RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12099
(174 letters)
>gnl|CDD|206639 cd00066, G-alpha, Alpha subunit of G proteins (guanine nucleotide
binding). The alpha subunit of G proteins contains the
guanine nucleotide binding site. The heterotrimeric
GNP-binding proteins are signal transducers that
communicate signals from many hormones,
neurotransmitters, chemokines, and autocrine and
paracrine factors. Extracellular signals are received by
receptors, which activate the G proteins, which in turn
route the signals to several distinct intracellular
signaling pathways. The alpha subunit of G proteins is a
weak GTPase. In the resting state, heterotrimeric G
proteins are associated at the cytosolic face of the
plasma membrane and the alpha subunit binds to GDP. Upon
activation by a receptor GDP is replaced with GTP, and
the G-alpha/GTP complex dissociates from the beta and
gamma subunits. This results in activation of downstream
signaling pathways, such as cAMP synthesis by adenylyl
cyclase, which is terminated when GTP is hydrolized and
the heterotrimers reconstitute.
Length = 315
Score = 256 bits (657), Expect = 1e-86
Identities = 85/168 (50%), Positives = 105/168 (62%), Gaps = 17/168 (10%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
MFDVGGQR ER+KWI CF DVTAIIFV A S Y+ VL ED + NR++ESL LF SI N+R
Sbjct: 165 MFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLVEDESVNRMQESLKLFDSICNSR 224
Query: 61 WLRTISVILFLNKQDLLAEKVKAGKSRLEDYFQEFTRYQTPLDATPDPGEDPIVIRAKYF 120
W S+ILFLNK+DL EK+K KS L DYF ++T G A +
Sbjct: 225 WFANTSIILFLNKKDLFEEKIK--KSPLTDYFPDYT------------GPPNDYEEAAKY 270
Query: 121 IRDEFLRISTASGDGKHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHL 168
I+ +FL ++ YPHFTCA DTENIR VF+ +DII + +L
Sbjct: 271 IKKKFLDLNRNP---NKEIYPHFTCATDTENIRFVFDAVKDIILQNNL 315
>gnl|CDD|214595 smart00275, G_alpha, G protein alpha subunit. Subunit of G
proteins that contains the guanine nucleotide binding
site.
Length = 342
Score = 223 bits (570), Expect = 3e-73
Identities = 80/171 (46%), Positives = 104/171 (60%), Gaps = 17/171 (9%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
MFDVGGQR ER+KWI CF++VTAIIF A S Y+ VL ED + NR++ESL+LF+SI N+R
Sbjct: 188 MFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSR 247
Query: 61 WLRTISVILFLNKQDLLAEKVKAGKSRLEDYFQEFTRYQTPLDATPDPGEDPIVIRAKYF 120
W S+ILFLNK DL EK+K K L DYF ++ A F
Sbjct: 248 WFANTSIILFLNKIDLFEEKIK--KVPLVDYFPDYKGPND-------------YEAAAKF 292
Query: 121 IRDEFLRISTASGDGKHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHLRQY 171
I+ +FLR++ + Y HFTCA DT NIR VF+ +DII + +L+
Sbjct: 293 IKQKFLRLNR--NSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQRNLKDA 341
>gnl|CDD|215955 pfam00503, G-alpha, G-protein alpha subunit. G proteins couple
receptors of extracellular signals to intracellular
signaling pathways. The G protein alpha subunit binds
guanyl nucleotide and is a weak GTPase. A set of
residues that are unique to G-alpha as compared to its
ancestor the Arf-like family form a ring of residues
centered on the nucleotide binding site. A Ggamma is
found fused to an inactive Galpha in the Dictyostelium
protein gbqA.
Length = 329
Score = 212 bits (543), Expect = 2e-69
Identities = 80/174 (45%), Positives = 107/174 (61%), Gaps = 16/174 (9%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
+FDVGGQR ER+KWI CF DVTAIIFV + S Y+ VL ED + NRL ESL+LF+ I N+
Sbjct: 172 LFDVGGQRSERKKWIHCFEDVTAIIFVVSLSEYDQVLYEDDSTNRLEESLNLFEEICNSP 231
Query: 61 WLRTISVILFLNKQDLLAEKVKAGKSRLEDYFQEFTRYQTPLDATPDPGEDPIVIRAKYF 120
W + +ILFLNK+DL EK+K K L DYF E+ G+ A +
Sbjct: 232 WFKNTPIILFLNKKDLFEEKLK--KGPLSDYFPEYE------------GDPNDYESASKY 277
Query: 121 IRDEFLRISTASGDGKHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHLRQYELL 174
IR++FL ++ + + Y HFT A DTEN+R VF +DII + +L++ LL
Sbjct: 278 IRNKFLELNKNNSE--RKIYTHFTNATDTENVRFVFEAVKDIILQNNLKESGLL 329
>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family. Pfam combines a
number of different Prosite families together.
