RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11785
(308 letters)
>gnl|CDD|217384 pfam03137, OATP, Organic Anion Transporter Polypeptide (OATP)
family. This family consists of several eukaryotic
Organic-Anion-Transporting Polypeptides (OATPs). Several
have been identified mostly in human and rat. Different
OATPs vary in tissue distribution and substrate
specificity. Since the numbering of different OATPs in
particular species was based originally on the order of
discovery, similarly numbered OATPs in humans and rats
did not necessarily correspond in function, tissue
distribution and substrate specificity (in spite of the
name, some OATPs also transport organic cations and
neutral molecules). Thus, Tamai et al. initiated the
current scheme of using digits for rat OATPs and letters
for human ones. Prostaglandin transporter (PGT) proteins
are also considered to be OATP family members. In
addition, the methotrexate transporter OATK is closely
related to OATPs. This family also includes several
predicted proteins from Caenorhabditis elegans and
Drosophila melanogaster. This similarity was not
previously noted. Note: Members of this family are
described (in the Swiss-Prot database) as belonging to
the SLC21 family of transporters.
Length = 582
Score = 304 bits (782), Expect = e-100
Identities = 124/310 (40%), Positives = 165/310 (53%), Gaps = 21/310 (6%)
Query: 1 MGQTAVYTLGIPYIDDNVANRESPLYFAITIGVRILGPSLGFILGSFCTRLYVDLSIPSD 60
+G T ++TLGI YIDDNV ++ SPLY I + + GP++GF+LGSFC RLYVD
Sbjct: 151 IGATPIFTLGISYIDDNVKSKNSPLYLGILFTMAMFGPAIGFLLGSFCLRLYVDFGRVPT 210
Query: 61 ----ITPSDPRWIGAWWLGLVLVAVFLMLAAVAMFMFPKTLTKASPVNGTTTVATLPTKK 116
ITP+DPRW+GAWWLG ++ +L+A+ F FPKTL KA + + P K
Sbjct: 211 EDVIITPTDPRWVGAWWLGFLVCGGLALLSAIPFFFFPKTLPKAQGRLESLD-LSRPKAK 269
Query: 117 ESNQKNPS-----------LKDFPKAVKRLLKNDILMYRTASSVLHILPIAGLYTFLPKY 165
+ +K LKDFPK +KRLL N M + V IAG TFLPKY
Sbjct: 270 DETRKQAEEPKSGKSAPDFLKDFPKTLKRLLTNPTFMLVVLAQVFESSVIAGYSTFLPKY 329
Query: 166 FETQFRLPSHTANMVSGVGGILVMGIGIILSGVFILKFKPNARFVAAWIAITAVLYALGM 225
ETQ+ L + AN + GV + +GI+L G+ I KFK AR +A + ++
Sbjct: 330 LETQYGLSASYANFLIGVVNLPAAAVGILLGGLIIKKFKLTARGMAKFAIFVILVSLAFY 389
Query: 226 GILTFIGCPMDEWAGLTNANGISS-----FEPMCATTHGCECDHSKFNPICGGDGRTYFS 280
FIGC AG+T + S EP+ + C CD S F P+CG +G TY S
Sbjct: 390 LPYFFIGCENSPVAGVTPSYENSPSDSHHLEPLSSCNEDCSCDTSFFPPVCGDNGLTYLS 449
Query: 281 ACHAGCQNIS 290
CHAG +
Sbjct: 450 PCHAGSSSSG 459
>gnl|CDD|233136 TIGR00805, oat, sodium-independent organic anion transporter. The
Organo Anion Transporter (OAT) Family (TC
2.A.60)Proteins of the OAT family catalyze the
Na+-independent facilitated transport of organic anions
such as bromosulfobromophthalein and prostaglandins as
well as conjugated and unconjugated bile acids
(taurocholate and cholate, respectively). These
transporters have been characterized in mammals, but
homologues are present in C. elegans and A. thaliana.
