobalamin (vitamin B12) biosynthetic pathways. Most of
cobalt (Cbi) transport systems possess a separate CbiN
component, the cobalt-binding periplasmic protein, and
they are encoded by the conserved gene cluster cbiMNQO.
Both the CbiM and CbiQ proteins are integral cytoplasmic
membrane proteins, and the CbiO protein has the linker
peptide and the Walker A and B motifs commonly found in
the ATPase components of the ABC-type transport
systems..
Length = 211
Score = 30.1 bits (68), Expect = 0.53
Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 17/78 (21%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFNDTQL 126
V++VGP+GSGKS L + L+ +L T VL++ DL + +L
Sbjct: 30 VLIVGPNGSGKSTLLRL----------------LNGLLGPTSGEVLVDGKDLTKLSLKEL 73
Query: 127 FHIINSIHQY-DSSLLMT 143
+ + Q D
Sbjct: 74 RRKVGLVFQNPDDQFFGP 91
>gnl|CDD|31356 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 30.3 bits (68), Expect = 0.53
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 60 PSWPSRVVILVGPSGSGKSCLAN 82
++ +L+G SG GKS L N
Sbjct: 160 ELLAGKITVLLGQSGVGKSTLIN 182
>gnl|CDD|30812 COG0464, SpoVK, ATPases of the AAA+ class [Posttranslational
modification, protein turnover, chaperones].
Length = 494
Score = 30.1 bits (67), Expect = 0.54
Identities = 16/44 (36%), Positives = 23/44 (52%)
Query: 62 WPSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILI 105
P + V+L GP G+GK+ LA + +SRS S L S +
Sbjct: 274 RPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLSKWV 317
>gnl|CDD|33864 COG4107, PhnK, ABC-type phosphonate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 258
Score = 30.3 bits (68), Expect = 0.56
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 58 SWPSWPSRVVILVGPSGSGKSCLANIWSDK 87
S+ +P V+ +VG SGSGK+ L S +
Sbjct: 26 SFDLYPGEVLGIVGESGSGKTTLLKCISGR 55
>gnl|CDD|147726 pfam05729, NACHT, NACHT domain. This NTPase domain is found in
apoptosis proteins as well as those involved in MHC
transcription activation. This family is closely
related to pfam00931.
Length = 165
Score = 30.0 bits (68), Expect = 0.57
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 65 RVVILVGPSGSGKSCLA 81
R VIL G +GSGK+ L
Sbjct: 1 RTVILQGEAGSGKTTLL 17
>gnl|CDD|33504 COG3709, COG3709, Uncharacterized component of phosphonate
metabolism [Inorganic ion transport and metabolism].
Length = 192
Score = 30.3 bits (68), Expect = 0.58
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 63 PSRVVILVGPSGSGKSCL 80
R++ +VGPSG+GK L
Sbjct: 4 MGRLIAVVGPSGAGKDTL 21
>gnl|CDD|31416 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General
function prediction only].
Length = 368
Score = 29.9 bits (67), Expect = 0.58
Identities = 14/60 (23%), Positives = 31/60 (51%), Gaps = 7/60 (11%)
Query: 38 ISRDDLLVHSAIEQAVRLI-------DSWPSWPSRVVILVGPSGSGKSCLANIWSDKSRS 90
I+ DD++ ++ RLI + + W + V+ GP G+GK+ +A +++++
Sbjct: 118 ITLDDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV 177
>gnl|CDD|133305 cd04105, SR_beta, Signal recognition particle receptor, beta
subunit (SR-beta). SR-beta and SR-alpha form the
heterodimeric signal recognition particle (SRP or SR)
receptor that binds SRP to regulate protein
translocation across the ER membrane. Nascent
polypeptide chains are synthesized with an N-terminal
hydrophobic signal sequence that binds SRP54, a
component of the SRP. SRP directs targeting of the
ribosome-nascent chain complex (RNC) to the ER membrane
via interaction with the SR, which is localized to the
ER membrane. The RNC is then transferred to the
protein-conducting channel, or translocon, which
facilitates polypeptide translation across the ER
membrane or integration into the ER membrane. SR-beta
is found only in eukaryotes; it is believed to control
the release of the signal sequence from SRP54 upon
binding of the ribosome to the translocon. High
expression of SR-beta has been observed in human colon
cancer, suggesting it may play a role in the development
of this type of cancer.
Length = 203
Score = 30.0 bits (68), Expect = 0.58
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 65 RVVILVGPSGSGKSCL-ANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDL 118
V+L+GPS SGK+ L + + K RST S IL K +D+
Sbjct: 1 PTVLLLGPSDSGKTALFTKLTTGKYRSTVTSIEPNVATFILNSEGKGKKFRLVDV 55
>gnl|CDD|73180 cd00071, GMPK, Guanosine monophosphate kinase (GMPK, EC 2.7.4.8),
also known as guanylate kinase (GKase), catalyzes the
reversible phosphoryl transfer from adenosine
triphosphate (ATP) to guanosine monophosphate (GMP) to
yield adenosine diphosphate (ADP) and guanosine
diphosphate (GDP). It plays an essential role in the
biosynthesis of guanosine triphosphate (GTP). This
enzyme is also important for the activation of some
antiviral and anticancer agents, such as acyclovir,
ganciclovir, carbovir, and thiopurines..
Length = 137
Score = 30.1 bits (68), Expect = 0.60
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 9/46 (19%)
Query: 66 VVILVGPSGSGKSCLAN-IWSDKSRSTRFSNIAKSLDSILIDTRKP 110
+++L GPSG GKS L + + + F S+ TRKP
Sbjct: 1 LIVLSGPSGVGKSTLLKRLLEEFDPNFGF--------SVSHTTRKP 38
>gnl|CDD|31313 COG1116, TauB, ABC-type nitrate/sulfonate/bicarbonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 248
Score = 30.2 bits (68), Expect = 0.60
Identities = 9/18 (50%), Positives = 12/18 (66%)
Query: 66 VVILVGPSGSGKSCLANI 83
V ++GPSG GKS L +
Sbjct: 31 FVAILGPSGCGKSTLLRL 48
>gnl|CDD|34241 COG4618, ArpD, ABC-type protease/lipase transport system, ATPase
and permease components [General function prediction
only].
Length = 580
Score = 30.2 bits (68), Expect = 0.61
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 4/35 (11%)
Query: 63 PSRVVILVGPSGSGKSCLAN----IWSDKSRSTRF 93
+ ++GPSGSGKS LA IW S S R
Sbjct: 361 AGEALGIIGPSGSGKSTLARLLVGIWPPTSGSVRL 395
>gnl|CDD|33632 COG3840, ThiQ, ABC-type thiamine transport system, ATPase
component [Coenzyme metabolism].
Length = 231
Score = 29.9 bits (67), Expect = 0.64
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
+V ++GPSG+GKS L N+
Sbjct: 24 AGEIVAILGPSGAGKSTLLNL 44
>gnl|CDD|35964 KOG0745, KOG0745, KOG0745, Putative ATP-dependent Clp-type protease
(AAA+ ATPase superfamily) [Posttranslational
modification, protein turnover, chaperones].
Length = 564
Score = 30.0 bits (67), Expect = 0.70
Identities = 18/67 (26%), Positives = 28/67 (41%), Gaps = 7/67 (10%)
Query: 15 KQKNDQPKNKEEQLFFSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSG 74
K D+ E ++ S + R ++ V L S V+L+GP+G
Sbjct: 184 KSAKDRDNPIELEISESNAQWPNNQRQIAKALDEDDEDVELEKS-------NVLLLGPTG 236
Query: 75 SGKSCLA 81
SGK+ LA
Sbjct: 237 SGKTLLA 243
>gnl|CDD|31297 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 30.0 bits (66), Expect = 0.70
Identities = 21/135 (15%), Positives = 42/135 (31%), Gaps = 16/135 (11%)
Query: 67 VILVGPSGSGKSCLAN-----IWSDKSRSTRFSNIA--------KSLDSILIDTRKPVLL 113
++++G G GK+ L N + + T + +++ L DT
Sbjct: 8 IVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEY 67
Query: 114 EDIDLLDFNDTQLFHIINSIHQYDSSLLMTARTFPVSWGVCLPDLCSRLKAATVVKISLP 173
+ + I+ +SS +T + D+ L KI L
Sbjct: 68 RSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGN---KIDLF 124
Query: 174 DDDFLEKVIVKMFAD 188
D+ + I+
Sbjct: 125 DEQSSSEEILNQLNR 139
>gnl|CDD|72986 cd03227, ABC_Class2, ABC-type Class 2 contains systems involved
in cellular processes other than transport. These
families are characterised by the fact that the ABC
subunit is made up of duplicated, fused ABC modules
(ABC2). No known transmembrane proteins or domains are
associated with these proteins..
Length = 162
Score = 29.9 bits (67), Expect = 0.74
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 63 PSRVVILVGPSGSGKSCLAN 82
+ I+ GP+GSGKS + +
Sbjct: 20 EGSLTIITGPNGSGKSTILD 39
>gnl|CDD|33845 COG4088, COG4088, Predicted nucleotide kinase [Nucleotide transport
and metabolism].
Length = 261
Score = 29.5 bits (66), Expect = 0.76
Identities = 29/116 (25%), Positives = 42/116 (36%), Gaps = 19/116 (16%)
Query: 65 RVVILVGPSGSGKSCLANIWSDKSRSTRFSNI---AKSLDSILIDTRKPVLLEDID---- 117
++IL G GSGK+ A + + R + I L IL D P+L E
Sbjct: 2 PLIILTGYPGSGKTTFAKELAKELRQEIWRVIHLEKDYLRGILWDESLPILKEVYRESFL 61
Query: 118 -----LLDFNDTQLFHIINSIHQYDS---SLLMTARTFPVSWGV----CLPDLCSR 161
LLD I++ + Y S L A+ +W + D C R
Sbjct: 62 KSVERLLDSALKNYLVIVDDTNYYKSMRRQLACEAKERKTTWCIIYLRTPLDTCLR 117
>gnl|CDD|73016 cd03257, ABC_NikE_OppD_transporters, The ABC transporter
subfamily specific for the transport of dipeptides,
oligopeptides (OppD), and nickel (NikDE). The NikABCDE
system of E. coli belongs to this family and is
composed of the periplasmic binding protein NikA, two
integral membrane components (NikB and NikC), and two
ATPase (NikD and NikE). The NikABCDE transporter is
synthesized under anaerobic conditions to meet the
increased demand for nickel resulting from hydrogenase
synthesis. The molecular mechanism of nickel uptake in
many bacteria and most archaea is not known. Many
other members of this ABC family are also involved in
the uptake of dipeptides and oligopeptides. The
oligopeptide transport system (Opp) is a five-component
ABC transport composed of a membrane-anchored substrate
binding proteins (SRP), OppA, two transmembrane
proteins, OppB and OppC, and two ATP-binding domains,
OppD and OppF..