Length = 174
Score = 49.1 bits (118), Expect = 8e-08
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W F + A+IFV + R+ R+ E+ + ++ N
Sbjct: 62 VWDVGGQESLRPLWRNYFPNTDAVIFVVDSA-----DRD-----RIEEAKEELHALLNEE 111
Query: 61 WLRTISVILFLNKQDL 76
L +++ NKQDL
Sbjct: 112 ELADAPLLILANKQDL 127
>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or
Arl11). ARLTS1 (Arf-like tumor suppressor gene 1), also
known as Arl11, is a member of the Arf family of small
GTPases that is believed to play a major role in
apoptotic signaling. ARLTS1 is widely expressed and
functions as a tumor suppressor gene in several human
cancers. ARLTS1 is a low-penetrance suppressor that
accounts for a small percentage of familial melanoma or
familial chronic lymphocytic leukemia (CLL). ARLTS1
inactivation seems to occur most frequently through
biallelic down-regulation by hypermethylation of the
promoter. In breast cancer, ARLTS1 alterations were
typically a combination of a hypomorphic polymorphism
plus loss of heterozygosity. In a case of thyroid
adenoma, ARLTS1 alterations were polymorphism plus
promoter hypermethylation. The nonsense polymorphism
Trp149Stop occurs with significantly greater frequency
in familial cancer cases than in sporadic cancer cases,
and the Cys148Arg polymorphism is associated with an
increase in high-risk familial breast cancer.
Length = 160
Score = 47.8 bits (114), Expect = 2e-07
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W + +++V S RL ES K I N
Sbjct: 48 VWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDE----------ARLDESQKELKHILKNE 97
Query: 61 WLRTISVILFLNKQDL 76
++ + V+L NKQDL
Sbjct: 98 HIKGVPVVLLANKQDL 113
>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small
GTPases. Arf (ADP-ribosylation factor)/Arl (Arf-like)
small GTPases. Arf proteins are activators of
phospholipase D isoforms. Unlike Ras proteins they lack
cysteine residues at their C-termini and therefore are
unlikely to be prenylated. Arfs are N-terminally
myristoylated. Members of the Arf family are regulators
of vesicle formation in intracellular traffic that
interact reversibly with membranes of the secretory and
endocytic compartments in a GTP-dependent manner. They
depart from other small GTP-binding proteins by a unique
structural device, interswitch toggle, that implements
front-back communication from N-terminus to the
nucleotide binding site. Arf-like (Arl) proteins are
close relatives of the Arf, but only Arl1 has been shown
to function in membrane traffic like the Arf proteins.
Arl2 has an unrelated function in the folding of native
tubulin, and Arl4 may function in the nucleus. Most
other Arf family proteins are so far relatively poorly
characterized. Thus, despite their significant sequence
homologies, Arf family proteins may regulate unrelated
functions.
Length = 158
Score = 47.6 bits (114), Expect = 3e-07
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 10/78 (12%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W + + +IFV S RE R+ E+ + + N
Sbjct: 47 VWDVGGQDKIRPLWKHYYENTDGLIFVVDSSD-----RE-----RIEEAKNELHKLLNEE 96
Query: 61 WLRTISVILFLNKQDLLA 78
L+ +++ NKQDL
Sbjct: 97 ELKGAPLLILANKQDLPG 114
>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1). Arfrp1
(Arf-related protein 1), formerly known as ARP, is a
membrane-associated Arf family member that lacks the
N-terminal myristoylation motif. Arfrp1 is mainly
associated with the trans-Golgi compartment and the
trans-Golgi network, where it regulates the targeting of
Arl1 and the GRIP domain-containing proteins, golgin-97
and golgin-245, onto Golgi membranes. It is also
involved in the anterograde transport of the vesicular
stomatitis virus G protein from the Golgi to the plasma
membrane, and in the retrograde transport of TGN38 and
Shiga toxin from endosomes to the trans-Golgi network.
Arfrp1 also inhibits Arf/Sec7-dependent activation of
phospholipase D. Deletion of Arfrp1 in mice causes
embryonic lethality at the gastrulation stage and
apoptosis of mesodermal cells, indicating its importance
in development.
Length = 168
Score = 45.0 bits (107), Expect = 2e-06
Identities = 24/78 (30%), Positives = 38/78 (48%), Gaps = 13/78 (16%)
Query: 1 MF-DVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPT-QNRLRESLDLFKSIWN 58
MF D+GGQ + R W + + + +I+V D T + R ES F+ + N
Sbjct: 54 MFWDLGGQEELRSLWDKYYAESHGVIYVI-----------DSTDRERFNESKSAFEKVIN 102
Query: 59 NRWLRTISVILFLNKQDL 76
N L + +++ NKQDL
Sbjct: 103 NEALEGVPLLVLANKQDL 120
>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6). Arf6 subfamily.
Arf6 (ADP ribosylation factor 6) proteins localize to
the plasma membrane, where they perform a wide variety
of functions. In its active, GTP-bound form, Arf6 is
involved in cell spreading, Rac-induced formation of
plasma membrane ruffles, cell migration, wound healing,
and Fc-mediated phagocytosis. Arf6 appears to change the
actin structure at the plasma membrane by activating
Rac, a Rho family protein involved in membrane ruffling.
Arf6 is required for and enhances Rac formation of
ruffles. Arf6 can regulate dendritic branching in
hippocampal neurons, and in yeast it localizes to the
growing bud, where it plays a role in polarized growth
and bud site selection. In leukocytes, Arf6 is required
for chemokine-stimulated migration across endothelial
cells. Arf6 also plays a role in down-regulation of
beta2-adrenergic receptors and luteinizing hormone
receptors by facilitating the release of sequestered
arrestin to allow endocytosis. Arf6 is believed to
function at multiple sites on the plasma membrane
through interaction with a specific set of GEFs, GAPs,
and effectors. Arf6 has been implicated in breast cancer
and melanoma cell invasion, and in actin remodelling at
the invasion site of Chlamydia infection.