Some of the mammalian proteins exhibit a high degree of
tissue specificity. For example, the rat OAT is found at
high levels in liver and kidney and at lower levels in
other tissues. These proteins possess 10-12 putative
a-helical transmembrane spanners. They may catalyze
electrogenic anion uniport or anion exchange.
Length = 633
Score = 226 bits (579), Expect = 2e-69
Identities = 113/300 (37%), Positives = 160/300 (53%), Gaps = 18/300 (6%)
Query: 1 MGQTAVYTLGIPYIDDNVANRESPLYFAITIGVRILGPSLGFILGSFCTRLYVDL-SIPS 59
+G T ++ LGI YIDD ++ SPLY I + + GP+ G++LGSFC ++YVD S+ +
Sbjct: 184 IGATPIFPLGISYIDDFAKSKNSPLYIGILESIAVFGPAFGYLLGSFCLQIYVDTGSVNT 243
Query: 60 D---ITPSDPRWIGAWWLGLVLVAVFLMLAAVAMFMFPKTL---TKASPVNGTTTVATLP 113
+ +TP+DPRWIGAWW+G ++ +L ++ +F FPK L K V+ T
Sbjct: 244 EDVILTPTDPRWIGAWWIGFLICGGVALLTSIPLFFFPKALPKEGKRVNVDVHETEKLEK 303
Query: 114 TKKESNQKNPS-LKDFPKAVKRLLKNDILMYRTASSVLHILPIAGLYTFLPKYFETQFRL 172
++ ES +KN KDFPK +KRLL N I M + V+ L G TFLPKY E Q+ +
Sbjct: 304 SEDESRKKNSDITKDFPKIIKRLLCNPIYMLVILAQVIDSLAFNGYITFLPKYLENQYGI 363
Query: 173 PSHTANMVSGVGGILVMGIGIILSGV----FILKFKPNARFVAAWIAITAVLYALGMGIL 228
S AN + GV + G+G ++ G F L K A F ++ +L + L
Sbjct: 364 SSAEANFLIGVVNVPAAGLGYLIGGFIMKKFKLNVKKAAYFAICLSTLSYLLCSP----L 419
Query: 229 TFIGCPMDEWAGLTNANGISSFEPMCATT--HGCECDHSKFNPICGGDGRTYFSACHAGC 286
IGC AG+ N + S T C CD S F+P+CG +G Y S CHAGC
Sbjct: 420 FLIGCESAPVAGVNNPSTDQSIYVENPTDCNRQCSCDSSFFDPVCGDNGLAYLSPCHAGC 479
>gnl|CDD|238650 cd01330, KAZAL_SLC21, The kazal-type serine protease inhibitor
domain has been detected in an extracellular loop region
of solute carrier 21 (SLC21) family members (organic
anion transporters) , which may regulate the specificity
of anion uptake. The KAZAL_SLC21 domain is a member of
the superfamily of kazal-like proteinase inhibitors and
follistatin-like proteins.
Length = 54
Score = 60.4 bits (147), Expect = 3e-12
Identities = 18/38 (47%), Positives = 23/38 (60%)
Query: 259 GCECDHSKFNPICGGDGRTYFSACHAGCQNISSIDGKV 296
C C S ++P+CG +G TYFS CHAGC N + G
Sbjct: 8 NCSCSESAYSPVCGENGITYFSPCHAGCTNSTGSGGSK 45
>gnl|CDD|191798 pfam07648, Kazal_2, Kazal-type serine protease inhibitor domain.
Usually indicative of serine protease inhibitors.
However, kazal-like domains are also seen in the
extracellular part of agrins, which are not known to be
protease inhibitors. Kazal domains often occur in tandem
arrays. Small alpha+beta fold containing three
disulphides.