Length = 228
Score = 29.7 bits (67), Expect = 0.79
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
+ LVG SGSGKS LA
Sbjct: 30 KGETLGLVGESGSGKSTLARA 50
>gnl|CDD|72976 cd03217, ABC_FeS_Assembly, ABC-type transport system involved in
Fe-S cluster assembly, ATPase component. Biosynthesis
of iron-sulfur clusters (Fe-S) depends on multiprotein
systems. The SUF system of E. coli and Erwinia
chrysanthemi is important for Fe-S biogenesis under
stressful conditions. The SUF system is made of six
proteins: SufC is an atypical cytoplasmic ABC-ATPase,
which forms a complex with SufB and SufD; SufA plays
the role of a scaffold protein for assembly of
iron-sulfur clusters and delivery to target proteins;
SufS is a cysteine desulfurase which mobilizes the
sulfur atom from cysteine and provides it to the
cluster; SufE has no associated function yet..
Length = 200
Score = 29.7 bits (67), Expect = 0.88
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
V L+GP+GSGKS LA
Sbjct: 25 KGEVHALMGPNGSGKSTLAKT 45
>gnl|CDD|73013 cd03254, ABCC_Glucan_exporter_like, Glucan exporter ATP-binding
protein. In A. tumefaciens cyclic beta-1, 2-glucan must
be transported into the periplasmic space to exert its
action as a virluence factor. This subfamily belongs to
the MRP-like family and is involved in drug, peptide,
and lipid export. The MRP-like family, similar to all
ABC proteins, have a common four-domain core structure
constituted by two membrane-spanning domains each
composed of six transmembrane (TM) helices and two
nucleotide-binding domains (NBD). 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 = 229
Score = 29.4 bits (66), Expect = 0.91
Identities = 17/44 (38%), Positives = 23/44 (52%), Gaps = 8/44 (18%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILID 106
P V +VGP+G+GK+ L N+ RF + K ILID
Sbjct: 28 PGETVAIVGPTGAGKTTLINLL------MRFYDPQKG--QILID 63
>gnl|CDD|35309 KOG0086, KOG0086, KOG0086, GTPase Rab4, small G protein
superfamily [Intracellular trafficking, secretion, and
vesicular transport].
Length = 214
Score = 29.2 bits (65), Expect = 1.0
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 5/30 (16%)
Query: 67 VILVGPSGSGKSCL-----ANIWSDKSRST 91
+++G +G+GKSCL N + D S T
Sbjct: 12 FLVIGSAGTGKSCLLHQFIENKFKDDSSHT 41
>gnl|CDD|133259 cd01850, CDC_Septin, CDC/Septin. Septins are a conserved family of
GTP-binding proteins associated with diverse processes
in dividing and non-dividing cells. They were first
discovered in the budding yeast S. cerevisiae as a set
of genes (CDC3, CDC10, CDC11 and CDC12) required for
normal bud morphology. Septins are also present in
metazoan cells, where they are required for cytokinesis
in some systems, and implicated in a variety of other
processes involving organization of the cell cortex and
exocytosis. In humans, 12 septin genes generate dozens
of polypeptides, many of which comprise heterooligomeric
complexes. Since septin mutants are commonly defective
in cytokinesis and formation of the neck formation of
the neck filaments/septin rings, septins have been
considered to be the primary constituents of the neck
filaments. Septins belong to the GTPase superfamily for
their conserved GTPase motifs and enzymatic activities.
Length = 276
Score = 29.0 bits (66), Expect = 1.1
Identities = 10/55 (18%), Positives = 19/55 (34%), Gaps = 8/55 (14%)
Query: 67 VILVGPSGSGKS------CLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLED 115
+++VG SG GKS + ++ I + K + E+
Sbjct: 7 IMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDK--TVEIKSSKAEIEEN 59
>gnl|CDD|31673 COG1484, DnaC, DNA replication protein [DNA replication,
recombination, and repair].
Length = 254
Score = 29.2 bits (65), Expect = 1.1
Identities = 31/158 (19%), Positives = 59/158 (37%), Gaps = 27/158 (17%)
Query: 13 PDKQKNDQPKNKEEQLFF-SFPRCLGISRDDL-LVHSAIEQAVRLIDSWPSWPSRV--VI 68
+++ + + E +L SFP D ++A+ + S + R ++
Sbjct: 50 EEEKLAREARKIERRLRSASFPAKKTFEEFDFEFQPGIDKKALEDLASLVEFFERGENLV 109
Query: 69 LVGPSGSGKS----CLANIWSDKSRSTRFSNIAKSLDSILI----DTRKPVLLEDI---D 117
L+GP G GK+ + N S F L + + LL ++ D
Sbjct: 110 LLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRELKKVD 169
Query: 118 LLDFND-----------TQLFHIINSIHQYDSSLLMTA 144
LL +D LF +I+ ++ SL++T+
Sbjct: 170 LLIIDDIGYEPFSQEEADLLFQLISRRYES-RSLIITS 206
>gnl|CDD|34593 COG4988, CydD, ABC-type transport system involved in cytochrome bd
biosynthesis, ATPase and permease components [Energy
production and conversion / Posttranslational
modification, protein turnover, chaperones].
Length = 559
Score = 29.0 bits (65), Expect = 1.2
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
++ LVG SG+GKS L N+
Sbjct: 346 AGQLTALVGASGAGKSTLLNL 366
>gnl|CDD|30875 COG0529, CysC, Adenylylsulfate kinase and related kinases
[Inorganic ion transport and metabolism].
Length = 197
Score = 29.1 bits (65), Expect = 1.2
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDK 87
V+ G SGSGKS +AN +K
Sbjct: 22 KGAVIWFTGLSGSGKSTIANALEEK 46
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyses the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 29.0 bits (66), Expect = 1.2
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 67 VILVGPSGSGKSCLA 81
++++GP GSGK+ LA
Sbjct: 25 LLMIGPPGSGKTMLA 39
>gnl|CDD|30527 COG0178, UvrA, Excinuclease ATPase subunit [DNA replication,
recombination, and repair].
Length = 935
Score = 29.0 bits (65), Expect = 1.2
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 65 RVVILVGPSGSGKSCLA 81
++V++ G SGSGKS LA
Sbjct: 27 KLVVITGLSGSGKSSLA 43
>gnl|CDD|144280 pfam00625, Guanylate_kin, Guanylate kinase.
Length = 182
Score = 28.9 bits (65), Expect = 1.2
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 64 SRVVILVGPSGSGKSCLAN 82
R ++L GPSG GKS +
Sbjct: 1 RRPIVLSGPSGVGKSHIKK 19
>gnl|CDD|34177 COG4525, TauB, ABC-type taurine transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 259
Score = 29.1 bits (65), Expect = 1.2
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
+V+++GPSG GK+ L N+
Sbjct: 30 SGELVVVLGPSGCGKTTLLNL 50
>gnl|CDD|30745 COG0396, SufC, ABC-type transport system involved in Fe-S cluster
assembly, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 251
Score = 29.0 bits (65), Expect = 1.3
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
V ++GP+GSGKS LA
Sbjct: 29 EGEVHAIMGPNGSGKSTLAYT 49
>gnl|CDD|32733 COG2909, MalT, ATP-dependent transcriptional regulator
[Transcription].
Length = 894
Score = 28.7 bits (64), Expect = 1.5
Identities = 7/26 (26%), Positives = 15/26 (57%)
Query: 64 SRVVILVGPSGSGKSCLANIWSDKSR 89
R++++ P+G GK+ L W + +
Sbjct: 37 YRLILISAPAGFGKTTLLAQWRELAA 62
>gnl|CDD|37203 KOG1992, KOG1992, KOG1992, Nuclear export receptor CSE1/CAS
(importin beta superfamily) [Nuclear structure,
Intracellular trafficking, secretion, and vesicular
transport].
Length = 960
Score = 28.8 bits (64), Expect = 1.6
Identities = 14/46 (30%), Positives = 19/46 (41%), Gaps = 9/46 (19%)
Query: 125 QLFHIINSIHQYDSSLLMTARTFPVSWGVCLPDLCSRLKAATVVKI 170
QL ++ I + D FP W LPDL +RL + I
Sbjct: 107 QLSEALSLIGKRD---------FPDKWPTLLPDLVARLSSGDFNVI 143
>gnl|CDD|35216 COG5657, CSE1, CAS/CSE protein involved in chromosome segregation
[Cell division and chromosome partitioning].
Length = 947
Score = 28.8 bits (64), Expect = 1.6
Identities = 28/130 (21%), Positives = 50/130 (38%), Gaps = 17/130 (13%)
Query: 101 DSILIDTRKPVLLEDIDLLDFNDTQLF----HIINSIHQYDSSLLMTARTFPVSWGVCLP 156
+SIL D + E L+ + QL ++ I + D FP W +P
Sbjct: 76 NSILPDENVLIRDELFSLIISSSNQLQIQNALAVSRIARLD---------FPDEWPTLVP 126
Query: 157 DLCSRLKAATVVKI--SLPDDDFLEKVIVKMFADRQIFIDKK--LAAYIVQRMERSLVFA 212
DL S L +V SL + K + ++F +F++ L + + + S F
Sbjct: 127 DLLSLLSEKDMVTNENSLRVLHHIFKRLRRLFRSDALFLEIAPVLLSILCPFLFSSAYFW 186
Query: 213 EKLVDKMDNL 222
+ ++L
Sbjct: 187 SMSENLDESL 196
>gnl|CDD|177097 CHL00206, ycf2, Ycf2; Provisional.