Length = 168
Score = 44.0 bits (104), Expect = 6e-06
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W + +IFV + ++R+ E+ I N+R
Sbjct: 57 VWDVGGQDKIRPLWRHYYTGTQGLIFVVDSAD----------RDRIDEARQELHRIINDR 106
Query: 61 WLRTISVILFLNKQDL 76
+R +++F NKQDL
Sbjct: 107 EMRDALLLVFANKQDL 122
>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase. Arl3 (Arf-like 3) is an
Arf family protein that differs from most Arf family
members in the N-terminal extension. In is inactive,
GDP-bound form, the N-terminal extension forms an
elongated loop that is hydrophobically anchored into the
membrane surface; however, it has been proposed that
this region might form a helix in the GTP-bound form.
The delta subunit of the rod-specific cyclic GMP
phosphodiesterase type 6 (PDEdelta) is an Arl3 effector.
Arl3 binds microtubules in a regulated manner to alter
specific aspects of cytokinesis via interactions with
retinitis pigmentosa 2 (RP2). It has been proposed that
RP2 functions in concert with Arl3 to link the cell
membrane and the cytoskeleton in photoreceptors as part
of the cell signaling or vesicular transport machinery.
In mice, the absence of Arl3 is associated with abnormal
epithelial cell proliferation and cyst formation.
Length = 174
Score = 43.5 bits (103), Expect = 9e-06
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 10/75 (13%)
Query: 3 DVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNRWL 62
D+GGQR R W F + +I+V + + R E+ + L
Sbjct: 65 DIGGQRKIRPYWRNYFENTDVLIYVIDSAD----------RKRFEEAGQELVELLEEEKL 114
Query: 63 RTISVILFLNKQDLL 77
+ V++F NKQDLL
Sbjct: 115 AGVPVLVFANKQDLL 129
>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation
factor. Ras homologues involved in vesicular transport.
Activator of phospholipase D isoforms. Unlike Ras
proteins they lack cysteine residues at their C-termini
and therefore are unlikely to be prenylated. ARFs are
N-terminally myristoylated. Contains ATP/GTP-binding
motif (P-loop).
Length = 175
Score = 39.9 bits (93), Expect = 2e-04
Identities = 21/76 (27%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W + + +IFV + ++R+ E+ + + N
Sbjct: 61 VWDVGGQDKIRPLWRHYYTNTQGLIFVVDSND----------RDRIDEAREELHRMLNED 110
Query: 61 WLRTISVILFLNKQDL 76
LR +++F NKQDL
Sbjct: 111 ELRDAVILVFANKQDL 126
>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle
coats. Sar1 is an essential component of COPII vesicle
coats involved in export of cargo from the ER. The
GTPase activity of Sar1 functions as a molecular switch
to control protein-protein and protein-lipid
interactions that direct vesicle budding from the ER.
Activation of the GDP to the GTP-bound form of Sar1
involves the membrane-associated guanine nucleotide
exchange factor (GEF) Sec12. Sar1 is unlike all Ras
superfamily GTPases that use either myristoyl or prenyl
groups to direct membrane association and function, in
that Sar1 lacks such modification. Instead, Sar1
contains a unique nine-amino-acid N-terminal extension.
This extension contains an evolutionarily conserved
cluster of bulky hydrophobic amino acids, referred to as
the Sar1-N-terminal activation recruitment (STAR) motif.
The STAR motif mediates the recruitment of Sar1 to ER
membranes and facilitates its interaction with mammalian
Sec12 GEF leading to activation.
Length = 191
Score = 40.0 bits (94), Expect = 2e-04
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 10/75 (13%)
Query: 2 FDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNRW 61
FD+GG RR W F +V I+F+ + DP R +ES + S+ N+
Sbjct: 68 FDLGGHEQARRVWKDYFPEVDGIVFLVDAA--------DP--ERFQESKEELDSLLNDEE 117
Query: 62 LRTISVILFLNKQDL 76
L + +++ NK D
Sbjct: 118 LANVPILILGNKIDK 132
>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and
ADP-ribosylation factor-5 (Arf5). The Arf1-Arf5-like
subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and
related proteins. Arfs1-5 are soluble proteins that are
crucial for assembling coat proteins during vesicle
formation. Each contains an N-terminal myristoylated
amphipathic helix that is folded into the protein in the
GDP-bound state. GDP/GTP exchange exposes the helix,
which anchors to the membrane. Following GTP hydrolysis,
the helix dissociates from the membrane and folds back
into the protein. A general feature of Arf1-5 signaling
may be the cooperation of two Arfs at the same site.
Arfs1-5 are generally considered to be interchangeable
in function and location, but some specific functions
have been assigned. Arf1 localizes to the
early/cis-Golgi, where it is activated by GBF1 and
recruits the coat protein COPI. It also localizes to the
trans-Golgi network (TGN), where it is activated by
BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA
proteins. Humans, but not rodents and other lower
eukaryotes, lack Arf2. Human Arf3 shares 96% sequence
identity with Arf1 and is believed to generally function
interchangeably with Arf1. Human Arf4 in the activated
(GTP-bound) state has been shown to interact with the
cytoplasmic domain of epidermal growth factor receptor
(EGFR) and mediate the EGF-dependent activation of
phospholipase D2 (PLD2), leading to activation of the
activator protein 1 (AP-1) transcription factor. Arf4
has also been shown to recognize the C-terminal sorting
signal of rhodopsin and regulate its incorporation into
specialized post-Golgi rhodopsin transport carriers
(RTCs). There is some evidence that Arf5 functions at
the early-Golgi and the trans-Golgi to affect
Golgi-associated alpha-adaptin homology Arf-binding
proteins (GGAs).