Length = 42
Score = 47.3 bits (113), Expect = 8e-08
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 262 CDHSKFNPICGGDGRTYFSACHAGCQN 288
C P+CG DG+TY + C C +
Sbjct: 1 CPRENDEPVCGSDGKTYSNKCALCCAS 27
>gnl|CDD|238052 cd00104, KAZAL_FS, Kazal type serine protease inhibitors and
follistatin-like domains. Kazal inhibitors inhibit
serine proteases, such as, trypsin, chyomotrypsin, avian
ovomucoids, and elastases. The inhibitory domain has one
reactive site peptide bond, which serves the cognate
enzyme as substrate. The reactive site peptide bond is a
combining loop which has an identical conformation in
all Kazal inhibitors and in all enzyme/inhibitor
complexes. These Kazal domains (small hydrophobic core
of alpha/beta structure with 3 to 4 disulfide bonds)
often occur in tandem arrays. Similar domains are also
present in follistatin (FS) and follistatin-like family
members, which play an important role in tissue specific
regulation. The FS domain consists of an N-terminal beta
hairpin (FOLN/EGF-like domain) and a Kazal-like domain
and has five disulfide bonds. Although the Kazal-like
FS substructure is similar to Kazal proteinase
inhibitors, no FS domain has yet been shown to be a
proteinase inhibitor. Follistatin-like family members
include SPARC, also known as, BM-40 or osteonectin, the
Gallus gallus Flik protein, as well as, agrin which has
a long array of FS domains. The kazal-type inhibitor
domain has also been detected in an extracellular loop
region of solute carrier 21 (SLC21) family members
(organic anion transporters) , which may regulate the
specificity of anion uptake. The distant homolog,
Ascidian trypsin inhibitor, is included in this CD.
Length = 41
Score = 43.4 bits (103), Expect = 2e-06
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 262 CDHSKFNPICGGDGRTYFSACHAGCQN 288
C +++P+CG DG+TY + CH GC
Sbjct: 1 CP-KEYDPVCGSDGKTYSNECHLGCAA 26
>gnl|CDD|197624 smart00280, KAZAL, Kazal type serine protease inhibitors. Kazal
type serine protease inhibitors and follistatin-like
domains.
Length = 46
Score = 36.1 bits (84), Expect = 8e-04
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 6/38 (15%)
Query: 261 ECD---HSKFNPICGGDGRTYFSACH---AGCQNISSI 292
+C +++P+CG DG TY + CH A C++ SI
Sbjct: 1 DCPEACPREYDPVCGSDGVTYSNECHLCKAACESGKSI 38
>gnl|CDD|200959 pfam00050, Kazal_1, Kazal-type serine protease inhibitor domain.
Usually indicative of serine protease inhibitors.
However, kazal-like domains are also seen in the
extracellular part of agrins, which are not known to be
protease inhibitors. Kazal domains often occur in tandem
arrays. Small alpha+beta fold containing three
disulphides. Alignment also includes a single domain
from transporters in the OATP/PGT family.
Length = 48
Score = 32.7 bits (75), Expect = 0.015
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 267 FNPICGGDGRTYFSACH 283
++P+CG DG TY + C
Sbjct: 12 YDPVCGSDGVTYSNECE 28
>gnl|CDD|238648 cd01327, KAZAL_PSTI, Kazal-type pancreatic secretory trypsin
inhibitors (PSTI) and related proteins, including the
second domain of the ovomucoid turkey inhibitor and the
C-terminal domain of the esophagus cancer-related gene-2
protein (ECRG-2), are members of the superfamily of
kazal-type proteinase inhibitors and follistatin-like
proteins.
Length = 45
Score = 31.9 bits (73), Expect = 0.033
Identities = 8/17 (47%), Positives = 12/17 (70%)
Query: 267 FNPICGGDGRTYFSACH 283
++P+CG DG TY + C
Sbjct: 9 YDPVCGTDGVTYSNECL 25
>gnl|CDD|219516 pfam07690, MFS_1, Major Facilitator Superfamily.
