RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13561
(99 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 = 51.5 bits (124), Expect = 2e-09
Identities = 32/97 (32%), Positives = 53/97 (54%), Gaps = 12/97 (12%)
Query: 7 YFQCGWNIFDLIVVTASLVDLMTEFVDG-------LSVLRGLRL-----SWTTMKVLLSI 54
YF+ WNI D +VV SLV L+ + L +LR LRL + ++ LL
Sbjct: 27 YFRSPWNILDFLVVLPSLVSLILFLLGEDSGLLRVLRLLRLLRLLRLLRRFPGLRTLLQS 86
Query: 55 IISTIGALGNLTFVLVIVIYIFAVIGMQLFSKDYTSE 91
+ ++ +L NL +L+++++IFA+IG+QLF +
Sbjct: 87 LGRSLKSLLNLLLLLLLLLFIFAIIGVQLFGGELDKC 123
>gnl|CDD|239440 cd03324, rTSbeta_L-fuconate_dehydratase, Human rTS beta is encoded
by the rTS gene which, through alternative RNA splicing,
also encodes rTS alpha whose mRNA is complementary to
thymidylate synthase mRNA. rTS beta expression is
associated with the production of small molecules that
appear to mediate the down-regulation of thymidylate
synthase protein by a novel intercellular signaling
mechanism. A member of this family, from Xanthomonas,
has been characterized to be a L-fuconate dehydratase.
rTS beta belongs to the enolase superfamily of enzymes,
characterized by the presence of an enolate anion
intermediate which is generated by abstraction of the
alpha-proton of the carboxylate substrate by an active
site residue and is stabilized by coordination to the
essential Mg2+ ion.
Length = 415
Score = 28.8 bits (65), Expect = 0.41
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 14 IFDLIVVTASLVDLMTEFVDGL 35
+ D I V+ S + E+VD L
Sbjct: 366 MIDYICVSGSKEGRVIEYVDHL 387
>gnl|CDD|181883 PRK09468, ompR, osmolarity response regulator; Provisional.
Length = 239
Score = 28.0 bits (63), Expect = 0.74
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 5/28 (17%)
Query: 15 FDLIVVTASLVDLMTEFVDGLSVLRGLR 42
F L+V+ DLM DGLS+ R LR
Sbjct: 50 FHLMVL-----DLMLPGEDGLSICRRLR 72
>gnl|CDD|220496 pfam09972, DUF2207, Predicted membrane protein (DUF2207). This
domain, found in various hypothetical bacterial
proteins, has no known function.
Length = 503
Score = 26.2 bits (58), Expect = 3.1
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 50 VLLSIIISTIGALGNLTFVLVIVIYIFAVIGMQLFSKDYTSE 91
+ +I + AL L VLVI I A++ +LF + +T E
Sbjct: 410 LSFILISLVLAALVLLAIVLVIGSVIAAILPRKLFGR-WTPE 450
>gnl|CDD|236738 PRK10701, PRK10701, DNA-binding transcriptional regulator RstA;
Provisional.
Length = 240
Score = 26.1 bits (58), Expect = 3.5
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 24 LVDLMTEFVDGLSVLRGLRLSWTTMKVLLS 53
L+D+M DG+++ R LR W VLL+
Sbjct: 50 LLDIMLPGKDGMTICRDLRPKWQGPIVLLT 79
>gnl|CDD|182665 PRK10710, PRK10710, DNA-binding transcriptional regulator BaeR;
Provisional.
Length = 240
Score = 25.4 bits (56), Expect = 5.3
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 5/27 (18%)
Query: 16 DLIVVTASLVDLMTEFVDGLSVLRGLR 42
DLI L+DLM DGL++ R +R
Sbjct: 56 DLI-----LLDLMLPGTDGLTLCREIR 77
>gnl|CDD|223816 COG0745, OmpR, Response regulators consisting of a CheY-like
receiver domain and a winged-helix DNA-binding domain
[Signal transduction mechanisms / Transcription].
Length = 229
Score = 25.0 bits (55), Expect = 6.8
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 8/44 (18%)
Query: 15 FDLIVVTASLVDLMTEFVDGLSVLRGLRLSWTTMKVLLSIIIST 58
DL+ L+DLM +DGL + R LR + II+ T
Sbjct: 44 PDLV-----LLDLMLPDLDGLELCRRLRAKKGSG---PPIIVLT 79
>gnl|CDD|114410 pfam05684, DUF819, Protein of unknown function (DUF819). This
family contains proteins of unknown function from
archaeal, bacterial and plant species.
Length = 379
Score = 24.7 bits (54), Expect = 9.9
Identities = 22/88 (25%), Positives = 36/88 (40%), Gaps = 8/88 (9%)
Query: 1 MALSNDYFQCGWNI--FDLIVVTASLVDLMTEFVDGLSVLRGLRLSWTTMKVLLSIIIST 58
M L I VVTA++V L+ F +L G S VLL + +
Sbjct: 224 MKLGGYLKNLLTGILGGTWTVVTATIVGLLLAFTRFFELLPG---SEEIGTVLLYVFFAV 280
Query: 59 IGALGNLTFVL---VIVIYIFAVIGMQL 83
IG+ +L +L I ++ ++ + L
Sbjct: 281 IGSTADLWSILTAPSIFLFGLIILAVHL 308
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
0.329 0.143 0.427
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: 5,087,553
Number of extensions: 432857
Number of successful extensions: 1104
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1089
Number of HSP's successfully gapped: 128
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
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 (21.8 bits)
S2: 53 (24.1 bits)