Length = 159
Score = 37.8 bits (88), Expect = 8e-04
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W F + +IFV + RE R+ E+ + + + N
Sbjct: 48 VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND-----RE-----RIGEAREELQRMLNED 97
Query: 61 WLRTISVILFLNKQDL 76
LR +++F NKQDL
Sbjct: 98 ELRDAVLLVFANKQDL 113
>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of
small guanosine triphosphatases (GTPases). 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
regulates 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 = 161
Score = 36.7 bits (85), Expect = 0.002
Identities = 17/100 (17%), Positives = 25/100 (25%), Gaps = 18/100 (18%)
Query: 1 MFDVGGQRDERRKWI-----QCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKS 55
+ D G + I+ V +
Sbjct: 51 LVDTPGLDEFGGLGREELARLLLRGADLILLVVDSTDRESEEDAK-------------LL 97
Query: 56 IWNNRWLRTISVILFLNKQDLLAEKVKAGKSRLEDYFQEF 95
I I +IL NK DLL E+ RLE+ +
Sbjct: 98 ILRRLRKEGIPIILVGNKIDLLEEREVEELLRLEELAKIL 137
>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases.
Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like
Arl4 and Arl7, are localized to the nucleus and
nucleolus. Arl5 is developmentally regulated during
embryogenesis in mice. Human Arl5 interacts with the
heterochromatin protein 1-alpha (HP1alpha), a nonhistone
chromosomal protein that is associated with
heterochromatin and telomeres, and prevents telomere
fusion. Arl5 may also play a role in embryonic nuclear
dynamics and/or signaling cascades. Arl8 was identified
from a fetal cartilage cDNA library. It is found in
brain, heart, lung, cartilage, and kidney. No function
has been assigned for Arl8 to date.
Length = 174
Score = 36.6 bits (85), Expect = 0.002
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 18/80 (22%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKS----I 56
M+D+GGQ R W + + A+I V D T RE L L K +
Sbjct: 63 MWDIGGQESLRSSWNTYYTNTDAVILVI-----------DSTD---RERLPLTKEELYKM 108
Query: 57 WNNRWLRTISVILFLNKQDL 76
+ LR +++ NKQDL
Sbjct: 109 LAHEDLRKAVLLVLANKQDL 128
>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional.
Length = 181
Score = 36.9 bits (85), Expect = 0.002
Identities = 23/76 (30%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ R W F + +IFV + ++R+ E+ D + N
Sbjct: 65 VWDVGGQDKIRPLWRHYFQNTQGLIFVV----------DSNDRDRVVEARDELHRMLNED 114
Query: 61 WLRTISVILFLNKQDL 76
LR +++F NKQDL
Sbjct: 115 ELRDAVLLVFANKQDL 130
>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional.
Length = 182
Score = 36.7 bits (85), Expect = 0.003
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
M+DVGGQ R W + + +IFV V D R+ ++ + + + +
Sbjct: 65 MWDVGGQDKLRPLWRHYYQNTNGLIFV--------VDSNDR--ERIGDAREELERMLSED 114
Query: 61 WLRTISVILFLNKQDL 76
LR +++F NKQDL
Sbjct: 115 ELRDAVLLVFANKQDL 130
>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain. Proteins
with a small GTP-binding domain recognized by this model
include Ras, RhoA, Rab11, translation elongation factor
G, translation initiation factor IF-2, tetratcycline
resistance protein TetM, CDC42, Era, ADP-ribosylation
factors, tdhF, and many others. In some proteins the
domain occurs more than once.This model recognizes a
large number of small GTP-binding proteins and related
domains in larger proteins. Note that the alpha chains
of heterotrimeric G proteins are larger proteins in
which the NKXD motif is separated from the GxxxxGK[ST]
motif (P-loop) by a long insert and are not easily
detected by this model [Unknown function, General].
Length = 162
Score = 35.0 bits (81), Expect = 0.006
Identities = 16/87 (18%), Positives = 27/87 (31%), Gaps = 19/87 (21%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSY-----NMVLREDPTQNRLRESLDLFKS 55
+ D GQ D + V + + V ++ ++ ES
Sbjct: 55 LLDTAGQEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAES------ 108
Query: 56 IWNNRWLRTISVILFLNKQDLLAEKVK 82
+ +IL NK DL K+K
Sbjct: 109 --------GVPIILVGNKIDLRDAKLK 127
>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1).
ARD1 (ADP-ribosylation factor domain protein 1) is an
unusual member of the Arf family. In addition to the
C-terminal Arf domain, ARD1 has an additional 46-kDa
N-terminal domain that contains a RING finger domain,
two predicted B-Boxes, and a coiled-coil protein
interaction motif. This domain belongs to the TRIM
(tripartite motif) or RBCC (RING, B-Box, coiled-coil)
family. Like most Arfs, the ARD1 Arf domain lacks
detectable GTPase activity. However, unlike most Arfs,
the full-length ARD1 protein has significant GTPase
activity due to the GAP (GTPase-activating protein)
activity exhibited by the 46-kDa N-terminal domain. The
GAP domain of ARD1 is specific for its own Arf domain
and does not bind other Arfs. The rate of GDP
dissociation from the ARD1 Arf domain is slowed by the
adjacent 15 amino acids, which act as a GDI
(GDP-dissociation inhibitor) domain. ARD1 is
ubiquitously expressed in cells and localizes to the
Golgi and to the lysosomal membrane. Two Tyr-based
motifs in the Arf domain are responsible for Golgi
localization, while the GAP domain controls lysosomal
localization.