Length = 2281
Score = 28.7 bits (64), Expect = 1.7
Identities = 22/84 (26%), Positives = 40/84 (47%), Gaps = 3/84 (3%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFN 122
PSR ++++G G+G+S L + ++ I L+ L + K L++DID+ D +
Sbjct: 1629 PSRGILVIGSIGTGRSYLVK---YLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSD 1685
Query: 123 DTQLFHIINSIHQYDSSLLMTART 146
D I+ + +M A T
Sbjct: 1686 DIDDSDDIDRDLDTELLTMMNALT 1709
>gnl|CDD|133265 cd01862, Rab7, Rab7 subfamily. Rab7 is a small Rab GTPase that
regulates vesicular traffic from early to late
endosomal stages of the endocytic pathway. The yeast
Ypt7 and mammalian Rab7 are both involved in transport
to the vacuole/lysosome, whereas Ypt7 is also required
for homotypic vacuole fusion. Mammalian Rab7 is an
essential participant in the autophagic pathway for
sequestration and targeting of cytoplasmic components
to the lytic compartment. Mammalian Rab7 is also
proposed to function as a tumor suppressor. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the
GTP-bound state. Rabs are further regulated by guanine
nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization. Most Rab
GTPases contain a lipid modification site at the
C-terminus, with sequence motifs CC, CXC, or CCX. Lipid
binding is essential for membrane attachment, a key
feature of most Rab proteins. Due to the presence of
truncated sequences in this CD, the lipid modification
site is not available for annotation.
Length = 172
Score = 28.4 bits (64), Expect = 1.8
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSN 95
VI++G SG GK+ L N + +K +FSN
Sbjct: 3 VIILGDSGVGKTSLMNQYVNK----KFSN 27
>gnl|CDD|30672 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
[Translation, ribosomal structure and biogenesis].
Length = 308
Score = 28.3 bits (63), Expect = 1.9
Identities = 7/17 (41%), Positives = 14/17 (82%)
Query: 65 RVVILVGPSGSGKSCLA 81
+++++ GP+ SGK+ LA
Sbjct: 4 KLIVIAGPTASGKTALA 20
>gnl|CDD|29833 cd01918, HprK_C, HprK/P, the bifunctional histidine-containing
protein kinase/phosphatase, controls the
phosphorylation state of the phosphocarrier protein HPr
and regulates the utilization of carbon sources by
gram-positive bacteria. It catalyzes both the
ATP-dependent phosphorylation of Ser-46 of HPr and its
dephosphorylation by phosphorolysis. The latter
reaction uses inorganic phosphate as substrate and
produces pyrophosphate. Phosphoenolpyruvate
carboxykinase (PEPCK) and the C-terminal catalytic
domain of HprK/P are structurally similar with
conserved active site residues suggesting these two
phosphotransferases have related functions. The HprK/P
N-terminal domain is structurally similar to the
N-terminal domains of the MurE and MurF amino acid
ligases..
Length = 149
Score = 28.3 bits (63), Expect = 2.0
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 67 VILVGPSGSGKSCLA 81
V++ GPSG GKS LA
Sbjct: 17 VLITGPSGIGKSELA 31
>gnl|CDD|133250 cd00154, Rab, Rab family. Rab GTPases form the largest family
within the Ras superfamily. There are at least 60 Rab
genes in the human genome, and a number of Rab GTPases
are conserved from yeast to humans. Rab GTPases are
small, monomeric proteins that function as molecular
switches to regulate vesicle trafficking pathways. The
different Rab GTPases are localized to the cytosolic
face of specific intracellular membranes, where they
regulate distinct steps in membrane traffic pathways.
In the GTP-bound form, Rab GTPases recruit specific
sets of effector proteins onto membranes. Through their
effectors, Rab GTPases regulate vesicle formation,
actin- and tubulin-dependent vesicle movement, and
membrane fusion. GTPase activating proteins (GAPs)
interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which mask C-terminal lipid binding and promote
cytosolic localization. While most unicellular
organisms possess 5-20 Rab members, several have been
found to possess 60 or more Rabs; for many of these Rab
isoforms, homologous proteins are not found in other
organisms. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab
proteins. Since crystal structures often lack
C-terminal residues, the lipid modification site is not
available for annotation in many of the CDs in the
hierarchy, but is included where possible.
Length = 159
Score = 28.2 bits (64), Expect = 2.0
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 67 VILVGPSGSGKSCL 80
++L+G SG GK+ L
Sbjct: 3 IVLIGDSGVGKTSL 16
>gnl|CDD|31321 COG1124, DppF, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 252
Score = 28.3 bits (63), Expect = 2.0
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 69 LVGPSGSGKSCLANI 83
+VG SGSGKS LA +
Sbjct: 38 IVGESGSGKSTLARL 52
>gnl|CDD|72988 cd03229, ABC_Class3, This class is comprised of all BPD (Binding
Protein Dependent) systems that are largely represented
in archaea and eubacteria and are primarily involved in
scavenging solutes from the environment. 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 = 178
Score = 28.2 bits (63), Expect = 2.0
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 66 VVILVGPSGSGKSCLANI 83
+V L+GPSGSGKS L
Sbjct: 28 IVALLGPSGSGKSTLLRC 45
>gnl|CDD|73019 cd03260, ABC_PstB_phosphate_transporter, Phosphate uptake is of
fundamental importance in the cell physiology of
bacteria because phosphate is required as a nutrient.
The Pst system of E. coli comprises four distinct
subunits encoded by the pstS, pstA, pstB, and pstC
genes. The PstS protein is a phosphate-binding protein
located in the periplasmic space. P stA and PstC are
hydrophobic and they form the transmembrane portion of
the Pst system. PstB is the catalytic subunit, which
couples the energy of ATP hydrolysis to the import of
phosphate across cellular membranes through the Pst
system, often referred as ABC-protein. PstB belongs to
one of the largest superfamilies of proteins
characterized by a highly conserved adenosine
triphosphate (ATP) binding cassette (ABC), which is
also a nucleotide binding domain (NBD)..
Length = 227
Score = 28.2 bits (63), Expect = 2.0
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 66 VVILVGPSGSGKSCL 80
+ L+GPSG GKS L
Sbjct: 28 ITALIGPSGCGKSTL 42
>gnl|CDD|31829 COG1643, HrpA, HrpA-like helicases [DNA replication,
recombination, and repair].
Length = 845
Score = 28.4 bits (63), Expect = 2.1
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 64 SRVVILVGPSGSGKS------CLANIWSDKSR 89
++VVI+VG +GSGK+ L +
Sbjct: 65 NQVVIIVGETGSGKTTQLPQFLLEEGLGIAGK 96
>gnl|CDD|36598 KOG1384, KOG1384, KOG1384, tRNA delta(2)-isopentenylpyrophosphate
transferase [Translation, ribosomal structure and
biogenesis].
Length = 348
Score = 28.4 bits (63), Expect = 2.1
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 65 RVVILVGPSGSGKSCLA 81
+VV+++G +G+GKS LA
Sbjct: 8 KVVVIMGATGAGKSRLA 24
>gnl|CDD|73057 cd03298, ABC_ThiQ_thiamine_transporter, ABC-type thiamine
tranport system; part of the binding-protein-dependent
transport system tbpA-thiPQ for thiamine and TPP.
Probably responsible for the translocation of thiamine
across the membrane. 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 = 28.4 bits (63), Expect = 2.1
Identities = 11/19 (57%), Positives = 14/19 (73%)
Query: 65 RVVILVGPSGSGKSCLANI 83
+ +VGPSGSGKS L N+
Sbjct: 25 EITAIVGPSGSGKSTLLNL 43
>gnl|CDD|73178 COG4608, AppF, ABC-type oligopeptide transport system, ATPase
component [Amino acid transport and metabolism].
Length = 268
Score = 28.3 bits (63), Expect = 2.2
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 65 RVVILVGPSGSGKSCLANI 83
+ LVG SG GKS L +
Sbjct: 40 ETLGLVGESGCGKSTLGRL 58
>gnl|CDD|31609 COG1419, FlhF, Flagellar GTP-binding protein [Cell motility and
secretion].
Length = 407
Score = 28.0 bits (62), Expect = 2.3
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 55 LIDSWPSWPSRVVILVGPSGSGKS 78
LI++ RV+ LVGP+G GK+
Sbjct: 194 LIENLIVEQKRVIALVGPTGVGKT 217
>gnl|CDD|31412 COG1219, ClpX, ATP-dependent protease Clp, ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 408
Score = 28.2 bits (63), Expect = 2.3
Identities = 9/15 (60%), Positives = 14/15 (93%)
Query: 67 VILVGPSGSGKSCLA 81
++L+GP+GSGK+ LA
Sbjct: 100 ILLIGPTGSGKTLLA 114
>gnl|CDD|144489 pfam00910, RNA_helicase, RNA helicase. This family includes RNA
helicases thought to be involved in duplex unwinding
during viral RNA replication. Members of this family
are found in a variety of single stranded RNA viruses.
Length = 105
Score = 28.0 bits (63), Expect = 2.4
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 67 VILVGPSGSGKSCLANI 83
+ L GP G GKS LA
Sbjct: 1 IWLYGPPGCGKSTLAKY 17
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase
fold. The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons,
ATPase subunits of proteases, helicases, or
nucleic-acid stimulated ATPases. The AAA+ proteins
contain several distinct features in addition to the
conserved alpha-beta-alpha core domain structure and
the Walker A and B motifs of the P-loop NTPases..
Length = 151
Score = 27.9 bits (62), Expect = 2.4
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 46 HSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLA 81
AIE ++ P + ++L GP G+GK+ LA
Sbjct: 4 EEAIEALREALEL-PPPKN--LLLYGPPGTGKTTLA 36
>gnl|CDD|73008 cd03249, ABC_MTABC3_MDL1_MDL2, MTABC3 (also known as ABCB6) is a
mitochondrial ATP-binding cassette protein involved in
iron homeostasis and one of four ABC transporters
expressed in the mitochondrial inner membrane, the
other three being MDL1(ABC7), MDL2, and ATM1. In fact,
the yeast MDL1 (multidrug resistance-like protein 1)
and MDL2 (multidrug resistance-like protein 2)
transporters are also included in this CD. MDL1 is an
ATP-dependent permease that acts as a high-copy
suppressor of ATM1 and is thought to have a role in
resistance to oxidative stress. Interestingly,
subfamily B is more closely related to the
carboxyl-terminal component of subfamily C than the two
halves of ABCC molecules are with one another..