Length = 346
Score = 33.6 bits (77), Expect = 0.11
Identities = 48/241 (19%), Positives = 83/241 (34%), Gaps = 37/241 (15%)
Query: 1 MGQTAVYTLGIPYIDDNVANRESPLYFAITIGVRILGPSLGFILGSFCTRLYVDLSIPSD 60
+G A++ I D E + LG +LG +LG L+
Sbjct: 97 LGGGALFPAAAALIADWFPPEERGRALGLLSAGFGLGAALGPLLGGLLASLF-------- 148
Query: 61 ITPSDPRWIGAWWLGLVLVAVFLMLAAVAMFMFPKTLTKASPVNGTTTVATLPTKKESNQ 120
W A+ + +L + +LAA+ + P K
Sbjct: 149 ------GWRAAFLILAILALLAAVLAALLLP------------------RPPPESKRPKP 184
Query: 121 KNPSLKDFPKAVKRLLKNDILMYRTASSVLHILPIAGLYTFLPKYFETQFRLPSHTANMV 180
+ A K LL++ +L A + L T+LP Y E L + A ++
Sbjct: 185 AEEAPAPLVPAWKLLLRDPVLWLLLALLLFGFA-FFALLTYLPLYQE-VLGLSALLAGLL 242
Query: 181 SGVGGILVMGIGIILSGVFILKFKPNARFVAAWIAITAVLYALGMGILTFIGCPMDEWAG 240
G+ G+ + IG +L G + R + A + +L ALG+ +L+ +
Sbjct: 243 LGLAGL-LGAIGRLLLGRLSDRLGRRRRLLLALLL--LILAALGLALLSLTESSLWLLVA 299
Query: 241 L 241
L
Sbjct: 300 L 300
>gnl|CDD|226709 COG4258, COG4258, Predicted exporter [General function prediction
only].
Length = 788
Score = 32.5 bits (74), Expect = 0.34
Identities = 20/80 (25%), Positives = 35/80 (43%), Gaps = 2/80 (2%)
Query: 170 FRLPSHTANMVSGVGGILVMGIGIILSGVFILKFKPNARFVAAW--IAITAVLYALGMGI 227
+ N+ + +LV+G+GI + F P A + +A+ + L G+
Sbjct: 690 LAMAGVPLNLFHLLALVLVLGVGINYALFFSNAGDPRAEPLTTLLALALAMLTTLLTFGL 749
Query: 228 LTFIGCPMDEWAGLTNANGI 247
L F P+ G+T A+GI
Sbjct: 750 LAFSATPVLSSFGITLASGI 769
>gnl|CDD|183811 PRK12882, ubiA, prenyltransferase; Reviewed.
Length = 276
Score = 30.3 bits (69), Expect = 1.1
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 68 WIGAWWLGLVLVAVFLMLAAVAMFMFPKTLTKAS 101
G W+L LV A +MLAA + T +
Sbjct: 225 TFGLWYLVLVAPADLVMLAAAYRSLKKTDPTASQ 258
>gnl|CDD|238649 cd01328, FSL_SPARC, Follistatin-like SPARC (secreted protein,
acidic, and rich in cysteines) domain;
SPARC/BM-40/osteonectin is a multifunctional
glycoprotein which modulates cellular interaction with
the extracellular matrix by its binding to structural
matrix proteins such as collagen and vitronectin. The
protein it composed of an N-terminal acidic region, a
follistatin (FS) domain and an EF-hand calcium binding
domain. The FS domain consists of an N-terminal beta
hairpin (FOLN/EGF-like domain) and a small hydrophobic
core of alpha/beta structure (Kazal domain) and has five
disulfide bonds and a conserved N-glycosylation site.
The FSL_SPARC domain is a member of the superfamily of
kazal-like proteinase inhibitors and follistatin-like
proteins.
Length = 86
Score = 28.2 bits (63), Expect = 1.4
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 251 EPMCATTHGCECDHSKFNPICGGDGRTYFSACH 283
P C C + +C D T+ S C
Sbjct: 20 TPKCVCIDPCPEEVDDRRKVCTNDNETFDSDCE 52
>gnl|CDD|172541 PRK14049, PRK14049, ferrioxamine B receptor precursor protein;
Provisional.
