RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7467
(295 letters)
>gnl|CDD|216503 pfam01435, Peptidase_M48, Peptidase family M48.
Length = 223
Score = 77.5 bits (191), Expect = 7e-17
Identities = 32/85 (37%), Positives = 47/85 (55%), Gaps = 7/85 (8%)
Query: 172 FIILMSLFLMTIYPEFIAPLFDK-YTPLPDGELKSRIEQLSASV--KFPLKKLYVVEGSK 228
++L SL L TI +IA L + TPL + L+ +E+L+ S FP ++YVV+
Sbjct: 2 LLLLSSLVLATIGAPYIAQLLNGFPTPLRNARLQRVVERLADSAGAGFPPWEVYVVD--- 58
Query: 229 RSEHSNAYFYGFFKNKRIVLFDTLL 253
S NA+ G KNKR+V+ LL
Sbjct: 59 -SPQPNAFALGGGKNKRVVVTTGLL 82
>gnl|CDD|223575 COG0501, HtpX, Zn-dependent protease with chaperone function
[Posttranslational modification, protein turnover,
chaperones].
Length = 302
Score = 33.4 bits (76), Expect = 0.11
Identities = 29/156 (18%), Positives = 53/156 (33%), Gaps = 43/156 (27%)
Query: 145 ILSIPLTGAVVYIIQV-GGNMVFLYLWV--FIILMSLFLMTI-YPEFIAPLFDKYTPLPD 200
I + G ++ I + + + L ++L SL +T+ P +AP
Sbjct: 46 IAAASALGRLLLIALLLAFAALLISLLFSKALVLKSLGALTLSEPILLAPRLYA------ 99
Query: 201 GELKSRIEQLSASVKFPLKKLYVVEGSKRSEHSNAYFYG-FFKNKRIVLFDTLLKDYVPL 259
L ++ +L+ P + + + NA+ G KN R+V+ LL
Sbjct: 100 -VLLLKVAELARQAGIPHMPEVYILETPQP---NAFALGGGPKNGRVVVTTGLL------ 149
Query: 260 NADKKDKSGDSEPLISTEGANKKGCDTEEVLAVLAH 295
+ +E+ AVLAH
Sbjct: 150 ----------------------DLLNDDELEAVLAH 163
>gnl|CDD|185405 PTZ00029, PTZ00029, 60S ribosomal protein L10a; Provisional.
Length = 216
Score = 32.0 bits (73), Expect = 0.24
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 173 IILMSLFLMTIYPEFIAPLFDKY----TPLPDGE-LKSRIEQLSASVKFPLKK 220
L S L+ P + P +K T + + ++ +I +L +SVKF LKK
Sbjct: 108 AFLASQSLLPQIPRLLGPGLNKAGKFPTLITHNDDIEDKINELKSSVKFQLKK 160
>gnl|CDD|222059 pfam13346, ABC2_membrane_5, ABC-2 family transporter protein. This
family is related to the ABC-2 membrane transporter
family pfam01061.
Length = 206
Score = 30.7 bits (70), Expect = 0.65
Identities = 13/69 (18%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 139 SFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFIILMSLFLMTIYPEFIAPLFDKYTPL 198
++ ++ I ++ + +I+ + + + + I+L+ L + I+ + PL+ K+
Sbjct: 85 FSLILGLIGIIISFLIAFIVSLIFGNITISELLLILLIGLIIALIFGAILLPLYYKF--- 141
Query: 199 PDGELKSRI 207
G K RI
Sbjct: 142 --GYEKGRI 148
>gnl|CDD|214819 smart00793, AgrB, Accessory gene regulator B. The accessory gene
regulator (agr) of Staphylococcus aureus is the central
regulatory system that controls the gene expression for
a large set of virulence factors. The arg locus consists
of two transcripts: RNAII and RNAIII. RNAII encodes four
genes (agrA, B, C, and D) whose gene products assemble a
quorum sensing system. At low cell density, the agr
genes are continuously expressed at basal levels. A
signal molecule, autoinducing peptide (AIP), produced
and secreted by the bacteria, accumulates outside of the
cells. When the cell density increases and the AIP
concentration reaches a threshold, it activates the agr
response, i.e. activation of secreted protein gene
expression and subsequent repression of cell
wall-associated protein genes. AgrB and AgrD are
essential for the production of the autoinducing peptide
which functions as a signal for quorum sensing. AgrB is
a transmembrane protein. AgrB is involved in the
proteolytic processing of AgrD and may have both
proteolytic enzyme activity and a transporter
facilitating the export of the processed AgrD peptide.