Length = 238
Score = 27.8 bits (62), Expect = 2.5
Identities = 10/21 (47%), Positives = 14/21 (66%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
P + V LVG SG GKS + ++
Sbjct: 28 PGKTVALVGSSGCGKSTVVSL 48
>gnl|CDD|30760 COG0411, LivG, ABC-type branched-chain amino acid transport
systems, ATPase component [Amino acid transport and
metabolism].
Length = 250
Score = 27.8 bits (62), Expect = 2.6
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
P +V L+GP+G+GK+ L N+
Sbjct: 29 PGEIVGLIGPNGAGKTTLFNL 49
>gnl|CDD|73015 cd03256, ABC_PhnC_transporter, ABC-type phosphate/phosphonate
transport system. Phosphonates are a class of
organophosphorus compounds characterized by a
chemically stable carbon-to-phosphorus (C-P) bond.
Phosphonates are widespread among naturally occurring
compounds in all kingdoms of wildlife, but only
procaryotic microorganisms are able to cleave this
bond. Certain bacteria such as E. coli can use
alkylphosphonates as a phosphorus source. 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 = 241
Score = 27.8 bits (62), Expect = 2.6
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 63 PSRVVILVGPSGSGKSCL 80
P V L+GPSG+GKS L
Sbjct: 26 PGEFVALIGPSGAGKSTL 43
>gnl|CDD|33633 COG3842, PotA, ABC-type spermidine/putrescine transport systems,
ATPase components [Amino acid transport and
metabolism].
Length = 352
Score = 28.0 bits (62), Expect = 2.7
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 63 PSRVVILVGPSGSGKSCL 80
V L+GPSG GK+ L
Sbjct: 30 KGEFVTLLGPSGCGKTTL 47
>gnl|CDD|37239 KOG2028, KOG2028, KOG2028, ATPase related to the helicase subunit
of the Holliday junction resolvase [Replication,
recombination and repair].
Length = 554
Score = 27.7 bits (61), Expect = 2.8
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 12/58 (20%)
Query: 42 DLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANIW--SDKSRSTRFSNIA 97
D L+ S IEQ + PS +IL GP G+GK+ LA + + K S RF ++
Sbjct: 150 DGLLRSLIEQ-----NRIPS-----MILWGPPGTGKTTLARLIASTSKKHSYRFVELS 197
>gnl|CDD|72978 cd03219, ABC_Mj1267_LivG_branched, The Mj1267/LivG ABC
transporter subfamily is involved in the transport of
the hydrophobic amino acids leucine, isoleucine and
valine. MJ1267 is a branched-chain amino acid
transporter with 29% similarity to both the LivF and
LivG components of the E. coli branched-chain amino
acid transporter. MJ1267 contains an insertion from
residues 114 to 123 characteristic of LivG
(Leucine-Isoleucine-Valine) homologs. The
branched-chain amino acid transporter from E. coli
comprises a heterodimer of ABCs (LivF and LivG), a
heterodimer of six-helix TM domains (LivM and LivH),
and one of two alternative soluble periplasmic
substrate binding proteins (LivK or LivJ)..
Length = 236
Score = 27.7 bits (62), Expect = 2.8
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTR 92
P + L+GP+G+GK+ L N+ S R T
Sbjct: 25 PGEIHGLIGPNGAGKTTLFNLISGFLRPTS 54
>gnl|CDD|30909 COG0563, Adk, Adenylate kinase and related kinases [Nucleotide
transport and metabolism].
Length = 178
Score = 27.9 bits (62), Expect = 2.8
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFS 94
++++GP G+GKS LA + K
Sbjct: 3 ILILGPPGAGKSTLAKKLAKKLGLPHLD 30
>gnl|CDD|147030 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region. GTR1
was first identified in S. cerevisiae as a suppressor
of a mutation in RCC1. Biochemical analysis revealed
that Gtr1 is in fact a G protein of the Ras family. The
RagA/B proteins are the human homologues of Gtr1.
Included in this family is the human Rag C, a novel
protein that has been shown to interact with RagA/B.
Length = 230
Score = 27.9 bits (63), Expect = 2.8
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 8/29 (27%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSN 95
V+L+G GSGKS + RS FSN
Sbjct: 2 VLLMGLRGSGKSSM--------RSIIFSN 22
>gnl|CDD|73018 cd03259, ABC_Carb_Solutes_like, ABC Carbohydrate and Solute
Transporters-like subgroup. This family is comprised
of proteins involved in the transport of apparently
unrelated solutes and proteins specific for di- and
oligosaccharides and polyols. 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 = 213
Score = 27.8 bits (62), Expect = 2.9
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
P + L+GPSG GK+ L +
Sbjct: 25 PGEFLALLGPSGCGKTTLLRL 45
>gnl|CDD|37960 KOG2749, KOG2749, KOG2749, mRNA cleavage and polyadenylation factor
IA/II complex, subunit CLP1 [RNA processing and
modification].
Length = 415
Score = 27.9 bits (62), Expect = 2.9
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 45 VHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANI 83
+H+A+E+ R+ S V++VGP+ GKS L I
Sbjct: 85 LHAALEK-RRMQAEEESSYGPRVMVVGPTDVGKSTLCRI 122
>gnl|CDD|30188 cd00464, SK, Shikimate kinase (SK) is the fifth enzyme in the
shikimate pathway, a seven-step biosynthetic pathway
which converts erythrose-4-phosphate to chorismic acid,
found in bacteria, fungi and plants. Chorismic acid is a
important intermediate in the synthesis of aromatic
compounds, such as aromatic amino acids, p-aminobenzoic
acid, folate and ubiquinone. Shikimate kinase catalyses
the phosphorylation of the 3-hydroxyl group of shikimic
acid using ATP..
Length = 154
Score = 27.9 bits (62), Expect = 3.0
Identities = 9/41 (21%), Positives = 19/41 (46%), Gaps = 12/41 (29%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDT 107
++L+G G+GK+ + + +AK+L +D
Sbjct: 2 IVLIGMMGAGKTTVGRL------------LAKALGLPFVDL 30
>gnl|CDD|31314 COG1117, PstB, ABC-type phosphate transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 253
Score = 27.8 bits (62), Expect = 3.0
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 63 PSRVVILVGPSGSGKSCL 80
++V L+GPSG GKS L
Sbjct: 32 KNKVTALIGPSGCGKSTL 49
>gnl|CDD|30543 COG0194, Gmk, Guanylate kinase [Nucleotide transport and
metabolism].
Length = 191
Score = 27.8 bits (62), Expect = 3.0
Identities = 16/46 (34%), Positives = 21/46 (45%), Gaps = 9/46 (19%)
Query: 65 RVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKP 110
+++L GPSG GKS L + RF S+ TRKP
Sbjct: 5 LLIVLSGPSGVGKSTLVKALLEDD-KLRF--------SVSATTRKP 41
>gnl|CDD|32265 COG2082, CobH, Precorrin isomerase [Coenzyme metabolism].
Length = 210
Score = 27.5 bits (61), Expect = 3.2
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 175 DDFLEKVIVKMFADRQIFIDKKL-AAYIVQRMERSLVFAEKLVDKMDNLALSRGMGITRS 233
+E + A I +D + AA I +R +L VD L++ GITRS
Sbjct: 56 PGAIEAGREALKAGCPIVVDVNMVAAGITRRRLPALNPVICYVDDPRVAELAKEEGITRS 115
Query: 234 LAA 236
A
Sbjct: 116 AAG 118
>gnl|CDD|110578 pfam01583, APS_kinase, Adenylylsulphate kinase. Enzyme that
catalyses the phosphorylation of adenylylsulphate to
3'-phosphoadenylylsulfate. This domain contains an ATP
binding P-loop motif.
Length = 157
Score = 27.6 bits (62), Expect = 3.2
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 66 VVILVGPSGSGKSCLAN 82
V G SGSGKS +AN
Sbjct: 4 TVWFTGLSGSGKSTIAN 20
>gnl|CDD|36405 KOG1191, KOG1191, KOG1191, Mitochondrial GTPase [Translation,
ribosomal structure and biogenesis].
Length = 531
Score = 27.6 bits (61), Expect = 3.2
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRS 90
+ +VG GKS L N S + RS
Sbjct: 271 IAIVGRPNVGKSSLLNALSREDRS 294
>gnl|CDD|144365 pfam00735, Septin, Septin. Members of this family include CDC3,
CDC10, CDC11 and CDC12/Septin. Members of this family
bind GTP. As regards the septins, these are polypeptides
of 30-65kDa with three characteristic GTPase motifs
(G-1, G-3 and G-4) that are similar to those of the Ras
family. The G-4 motif is strictly conserved with a
unique septin consensus of AKAD. Most septins are
thought to have at least one coiled-coil region, which
in some cases is necessary for intermolecular
interactions that allow septins to polymerize to form
rod-shaped complexes. In turn, these are arranged into
tandem arrays to form filaments. They are
multifunctional proteins, with roles in cytokinesis,
sporulation, germ cell development, exocytosis and
apoptosis.
Length = 280
Score = 27.6 bits (62), Expect = 3.3
Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 23/94 (24%)
Query: 67 VILVGPSGSGKS------CLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLD 120
+++VG SG GK+ L +++ ++ I K+++ I + ED L+
Sbjct: 7 LMVVGESGLGKTTLINTLFLTDLYPERGIPGPSEKIKKTVE---IKATTVEIEEDGVKLN 63
Query: 121 FN--DTQLFH-----------IINSI-HQYDSSL 140
DT F I+ I Q++ L
Sbjct: 64 LTVIDTPGFGDAIDNSNCWKPIVEYIDEQFEQYL 97
>gnl|CDD|33919 COG4181, COG4181, Predicted ABC-type transport system involved in
lysophospholipase L1 biosynthesis, ATPase component
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 228
Score = 27.6 bits (61), Expect = 3.5
Identities = 11/18 (61%), Positives = 12/18 (66%)
Query: 63 PSRVVILVGPSGSGKSCL 80
V +VGPSGSGKS L
Sbjct: 35 RGETVAIVGPSGSGKSTL 52
>gnl|CDD|143926 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 27.3 bits (62), Expect = 3.7
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 5/35 (14%)
Query: 48 AIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLAN 82
+E A R+ + + V+I G SG+GK A
Sbjct: 11 VLELAKRVAPT----DATVLIT-GESGTGKELFAR 40
>gnl|CDD|33892 COG4136, COG4136, ABC-type uncharacterized transport system,
ATPase component [General function prediction only].