Length = 726
Score = 30.3 bits (68), Expect = 1.4
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 23 SPLY-FAITIGVRILGPSLGFILGSF--CTRLYVDLSIPSDITPSDPRWIG 70
PLY + G R +G S G +F +R+ D S+ D D ++ G
Sbjct: 637 GPLYGLGLGAGARFVGSSYGNDQNTFKNSSRVLFDASVGYDFAAIDKKYEG 687
>gnl|CDD|150609 pfam09955, DUF2189, Predicted integral membrane protein (DUF2189).
Members of this family are found in various hypothetical
prokaryotic proteins, as well as putative cytochrome c
oxidases. Their exact function has not, as yet, been
established.
Length = 127
Score = 27.9 bits (63), Expect = 3.7
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 72 WWLGLVLVAVFLMLAAVAMFMFPKTLTKASPVNGT 106
LGLVL +FL VA +F L A N +
Sbjct: 50 LALGLVLALLFLFWLRVAALIFALFLGPAPIPNLS 84
>gnl|CDD|200513 cd11252, Sema_3D, The Sema domain, a protein interacting module, of
semaphorin 3D (Sema3D). Sema3D is a secreted semaphorin
expressed during the development of the nervous system.
In zebrafish, Sema3D is expressed in the ventral tectum.
It guides retinal axons along the dorsoventral axis of
the tectum and guides the laterality of retinal ganglion
cell (RGC) projections. Both Sema3D knockdown or its
ubiquitous overexpression induced aberrant ipsilateral
projections. Proper balance of Sema3D is needed at the
midline for the progression of RGC axons from the chiasm
midline into the contralateral optic tract. Sema3D is a
member of the class 3 semaphorin family of proteins.
Semaphorins are regulatory molecules in the development
of the nervous system and in axonal guidance. They also
play important roles in other biological processes, such
as angiogenesis, immune regulation, respiration systems
and cancer. The Sema domain is located at the N-terminus
and contains four disulfide bonds formed by eight
conserved cysteine residues. It serves as a
receptor-recognition and -binding module.
Length = 474
Score = 28.7 bits (64), Expect = 4.0
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 13/84 (15%)
Query: 124 SLKDFPKAVKRLLKNDILMYRTASSVLHILPIAGLYTFLPKYFETQFRLPSHTANMVSGV 183
S KDFP V +K LMY++ + P+ G F +RL + V+
Sbjct: 349 STKDFPDEVISFIKRHPLMYKS------VYPLTGGPVF--TRINVDYRLTQIVVDHVAAE 400
Query: 184 GG---ILVMG--IGIILSGVFILK 202
G ++ +G IG +L V I K
Sbjct: 401 DGQYDVMFLGTDIGTVLKVVSITK 424
>gnl|CDD|222404 pfam13829, DUF4191, Domain of unknown function (DUF4191).
Length = 223
Score = 28.3 bits (64), Expect = 4.0
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 68 WIGAWWLGLVLVAVFLMLAAVAMFMFPKTLTKA 100
G+WW L+L + +LA AM +F + +A
Sbjct: 48 LFGSWWYWLILGILLGLLA--AMIVFSRRAQRA 78
>gnl|CDD|216469 pfam01384, PHO4, Phosphate transporter family. This family
includes PHO-4 from Neurospora crassa which is a is a
Na(+)-phosphate symporter. This family also contains the
leukaemia virus receptor.
