RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17558
(317 letters)
>gnl|CDD|216649 pfam01694, Rhomboid, Rhomboid family. This family contains
integral membrane proteins that are related to
Drosophila rhomboid protein. Members of this family are
found in bacteria and eukaryotes. Rhomboid promotes the
cleavage of the membrane-anchored TGF-alpha-like growth
factor Spitz, allowing it to activate the Drosophila EGF
receptor. Analysis has shown that Rhomboid-1 is an
intramembrane serine protease (EC:3.4.21.105).
Parasite-encoded rhomboid enzymes are also important for
invasion of host cells by Toxoplasma and the malaria
parasite.
Length = 146
Score = 100 bits (252), Expect = 3e-26
Identities = 35/102 (34%), Positives = 53/102 (51%), Gaps = 1/102 (0%)
Query: 217 PFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGSLA 276
R ++WR +T M +H G HL+ N+L + GIPLE + R L++YL+ LAGSL
Sbjct: 1 LLQRGQLWRLITSMFLHAGWLHLLFNMLALLFFGIPLERILGSVRFLLLYLLSGLAGSLL 60
Query: 277 TSITDPHVF-LAGASGGVYALIAAHVATIIMVRSLLKQQWDF 317
+ + P GASG ++ L+ A + + R LL
Sbjct: 61 SYLFSPASSPSVGASGAIFGLLGALLVLLPRNRILLFNFPGA 102
Score = 33.0 bits (76), Expect = 0.084
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 99 PFHRAEVWRFMTYMLVHVGIW 119
R ++WR +T M +H G
Sbjct: 1 LLQRGQLWRLITSMFLHAGWL 21
>gnl|CDD|223777 COG0705, COG0705, Membrane associated serine protease [Amino acid
transport and metabolism].
Length = 228
Score = 67.9 bits (166), Expect = 3e-13
Identities = 34/128 (26%), Positives = 55/128 (42%), Gaps = 3/128 (2%)
Query: 175 IPPPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYN-PFHRAEVWRFMTYMLVH 233
+ +I++ I + L + I T+ R L R ++WR +T + +H
Sbjct: 19 VTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLH 78
Query: 234 VGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHVF--LAGASG 291
G HL+ N+L + G LE R L+ YL+ L LA + P GASG
Sbjct: 79 AGFLHLLFNMLALWVFGSNLERRLGTLRFLLFYLLSGLLAGLAQVLFGPKGGAPSLGASG 138
Query: 292 GVYALIAA 299
++ L+ A
Sbjct: 139 AIFGLLGA 146
Score = 30.5 bits (69), Expect = 0.82
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 1/64 (1%)
Query: 57 IPPPVIMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYN-PFHRAEVWRFMTYMLVH 115
+ +I++ I + L + I T+ R L R ++WR +T + +H
Sbjct: 19 VTLFLILLNILVFLLELVLGWSAIFLLTFLFRLFGLYPLNLLGALARDQLWRLITAIFLH 78
Query: 116 VGIW 119
G
Sbjct: 79 AGFL 82
>gnl|CDD|234388 TIGR03902, rhom_GG_sort, rhomboid family GlyGly-CTERM serine
protease. This model describes a rhomboid-like
intramembrane serine protease. Its species distribution
closely matches model TIGR03501, GlyGly-CTERM, which
describes a protein targeting domain analogous to LPXTG
and PEP-CTERM. In a number of species (Ralstonia
eutropha ,R. metallidurans, R. solanacearum,
Marinobacter aquaeolei, etc) with just one GlyGly-CTERM
protein (i.e., a dedicated system), the rhombosortase
and GlyGly-CTERM genes are adjacent.