Length = 169
Score = 32.7 bits (74), Expect = 0.045
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGG+ R W + + A++FV S ++R+ E+ + +
Sbjct: 47 IWDVGGKHKLRPLWKHYYLNTQAVVFVIDSSH----------RDRVSEAHSELAKLLTEK 96
Query: 61 WLRTISVILFLNKQDL 76
LR +++F NKQD+
Sbjct: 97 ELRDALLLIFANKQDV 112
>gnl|CDD|197556 smart00178, SAR, Sar1p-like members of the Ras-family of small
GTPases. Yeast SAR1 is an essential gene required for
transport of secretory proteins from the endoplasmic
reticulum to the Golgi apparatus.
Length = 184
Score = 33.0 bits (75), Expect = 0.045
Identities = 19/74 (25%), Positives = 32/74 (43%), Gaps = 10/74 (13%)
Query: 2 FDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNRW 61
FD+GG + RR W F +V I+++ D R ES ++ ++
Sbjct: 66 FDLGGHQQARRLWKDYFPEVNGIVYLVDAY--------DK--ERFAESKRELDALLSDEE 115
Query: 62 LRTISVILFLNKQD 75
L T+ ++ NK D
Sbjct: 116 LATVPFLILGNKID 129
>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase. Arl2 (Arf-like 2) GTPases
are members of the Arf family that bind GDP and GTP with
very low affinity. Unlike most Arf family proteins, Arl2
is not myristoylated at its N-terminal helix. The
protein PDE-delta, first identified in photoreceptor rod
cells, binds specifically to Arl2 and is structurally
very similar to RhoGDI. Despite the high structural
similarity between Arl2 and Rho proteins and between
PDE-delta and RhoGDI, the interactions between the
GTPases and their effectors are very different. In its
GTP bound form, Arl2 interacts with the protein Binder
of Arl2 (BART), and the complex is believed to play a
role in mitochondrial adenine nucleotide transport. In
its GDP bound form, Arl2 interacts with tubulin- folding
Cofactor D; this interaction is believed to play a role
in regulation of microtubule dynamics that impact the
cytoskeleton, cell division, and cytokinesis.
Length = 173
Score = 32.3 bits (74), Expect = 0.060
Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
++DVGGQ+ R W F A+I+V SS RL + + +
Sbjct: 62 IWDVGGQKSLRSYWRNYFESTDALIWVVD-SSDRA---------RLEDCKRELQKLLVEE 111
Query: 61 WLRTISVILFLNKQDL 76
L ++++F NKQDL
Sbjct: 112 RLAGATLLIFANKQDL 127
>gnl|CDD|133361 cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (Arl2l1) and Arl13.
Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily
of the Arf family of small GTPases. Arl2l1 was
identified in human cells during a search for the
gene(s) responsible for Bardet-Biedl syndrome (BBS).
Like Arl6, the identified BBS gene, Arl2l1 is proposed
to have cilia-specific functions. Arl13 is found on the
X chromosome, but its expression has not been confirmed;
it may be a pseudogene.
Length = 167
Score = 32.0 bits (73), Expect = 0.093
Identities = 15/76 (19%), Positives = 35/76 (46%), Gaps = 10/76 (13%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
+FD+GG + R W+ + + ++FV S +R++E ++ + + +
Sbjct: 47 IFDLGGGANFRGIWVNYYAEAHGLVFVVDSSD----------DDRVQEVKEILRELLQHP 96
Query: 61 WLRTISVILFLNKQDL 76
+ +++ NKQD
Sbjct: 97 RVSGKPILVLANKQDK 112
>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1). Arl1 subfamily.
Arl1 (Arf-like 1) localizes to the Golgi complex, where
it is believed to recruit effector proteins to the
trans-Golgi network. Like most members of the Arf
family, Arl1 is myristoylated at its N-terminal helix
and mutation of the myristoylation site disrupts Golgi
targeting. In humans, the Golgi-localized proteins
golgin-97 and golgin-245 have been identified as Arl1
effectors. Golgins are large coiled-coil proteins found
in the Golgi, and these golgins contain a C-terminal
GRIP domain, which is the site of Arl1 binding.
Additional Arl1 effectors include the GARP
(Golgi-associated retrograde protein)/VFT (Vps53)
vesicle-tethering complex and Arfaptin 2. Arl1 is not
required for exocytosis, but appears necessary for
trafficking from the endosomes to the Golgi. In
Drosophila zygotes, mutation of Arl1 is lethal, and in
the host-bloodstream form of Trypanosoma brucei, Arl1 is
essential for viability.