Length = 268
Score = 28.3 bits (64), Expect = 4.6
Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 9/64 (14%)
Query: 168 TQFRLPSHTANMVSGVGGILVMGIGIILSGVFILKFKPNARFVAAW-----IAITAVLYA 222
T F LP +++ + +GG+ +G G+ G + + + V +W I A L +
Sbjct: 78 TYFGLPVSSSHAL--IGGL--IGAGLAAGGFSAVNWGGILKIVLSWVLSPLIGGVAALMS 133
Query: 223 LGMG 226
G
Sbjct: 134 FAHG 137
>gnl|CDD|119392 cd06174, MFS, The Major Facilitator Superfamily (MFS) is a large
and diverse group of secondary transporters that
includes uniporters, symporters, and antiporters. MFS
proteins facilitate the transport across cytoplasmic or
internal membranes of a variety of substrates including
ions, sugar phosphates, drugs, neurotransmitters,
nucleosides, amino acids, and peptides. They do so using
the electrochemical potential of the transported
substrates. Uniporters transport a single substrate,
while symporters and antiporters transport two
substrates in the same or in opposite directions,
respectively, across membranes. MFS proteins are
typically 400 to 600 amino acids in length, and the
majority contain 12 transmembrane alpha helices (TMs)
connected by hydrophilic loops. The N- and C-terminal
halves of these proteins display weak similarity and may
be the result of a gene duplication/fusion event. Based
on kinetic studies and the structures of a few bacterial
superfamily members, GlpT (glycerol-3-phosphate
transporter), LacY (lactose permease), and EmrD
(multidrug transporter), MFS proteins are thought to
function through a single substrate binding site,
alternating-access mechanism involving a rocker-switch
type of movement. Bacterial members function primarily
for nutrient uptake, and as drug-efflux pumps to confer
antibiotic resistance. Some MFS proteins have medical
significance in humans such as the glucose transporter
Glut4, which is impaired in type II diabetes, and
glucose-6-phosphate transporter (G6PT), which causes
glycogen storage disease when mutated.
Length = 352
Score = 28.4 bits (64), Expect = 4.7
Identities = 19/91 (20%), Positives = 35/91 (38%), Gaps = 5/91 (5%)
Query: 145 TASSVLHILPIAGLYTFLPKYFETQFRLPSHTANMVSGVGGILVMGIGIILSGVFILKFK 204
+ L GL T+LP Y + L + A ++ + G+ +G +L G+ +
Sbjct: 181 ALAFFLLSFGYYGLLTYLPLYLQEVLGLSAAEAGLLLSLFGL-GGILGALLGGLLSDRLG 239
Query: 205 PNARFVAAWIAITAVLYALGMGILTFIGCPM 235
+ I +L ALG+ +L
Sbjct: 240 RRRL----LLLIGLLLAALGLLLLALAPSLA 266
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 28.7 bits (65), Expect = 4.7
Identities = 10/81 (12%), Positives = 25/81 (30%), Gaps = 14/81 (17%)
Query: 152 ILPIAGLYTFLPKYFETQFRLPSHTANMVSGVGGILVMGIGIILSGVFILKFKPNARFVA 211
+L + G+ + F G+ G ++ G++L + + +
Sbjct: 485 LLILLGILLIVLGGF------GLVVGLGPLGLIGKYLIIGGVVL--IILGEGIDGKSLGG 536
Query: 212 AWIAITAVLYALGMGILTFIG 232
A + I ++G
Sbjct: 537 ALGGLGL------YEITGYLG 551
>gnl|CDD|235569 PRK05702, flhB, flagellar biosynthesis protein FlhB; Reviewed.