Length = 184
Score = 29.1 bits (66), Expect = 2.0
Identities = 18/75 (24%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 138 KSFIVSLILSIPLTGAVVYIIQVGGNMVF-LYLWVFIILMSLFLMTIYPEFIAPLFDKYT 196
KS ++ +LSI + + ++I+ + L + + L+ L L+ IY AP +
Sbjct: 74 KSSLLCTLLSIIIFVGIPFLIK---FLDLNLPFILGLFLIGLVLIYIY----APADTEKQ 126
Query: 197 PLPDGELKSRIEQLS 211
P+ +LK ++++ S
Sbjct: 127 PVIPEKLKKKLKKKS 141
>gnl|CDD|224509 COG1593, DctQ, TRAP-type C4-dicarboxylate transport system, large
permease component [Carbohydrate transport and
metabolism].
Length = 379
Score = 29.4 bits (67), Expect = 2.0
Identities = 14/61 (22%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 141 IVSLILSI----PLTGAVVYIIQVGGNMVFLYL------WVFIILMSLFLMTIYPEFIAP 190
+ L LSI P G V+++ G + + ++ +++ L L+T +PE
Sbjct: 314 VFVLNLSIGLITPPVGMVLFVASAVGKVPIEAVIKAILPFLVALILVLLLITYFPELSLW 373
Query: 191 L 191
L
Sbjct: 374 L 374
>gnl|CDD|215559 PLN03074, PLN03074, auxin influx permease; Provisional.
Length = 473
Score = 29.3 bits (66), Expect = 2.8
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 46 LKMEFTLEFQIFYGIIGFSWIVFLFE-FYLSIRQRR 80
L M + FQIFYG++G SW +L Y+ R R+
Sbjct: 74 LGMLSGILFQIFYGLLG-SWTAYLISVLYVEYRARK 108
>gnl|CDD|217327 pfam03030, H_PPase, Inorganic H+ pyrophosphatase. The H+
pyrophosphatase is an transmembrane proton pump involved
in establishing the H+ electrochemical potential
difference between the vacuole lumen and the cell
cytosol. Vacuolar-type H(+)-translocating inorganic
pyrophosphatases have long been considered to be
restricted to plants and to a few species of
photo-trophic bacteria. However, in recent
investigations, these pyrophosphatases have been found
in organisms as disparate as thermophilic Archaea and
parasitic protists.
Length = 669
Score = 29.4 bits (67), Expect = 2.8
Identities = 14/51 (27%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 138 KSFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFI-ILMSLFLMTIYPEF 187
+ IVS ILSI T Y + FL+ +F+ +L+ L +
Sbjct: 285 RGLIVSAILSIVATYFATYWLLPAAGKGFLWWNLFLAVLIGLVAGALIGLI 335
>gnl|CDD|234827 PRK00733, hppA, membrane-bound proton-translocating
pyrophosphatase; Validated.
Length = 666
Score = 29.3 bits (67), Expect = 2.9
Identities = 12/37 (32%), Positives = 18/37 (48%)
Query: 138 KSFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFII 174
+ IV+ +LSI LT Y + G F +L +F
Sbjct: 271 RGLIVTAVLSIVLTYFATYWLLGDGADGFTWLNLFGA 307
>gnl|CDD|140234 PTZ00207, PTZ00207, hypothetical protein; Provisional.
Length = 591
Score = 29.4 bits (66), Expect = 2.9
Identities = 21/77 (27%), Positives = 36/77 (46%), Gaps = 10/77 (12%)
Query: 129 YGFFVKDQIKSFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFIILMSLFLMTIYPEFI 188
YGF + ++ LI+ +PL GA+V +++G N + I+L +F +P
Sbjct: 247 YGFVI-------LIILIVFLPLQGALVAYLKLGSNFKVGFAVTVIVLTVIFPFMAFP--- 296
Query: 189 APLFDKYTPLPDGELKS 205
FD P D + K+
Sbjct: 297 LTTFDGKRPHDDSDGKA 313
>gnl|CDD|177388 PHA02554, 13, neck protein; Provisional.
