RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15186
(151 letters)
>gnl|CDD|143944 pfam00178, Ets, Ets-domain.
Length = 85
Score = 117 bits (296), Expect = 1e-35
Identities = 48/73 (65%), Positives = 57/73 (78%), Gaps = 3/73 (4%)
Query: 65 QIQLWQFLLELLSDSTNANCITWEG-TNGEFKLTDPDEVARRWGERKSKPNMNYDKLSRA 123
QIQLWQFLLELL+D N + I W G GEFKL DP+EVAR WG RK+KPNMNYDKLSRA
Sbjct: 1 QIQLWQFLLELLTDQDNRDFIRWTGRDKGEFKLVDPEEVARLWGIRKNKPNMNYDKLSRA 60
Query: 124 LRTHSRR--LRKI 134
LR + ++ +RK+
Sbjct: 61 LRYYYKKGIIRKV 73
Score = 29.2 bits (66), Expect = 0.25
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 1 MTKVHGKRYAYKFDF 15
+ KV GKR YKF
Sbjct: 70 IRKVKGKRLVYKFVS 84
>gnl|CDD|197710 smart00413, ETS, erythroblast transformation specific domain.
variation of the helix-turn-helix motif.
Length = 87
Score = 115 bits (289), Expect = 2e-34
Identities = 44/73 (60%), Positives = 56/73 (76%), Gaps = 3/73 (4%)
Query: 65 QIQLWQFLLELLSDSTNANCITWEGTN-GEFKLTDPDEVARRWGERKSKPNMNYDKLSRA 123
IQLWQFLL+LL D N++ I W + GEFKL DP+EVAR WG+RK+KPNMNY+KLSRA
Sbjct: 1 GIQLWQFLLDLLLDPENSDIIKWTDRDEGEFKLVDPEEVARLWGQRKNKPNMNYEKLSRA 60
Query: 124 LRTHSRR--LRKI 134
LR + ++ L K+
Sbjct: 61 LRYYYKKNILEKV 73
Score = 30.3 bits (69), Expect = 0.098
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 1 MTKVHGKRYAYKFDFQGL 18
+ KV GKR YKF L
Sbjct: 70 LEKVPGKRLVYKFVKNPL 87
>gnl|CDD|238225 cd00383, trans_reg_C, Effector domain of response regulator.
Bacteria and certain eukaryotes like protozoa and higher
plants use two-component signal transduction systems to
detect and respond to changes in the environment. The
system consists of a sensor histidine kinase and a
response regulator. The former autophosphorylates in a
histidine residue on detecting an external stimulus. The
phosphate is then transferred to an invariant aspartate
residue in a highly conserved receiver domain of the
response regulator. Phosphorylation activates a variable
effector domain of the response regulator, which
triggers the cellular response. The C-terminal effector
domain contains DNA and RNA polymerase binding sites.
Several dimers or monomers bind head to tail to small
tandem repeats upstream of the genes. The RNA polymerase
binding sites interact with the alpha or sigma subunite
of RNA polymerase.
Length = 95
Score = 27.4 bits (62), Expect = 1.5
Identities = 20/75 (26%), Positives = 27/75 (36%), Gaps = 24/75 (32%)
Query: 76 LSDSTNANCITWEG-----TNGEFKL-----TDPDEVARR-------WGERKSKPNMNYD 118
L +T +G T EF+L +P V R WG+ +YD
Sbjct: 6 LVLDPARREVTRDGEPVELTPKEFELLELLARNPGRVLSREQLLEAVWGD-------DYD 58
Query: 119 KLSRALRTHSRRLRK 133
R + H RLRK
Sbjct: 59 VDDRTVDVHISRLRK 73
>gnl|CDD|214866 smart00862, Trans_reg_C, Transcriptional regulatory protein, C
terminal. This domain is almost always found associated
with the response regulator receiver domain. It may play
a role in DNA binding.
