RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6107
(161 letters)
>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 = 45.3 bits (108), Expect = 3e-07
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 8/71 (11%)
Query: 81 IFISVWLTAAGIIHLLENSGDPFEFNNPQQLSYWTCVYFLIVTMSTVGYGDVYCQTILGR 140
I + + L + + LE + +YF VT++T+GYGD+ T GR
Sbjct: 1 ILLLLVLIFGTVYYSLEE--------EGWGWDFLDALYFSFVTLTTIGYGDIVPLTDAGR 52
Query: 141 TFLVFFLLVGL 151
F + ++L+G+
Sbjct: 53 LFTIIYILIGI 63
>gnl|CDD|236711 PRK10537, PRK10537, voltage-gated potassium channel; Provisional.
Length = 393
Score = 43.5 bits (103), Expect = 1e-05
Identities = 22/52 (42%), Positives = 30/52 (57%), Gaps = 3/52 (5%)
Query: 100 GDPFEFNNPQQLSYWTCVYFLIVTMSTVGYGDVYCQTILGRTFLVFFLLVGL 151
GD F +P S T YF IVTMSTVGYGD+ + R F + +++G+
Sbjct: 159 GDGF---SPPIESLSTAFYFSIVTMSTVGYGDIVPVSESARLFTISVIILGI 207
>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 = 42.3 bits (100), Expect = 2e-05
Identities = 38/172 (22%), Positives = 70/172 (40%), Gaps = 23/172 (13%)
Query: 4 YFIRFIAASDKLWFMLEMYSFVDYFTIPPSFVSIYLDRTWIGLRFLRALRLMTVPDILQY 63
++FIA K + ++ +D+ + PS VS+ L LR LRL+ + +L+
Sbjct: 14 MLLKFIALGFKRKYFRSPWNILDFLVVLPSLVSLILFLLGEDSGLLRVLRLLRLLRLLRL 73
Query: 64 LNILKT---------SSSIRLAQLVSIFISVWLTAA--------GIIHLLENSGDPFEFN 106
L S L L+ + + + A G + + +
Sbjct: 74 LRRFPGLRTLLQSLGRSLKSLLNLLLLLLLLLFIFAIIGVQLFGGELDKCCDKNENPING 133
Query: 107 NPQQLSYWTCVYFLIVTMSTVGYGDVYCQTILGRT------FLVFFLLVGLV 152
N SY + +L T++T G+GDV T++ T F++F +L G++
Sbjct: 134 NSNFDSYGEALLWLFRTLTTEGWGDVMYDTLVPGTVLGKIFFVIFIILGGVL 185
>gnl|CDD|215625 PLN03192, PLN03192, Voltage-dependent potassium channel;
Provisional.
Length = 823
Score = 41.0 bits (96), Expect = 1e-04
Identities = 41/156 (26%), Positives = 76/156 (48%), Gaps = 26/156 (16%)
Query: 16 WFMLEMYSFVDYFTIP----PSFVS--IYLDRTWIGLRFLRALRLMTVPDILQYL--NIL 67
WF++++ S TIP ++ + L+ ++ L LR RL V + L +I
Sbjct: 140 WFLMDVAS-----TIPFQALAYLITGTVKLNLSYSLLGLLRFWRLRRVKQLFTRLEKDIR 194
Query: 68 KTSSSIRLAQLVSIFISVWLTAAGIIHLLENSGDPFE--------FNNPQQLSYW----T 115
+ IR A+L+S+ + + + AG ++ L P + N ++ S W +
Sbjct: 195 FSYFWIRCARLLSVTLFL-VHCAGCLYYLIADRYPHQGKTWIGAVIPNFRETSLWIRYIS 253
Query: 116 CVYFLIVTMSTVGYGDVYCQTILGRTFLVFFLLVGL 151
+Y+ I TM+TVGYGD++ + F++F++L L
Sbjct: 254 AIYWSITTMTTVGYGDLHAVNTIEMIFIIFYMLFNL 289
>gnl|CDD|224147 COG1226, Kch, Kef-type K+ transport systems, predicted NAD-binding
component [Inorganic ion transport and metabolism].
Length = 212
Score = 31.6 bits (71), Expect = 0.14
Identities = 33/154 (21%), Positives = 53/154 (34%), Gaps = 10/154 (6%)
Query: 1 MVYYFIRFIAASDKLWFMLEMYSFVDYFTIPPSFVSIYLDRTWIGLRFLRALRLMTVPDI 60
+ R + + + IP V I D + LR L L+ V
Sbjct: 16 AIVRLKRHVIIVGFGRVGQIVARALLASGIP--VVVIDSDEDRV--ELLRELGLLVVLGD 71
Query: 61 LQYLNILKTSSSIRLAQLVSIFISVWLTAAGIIHLLENSGDPFEFNNPQQLSYWTCVYFL 120
+L+ ++ I A+ V + +S T I+ L E L+ +
Sbjct: 72 ATREEVLE-AAGIERARAVIVTLSDDATNVFIVLLARAINPELEI-----LARARDLDEA 125
Query: 121 IVTMSTVGYGDVYCQTILGRTFLVFFLLVGLVSD 154
+ T++TVG +V T L LVGL D
Sbjct: 126 VETLTTVGADEVVPPTFESALLLARAALVGLGGD 159
>gnl|CDD|221778 pfam12802, MarR_2, MarR family. The Mar proteins are involved in
the multiple antibiotic resistance, a non-specific
resistance system. The expression of the mar operon is
controlled by a repressor, MarR. A large number of
compounds induce transcription of the mar operon. This
is thought to be due to the compound binding to MarR,
and the resulting complex stops MarR binding to the DNA.
With the MarR repression lost, transcription of the
operon proceeds. The structure of MarR is known and
shows MarR as a dimer with each subunit containing a
winged-helix DNA binding motif.
Length = 60
Score = 29.1 bits (66), Expect = 0.19
Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 9/56 (16%)
Query: 46 LRFLRALRLMTVPDILQYLNILKTSSSIRLAQLVSIFISVWLTAAGIIHLLENSGD 101
L L +TV ++ + L + K + S + +L G++ + GD
Sbjct: 11 LLALARAGGLTVAELARRLGLSKQTVSRLVKRLE---------EKGLVEREPSPGD 57
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
0.334 0.147 0.470
Gapped
Lambda K H
0.267 0.0808 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,687,216
Number of extensions: 808466
Number of successful extensions: 1391
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1385
Number of HSP's successfully gapped: 38
Length of query: 161
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 72
Effective length of database: 6,990,096
Effective search space: 503286912
Effective search space used: 503286912
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 55 (24.8 bits)