Length = 154
Score = 51.4 bits (124), Expect = 3e-08
Identities = 28/88 (31%), Positives = 45/88 (51%), Gaps = 6/88 (6%)
Query: 218 FHRA-----EVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLA 272
+ RA E WR +T VH+ +HL++NL +LL + E R R+L++ L+ L
Sbjct: 6 YDRAAILEGEWWRLLTGHFVHLNWWHLLMNLAGLLLLWLLFERHLRARRLLLLLLLLSLL 65
Query: 273 GSLATSITDPHV-FLAGASGGVYALIAA 299
SL + P + + G SG ++ L A
Sbjct: 66 ISLGLLLFLPSLQWYVGLSGVLHGLFAW 93
>gnl|CDD|234518 TIGR04239, rhombo_GlpG, rhomboid family protease GlpG. GlpG in E.
coli is a rhomboid family intramembrane serine protease
that has been extensively characterized as a proxy for
rhomboid family proteases in animals. It efficiently
cleaves eukaryote-derived model substrates. This
multiple membrane-spanning protein excludes
inappropriate substrates from access to its cleavage
site, and shows activity against truncated versions, but
not full-length versions, of the E. coli multidrug
transporter MdfA. This finding suggests a housekeeping
function in removing faulty proteins. In contrast,
several eukaryotic rhomboid family proteases release
peptide hormones for signaling functions, and the
Shewanella and Vibrio protein rhombosortase appears to
be part of a protein-sorting system, cleaving a
C-terminal anchoring helix domain.
Length = 271
Score = 43.4 bits (103), Expect = 7e-05
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 1/83 (1%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGS 274
+P ++++WR+ T L+H H++ NLL LG +E ++L+++LV L +
Sbjct: 127 ADPSQQSQLWRWFTPALLHFSLLHIIFNLLWWWYLGGQIEKRLGSGKLLVLFLVSALLSN 186
Query: 275 LATSITDPHVFLAGASGGVYALI 297
A + F G SG VYAL+
Sbjct: 187 WAQYLVSGPNF-GGLSGVVYALV 208
>gnl|CDD|182828 PRK10907, PRK10907, intramembrane serine protease GlpG;
Provisional.
Length = 276
Score = 39.2 bits (92), Expect = 0.001
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 1/83 (1%)
Query: 215 YNPFHRAEVWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGS 274
++P + E+WR+ T+ L+H H++ NLL LG +E ++++I L+ L
Sbjct: 127 FDPSLKFELWRYFTHALLHFSLLHILFNLLWWWYLGGAVEKRLGSGKLIVITLISALLSG 186
Query: 275 LATSITDPHVFLAGASGGVYALI 297
S + G SG VYAL+
Sbjct: 187 WVQSKFS-GPWFGGLSGVVYALM 208
>gnl|CDD|185445 PTZ00101, PTZ00101, rhomboid-1 protease; Provisional.
Length = 278
Score = 37.5 bits (87), Expect = 0.005
Identities = 26/134 (19%), Positives = 55/134 (41%), Gaps = 8/134 (5%)
Query: 180 IMIFISAVEIGFFLYDAMIVGDTYSLRGPMAKTLI-----YNP-FHRAEVWRFMTYMLVH 233
++ IS ++I F+ I P L+ + E+ R + + +H
Sbjct: 55 FIMAISIIQIIVFIISVSI--KPADFLTPSDSLLVTLGANVASRIKQGEIHRLILPIFLH 112
Query: 234 VGGFHLVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHVFLAGASGGV 293
FH N+ Q+ +G LE + +++I+Y + + G++ +S GAS
Sbjct: 113 ANIFHTFFNVFFQLRMGFTLEKNYGIVKIIILYFLTGIYGNILSSSVTYCPIKVGASTSG 172
Query: 294 YALIAAHVATIIMV 307
L+ + +I++
Sbjct: 173 MGLLGIVTSELILL 186
>gnl|CDD|223805 COG0733, COG0733, Na+-dependent transporters of the SNF family
[General function prediction only].