Length = 359
Score = 28.2 bits (64), Expect = 5.4
Identities = 20/99 (20%), Positives = 32/99 (32%), Gaps = 23/99 (23%)
Query: 26 YFAITIGVRILGPSLGFILGSFCTRLYVDLSIPSDITPSDPR-----WIGAWWLGLVLVA 80
A + + GPSL L L S +I + L L+
Sbjct: 39 LLAGLVVLWFFGPSLARRLSGMLRAL---FSFDREIIFDPNDVLSLFLLLLLEALLALLP 95
Query: 81 VFLMLAAVAM--------FMF------PKTLTKASPVNG 105
+ L+L A+ +F PK +K +P+ G
Sbjct: 96 ILLLLVLAALLAPVLQGGLLFSPKALKPK-FSKLNPLKG 133
>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 = 28.3 bits (64), Expect = 5.5
Identities = 32/164 (19%), Positives = 54/164 (32%), Gaps = 21/164 (12%)
Query: 75 GLVLVAVFLMLAAVAMFMFPKTLTKASPVNGTTTVATLPTKKESNQKNPSLKDFPKAVKR 134
G L A+ + + AV F+ TK ++ SL+D K
Sbjct: 172 GYFLAALIIAILAVVGFLICFAGTKERVSV-----------PPEQKEKVSLRD---MFKA 217
Query: 135 LLKNDILMYRTASSVLHILPIAGLYTFLPKYFETQFRLPSHTANMVSGVGGILVMGIGII 194
L KN L+ +L+ L +A L YF + + + G + +G
Sbjct: 218 LFKNRPLLILLLLYLLNALAMAVRNGLLLYYFTYVLGNAGLFSVL--LLIGTIAAILGAP 275
Query: 195 LSGVFILKF-KPNARFVAAWIAI--TAVLYALGMG--ILTFIGC 233
L +F K + +A +L+ L G L +
Sbjct: 276 LWPWLAKRFGKKRTFLLGMLLAAIGLVLLFFLPPGSLWLFLVLV 319
>gnl|CDD|233281 TIGR01129, secD, protein-export membrane protein SecD. Members of
this family are highly variable in length immediately
after the well-conserved motif LGLGLXGG at the
amino-terminal end of this model. Archaeal homologs are
not included in the seed and score between the trusted
and noise cutoffs. SecD from Mycobacterium tuberculosis
has a long Pro-rich insert [Protein fate, Protein and
peptide secretion and trafficking].
Length = 397
Score = 28.4 bits (64), Expect = 5.6
Identities = 25/81 (30%), Positives = 35/81 (43%), Gaps = 21/81 (25%)
Query: 25 LYFAITIGVRILGPSLGFILGSFCTRLYVDL-------SIPSDITPSDPRWIG------- 70
+ A TI I G S G I G+F DL ++P+ + + R IG
Sbjct: 188 VVSAPTIQEAITGGS-GQITGNFTAEEANDLALVLRSGALPAPLQILEERTIGPSLGADS 246
Query: 71 ------AWWLGLVLVAVFLML 85
A +GLVLV VF++L
Sbjct: 247 IEAGIKAGLIGLVLVLVFMIL 267
>gnl|CDD|99735 cd00610, OAT_like, Acetyl ornithine aminotransferase family. This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). The
major groups in this CD correspond to ornithine
aminotransferase, acetylornithine aminotransferase,
alanine-glyoxylate aminotransferase, dialkylglycine
decarboxylase, 4-aminobutyrate aminotransferase,
beta-alanine-pyruvate aminotransferase,
adenosylmethionine-8-amino-7-oxononanoate
aminotransferase, and glutamate-1-semialdehyde
2,1-aminomutase. All the enzymes belonging to this
family act on basic amino acids and their derivatives
are involved in transamination or decarboxylation.
Length = 413
Score = 28.3 bits (64), Expect = 6.3
Identities = 10/39 (25%), Positives = 20/39 (51%)
Query: 116 KESNQKNPSLKDFPKAVKRLLKNDILMYRTASSVLHILP 154
K+ K P + K +K L+ +L+ + +V+ +LP
Sbjct: 355 KDRATKPPDKELAAKIIKAALERGLLLRPSGGNVIRLLP 393
>gnl|CDD|182910 PRK11026, ftsX, cell division ABC transporter subunit FtsX;
Provisional.
Length = 309
Score = 27.6 bits (62), Expect = 7.4
Identities = 14/64 (21%), Positives = 23/64 (35%), Gaps = 5/64 (7%)
Query: 179 MVSGVGGILVMGIGIILSGVFILKFKPNARFVAAWIAITAVLYALGMG--ILTFIGCPMD 236
+ G G L+ +ILS + + + +VA L L +L + C M
Sbjct: 234 ALLGFSGALL---SLILSEILVWRLSSAVTYVADVFGTKFDLNGLSFDECLLLLLVCSMI 290
Query: 237 EWAG 240
W
Sbjct: 291 GWVA 294
>gnl|CDD|129873 TIGR00791, gntP, gluconate transporter. This family includes known
gluconate transporters of E. coli and Bacillus species
as well as an idonate transporter from E. coli
[Transport and binding proteins, Carbohydrates, organic
alcohols, and acids].
