RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy694
(306 letters)
>gnl|CDD|215968 pfam00520, Ion_trans, Ion transport protein. This family contains
Sodium, Potassium, Calcium ion channels. This family is
6 transmembrane helices in which the last two helices
flank a loop which determines ion selectivity. In some
sub-families (e.g. Na channels) the domain is repeated
four times, whereas in others (e.g. K channels) the
protein forms as a tetramer in the membrane. A bacterial
structure of the protein is known for the last two
helices but is not the Pfam family due to it lacking the
first four helices.
Length = 194
Score = 114 bits (288), Expect = 5e-31
Identities = 63/208 (30%), Positives = 97/208 (46%), Gaps = 31/208 (14%)
Query: 35 IVEAVCITWFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQE 94
I++ V F++E LL+ A K K+F+ N++D L ++P +SL L S
Sbjct: 1 ILDYVFTVIFTLEMLLKFIALGFKRKYFRSPWNILDFLVVLPSLVSLILFLLGEDSG--- 57
Query: 95 VQTRTDQFQDVRRVVQVFRIMRILRILKLAR-HSTGLQSLGFTLRNSYKELGLLMLFLAM 153
+ RV+++ R++R+LR+L+ T LQSLG +L+ S L LL+L L
Sbjct: 58 ----------LLRVLRLLRLLRLLRLLRRFPGLRTLLQSLGRSLK-SLLNLLLLLLLLLF 106
Query: 154 GVLIFSSLAYFAEKDEHDTK----------FVSIPETFWWAGITMTTVGYGDI-----CP 198
I + E D+ K F S E W T+TT G+GD+ P
Sbjct: 107 IFAIIGVQLFGGELDKCCDKNENPINGNSNFDSYGEALLWLFRTLTTEGWGDVMYDTLVP 166
Query: 199 TTPLGKMIG-SVCCVCGVLVIALPIPII 225
T LGK+ + GVL++ L I +I
Sbjct: 167 GTVLGKIFFVIFIILGGVLLLNLLIGVI 194
>gnl|CDD|219619 pfam07885, Ion_trans_2, Ion channel. This family includes the two
membrane helix type ion channels found in bacteria.
Length = 74
Score = 53.8 bits (130), Expect = 1e-09
Identities = 20/73 (27%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 150 FLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKMIGSV 209
L + VLIF ++ Y E++ + +++ +T+TT+GYGDI P T G++ +
Sbjct: 1 ILLLLVLIFGTVYYSLEEEGWGW---DFLDALYFSFVTLTTIGYGDIVPLTDAGRLFTII 57
Query: 210 CCVCGVLVIALPI 222
+ G+ + L +
Sbjct: 58 YILIGIPLFLLFL 70
>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional.
Length = 393
Score = 43.5 bits (103), Expect = 8e-05
Identities = 23/89 (25%), Positives = 37/89 (41%), Gaps = 13/89 (14%)
Query: 146 LLMLFLAMGVLIFSSLAYFAEKDEHDTKFVSIPETFWWAGITMTTVGYGDICPTTPLGKM 205
L+ + G L D S+ F+++ +TM+TVGYGDI P + ++
Sbjct: 146 SLLFYSTFGALYLG--------DGFSPPIESLSTAFYFSIVTMSTVGYGDIVPVSESARL 197
Query: 206 IGSVCCVCGVLVIALPI-----PIIVNNF 229
+ G+ V A I P+I N
Sbjct: 198 FTISVIILGITVFATSISAIFGPVIRGNL 226
>gnl|CDD|219699 pfam08016, PKD_channel, Polycystin cation channel. This family
contains the cation channel region of PKD1 and PKD2
proteins.