Length = 439
Score = 31.0 bits (71), Expect = 0.93
Identities = 23/127 (18%), Positives = 37/127 (29%), Gaps = 45/127 (35%)
Query: 223 VWRFMTYMLVHVGGF-HLVVNLLVQILLGIPL---EMV------------------HRWW 260
+WRF YM GG L+ L+ +L+GIPL E + W
Sbjct: 28 IWRF-PYMAGENGGGAFLLPYLIFLLLVGIPLLLAEFAIGRRGRKNAVGAFRKLAPKKKW 86
Query: 261 RVL----------------------IIYLVGVLAGSLATSITDPHVFLAGASGGVYALIA 298
+ + YLV L G+L + +
Sbjct: 87 EWIGWFGVLGGFLILSFYSVIGGWILSYLVKSLTGALPDTGEQFAQLFGQTISNPGLAVI 146
Query: 299 AHVATII 305
H+ ++
Sbjct: 147 FHLLFLV 153
>gnl|CDD|132863 cd07224, Pat_like, Patatin-like phospholipase. Patatin-like
phospholipase. This family consists of various patatin
glycoproteins from plants. The patatin protein accounts
for up to 40% of the total soluble protein in potato
tubers. Patatin is a storage protein, but it also has
the enzymatic activity of lipid acyl hydrolase,
catalysing the cleavage of fatty acids from membrane
lipids. Members of this family have been found also in
vertebrates.
Length = 233
Score = 28.8 bits (65), Expect = 2.9
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 263 LIIYLVGVLAGSLATSITDPHVFLAGASGGVYALIAAHVA 302
L Y +GVL+ + + + LAGAS G +L AA A
Sbjct: 10 LFPYHLGVLSLLIEAGVINETTPLAGASAG--SLAAACSA 47
>gnl|CDD|212062 cd11493, SLC5sbd_NIS-like_u1, uncharacterized subgroup of the
Na(+)/iodide (NIS) cotransporter subfamily; putative
solute-binding domain. Proteins belonging to the same
subfamily as this uncharacterized subgroup include i)
NIS, which transports I-, and other anions including
ClO4-, SCN-, and Br-, ii) SMVT, which transports biotin,
pantothenic acid and lipoate, and iii) the
Na(+)/monocarboxylate cotransporters SMCT1 and 2. SMCT1
is a high-affinity transporter while SMCT2 is a
low-affinity transporter. This subgroup belongs to the
solute carrier 5 (SLC5) transporter family.
Length = 479
Score = 29.5 bits (67), Expect = 2.9
Identities = 33/133 (24%), Positives = 56/133 (42%), Gaps = 10/133 (7%)
Query: 183 FISAVEIGFFLYDAMIVGDTY--SLRGPMAKTLIYNPFH--RAEVWRFMTYMLVHVGGFH 238
+ +A+ I + A V +Y S+ TL+Y F RA VW + ++V++GG
Sbjct: 132 YATAIPISL-ILGADGVALSYILSIVVIGLVTLLYTYFGGIRAVVWTDVIQLVVYIGGAV 190
Query: 239 LVVNLLVQILLGIPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHVFLAGASGGVYALIA 298
+ L L +P + + + L +T P+ F A GG +A
Sbjct: 191 AALAYL---LGALPGDWLQIAAAAGKFHKFDF--SDLILGLTSPYTFWAAIIGGALLSMA 245
Query: 299 AHVATIIMVRSLL 311
+H +MV+ LL
Sbjct: 246 SHGTDQLMVQRLL 258
>gnl|CDD|182767 PRK10836, PRK10836, lysine transporter; Provisional.
Length = 489
Score = 28.2 bits (63), Expect = 6.4
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 251 IPLEMVHRWWRVLIIYLVGVLAGSLATSITDPHV 284
IP + +WR+L+ Y+ +L SL TDP +
Sbjct: 238 IPRAVRQVFWRILLFYVFAILIISLIIPYTDPSL 271
>gnl|CDD|182127 PRK09874, PRK09874, drug efflux system protein MdtG; Provisional.