Length = 213
Score = 27.6 bits (61), Expect = 3.7
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 63 PSRVVILVGPSGSGKSCL 80
+V L+GPSG GKS L
Sbjct: 27 KGEIVTLMGPSGCGKSTL 44
>gnl|CDD|73029 cd03270, ABC_UvrA_I, The excision repair protein UvrA domain I;
Nucleotide excision repair in eubacteria is a process
that repairs DNA damage by the removal of a 12-13-mer
oligonucleotide containing the lesion. Recognition and
cleavage of the damaged DNA is a multistep
ATP-dependent reaction that requires the UvrA, UvrB,
and UvrC proteins. Both UvrA and UvrB are ATPases,
with UvrA having two ATP binding sites, which have the
characteristic signature of the family of ABC proteins,
and UvrB having one ATP binding site that is
structurally related to that of helicases..
Length = 226
Score = 27.5 bits (61), Expect = 3.7
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 63 PSRVVILVGPSGSGKSCLA 81
+++V++ G SGSGKS LA
Sbjct: 20 RNKLVVITGVSGSGKSSLA 38
>gnl|CDD|30917 COG0572, Udk, Uridine kinase [Nucleotide transport and metabolism].
Length = 218
Score = 27.5 bits (61), Expect = 3.7
Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 6/72 (8%)
Query: 60 PSWPSRVVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLE----D 115
++ + G SGSGK+ +A S++ + I SLD D E +
Sbjct: 4 KPEKVIIIGIAGGSGSGKTTVAKELSEQLGVEKVVVI--SLDDYYKDQSHLPFEERNKIN 61
Query: 116 IDLLDFNDTQLF 127
D + D L
Sbjct: 62 YDHPEAFDLDLL 73
>gnl|CDD|133258 cd00882, Ras_like_GTPase, Ras-like GTPase superfamily. The Ras-like
superfamily of small GTPases consists of several
families with an extremely high degree of structural and
functional similarity. The Ras superfamily is divided
into at least four families in eukaryotes: the Ras, Rho,
Rab, and Sar1/Arf families. This superfamily also
includes proteins like the GTP translation factors,
Era-like GTPases, and G-alpha chain of the
heterotrimeric G proteins. Members of the Ras
superfamily regulate a wide variety of cellular
functions: the Ras family regulates gene expression, the
Rho family regulates cytoskeletal reorganization and
gene expression, the Rab and Sar1/Arf families regulate
vesicle trafficking, and the Ran family regulates
nucleocytoplasmic transport and microtubule
organization. The GTP translation factor family regulate
initiation, elongation, termination, and release in
translation, and the Era-like GTPase family regulates
cell division, sporulation, and DNA replication. Members
of the Ras superfamily are identified by the GTP binding
site, which is made up of five characteristic sequence
motifs, and the switch I and switch II regions.
Length = 157
Score = 27.4 bits (61), Expect = 3.7
Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 13/72 (18%)
Query: 69 LVGPSGSGKSCLANIWSDK------SRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFN 122
+VG SG GK+ L N +T +K +I +D +K + + D
Sbjct: 1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSK---TIEVDGKK----VKLQIWDTA 53
Query: 123 DTQLFHIINSIH 134
+ F + ++
Sbjct: 54 GQERFRSLRRLY 65
>gnl|CDD|34201 COG4559, COG4559, ABC-type hemin transport system, ATPase
component [Inorganic ion transport and metabolism].
Length = 259
Score = 27.6 bits (61), Expect = 3.7
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 5/45 (11%)
Query: 38 ISRDDLLVHSAIEQAVRLID--SWPSWPSRVVILVGPSGSGKSCL 80
I ++L RL+D S P V+ ++GP+G+GKS L
Sbjct: 2 IRAENLSYSL---AGRRLLDGVSLDLRPGEVLAILGPNGAGKSTL 43
>gnl|CDD|33681 COG3893, COG3893, Inactivated superfamily I helicase [DNA
replication, recombination, and repair].
Length = 697
Score = 27.3 bits (60), Expect = 3.7
Identities = 12/44 (27%), Positives = 20/44 (45%)
Query: 19 DQPKNKEEQLFFSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSW 62
D+ + E + F LG R LL + ++A+R + SW
Sbjct: 249 DEWQAIEGHPQYGFHSLLGAERQLLLEIAEADEALRPAELTASW 292
>gnl|CDD|35880 KOG0661, KOG0661, KOG0661, MAPK related serine/threonine protein
kinase [Signal transduction mechanisms].
Length = 538
Score = 27.3 bits (60), Expect = 3.8
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 13 PDKQKNDQPKNKEEQLFFSFPRCLGISRDDLLVHSAIEQAVRLIDSWPSW 62
PDK + N + F FP+ DLL +A +A LI+ +W
Sbjct: 229 PDKDSWPEGYNLASAMNFRFPQVKPSPLKDLL-PNASSEAASLIERLLAW 277
>gnl|CDD|32710 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 27.5 bits (61), Expect = 3.9
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRSTR 92
V L GPSG+GKS L + + R TR
Sbjct: 27 KGEFVFLTGPSGAGKSTLLKLIYGEERPTR 56
>gnl|CDD|133270 cd01867, Rab8_Rab10_Rab13_like, Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2
are known or suspected to be involved in post-Golgi
transport to the plasma membrane. It is likely that
these Rabs have functions that are specific to the
mammalian lineage and have no orthologs in plants. Rab8
modulates polarized membrane transport through
reorganization of actin and microtubules, induces the
formation of new surface extensions, and has an
important role in directed membrane transport to cell
surfaces. The Ypt2 gene of the fission yeast
Schizosaccharomyces pombe encodes a member of the
Ypt/Rab family of small GTP-binding proteins, related
in sequence to Sec4p of Saccharomyces cerevisiae but
closer to mammalian Rab8. GTPase activating proteins
(GAPs) interact with GTP-bound Rab and accelerate the
hydrolysis of GTP to GDP. Guanine nucleotide exchange
factors (GEFs) interact with GDP-bound Rabs to promote
the formation of the GTP-bound state. Rabs are further
regulated by guanine nucleotide dissociation inhibitors
(GDIs), which facilitate Rab recycling by masking
C-terminal lipid binding and promoting cytosolic
localization. Most Rab GTPases contain a lipid
modification site at the C-terminus, with sequence
motifs CC, CXC, or CCX. Lipid binding is essential for
membrane attachment, a key feature of most Rab
proteins. Due to the presence of truncated sequences
in this CD, the lipid modification site is not
available for annotation.
Length = 167
Score = 27.2 bits (61), Expect = 3.9
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRF 93
++L+G SG GKSCL +S+ S + F
Sbjct: 6 LLLIGDSGVGKSCLLLRFSEDSFNPSF 32
>gnl|CDD|133370 cd04170, EF-G_bact, Elongation factor G (EF-G) subfamily.
Translocation is mediated by EF-G (also called
translocase). The structure of EF-G closely resembles
that of the complex between EF-Tu and tRNA. This is an
example of molecular mimicry; a protein domain evolved
so that it mimics the shape of a tRNA molecule. EF-G
in the GTP form binds to the ribosome, primarily
through the interaction of its EF-Tu-like domain with
the 50S subunit. The binding of EF-G to the ribosome
in this manner stimulates the GTPase activity of EF-G.
On GTP hydrolysis, EF-G undergoes a conformational
change that forces its arm deeper into the A site on
the 30S subunit. To accommodate this domain, the
peptidyl-tRNA in the A site moves to the P site,
carrying the mRNA and the deacylated tRNA with it. The
ribosome may be prepared for these rearrangements by
the initial binding of EF-G as well. The dissociation
of EF-G leaves the ribosome ready to accept the next
aminoacyl-tRNA into the A site. This group contains
only bacterial members.
Length = 268
Score = 27.1 bits (61), Expect = 4.0
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 67 VILVGPSGSGKSCLA 81
+ LVG SGSGK+ LA
Sbjct: 2 IALVGHSGSGKTTLA 16
>gnl|CDD|31682 COG1493, HprK, Serine kinase of the HPr protein, regulates
carbohydrate metabolism [Signal transduction
mechanisms].
Length = 308
Score = 27.1 bits (60), Expect = 4.1
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 67 VILVGPSGSGKSCLA 81
V++ GPSG+GKS LA
Sbjct: 148 VLITGPSGAGKSELA 162
>gnl|CDD|73011 cd03252, ABCC_Hemolysin, The ABC-transporter hemolysin B is a
central component of the secretion machinery that
translocates the toxin, hemolysin A, in a
Sec-independent fashion across both membranes of E.
coli. The hemolysin A (HlyA) transport machinery is
composed of the ATP-binding cassette (ABC) transporter
HlyB located in the inner membrane, hemolysin D (HlyD),
also anchored in the inner membrane, and TolC, which
resides in the outer membrane. HlyD apparently forms a
continuous channel that bridges the entire periplasm,
interacting with TolC and HlyB. This arrangement
prevents the appearance of periplasmic intermediates of
HlyA during substrate transport. Little is known about
the molecular details of HlyA transport, but it is
evident that ATP-hydrolysis by the ABC-transporter HlyB
is a necessary source of energy..
Length = 237
Score = 27.2 bits (60), Expect = 4.1
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
P VV +VG SGSGKS L +
Sbjct: 27 PGEVVGIVGRSGSGKSTLTKL 47
>gnl|CDD|73051 cd03292, ABC_FtsE_transporter, FtsE is a hydrophilic
nucleotide-binding protein that binds FtsX to form a
heterodimeric ATP-binding cassette (ABC)-type
transporter that associates with the bacterial inner
membrane. The FtsE/X transporter is thought to be
involved in cell division and is important for assembly
or stability of the septal ring..
Length = 214
Score = 27.2 bits (60), Expect = 4.2
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTR 92
V LVGPSG+GKS L + + T
Sbjct: 30 VFLVGPSGAGKSTLLKLIYKEELPTS 55
>gnl|CDD|35952 KOG0733, KOG0733, KOG0733, Nuclear AAA ATPase (VCP subfamily)
[Posttranslational modification, protein turnover,
chaperones].