Length = 423
Score = 36.9 bits (86), Expect = 0.009
Identities = 32/155 (20%), Positives = 63/155 (40%), Gaps = 25/155 (16%)
Query: 29 DNPKLAIVEAVCITW--FSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLL-- 84
L + F V + ++ E ++ + N++DL + + + L
Sbjct: 205 SLFLLLCEIIFLVFVLYFVVAEITKIR--REGPRYLRSVWNLLDLAIVALSVVVIVLHIY 262
Query: 85 -ESNSTSNEQEVQTRTDQFQDVRRVVQVFRIMRI----------LRILKLARHSTGLQSL 133
+ +T ++V+ F D RV ++ ++ RI L++ K+ R + +
Sbjct: 263 RDFLATQLWKQVEASPVDFTDFDRVARLDQLYRIILAFLLFLTWLKLFKVLRFNRTMSLF 322
Query: 134 GFTLRNSYKEL-----GLLMLFLA---MGVLIFSS 160
TL + KEL ++LFLA +G L+F S
Sbjct: 323 TKTLSRALKELLGFAVMFVILFLAYAQLGYLLFGS 357
>gnl|CDD|233376 TIGR01363, strep_his_triad, streptococcal histidine triad protein.
This model represents the N-terminal half of a family of
Streptococcal proteins that contain a signal peptide and
then up to five repeats of a region that includes a
His-X-X-His-X-His (histidine triad) motif. Three repeats
are found in the seed alignment. Members of this family
from Streptococcus pneumoniae are suggested to cleave
human C3, and the member PhpA has been shown in vaccine
studies to be a protective antigen in mice [Cellular
processes, Pathogenesis].
Length = 348
Score = 31.9 bits (72), Expect = 0.39
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 234 KNQMRREKALKRREAMERAKREGSIVSFHHVNLR----DAFAKSMDLIDVIVDTGEYEWV 289
K ++ R+K +EA E++KRE + V+ R D + + D+I DTG+ V
Sbjct: 149 KEEIARQKQEGSKEAKEKSKREDAAVAEARRQGRYTTDDGYIFNAS--DIIEDTGDAYIV 206
Query: 290 KVETHYHHVTSREL 303
HYH++ EL
Sbjct: 207 PHGDHYHYIPKNEL 220
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 31.8 bits (72), Expect = 0.53
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 182 WWAGITMTTVGYGDIC 197
+W+ TMTTVGYGD+
Sbjct: 256 YWSITTMTTVGYGDLH 271
>gnl|CDD|169983 PRK09579, PRK09579, multidrug efflux protein; Reviewed.
Length = 1017
Score = 30.6 bits (69), Expect = 1.2
Identities = 14/29 (48%), Positives = 19/29 (65%), Gaps = 4/29 (13%)
Query: 224 IIVNNFAEFYKNQMRREKALKRREAMERA 252
I++ FA NQ+R E+ L RREA+E A
Sbjct: 916 ILIVEFA----NQLRHEQGLSRREAIEEA 940
>gnl|CDD|224370 COG1453, COG1453, Predicted oxidoreductases of the aldo/keto
reductase family [General function prediction only].
Length = 391
Score = 30.4 bits (69), Expect = 1.3
Identities = 16/59 (27%), Positives = 29/59 (49%), Gaps = 13/59 (22%)
Query: 241 KALKRREAMERAKREGSIV----SFHHVNLRDAFAKSMDLIDVIVDTGEYEWVKVETHY 295
+ L + +E+AK EG I SFH S ++ IVD +++V+++ +Y
Sbjct: 128 ERLGVFDFLEKAKAEGKIRNAGFSFH---------GSTEVFKEIVDAYPWDFVQLQYNY 177
>gnl|CDD|151813 pfam11373, DUF3175, Protein of unknown function (DUF3175). This
family of proteins with unknown function appears to be
restricted to Proteobacteria.