Length = 408
Score = 28.0 bits (62), Expect = 6.6
Identities = 12/42 (28%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 239 LVVNLLVQILLGIPLEMVHRWWRVLII-YLVGVLAGSLATSI 279
L+ L+ +LL IP+ V ++ I+ +L+G G+L ++
Sbjct: 291 LITALIFSVLLLIPMSFVQTPLQLGILRFLLGAADGALLPAV 332
>gnl|CDD|239581 cd03501, SQR_TypeA_SdhC_like, Succinate:quinone oxidoreductase
(SQR) Type A subfamily, Succinate dehydrogenase C
(SdhC)-like subunit; SQR catalyzes the oxidation of
succinate to fumarate coupled to the reduction of
quinone to quinol. Members of this subfamily reduce low
potential quinones such as menaquinone and
thermoplasmaquinone. SQR is also called succinate
dehydrogenase or Complex II, and is part of the citric
acid cycle and the aerobic respiratory chain. SQR is
composed of a flavoprotein catalytic subunit, an
iron-sulfur protein and one or two hydrophobic
transmembrane subunits. Members of this subfamily are
similar to the Thermoplasma acidophilum SQR and are
classified as Type A because they contain two
transmembrane subunits as well as two heme groups.
Although there are no structures available for this
subfamily, the presence of two hemes has been proven
spectroscopically for T. acidophilum. The two membrane
anchor subunits are similar to the SdhD and SdhC
subunits of bacterial SQRs, which contain heme and
quinone binding sites. The two-electron oxidation of
succinate in the flavoprotein active site is coupled to
the two-electron reduction of quinone in the membrane
anchor subunits via electron transport through FAD and
three iron-sulfur centers. The reversible reduction of
quinone is an essential feature of respiration, allowing
transfer of electrons between respiratory complexes.
Length = 101
Score = 26.5 bits (59), Expect = 8.6
Identities = 23/98 (23%), Positives = 44/98 (44%), Gaps = 13/98 (13%)
Query: 184 ISAVEIGFFLYDAMIVGDTYSLRGPMAKTLIYNPFH---RAEVWRFMTYMLVHVGGFHLV 240
I+ V I F+L+ ++ + RGP YN ++ +++ + LV FH
Sbjct: 9 ITGVVILFYLF-LHVLDLSSLRRGPET----YNAVIATYKSPIFKLGEFGLVAAVVFH-A 62
Query: 241 VN----LLVQILLGIPLEMVHRWWRVLIIYLVGVLAGS 274
+N +LV G P ++ VL++ +V ++A
Sbjct: 63 LNGIRLILVDFGSGGPRYQRQLFYIVLVLTVVLIVAAG 100
>gnl|CDD|212087 cd11518, SLC6sbd_SIT1, Na(+)- and Cl(-)-dependent imino acid
transporter SIT1; solute-binding domain. SIT1 (also
called XTRP3, XT3, IMINO) transports imino acids, such
as proline, pipecolate, MeAIB, and sarcosine. It has
weak affinity for neutral amino acids such as
phenylalanine. Human SIT1 is encoded by the SLC6A20
gene. SIT1 is expressed in brain, kidney, small
intestine, thymus, spleen, ovary, and lung. SLC6A20 is a
candidate gene for the rare disorder iminoglycinuria.
This subgroup belongs to the solute carrier 6 (SLC6)
transporter family.
Length = 576
Score = 27.9 bits (62), Expect = 9.7
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 12/68 (17%)
Query: 223 VWRFMTYMLVHVGGFHLVVNLLVQILLGIPLEMVHRW------------WRVLIIYLVGV 270
VWRF ++ GG L+ L++ IL G+PL + W+ + YL GV
Sbjct: 27 VWRFPYLCQMYGGGGFLIPYLIMLILEGMPLLYLELAVGQRMRQGSIGAWKSISPYLGGV 86
Query: 271 LAGSLATS 278
S+ S
Sbjct: 87 GVASVVVS 94
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
0.328 0.143 0.454
Gapped
Lambda K H
0.267 0.0761 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,169,062
Number of extensions: 1740958
Number of successful extensions: 2402
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2388
Number of HSP's successfully gapped: 79
Length of query: 317
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 220
Effective length of database: 6,635,264
Effective search space: 1459758080
Effective search space used: 1459758080
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: 59 (26.4 bits)