Length = 440
Score = 28.1 bits (63), Expect = 7.6
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 186 ILVMGIGIILSGVFILKFKPNARFVAAWIAITAVLYALGMGILTFIG 232
++++ +GI+L + I+KFK N FVA + V A GM + +
Sbjct: 3 LVIVALGIVLLLLLIMKFKLNT-FVALLVVSFGVGLASGMPLDKVVH 48
>gnl|CDD|226340 COG3819, COG3819, Predicted membrane protein [Function unknown].
Length = 229
Score = 27.4 bits (61), Expect = 7.8
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 186 ILVMGIGIILSGVFILKFKPNARFVAAWIAITAVLYALGMGILTFI 231
+ ++GI II+ G FILKF P V A I L + GM + +
Sbjct: 4 LPLIGIAIIVLG-FILKFNPILVVVVA--GIVTGLVS-GMSFVEVL 45
>gnl|CDD|239215 cd02864, Heme_Cu_Oxidase_III_1, Heme-copper oxidase subunit III
subfamily. Heme-copper oxidases are transmembrane
protein complexes in the respiratory chains of
prokaryotes and mitochondria which couple the reduction
of molecular oxygen to water to, proton pumping across
the membrane. The heme-copper oxidase superfamily is
diverse in terms of electron donors, subunit
composition, and heme types. This superfamily includes
cytochrome c and ubiquinol oxidases. Bacterial oxidases
typically contain 3 or 4 subunits in contrast to the 13
subunit bovine cytochrome c oxidase (CcO). Subunits I,
II, and III of mammalian CcO are encoded within the
mitochondrial genome and the remaining 10 subunits are
encoded within the nuclear genome. Subunits I, II and
III of ubiquinol oxidase are homologous to the
corresponding subunits in CcO. Although not required
for catalytic activity, subunit III is believed to play
a role in assembly of the multimer complex. Rhodobacter
CcO subunit III stabilizes the integrity of the
binuclear center in subunit I. It has been proposed
that Archaea acquired heme-copper oxidases through gene
transfer from Gram-positive bacteria.
Length = 202
Score = 27.5 bits (61), Expect = 8.1
Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 6/42 (14%)
Query: 206 NARFVAAWIAITAVLYALGMGILTFIGCPMDEWAGLTNANGI 247
N + A + TA+L A TF+G EW L G+
Sbjct: 88 NRKAAARLMLATALLGA------TFVGMQAFEWTKLIVEEGV 123
>gnl|CDD|206312 pfam14143, YrhC, YrhC-like protein. The YrhC-like protein family
includes the B. subtilis YrhC protein, which is
functionally uncharacterized. YrhC is on the same
operon as the MccA and MccB genes, which are involved
in the conversion of methionine to cysteine. Expression
of this operon is repressed in the presence of sulphate
or cysteine. This family of proteins is found in
bacteria. Proteins in this family are approximately 80
amino acids in length.
Length = 72
Score = 25.6 bits (57), Expect = 9.9
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 41 GFILGSFCTRLYVDLSIPSD-ITPSDPRWIGAWWLGLVLVAVFLMLA 86
F+L + LY+ L IP+ + + L + VFL A
Sbjct: 14 AFVLLAVSAFLYIGLVIPNGGKETAQKPIM------LGAIVVFLGGA 54
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.325 0.140 0.438
Gapped
Lambda K H
0.267 0.0737 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,813,166
Number of extensions: 1533163
Number of successful extensions: 3431
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3388
Number of HSP's successfully gapped: 184
Length of query: 308
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 211
Effective length of database: 6,635,264
Effective search space: 1400040704
Effective search space used: 1400040704
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (26.5 bits)