Length = 86
Score = 28.1 bits (63), Expect = 1.5
Identities = 14/41 (34%), Positives = 18/41 (43%), Gaps = 10/41 (24%)
Query: 232 FYKNQMRREKALKRREAMERAKREGSIVSFHHVNLRDAFAK 272
FY N+ R +R +ERAK E LR AF +
Sbjct: 56 FYINRAGRNLPKTQRATLERAKDE----------LRKAFGR 86
>gnl|CDD|131664 TIGR02615, spoVE, stage V sporulation protein E. This model
represents an exception within the members of the FtsW
model TIGR02614. This exception occurs only in
endospore-forming genera such as Bacillus, Geobacillus,
and Oceanobacillus. Like FtsW, members are found in a
peptidoglycan operon context, but in these genera they
part of a larger set of paralogs (not just the pair FtsW
and RodA) and are required specifically for sporulation,
not for viability [Cell envelope, Biosynthesis and
degradation of murein sacculus and peptidoglycan,
Cellular processes, Sporulation and germination].
Length = 354
Score = 29.0 bits (65), Expect = 3.2
Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 146 LLMLFLAMG-VLIFSSLAYFAEKDEHDTKFVSIPETFWWAGI---TMTTVGYGDICPTTP 201
++ML +A+G V+++S+ AY+AE + + F + WA + M D
Sbjct: 7 VIMLLVAIGVVMVYSASAYWAEY-KFNDSFYFLKRQLLWAILGVFAMFFTMNIDYHTWKR 65
Query: 202 LGKMIGSVCCVCGVLVIALPIPIIVNN 228
KM+ +C V +LV+ + + N
Sbjct: 66 WAKMLMVICFVLLLLVLIPGVGMERNG 92
>gnl|CDD|226442 COG3932, COG3932, Uncharacterized ABC-type transport system,
permease components [General function prediction only].
Length = 209
Score = 28.5 bits (64), Expect = 3.8
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 199 TTPLGKMIGSVCCVCGVLVIALPIP 223
PLG+ I +C + +++ LPIP
Sbjct: 126 QGPLGRRINGICIMLAAILLMLPIP 150
>gnl|CDD|216441 pfam01337, Barstar, Barstar (barnase inhibitor).
Length = 83
Score = 26.8 bits (60), Expect = 4.1
Identities = 13/43 (30%), Positives = 18/43 (41%), Gaps = 2/43 (4%)
Query: 211 CVCGVLVIALPIPIIVNNFAEFYKNQMRREKALKR--REAMER 251
C+ +L I LP+ I+ K R +AL EA E
Sbjct: 38 CLTDLLGIPLPLEIVFVGLPALKKRLPRDFEALLLLFDEAEEE 80
>gnl|CDD|238572 cd01167, bac_FRK, Fructokinases (FRKs) mainly from bacteria and
plants are enzymes with high specificity for fructose,
as are all FRKs, but they catalyzes the conversion of
fructose to fructose-6-phosphate, which is an entry
point into glycolysis via conversion into
glucose-6-phosphate. This is in contrast to FRKs [or
ketohexokinases (KHKs)] from mammalia and halophilic
archaebacteria, which phosphorylate fructose to
fructose-1-phosphate.
Length = 295
Score = 28.4 bits (64), Expect = 4.7
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 1/25 (4%)
Query: 246 REAMERAKREGSIVSFHHVNLRDAF 270
E +E AK+ G ++SF NLR
Sbjct: 141 LELLEAAKKAGVLISF-DPNLRPPL 164
>gnl|CDD|236514 PRK09434, PRK09434, aminoimidazole riboside kinase; Provisional.
Length = 304
Score = 28.4 bits (64), Expect = 4.8
Identities = 12/22 (54%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 247 EAMERAKREGSIVSFHHVNLRD 268
EAM R K G VSF NLR+
Sbjct: 141 EAMRRIKAAGGFVSF-DPNLRE 161
>gnl|CDD|183341 PRK11858, aksA, trans-homoaconitate synthase; Reviewed.