Length = 311
Score = 28.6 bits (64), Expect = 3.5
Identities = 22/71 (30%), Positives = 26/71 (36%), Gaps = 9/71 (12%)
Query: 160 VGGNMVFLYLWVFIILMSLFLMTIYPEFIAPLFDKYTPLPDGELKSRIEQLSASVKFPLK 219
G N L F LMS LM + D +PLPD S QL F
Sbjct: 126 YGPNAFGADLGYFTQLMSYQLM---------MQDLLSPLPDYWYNSANGQLKVMGNFRKG 176
Query: 220 KLYVVEGSKRS 230
L V+E +S
Sbjct: 177 DLIVIEVYVKS 187
>gnl|CDD|224866 COG1955, FlaJ, Archaeal flagella assembly protein J [Cell motility
and secretion / Intracellular trafficking and
secretion].
Length = 527
Score = 28.8 bits (65), Expect = 3.6
Identities = 14/51 (27%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 139 SFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFIILMSLFLMTIYPEFIA 189
I+ +ILSI G + ++ G LY +V ++ +S M I P +
Sbjct: 472 LLIILIILSI-ANGLAIKVVDGGSKYNSLYYFVLLLWISAISMYIGPPLVK 521
>gnl|CDD|217638 pfam03611, EIIC-GAT, PTS system sugar-specific permease component.
This family includes bacterial transmembrane proteins
with a putative sugar-specific permease function,
including and analogous to the IIC component of the PTS
system. It has been suggested that this permease may
form part of an L-ascorbate utilisation pathway, with
proposed specificity for 3-keto-L-gulonate (formed by
hydrolysis of L-ascorbate). This family includes the IIC
component of the galactitol specific GAT family PTS
system.
Length = 406
Score = 28.7 bits (65), Expect = 4.3
Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 14/75 (18%)
Query: 140 FIVSLIL-------SIPLTGAVVYIIQ--VGGNMVFLYL--WVFIILMSLFL---MTIYP 185
F+V+++L I LTG + + G +V+ W IIL ++ L M I P
Sbjct: 102 FLVNILLARFTKFTYIFLTGHIWNFWAFMIAGVLVYAGTGNWWLIILGAVILGLYMLILP 161
Query: 186 EFIAPLFDKYTPLPD 200
AP K T L
Sbjct: 162 ALTAPFVRKVTGLDG 176
>gnl|CDD|234717 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
Provisional.
Length = 571
Score = 27.9 bits (63), Expect = 7.4
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 130 GFFVKDQIKSFIVSLILSIPLTGAVVYIIQVGGNMV--FLYLWVFIILMSLFLMTI 183
G FV I I S + PL+GA++YI Q G+++ L L++ + M L L+ I
Sbjct: 291 GVFVMGAISGLICSPCTTAPLSGALLYIAQ-SGDLLLGGLTLYLLALGMGLPLILI 345
>gnl|CDD|220958 pfam11055, Gsf2, Glucose signalling factor 2. Gsf2 is localised to
the ER and functions to promote the secretion of certain
hexose transporters.
Length = 376
Score = 27.7 bits (62), Expect = 8.1
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 168 YLWVFIILMSLFLMTIYPEFIAP 190
+ F+ LM +L T P+FI+P
Sbjct: 112 GFYSFVALMLTWLYTDLPDFISP 134
>gnl|CDD|237241 PRK12872, ubiA, prenyltransferase; Reviewed.
Length = 285
Score = 27.6 bits (62), Expect = 8.2
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 137 IKSFIVSLILSIPLTGAVVYIIQVGGNMVFLYLWVFIILMSL 178
K+ +VSL+ ++ VY Q+ + L VFI L S
Sbjct: 134 FKNLVVSLLWALSPLILGVYYYQLTIFSLLLLYAVFIFLKSF 175
>gnl|CDD|202865 pfam04048, Sec8_exocyst, Sec8 exocyst complex component specific
domain.
Length = 142
Score = 26.5 bits (59), Expect = 9.9
Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 3/52 (5%)
Query: 96 MDAESFEKSRRYSLDKNVFSMFKETVSNVMNTTYGFFVKDQIKSF--IVSLI 145
+D S + RY + + ++ + V+N + F I S+ I+S I
Sbjct: 31 LDDTSVGLAHRYPEFEQLKKRIEQALQEVVNEHHQGFNS-SIGSYHKILSSI 81
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 0.141 0.423
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,233,690
Number of extensions: 1501851
Number of successful extensions: 2650
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2618
Number of HSP's successfully gapped: 127
Length of query: 295
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 199
Effective length of database: 6,679,618
Effective search space: 1329243982
Effective search space used: 1329243982
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 (26.4 bits)