Length = 802
Score = 27.3 bits (60), Expect = 4.3
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 63 PSRVVILVGPSGSGKSCLAN 82
P R V+L GP G GK+ LAN
Sbjct: 222 PPRGVLLHGPPGCGKTSLAN 241
>gnl|CDD|31663 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA
replication, recombination, and repair /
Posttranslational modification, protein turnover,
chaperones].
Length = 366
Score = 27.2 bits (60), Expect = 4.3
Identities = 21/138 (15%), Positives = 44/138 (31%), Gaps = 40/138 (28%)
Query: 49 IEQAVRLIDSW-PSWPSRVVILVGPSGSGKSCLA-------------------NIWSDKS 88
I Q + +I+ GP+G+GK+ N ++
Sbjct: 26 INQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRT 85
Query: 89 RSTRFSNIAKSLDSI-----------------LIDTRKPVL--LEDID-LLDFNDTQLFH 128
S I L + L K V+ L+++D L+D + L+
Sbjct: 86 PYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYS 145
Query: 129 IINSIHQYDSSLLMTART 146
++ + + + + A +
Sbjct: 146 LLRAPGENKVKVSIIAVS 163
>gnl|CDD|31417 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein
[Transcription].
Length = 450
Score = 27.1 bits (60), Expect = 4.3
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 65 RVVILVGPSGSGKSCLA 81
R +++VGP G+GK+ LA
Sbjct: 66 RGILIVGPPGTGKTALA 82
>gnl|CDD|33889 COG4133, CcmA, ABC-type transport system involved in cytochrome c
biogenesis, ATPase component [Posttranslational
modification, protein turnover, chaperones].
Length = 209
Score = 27.2 bits (60), Expect = 4.4
Identities = 10/48 (20%), Positives = 19/48 (39%), Gaps = 8/48 (16%)
Query: 36 LGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANI 83
L R + + S + + + + GP+G+GK+ L I
Sbjct: 8 LSCERGERTLFSDLSFTLN--------AGEALQITGPNGAGKTTLLRI 47
>gnl|CDD|31315 COG1118, CysA, ABC-type sulfate/molybdate transport systems,
ATPase component [Inorganic ion transport and
metabolism].
Length = 345
Score = 27.2 bits (60), Expect = 4.6
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 64 SRVVILVGPSGSGKSCLANI 83
+V L+GPSG+GKS L I
Sbjct: 28 GELVALLGPSGAGKSTLLRI 47
>gnl|CDD|37866 KOG2655, KOG2655, KOG2655, Septin family protein (P-loop GTPase)
[Cell cycle control, cell division, chromosome
partitioning, Nuclear structure, Intracellular
trafficking, secretion, and vesicular transport].
Length = 366
Score = 27.2 bits (60), Expect = 4.6
Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 5/66 (7%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRS---TRFSNIAKSLDSILIDTRKPVLLEDIDLLDFN- 122
+++VG SG GKS N S + +++ I++ K + E+ L+
Sbjct: 24 LMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTV 83
Query: 123 -DTQLF 127
DT F
Sbjct: 84 IDTPGF 89
>gnl|CDD|31317 COG1120, FepC, ABC-type cobalamin/Fe3+-siderophores transport
systems, ATPase components [Inorganic ion transport and
metabolism / Coenzyme metabolism].
Length = 258
Score = 27.1 bits (60), Expect = 4.6
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 16/70 (22%)
Query: 66 VVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFNDTQ 125
+ ++GP+GSGKS L K L +L VLL+ D+ + +
Sbjct: 30 ITGILGPNGSGKSTL----------------LKCLAGLLKPKSGEVLLDGKDIASLSPKE 73
Query: 126 LFHIINSIHQ 135
L + + Q
Sbjct: 74 LAKKLAYVPQ 83
>gnl|CDD|144904 pfam01482, DUF13, DUF13. This domain is found in nematode
proteins and is thought to be involved in nematode
larval development and have a positive regulation on
growth rate. It is currently of unknown function.
Length = 87
Score = 27.1 bits (61), Expect = 4.7
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 8/28 (28%)
Query: 22 KNKEEQLFFSFPRC--------LGISRD 41
KN +E + P+C LGI D
Sbjct: 7 KNSDETKYVILPKCQEPLTMVTLGIGHD 34
>gnl|CDD|143853 pfam00071, Ras, Ras family. Includes sub-families Ras, Rab, Rac,
Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with
GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025,
pfam00063. As regards Rab GTPases, these are important
regulators of vesicle formation, motility and fusion.
They share a fold in common with all Ras GTPases: this
is a six-stranded beta-sheet surrounded by five
alpha-helices.
Length = 162
Score = 27.1 bits (61), Expect = 4.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 67 VILVGPSGSGKSCL 80
++LVG G GKS L
Sbjct: 2 LVLVGDGGVGKSSL 15
>gnl|CDD|37167 KOG1956, KOG1956, KOG1956, DNA topoisomerase III alpha
[Replication, recombination and repair].
Length = 758
Score = 26.9 bits (59), Expect = 5.0
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 4/50 (8%)
Query: 125 QLFHIINSIHQYDSSLL----MTARTFPVSWGVCLPDLCSRLKAATVVKI 170
+ F + H + L F V L ++C K ATVVK+
Sbjct: 231 EEFWTLKFKHTHKGGLTEFNWKRGHLFDRLSVVILYEICVEEKEATVVKV 280
>gnl|CDD|72991 cd03232, ABC_PDR_domain2, The pleiotropic drug resistance-like
(PDR) family of ATP-binding cassette (ABC)
transporters. PDR is a well-described phenomenon
occurring in fungi and shares several similarities with
processes in bacteria and higher eukaryotes. This PDR
subfamily represents domain I of its (ABC-IM)2
organization. ABC transporters are a large family of
proteins involved in the transport of a wide variety of
different compounds including 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 = 192
Score = 27.1 bits (60), Expect = 5.2
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDK 87
P + L+G SG+GK+ L ++ + +
Sbjct: 32 PGTLTALMGESGAGKTTLLDVLAGR 56
>gnl|CDD|146469 pfam03853, YjeF_N, YjeF-related protein N-terminus.
Length = 170
Score = 26.8 bits (60), Expect = 5.3
Identities = 13/46 (28%), Positives = 20/46 (43%)
Query: 36 LGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLA 81
GIS L+ ++ A + RV++L GP +G LA
Sbjct: 1 AGISSLILMENAGRAVARVIRKLLSPAGKRVLVLCGPGNNGGDGLA 46
>gnl|CDD|72985 cd03226, ABC_cobalt_CbiO_domain2, Domain II of the ABC component
of a cobalt transport family found in bacteria,
archaea, and eukaryota. The transition metal cobalt is
an essential component of many enzymes and must be
transported into cells in appropriate amounts when
needed. The CbiMNQO family ABC transport system is
involved in cobalt transport in association with the
cobalamin (vitamin B12) biosynthetic pathways. Most
cobalt (Cbi) transport systems possess a separate CbiN
component, the cobalt-binding periplasmic protein, and
they are encoded by the conserved gene cluster cbiMNQO.
Both the CbiM and CbiQ proteins are integral
cytoplasmic membrane proteins, and the CbiO protein has
the linker peptide and the Walker A and B motifs
commonly found in the ATPase components of the ABC-type
transport systems..
Length = 205
Score = 26.7 bits (59), Expect = 5.3
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 56 IDSWPSWPSRVVILVGPSGSGKSCLANI 83
S + ++ L G +G+GK+ LA I
Sbjct: 18 DLSLDLYAGEIIALTGKNGAGKTTLAKI 45
>gnl|CDD|35313 KOG0090, KOG0090, KOG0090, Signal recognition particle receptor,
beta subunit (small G protein superfamily)
[Intracellular trafficking, secretion, and vesicular
transport].
Length = 238
Score = 26.8 bits (59), Expect = 5.4
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 64 SRVVILVGPSGSGKSCLANIWSDKSRSTRFSNI 96
V+LVG S SGK+ L S ++I
Sbjct: 38 QNAVLLVGLSDSGKTSLFTQLITGSHRGTVTSI 70
>gnl|CDD|73020 cd03261, ABC_Org_Solvent_Resistant, ABC (ATP-binding cassette)
transport system involved in resistant to organic
solvents; 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 = 26.6 bits (59), Expect = 5.8
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 8/45 (17%)
Query: 36 LGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCL 80
L S V ++ VR ++ ++GPSGSGKS L
Sbjct: 6 LTKSFGGRTVLKGVDLDVR--------RGEILAIIGPSGSGKSTL 42
>gnl|CDD|30201 cd02028, UMPK_like, Uridine monophosphate kinase_like (UMPK_like)
is a family of proteins highly similar to the uridine
monophosphate kinase (UMPK, EC 2.7.1.48), also known as
uridine kinase or uridine-cytidine kinase (UCK)..
Length = 179
Score = 26.8 bits (59), Expect = 5.8
Identities = 16/45 (35%), Positives = 23/45 (51%)
Query: 66 VVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKP 110
VV + GPSGSGK+ A S++ R + SLD + + P
Sbjct: 1 VVGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYYVPRKTP 45
>gnl|CDD|31316 COG1119, ModF, ABC-type molybdenum transport system, ATPase
component/photorepair protein PhrA [Inorganic ion
transport and metabolism].
Length = 257
Score = 26.8 bits (59), Expect = 5.9
Identities = 10/48 (20%), Positives = 22/48 (45%), Gaps = 8/48 (16%)
Query: 36 LGISRDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLANI 83
+ + R+ + + V + W +VGP+G+GK+ L ++
Sbjct: 37 VSVRRNGKKILGDLSWQVNPGEHW--------AIVGPNGAGKTTLLSL 76
>gnl|CDD|146036 pfam03205, MobB, Molybdopterin guanine dinucleotide synthesis
protein B. This protein contains a P-loop.
Length = 122
Score = 26.6 bits (59), Expect = 6.0
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 65 RVVILVGPSGSGKSCL 80
+V++VGP SGK+ L
Sbjct: 1 PIVLVVGPKDSGKTTL 16
>gnl|CDD|31324 COG1127, Ttg2A, ABC-type transport system involved in resistance
to organic solvents, ATPase component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 263
Score = 26.7 bits (59), Expect = 6.1
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 63 PSRVVILVGPSGSGKSCL 80
++ ++G SGSGKS L
Sbjct: 33 RGEILAILGGSGSGKSTL 50
>gnl|CDD|30793 COG0444, DppD, ABC-type dipeptide/oligopeptide/nickel transport
system, ATPase component [Amino acid transport and
metabolism / Inorganic ion transport and metabolism].