Length = 378
Score = 28.2 bits (64), Expect = 5.8
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 233 YKNQMRREKALKR-REAMERAKREGSIVSF 261
+K + RE+ L+R EA+E AK G VSF
Sbjct: 105 HKLKKTREEVLERMVEAVEYAKDHGLYVSF 134
>gnl|CDD|206063 pfam13892, DBINO, DNA-binding domain. DBINO is a DNA-binding
domain found on global transcription activator SNF2L1
proteins and chromatin re-modelling proteins.
Length = 140
Score = 27.2 bits (61), Expect = 5.9
Identities = 11/27 (40%), Positives = 19/27 (70%), Gaps = 3/27 (11%)
Query: 232 FYKNQMRREKALKRR---EAMERAKRE 255
F+K + E+ L++R EA+E+AK+E
Sbjct: 77 FWKKNEKEERELRKRAEKEALEQAKKE 103
>gnl|CDD|227589 COG5264, VTC1, Vacuolar transporter chaperone [Posttranslational
modification, protein turnover, chaperones].
Length = 126
Score = 27.0 bits (60), Expect = 6.7
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 4/47 (8%)
Query: 121 LKLARHSTGLQSLGFTLRNSYKELGLLM----LFLAMGVLIFSSLAY 163
L + L LGF L NS LG++ +A+ ++ + Y
Sbjct: 36 LSWLSVTVLLGGLGFALYNSGDRLGMISAYVFTIVAIFCGFYALMLY 82
>gnl|CDD|218810 pfam05916, Sld5, GINS complex protein. The eukaryotic GINS complex
is essential for the initiation and elongation phases of
DNA replication. It consists of four paralogous protein
subunits (Sld5, Psf1, Psf2 and Psf3), all of which are
included in this family. The GINS complex is conserved
from yeast to humans, and has been shown in human to
bind directly to DNA primase.
Length = 106
Score = 26.8 bits (59), Expect = 7.1
Identities = 22/97 (22%), Positives = 35/97 (36%), Gaps = 20/97 (20%)
Query: 43 WFSVEYLLRLGASPEKWKFFKGGLNVIDLLAIMPYYISLFLLESNSTSNEQEVQTRTDQF 102
S+E L L A P+ + L + PY+ L L N
Sbjct: 24 ELSLEVLNALKAEPKN------VDTKLQLSKLPPYFYELAELLLELLRN----------- 66
Query: 103 QDVRRVVQVFRIMRILRILKLARHSTGLQSLGFTLRN 139
+R+++ + +R+ +I KLA H G L N
Sbjct: 67 ---KRLLREYLRIRLRKIEKLAWHLAGGNESEDLLDN 100
>gnl|CDD|219261 pfam07000, DUF1308, Protein of unknown function (DUF1308). This
family consists of several hypothetical eukaryotic
sequences of around 400 residues in length. The function
of this family is unknown.
Length = 355
Score = 27.7 bits (62), Expect = 7.8
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 250 ERAKREGSIVSFHHV-NLRDAFAKSMDL-IDVIVDTGEYEWVKVET 293
+ A+R + + ++D + +D++ D G EWVKV T
Sbjct: 41 DIAERCPGVTAVGKRFKVKDRSGDRKSVEVDIVADGGH-EWVKVST 85
>gnl|CDD|177941 PLN02306, PLN02306, hydroxypyruvate reductase.
Length = 386
Score = 27.9 bits (62), Expect = 8.4
Identities = 12/39 (30%), Positives = 18/39 (46%)
Query: 226 VNNFAEFYKNQMRREKALKRREAMERAKREGSIVSFHHV 264
V + +F K + KR +ME RE ++S H V
Sbjct: 207 VTAYGQFLKANGEQPVTWKRASSMEEVLREADVISLHPV 245
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 0.138 0.418
Gapped
Lambda K H
0.267 0.0753 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,864,365
Number of extensions: 1547002
Number of successful extensions: 2234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2222
Number of HSP's successfully gapped: 43
Length of query: 306
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 209
Effective length of database: 6,635,264
Effective search space: 1386770176
Effective search space used: 1386770176
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)