Length = 76
Score = 26.4 bits (59), Expect = 2.5
Identities = 16/56 (28%), Positives = 20/56 (35%), Gaps = 19/56 (33%)
Query: 90 TNGEFKL-----TDPDEVARR-------WGERKSKPNMNYDKLSRALRTHSRRLRK 133
T EF+L +P V R WG+ + D L H RLRK
Sbjct: 7 TPKEFRLLELLLRNPGRVVSREELLEAVWGD-------DEDVDDNTLDVHISRLRK 55
>gnl|CDD|184642 PRK14353, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 446
Score = 27.5 bits (62), Expect = 2.7
Identities = 13/36 (36%), Positives = 15/36 (41%), Gaps = 6/36 (16%)
Query: 72 LLELLSDSTNANCITWEGTNGEFKLTDPDEVARRWG 107
L LL N N GE+ LTD +AR G
Sbjct: 184 ALALLDRVGNDN------AKGEYYLTDIVAIARAEG 213
>gnl|CDD|225293 COG2445, COG2445, Uncharacterized conserved protein [Function
unknown].
Length = 138
Score = 26.9 bits (60), Expect = 2.8
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 5/51 (9%)
Query: 98 DPDEVARRWGERKSKPNMNYDKLSRALRTHSRRLRKIFIPGLGNIDKEIVY 148
D+ E P ++L + R I + +D E VY
Sbjct: 66 TYDDCIDILVEEGVIPEEEAEELKKM-----VGFRNILVHRYWAVDPEKVY 111
>gnl|CDD|234292 TIGR03644, marine_trans_1, probable ammonium transporter, marine
subtype. Members of this protein family are well
conserved subclass of putative ammonimum transporters,
belonging to the much broader set of
ammonium/methylammonium transporter described by
TIGR00836. Species with this transporter tend to be
marine bacteria. Partial phylogenetic profiling (PPP)
picks a member of this protein family as the single
best-scoring protein vs. a reference profile for the
marine environment Genome Property for a large number of
different query genomes. This finding by PPP suggests
that this transporter family represents an important
adaptation to the marine environment.
Length = 404
Score = 27.3 bits (61), Expect = 3.5
Identities = 14/55 (25%), Positives = 23/55 (41%), Gaps = 7/55 (12%)
Query: 19 AAATQPAAADPAYKYQSDLFMSSYHHSTKLNFMSSAAGIQSSTGSGQIQLWQFLL 73
D Y SD F ++ F+++A I S + +++LW FLL
Sbjct: 85 GDLIAGFEGDADYSSGSDFFF-------QVVFVATAMSIVSGAVAERMKLWPFLL 132
>gnl|CDD|215942 pfam00486, Trans_reg_C, Transcriptional regulatory protein, C
terminal.
Length = 77
Score = 25.2 bits (56), Expect = 5.6
Identities = 16/56 (28%), Positives = 20/56 (35%), Gaps = 19/56 (33%)
Query: 90 TNGEFKL-----TDPDEVARR-------WGERKSKPNMNYDKLSRALRTHSRRLRK 133
T EF L +P V R WGE ++D + H RLRK
Sbjct: 7 TPKEFDLLELLARNPGRVVSREELLEEVWGE-------DFDVDDNTVDVHISRLRK 55
>gnl|CDD|220823 pfam10605, 3HBOH, 3HB-oligomer hydrolase (3HBOH).
D-(-)-3-hydroxybutyrate oligomer hydrolase (also known
as 3HB-oligomer hydrolase) functions in the degradation
of poly-3-hydroxybutyrate (PHB). It catalyzes the
hydrolysis of D(-)-3-hydroxybutyrate oligomers
(3HB-oligomers) into 3HB-monomers.
Length = 689
Score = 26.6 bits (59), Expect = 5.8
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 17 GLAAATQPAAADPA 30
GLA+AT PA A+PA
Sbjct: 48 GLASATAPAFANPA 61
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
0.319 0.132 0.400
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,675,519
Number of extensions: 657787
Number of successful extensions: 611
Number of sequences better than 10.0: 1
Number of HSP's gapped: 609
Number of HSP's successfully gapped: 18
Length of query: 151
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 63
Effective length of database: 7,034,450
Effective search space: 443170350
Effective search space used: 443170350
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (24.4 bits)