Length = 316
Score = 26.7 bits (59), Expect = 6.1
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 63 PSRVVILVGPSGSGKSCLAN 82
++ +VG SGSGKS LA
Sbjct: 30 KGEILGIVGESGSGKSVLAK 49
>gnl|CDD|31326 COG1131, CcmA, ABC-type multidrug transport system, ATPase
component [Defense mechanisms].
Length = 293
Score = 26.9 bits (59), Expect = 6.1
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 63 PSRVVILVGPSGSGKSCLANIWS 85
P + L+GP+G+GK+ L I +
Sbjct: 30 PGEIFGLLGPNGAGKTTLLKILA 52
>gnl|CDD|30888 COG0542, ClpA, ATPases with chaperone activity, ATP-binding subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 786
Score = 26.8 bits (59), Expect = 6.4
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 45 VHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKSCLA 81
V AI +A + P+ P + +GP+G GK+ LA
Sbjct: 503 VSDAIRRARAGLGD-PNRPIGSFLFLGPTGVGKTELA 538
>gnl|CDD|133269 cd01866, Rab2, Rab2 subfamily. Rab2 is localized on cis-Golgi
membranes and interacts with Golgi matrix proteins.
Rab2 is also implicated in the maturation of vesicular
tubular clusters (VTCs), which are
microtubule-associated intermediates in transport
between the ER and Golgi apparatus. In plants, Rab2
regulates vesicle trafficking between the ER and the
Golgi bodies and is important to pollen tube growth.
GTPase activating proteins (GAPs) interact with
GTP-bound Rab and accelerate the hydrolysis of GTP to
GDP. Guanine nucleotide exchange factors (GEFs)
interact with GDP-bound Rabs to promote the formation
of the GTP-bound state. Rabs are further regulated by
guanine nucleotide dissociation inhibitors (GDIs),
which facilitate Rab recycling by masking C-terminal
lipid binding and promoting cytosolic localization.
Most Rab GTPases contain a lipid modification site at
the C-terminus, with sequence motifs CC, CXC, or CCX.
Lipid binding is essential for membrane attachment, a
key feature of most Rab proteins. Due to the presence
of truncated sequences in this CD, the lipid
modification site is not available for annotation.
Length = 168
Score = 26.6 bits (59), Expect = 6.5
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 4/29 (13%)
Query: 68 ILVGPSGSGKSCLANIWSDKSRSTRFSNI 96
I++G +G GKSCL ++DK RF +
Sbjct: 8 IIIGDTGVGKSCLLLQFTDK----RFQPV 32
>gnl|CDD|73296 cd02020, CMPK, Cytidine monophosphate kinase (CMPK) catalyzes the
reversible phosphorylation of cytidine monophosphate
(CMP) to produce cytidine diphosphate (CDP), using ATP
as the preferred phosphoryl donor..
Length = 147
Score = 26.6 bits (59), Expect = 6.5
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 12/42 (28%)
Query: 66 VVILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDT 107
++ + GP+GSGKS +A + +AK L +DT
Sbjct: 1 IIAIDGPAGSGKSTVAKL------------LAKKLGLPYLDT 30
>gnl|CDD|177080 CHL00176, ftsH, cell division protein; Validated.
Length = 638
Score = 26.6 bits (59), Expect = 6.6
Identities = 10/15 (66%), Positives = 13/15 (86%)
Query: 67 VILVGPSGSGKSCLA 81
V+LVGP G+GK+ LA
Sbjct: 219 VLLVGPPGTGKTLLA 233
>gnl|CDD|31532 COG1341, COG1341, Predicted GTPase or GTP-binding protein
[General function prediction only].
Length = 398
Score = 26.4 bits (58), Expect = 6.7
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 66 VVILVGPSGSGKSCLAN 82
VV++VGP SGKS L
Sbjct: 75 VVMVVGPVDSGKSTLTT 91
>gnl|CDD|146942 pfam04548, AIG1, AIG1 family. Arabidopsis protein AIG1 appears
to be involved in plant resistance to bacteria.
Length = 200
Score = 26.4 bits (59), Expect = 6.8
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 67 VILVGPSGSGKSCLAN 82
++LVG +G+GKS N
Sbjct: 3 IVLVGKTGNGKSATGN 18
>gnl|CDD|37180 KOG1969, KOG1969, KOG1969, DNA replication checkpoint protein
CHL12/CTF18 [Energy production and conversion,
Replication, recombination and repair].
Length = 877
Score = 26.5 bits (58), Expect = 6.8
Identities = 9/21 (42%), Positives = 16/21 (76%)
Query: 63 PSRVVILVGPSGSGKSCLANI 83
P ++++L GP G GK+ LA++
Sbjct: 325 PKKILLLCGPPGLGKTTLAHV 345
>gnl|CDD|36328 KOG1112, KOG1112, KOG1112, Ribonucleotide reductase, alpha subunit
[Nucleotide transport and metabolism].
Length = 796
Score = 26.5 bits (58), Expect = 6.9
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 9/43 (20%)
Query: 155 LPDLCSRLKA--ATVVKISLPDDDFLEKVIVKMFADRQIFIDK 195
+P++ LK TV +IS +K ++ M ADR FID+
Sbjct: 669 IPEIPQDLKELYKTVWEIS-------QKTVIDMAADRGAFIDQ 704
>gnl|CDD|30200 cd02027, APSK, Adenosine 5'-phosphosulfate kinase (APSK)
catalyzes the phosphorylation of adenosine
5'-phosphosulfate to form 3'-phosphoadenosine
5'-phosphosulfate (PAPS). The end-product PAPS is a
biologically "activated" sulfate form important for the
assimilation of inorganic sulfate..
Length = 149
Score = 26.6 bits (59), Expect = 6.9
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 66 VVILVGPSGSGKSCLAN 82
V+ L G SGSGKS +A
Sbjct: 1 VIWLTGLSGSGKSTIAR 17
>gnl|CDD|31414 COG1221, PspF, Transcriptional regulators containing an AAA-type
ATPase domain and a DNA-binding domain [Transcription /
Signal transduction mechanisms].
Length = 403
Score = 26.5 bits (58), Expect = 7.2
Identities = 15/76 (19%), Positives = 32/76 (42%), Gaps = 5/76 (6%)
Query: 10 FFVPDKQKNDQPKNKEEQLFFSFPRCLGISRDDLLV--HSAIEQAVRLIDSWPSWPSRVV 67
F+P + + + + L L D L+ ++++ I ++ PS +
Sbjct: 46 IFLPSEAFSMSELTELQALLPQARPYLKSEALDDLIGESPSLQELREQIKAYA--PSGLP 103
Query: 68 ILV-GPSGSGKSCLAN 82
+L+ G +G+GK A
Sbjct: 104 VLIIGETGTGKELFAR 119
>gnl|CDD|39610 KOG4409, KOG4409, KOG4409, Predicted hydrolase/acyltransferase
(alpha/beta hydrolase superfamily) [General function
prediction only].
Length = 365
Score = 26.4 bits (58), Expect = 7.5
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 2/39 (5%)
Query: 61 SWPSRV--VILVGPSGSGKSCLANIWSDKSRSTRFSNIA 97
+P RV +ILV P G + + K + +
Sbjct: 180 KYPERVEKLILVSPWGFPEKPDSEPEFTKPPPEWYKALF 218
>gnl|CDD|36140 KOG0922, KOG0922, KOG0922, DEAH-box RNA helicase [RNA processing
and modification].
Length = 674
Score = 26.4 bits (58), Expect = 7.6
Identities = 13/52 (25%), Positives = 27/52 (51%), Gaps = 7/52 (13%)
Query: 29 FFSFPRCLGIS--RDDLLVHSAIEQAVRLIDSWPSWPSRVVILVGPSGSGKS 78
+ L I R+ L ++ +Q + ++ ++V+I++G +GSGKS
Sbjct: 34 SYGKSTNLSIQEQRESLPIYKYRDQILYAVED-----NQVLIVIGETGSGKS 80
>gnl|CDD|72973 cd03214, ABC_Iron-Siderophores_B12_Hemin, ABC transporters,
involved in the uptake of siderophores, heme, and
vitamin B12, are widely conserved in bacteria and
archaea. Only very few species lack representatives of
the siderophore family transporters. The E. coli BtuCD
protein is an ABC transporter mediating vitamin B12
uptake. The two ATP-binding cassettes (BtuD) are in
close contact with each other, as are the two
membrane-spanning subunits (BtuC); this arrangement is
distinct from that observed for the E. coli lipid
flippase MsbA. The BtuC subunits provide 20
transmembrane helices grouped around a translocation
pathway that is closed to the cytoplasm by a gate
region, whereas the dimer arrangement of the BtuD
subunits resembles the ATP-bound form of the Rad50 DNA
repair enzyme. A prominent cytoplasmic loop of BtuC
forms the contact region with the ATP-binding cassette
and represent a conserved motif among the ABC
transporters..
Length = 180
Score = 26.5 bits (59), Expect = 7.8
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 63 PSRVVILVGPSGSGKSCL 80
+V ++GP+G+GKS L
Sbjct: 24 AGEIVGILGPNGAGKSTL 41
>gnl|CDD|34291 COG4674, COG4674, Uncharacterized ABC-type transport system,
ATPase component [General function prediction only].
Length = 249
Score = 26.4 bits (58), Expect = 7.8
Identities = 10/29 (34%), Positives = 20/29 (68%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRST 91
P + +L+GP+G+GK+ L ++ + K+R
Sbjct: 30 PGELRVLIGPNGAGKTTLMDVITGKTRPQ 58
>gnl|CDD|35301 KOG0078, KOG0078, KOG0078, GTP-binding protein SEC4, small G
protein superfamily, and related Ras family GTP-binding
proteins [Signal transduction mechanisms, Intracellular
trafficking, secretion, and vesicular transport].
Length = 207
Score = 26.3 bits (58), Expect = 7.9
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRF 93
++L+G SG GK+CL +SD S +T F
Sbjct: 15 LLLIGDSGVGKTCLLLRFSDDSFNTSF 41
>gnl|CDD|73060 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to
the transporter as ATP is hydrolyzed..