Length = 158
Score = 31.6 bits (72), Expect = 0.11
Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 10/75 (13%)
Query: 2 FDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNRW 61
+D+GGQ R W +++ AII+V + ++RL S ++
Sbjct: 48 WDLGGQTSIRPYWRCYYSNTDAIIYVVDSTD----------RDRLGISKSELHAMLEEEE 97
Query: 62 LRTISVILFLNKQDL 76
L+ +++F NKQD+
Sbjct: 98 LKDAVLLVFANKQDM 112
>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase. Arl6 (Arf-like 6) forms a
subfamily of the Arf family of small GTPases. Arl6
expression is limited to the brain and kidney in adult
mice, but it is expressed in the neural plate and
somites during embryogenesis, suggesting a possible role
for Arl6 in early development. Arl6 is also believed to
have a role in cilia or flagella function. Several
proteins have been identified that bind Arl6, including
Arl6 interacting protein (Arl6ip), and SEC61beta, a
subunit of the heterotrimeric conducting channel SEC61p.
Based on Arl6 binding to these effectors, Arl6 is also
proposed to play a role in protein transport, membrane
trafficking, or cell signaling during hematopoietic
maturation. At least three specific homozygous Arl6
mutations in humans have been found to cause
Bardet-Biedl syndrome, a disorder characterized by
obesity, retinopathy, polydactyly, renal and cardiac
malformations, learning disabilities, and
hypogenitalism. Older literature suggests that Arl6 is a
part of the Arl4/Arl7 subfamily, but analyses based on
more recent sequence data place Arl6 in its own
subfamily.
Length = 162
Score = 31.6 bits (72), Expect = 0.12
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 16/79 (20%)
Query: 2 FDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESL--DLFKSIWNN 59
FD+ GQ R W + ++ IIFV S +RLR + D + + N+
Sbjct: 50 FDMSGQGKYRGLWEHYYKNIQGIIFVIDSS------------DRLRMVVAKDELELLLNH 97
Query: 60 RWL--RTISVILFLNKQDL 76
+ R I ++ + NK DL
Sbjct: 98 PDIKHRRIPILFYANKMDL 116
>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General
function prediction only].
Length = 219
Score = 29.2 bits (65), Expect = 0.82
Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 10/80 (12%)
Query: 2 FDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNRW 61
+D GQ + R + + I+ V S ++ T+ L E +L
Sbjct: 59 WDTAGQEEYRSLRPEYYRGANGILIV--YDSTLRESSDELTEEWLEELRELA-------- 108
Query: 62 LRTISVILFLNKQDLLAEKV 81
+ ++L NK DL E+
Sbjct: 109 PDDVPILLVGNKIDLFDEQS 128
>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases.
Arl10-like subfamily. Arl9/Arl10 was identified from a
human cancer-derived EST dataset. No functional
information about the subfamily is available at the
current time, but crystal structures of human Arl10b
and Arl10c have been solved.
Length = 159
Score = 29.2 bits (66), Expect = 0.83
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFV 27
++D+GGQ R W + V AI++V
Sbjct: 48 VWDLGGQPRFRSMWERYCRGVNAIVYV 74
>gnl|CDD|206646 cd00880, Era_like, E. coli Ras-like protein (Era)-like GTPase. The
Era (E. coli Ras-like protein)-like family includes
several distinct subfamilies (TrmE/ThdF, FeoB, YihA
(EngB), Era, and EngA/YfgK) that generally show sequence
conservation in the region between the Walker A and B
motifs (G1 and G3 box motifs), to the exclusion of other
GTPases. TrmE is ubiquitous in bacteria and is a
widespread mitochondrial protein in eukaryotes, but is
absent from archaea. The yeast member of TrmE family,
MSS1, is involved in mitochondrial translation;
bacterial members are often present in
translation-related operons. FeoB represents an unusual
adaptation of GTPases for high-affinity iron (II)
transport. YihA (EngB) family of GTPases is typified by
the E. coli YihA, which is an essential protein involved
in cell division control. Era is characterized by a
distinct derivative of the KH domain (the pseudo-KH
domain) which is located C-terminal to the GTPase
domain. EngA and its orthologs are composed of two
GTPase domains and, since the sequences of the two
domains are more similar to each other than to other
GTPases, it is likely that an ancient gene duplication,
rather than a fusion of evolutionarily distinct GTPases,
gave rise to this family.
Length = 161
Score = 28.8 bits (65), Expect = 0.98
Identities = 25/114 (21%), Positives = 38/114 (33%), Gaps = 19/114 (16%)
Query: 2 FDVGGQRDER-RKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
+ GG ER + Q + ++ V + D T L L +
Sbjct: 57 DEEGGLGRERVEEARQVADRADLVLLV---------VDSDLTPVEEEAKLGLLR------ 101
Query: 61 WLRTISVILFLNKQDLLAEKVKAGKSRLEDYFQEFTRYQT-PLDATPDPGEDPI 113
R V+L LNK DL+ E + R E + + A P G D +
Sbjct: 102 -ERGKPVLLVLNKIDLVPESEEEELLR-ERKLELLPDLPVIAVSALPGEGIDEL 153
>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction
only].
Length = 187
Score = 29.0 bits (65), Expect = 1.1
Identities = 17/76 (22%), Positives = 24/76 (31%), Gaps = 14/76 (18%)
Query: 1 MFDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNR 60
+F GQ + W I + S P E +D S
Sbjct: 72 LFGTPGQERFKFMWEILSRGAVGAIVLVDSS--------RPITFHAEEIIDFLTS----- 118
Query: 61 WLRTISVILFLNKQDL 76
I V++ +NKQDL
Sbjct: 119 -RNPIPVVVAINKQDL 133
>gnl|CDD|219856 pfam08477, Miro, Miro-like protein. Mitochondrial Rho proteins
(Miro-1, and Miro-2), are atypical Rho GTPases. They
have a unique domain organisation, with tandem
GTP-binding domains and two EF hand domains (pfam00036),
that may bind calcium. They are also larger than
classical small GTPases. It has been proposed that they
are involved in mitochondrial homeostasis and apoptosis.
Length = 116
Score = 27.8 bits (62), Expect = 1.5
Identities = 14/73 (19%), Positives = 27/73 (36%), Gaps = 9/73 (12%)
Query: 2 FDVGGQRDERRKWIQCFNDVTAIIFVTACSSYNMVLREDPTQNRLRESLDLFKSIWNNRW 61
+D GG+ + + + I AI+ V + + N + + ++ +
Sbjct: 53 WDFGGREELKFEHIIFMKWADAILLVYDLTDRE-------SLNEVSRLIAWLPNL--RKL 103
Query: 62 LRTISVILFLNKQ 74
I VIL NK
Sbjct: 104 GGKIPVILVGNKL 116
>gnl|CDD|234631 PRK00098, PRK00098, GTPase RsgA; Reviewed.
Length = 298
Score = 28.6 bits (65), Expect = 1.5
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 65 ISVILFLNKQDLLAEKVKAGKSRLEDY 91
I I+ LNK DLL + +A + L Y
Sbjct: 112 IKPIIVLNKIDLLDDLEEA-RELLALY 137
>gnl|CDD|188839 cd09455, LIM1_Enigma_like_1, The first LIM domain of an Enigma
subfamily with unknown function. The first LIM domain
of an Enigma subfamily with unknown function: The Enigma
LIM domain family is comprised of three characterized
members: Enigma, ENH and Cypher (mouse)/ZASP (human).
These subfamily members contain a single PDZ domain at
the N-terminus and three LIM domains at the C-terminus.
They serve as adaptor proteins, where the PDZ domain
tethers the protein to the cytoskeleton and the LIM
domains, recruit signaling proteins to implement
corresponding functions. The members of the Enigma
family have been implicated in regulating or organizing
cytoskeletal structure, as well as involving multiple
signaling pathways. LIM domains are 50-60 amino acids in
size and share two characteristic zinc finger motifs.
The two zinc fingers contain eight conserved residues,
mostly cysteines and histidines, which coordinately bond
to two zinc atoms. LIM domains function as adaptors or
scaffolds to support the assembly of multimeric protein
complexes.
Length = 54
Score = 26.7 bits (59), Expect = 1.6
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 7/39 (17%)
Query: 121 IRDEFLRISTASGDGKHYCYPHFTCAVDTENIRRVFNDC 159
IR F+ TA G K +C HF CA + RR D
Sbjct: 8 IRGPFI---TALG--KIWCPDHFICA--NASCRRPLQDI 39
>gnl|CDD|233182 TIGR00915, 2A0602, The (Largely Gram-negative Bacterial)
Hydrophobe/Amphiphile Efflux-1 (HAE1) Family. Proteins
scoring above the trusted cutoff (1000) form a tight
clade within the RND (Resistance-Nodulation-Cell
Division) superfamily. Proteins scoring greater than the
noise cutoff (100) appear to form a larger clade,
cleanly separated from more distant homologs that
include cadmium/zinc/cobalt resistance transporters.
This family is one of several subfamilies within the
scope of Pfam model pfam00873 [Cellular processes, Toxin
production and resistance, Transport and binding
proteins, Unknown substrate].
Length = 1044
Score = 27.4 bits (61), Expect = 4.4
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 78 AEKVKAGKSRLEDYFQEFTRYQTPLDATP 106
A+ VKA + LE +F + +Y P D TP
Sbjct: 303 AKAVKAELAELEPFFPQGMKYVYPYDTTP 331
>gnl|CDD|200550 cd10924, CE4_COG4878, Putative NodB-like catalytic domain of
uncharacterized proteins found in bacteria. The family
corresponds to a group of uncharacterized bacterial
proteins with high sequence similarity to the catalytic
domain of the six-stranded barrel rhizobial NodB-like
proteins, which remove N-linked or O-linked acetyl
groups from cell wall polysaccharides and belong to the
larger carbohydrate esterase 4 (CE4) superfamily.
Length = 273
Score = 27.3 bits (61), Expect = 4.7
Identities = 13/63 (20%), Positives = 17/63 (26%), Gaps = 14/63 (22%)
Query: 84 GKSRLEDYFQEFTRYQTPLDATPDPGEDPIVI--RAKY-FIRDEFLRISTASGDGKHYCY 140
G Y QEF D I R + D+ L ++ S
Sbjct: 180 GDDEKGPYIQEF-----------GVDPDGIYELPRITSGYYPDDDLLLTAVSALNNLGVV 228
Query: 141 PHF 143
HF
Sbjct: 229 SHF 231
>gnl|CDD|222060 pfam13347, MFS_2, MFS/sugar transport protein. This family is part
of the major facilitator superfamily of membrane
transport proteins.