Length = 213
Score = 26.3 bits (58), Expect = 8.1
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 67 VILVGPSGSGKSCL 80
V+L+GPSG GK+
Sbjct: 29 VVLLGPSGCGKTTT 42
>gnl|CDD|145608 pfam02562, PhoH, PhoH-like protein. PhoH is a cytoplasmic
protein and predicted ATPase that is induced by
phosphate starvation.
Length = 205
Score = 26.3 bits (59), Expect = 8.1
Identities = 8/16 (50%), Positives = 13/16 (81%)
Query: 66 VVILVGPSGSGKSCLA 81
+V +GP+G+GK+ LA
Sbjct: 21 IVFGIGPAGTGKTYLA 36
>gnl|CDD|35615 KOG0394, KOG0394, KOG0394, Ras-related GTPase [General function
prediction only].
Length = 210
Score = 26.5 bits (58), Expect = 8.2
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 4/58 (6%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFNDT 124
VI++G SG GK+ L N + +K +FS K+ T++ + + L DT
Sbjct: 12 VIILGDSGVGKTSLMNQYVNK----KFSQQYKATIGADFLTKEVQVDDRSVTLQIWDT 65
>gnl|CDD|35954 KOG0735, KOG0735, KOG0735, AAA+-type ATPase [Posttranslational
modification, protein turnover, chaperones].
Length = 952
Score = 26.1 bits (57), Expect = 8.3
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 20/73 (27%)
Query: 67 VILVGPSGSGKSCLANIWSD----------------KSRSTRFSNIAKSLDSILIDT--R 108
++L GP GSGK+ L D + I K L+++ +
Sbjct: 434 ILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNNVFSEALWY 493
Query: 109 KP--VLLEDIDLL 119
P ++L+D+D L
Sbjct: 494 APSIIVLDDLDCL 506
>gnl|CDD|33436 COG3638, COG3638, ABC-type phosphate/phosphonate transport
system, ATPase component [Inorganic ion transport and
metabolism].
Length = 258
Score = 26.3 bits (58), Expect = 8.5
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 67 VILVGPSGSGKSCL 80
V ++GPSG+GKS L
Sbjct: 33 VAIIGPSGAGKSTL 46
>gnl|CDD|133319 cd04119, RJL, RJL (RabJ-Like) subfamily. RJLs are found in many
protists and as chimeras with C-terminal DNAJ domains in
deuterostome metazoa. They are not found in plants,
fungi, and protostome metazoa, suggesting a horizontal
gene transfer between protists and deuterostome metazoa.
RJLs lack any known membrane targeting signal and
contain a degenerate phosphate/magnesium-binding 3 (PM3)
motif, suggesting an impaired ability to hydrolyze GTP.
GTPase activating proteins (GAPs) interact with
GTP-bound Rab and accelerate the hydrolysis of GTP to
GDP. Guanine nucleotide exchange factors (GEFs) interact
with GDP-bound Rabs to promote the formation of the
GTP-bound state. Rabs are further regulated by guanine
nucleotide dissociation inhibitors (GDIs), which
facilitate Rab recycling by masking C-terminal lipid
binding and promoting cytosolic localization.
Length = 168
Score = 26.2 bits (58), Expect = 8.6
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 6/40 (15%)
Query: 67 VILVGPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILID 106
VI +G SG GKSC+ + + RF ++K L +I ID
Sbjct: 3 VISMGNSGVGKSCIIKRYCEG----RF--VSKYLPTIGID 36
>gnl|CDD|31299 COG1102, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 179
Score = 26.4 bits (58), Expect = 8.7
Identities = 12/48 (25%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 65 RVVILVGPSGSGKSCLANIWSDK------SRSTRFSNIAKSLDSILID 106
V+ + G GSGK+ +A ++ S T F +A+ L +
Sbjct: 1 MVITISGLPGSGKTTVARELAEHLGLKLVSAGTIFREMARERGMSLEE 48
>gnl|CDD|35288 KOG0065, KOG0065, KOG0065, Pleiotropic drug resistance proteins
(PDR1-15), ABC superfamily [Secondary metabolites
biosynthesis, transport and catabolism].
Length = 1391
Score = 26.4 bits (58), Expect = 8.7
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 63 PSRVVILVGPSGSGKSCL 80
P + +++GP GSGK+ L
Sbjct: 140 PGEMTLVLGPPGSGKTTL 157
>gnl|CDD|35945 KOG0726, KOG0726, KOG0726, 26S proteasome regulatory complex,
ATPase RPT2 [Posttranslational modification, protein
turnover, chaperones].
Length = 440
Score = 26.1 bits (57), Expect = 8.9
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRST 91
P + VIL G G+GK+ LA ++++ +T
Sbjct: 218 PPKGVILYGEPGTGKTLLAKAVANQTSAT 246
>gnl|CDD|30194 cd02021, GntK, Gluconate kinase (GntK) catalyzes the phosphoryl
transfer from ATP to gluconate. The resulting product
gluconate-6-phoshate is an important precursor of
gluconate metabolism. GntK acts as a dimmer composed of
two identical subunits..
Length = 150
Score = 26.0 bits (57), Expect = 8.9
Identities = 7/16 (43%), Positives = 13/16 (81%)
Query: 66 VVILVGPSGSGKSCLA 81
+++++G SGSGKS +
Sbjct: 1 IIVVMGVSGSGKSTVG 16
>gnl|CDD|31319 COG1122, CbiO, ABC-type cobalt transport system, ATPase component
[Inorganic ion transport and metabolism].
Length = 235
Score = 26.0 bits (57), Expect = 9.1
Identities = 10/17 (58%), Positives = 14/17 (82%)
Query: 67 VILVGPSGSGKSCLANI 83
V+L+GP+GSGKS L +
Sbjct: 33 VLLIGPNGSGKSTLLKL 49
>gnl|CDD|30631 COG0283, Cmk, Cytidylate kinase [Nucleotide transport and
metabolism].
Length = 222
Score = 25.9 bits (57), Expect = 9.2
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 12/37 (32%)
Query: 71 GPSGSGKSCLANIWSDKSRSTRFSNIAKSLDSILIDT 107
GP+GSGKS +A I +A+ L +DT
Sbjct: 11 GPAGSGKSTVAKI------------LAEKLGFHYLDT 35
>gnl|CDD|33907 COG4161, ArtP, ABC-type arginine transport system, ATPase
component [Amino acid transport and metabolism].
Length = 242
Score = 26.1 bits (57), Expect = 9.2
Identities = 9/14 (64%), Positives = 13/14 (92%)
Query: 67 VILVGPSGSGKSCL 80
++L+GPSG+GKS L
Sbjct: 31 LVLLGPSGAGKSSL 44
>gnl|CDD|73054 cd03295, ABC_OpuCA_Osmoprotection, OpuCA is a the ATP binding
component of a bacterial solute transporter that serves
a protective role to cells growing in a hyperosmolar
environment. ABC (ATP-binding cassette) transporter
nucleotide-binding domain; 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 = 242
Score = 25.9 bits (57), Expect = 9.3
Identities = 8/12 (66%), Positives = 12/12 (100%)
Query: 67 VILVGPSGSGKS 78
++L+GPSGSGK+
Sbjct: 30 LVLIGPSGSGKT 41
>gnl|CDD|35871 KOG0652, KOG0652, KOG0652, 26S proteasome regulatory complex,
ATPase RPT5 [Posttranslational modification, protein
turnover, chaperones].
Length = 424
Score = 26.1 bits (57), Expect = 9.5
Identities = 9/29 (31%), Positives = 19/29 (65%)
Query: 63 PSRVVILVGPSGSGKSCLANIWSDKSRST 91
P + V++ GP G+GK+ +A + ++ +T
Sbjct: 204 PPKGVLMYGPPGTGKTLMARACAAQTNAT 232
>gnl|CDD|31438 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 25.9 bits (57), Expect = 9.5
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 63 PSRVVILVGPSGSGKSCLANIWS 85
P +VV ++GP+G GKS I +
Sbjct: 99 PGKVVGILGPNGIGKSTALKILA 121
>gnl|CDD|31318 COG1121, ZnuC, ABC-type Mn/Zn transport systems, ATPase component
[Inorganic ion transport and metabolism].
Length = 254
Score = 25.9 bits (57), Expect = 9.5
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 63 PSRVVILVGPSGSGKSCL 80
+ L+GP+G+GKS L
Sbjct: 29 KGEITALIGPNGAGKSTL 46
>gnl|CDD|73055 cd03296, ABC_CysA_sulfate_importer, Part of the ABC transporter
complex cysAWTP involved in sulfate import.
Responsible for energy coupling to the transport
system. The complex is composed of two ATP-binding
proteins (cysA), two transmembrane proteins (cysT and
cysW), and a solute-binding protein (cysP). 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 = 239
Score = 26.0 bits (57), Expect = 9.6
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 66 VVILVGPSGSGKSCLANI 83
+V L+GPSGSGK+ L +
Sbjct: 30 LVALLGPSGSGKTTLLRL 47
>gnl|CDD|33915 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 26.1 bits (57), Expect = 9.7
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 12/59 (20%)
Query: 65 RVVILVGPSGSGKSCLANIWSDKSRSTRFSN--IAKSLDSILIDTRKPVLLEDIDLLDF 121
+ +++G SGSGKS L R N I + IL+D + L +L +
Sbjct: 55 EIFVIMGLSGSGKSTLV----------RLLNRLIEPTRGEILVDGKDIAKLSAAELREL 103
>gnl|CDD|73022 cd03263, ABC_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 = 25.9 bits (57), Expect = 9.9
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 52 AVRLIDSWPSWPSRVVILVGPSGSGKSCLANI 83
AV + S + + L+G +G+GK+ +
Sbjct: 17 AVDDL-SLNVYKGEIFGLLGHNGAGKTTTLKM 47
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.322 0.136 0.401
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,944,882
Number of extensions: 151507
Number of successful extensions: 885
Number of sequences better than 10.0: 1
Number of HSP's gapped: 884
Number of HSP's successfully gapped: 231
Length of query: 246
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 155
Effective length of database: 4,297,318
Effective search space: 666084290
Effective search space used: 666084290
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: 56 (25.4 bits)