Length = 425
Score = 27.2 bits (61), Expect = 5.7
Identities = 10/55 (18%), Positives = 22/55 (40%), Gaps = 3/55 (5%)
Query: 21 VTAIIFVTACSSYNMVLREDPTQNRLRESL---DLFKSIWNNRWLRTISVILFLN 72
+ + V + +E + D+FK+++ NR L + ++ LN
Sbjct: 180 IAILAVVGFLICFAGTKERVSVPPEQKEKVSLRDMFKALFKNRPLLILLLLYLLN 234
>gnl|CDD|219814 pfam08385, DHC_N1, Dynein heavy chain, N-terminal region 1. Dynein
heavy chains interact with other heavy chains to form
dimers, and with intermediate chain-light chain
complexes to form a basal cargo binding unit. The region
featured in this family includes the sequences
implicated in mediating these interactions. It is
thought to be flexible and not to adopt a rigid
conformation.
Length = 577
Score = 27.2 bits (61), Expect = 5.7
Identities = 10/38 (26%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 44 NRLRESLDLFKSIWNNRWLRTI-SVILFLNKQDLLAEK 80
R+ LD ++ WL + S F Q LL +
Sbjct: 435 ESFRKKLDTYEQQIFEAWLDEVESKNQFSLSQPLLIRR 472
>gnl|CDD|226984 COG4637, COG4637, Predicted ATPase [General function prediction
only].
Length = 373
Score = 26.7 bits (59), Expect = 6.9
Identities = 9/53 (16%), Positives = 21/53 (39%)
Query: 70 FLNKQDLLAEKVKAGKSRLEDYFQEFTRYQTPLDATPDPGEDPIVIRAKYFIR 122
L+ ++ ++ RL + E ++T L + D G P + + +
Sbjct: 125 VLDFRNGPGIAIRGEGGRLFEQTDEELTFETQLLESNDIGAIPELGQLRRAKA 177
>gnl|CDD|225121 COG2211, MelB, Na+/melibiose symporter and related transporters
[Carbohydrate transport and metabolism].
Length = 467
Score = 26.8 bits (60), Expect = 7.4
Identities = 11/49 (22%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 25 IFVTACSSYNMVLREDPTQNRLRESL-DLFKSIWNNRWLRTISVILFLN 72
+ + V+ PT+ ++ L D F I+ NR L + ++ L
Sbjct: 200 LLFCFFNVKERVVETQPTKTGVKLKLKDSFLLIFKNRPLLLLLLMNLLL 248
>gnl|CDD|216280 pfam01068, DNA_ligase_A_M, ATP dependent DNA ligase domain. This
domain belongs to a more diverse superfamily, including
pfam01331 and pfam01653.
Length = 195
Score = 26.5 bits (59), Expect = 7.4
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 68 ILFLNKQDLLAEKVKAGKSRLEDYFQEFTRYQ 99
+L+L+ + L E +K + LE+YF+ R +
Sbjct: 114 VLYLDGESLTDEPLKERRELLEEYFKIPVRIE 145
>gnl|CDD|218723 pfam05734, DUF832, Herpesvirus protein of unknown function
(DUF832). This family consists of several herpesvirus
proteins of unknown function.
Length = 228
Score = 26.5 bits (59), Expect = 7.7
Identities = 7/25 (28%), Positives = 10/25 (40%)
Query: 137 HYCYPHFTCAVDTENIRRVFNDCRD 161
Y Y H + +F DC+D
Sbjct: 85 QYLYMHLKDQETASDPEEMFRDCKD 109
>gnl|CDD|237732 PRK14498, PRK14498, putative molybdopterin biosynthesis protein
MoeA/LysR substrate binding-domain-containing protein;
Provisional.
Length = 633
Score = 26.7 bits (60), Expect = 8.1
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 122 RDEFLRISTASGDGKHYCYP 141
R+EF+ +S + YP
Sbjct: 353 REEFVPVSLGRVGDGYVAYP 372
>gnl|CDD|224084 COG1162, COG1162, Predicted GTPases [General function prediction
only].
Length = 301
Score = 26.5 bits (59), Expect = 8.2
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 65 ISVILFLNKQDLLAEKVKAGKSRLEDYFQEFTRYQT 100
I ++ LNK DLL ++ A K L +Y E Y
Sbjct: 111 IEPVIVLNKIDLLDDEEAAVKELLREY--EDIGYPV 144
>gnl|CDD|206750 cd01857, HSR1_MMR1, A circularly permuted subfamily of the Ras
GTPases. Human HSR1 is localized to the human MHC class
I region and is highly homologous to a putative
GTP-binding protein, MMR1 from mouse. These proteins
represent a new subfamily of GTP-binding proteins that
has only eukaryote members. This subfamily shows a
circular permutation of the GTPase signature motifs so
that the C-terminal strands 5, 6, and 7 (strand 6
contains the G4 box with sequence NKXD) are relocated to
the N-terminus.
Length = 140
Score = 25.7 bits (57), Expect = 9.4
Identities = 11/40 (27%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 67 VILFLNKQDLLAEK-VKAGKSRLEDYFQEFTRYQTPLDAT 105
+L LNK DL+ E+ KA + + +AT
Sbjct: 45 NVLLLNKADLVTEEQRKAWARYFKKEGIVVLFFSALNEAT 84
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.326 0.141 0.439
Gapped
Lambda K H
0.267 0.0791 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,301,506
Number of extensions: 854978
Number of successful extensions: 1178
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1152
Number of HSP's successfully gapped: 48
Length of query: 174
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 84
Effective length of database: 6,945,742
Effective search space: 583442328
Effective search space used: 583442328
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 56 (25.2 bits)