RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780693|ref|YP_003065106.1| transcriptional regulator
protein [Candidatus Liberibacter asiaticus str. psy62]
(235 letters)
>gnl|CDD|99777 cd06170, LuxR_C_like, C-terminal DNA-binding domain of LuxR-like
proteins. This domain contains a helix-turn-helix motif
and binds DNA. Proteins belonging to this group are
response regulators; some act as transcriptional
activators, others as transcriptional repressors. Many
are active as homodimers. Many are two domain proteins
in which the DNA binding property of the C-terminal DNA
binding domain is modulated by modifications of the
N-terminal domain. For example in the case of Lux R
which participates in the regulation of gene expression
in response to fluctuations in cell-population density
(quorum-sensing), a signaling molecule, the pheromone
Acyl HSL (N-acyl derivatives of homoserine lactone),
binds to the N-terminal domain and leads to LuxR
dimerization. For others phophorylation of the
N-terminal domain leads to multimerization, for example
Escherichia coli NarL and Sinorhizobium melilot FixJ.
NarL controls gene expression of many
respiratory-related operons when environmental nitrate
or nitrite is present under anerobic conditions. FixJ is
involved in the transcriptional activation of nitrogen
fixation genes. The group also includes small proteins
which lack an N-terminal signaling domain, such as
Bacillus subtilis GerE. GerE is dimeric and acts in
conjunction with sigmaK as an activator or a repressor
modulating the expression of various genes in particular
those encoding the spore-coat. These LuxR family
regulators may share a similar organization of their
target binding sites. For example the LuxR dimer binds
the lux box, a 20bp inverted repeat, GerE dimers bind
two 12bp consensus sequences in inverted orientation
having the central four bases overlap, and the NarL
dimer binds two 7bp inverted repeats separated by 2 bp..
Length = 57
Score = 70.6 bits (174), Expect = 3e-13
Identities = 25/57 (43%), Positives = 35/57 (61%)
Query: 174 LTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIR 230
LT RE L+L +G T++EIA+ LG+S TV +L + KL +R Q +A AIR
Sbjct: 1 LTPREREVLRLLAEGKTNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQLVAYAIR 57
>gnl|CDD|32632 COG2771, CsgD, DNA-binding HTH domain-containing proteins
[Transcription].
Length = 65
Score = 65.0 bits (158), Expect = 2e-11
Identities = 25/61 (40%), Positives = 36/61 (59%)
Query: 174 LTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIRFGY 233
LT RE L+L G +++EIA LG+S TV +L + KL NR++ +A A+R G
Sbjct: 5 LTPREREILRLVAQGKSNKEIARILGISEETVKTHLRNIYRKLGVKNRVELVALALRLGL 64
Query: 234 I 234
I
Sbjct: 65 I 65
>gnl|CDD|32379 COG2197, CitB, Response regulator containing a CheY-like receiver
domain and an HTH DNA-binding domain [Signal
transduction mechanisms / Transcription].
Length = 211
Score = 63.4 bits (154), Expect = 5e-11
Identities = 33/112 (29%), Positives = 53/112 (47%), Gaps = 6/112 (5%)
Query: 129 NGYVIFTSEFLMLANEVIIEAHGACY------QVITDFLELFKKRSSAARNLTERETSCL 182
+GY++ + L + A G Y + + L + A LT RE L
Sbjct: 98 DGYLLKDASPEELVEAIRAVAAGGTYLPPDIARKLAGLLPSSSAEAPLAELLTPRELEVL 157
Query: 183 QLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIRFGYI 234
+L +G +++EIAE+L LS TV ++ + KL NR +A +A+R G I
Sbjct: 158 RLLAEGLSNKEIAEELNLSEKTVKTHVSNILRKLGVRNRTEAAIRALRLGLI 209
>gnl|CDD|109261 pfam00196, GerE, Bacterial regulatory proteins, luxR family.
Length = 58
Score = 59.9 bits (146), Expect = 6e-10
Identities = 19/56 (33%), Positives = 33/56 (58%)
Query: 173 NLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKA 228
+L+ RE L+L G +++EIA+ LG+S TV + + KL+ +R++ I A
Sbjct: 3 SLSPREREVLRLLAAGKSNKEIADILGISEKTVKVHRSNIMRKLNVHSRVELIRLA 58
>gnl|CDD|32733 COG2909, MalT, ATP-dependent transcriptional regulator
[Transcription].
Length = 894
Score = 54.2 bits (130), Expect = 3e-08
Identities = 24/74 (32%), Positives = 38/74 (51%)
Query: 159 DFLELFKKRSSAARNLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDA 218
E F + L++RE L L G ++EEIA++L +S+ TV ++ + KL
Sbjct: 817 HLDEEFVEGLLNELPLSQRELEVLGLIAQGLSNEEIAQELFISLTTVKTHIRNIYQKLGV 876
Query: 219 VNRIQAIAKAIRFG 232
NR QA+ +A G
Sbjct: 877 ANRTQAVQRAKELG 890
>gnl|CDD|34204 COG4566, TtrR, Response regulator [Signal transduction mechanisms].
Length = 202
Score = 36.8 bits (85), Expect = 0.005
Identities = 18/60 (30%), Positives = 29/60 (48%)
Query: 173 NLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIRFG 232
LT RE L L G +++IA LG+S TV + + K+ A + + + A+ G
Sbjct: 142 TLTPRERQVLDLVVRGLMNKQIAFDLGISERTVELHRANVMEKMQARSLAELVRMALSLG 201
>gnl|CDD|100119 cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers to the most
C-terminal of four conserved domains found in
Escherichia coli (Ec) sigma70, the main housekeeping
sigma, and related sigma-factors (SFs). A SF is a
dissociable subunit of RNA polymerase, it directs
bacterial or plastid core RNA polymerase to specific
promoter elements located upstream of transcription
initiation points. The SR4 of Ec sigma70 and other
essential primary SFs contact promoter sequences located
35 base-pairs upstream of the initiation point,
recognizing a 6-base-pair -35 consensus TTGACA. Sigma70
related SFs also include SFs which are dispensable for
bacterial cell growth for example Ec sigmaS, SFs which
activate regulons in response to a specific signal for
example heat-shock Ec sigmaH, and a group of SFs which
includes the extracytoplasmic function (ECF) SFs and is
typified by Ec sigmaE which contains SR2 and -4 only.
ECF SFs direct the transcription of genes that regulate
various responses including periplasmic stress and
pathogenesis. Ec sigmaE SR4 also contacts the -35
element, but recognizes a different consensus (a
7-base-pair GGAACTT). Plant SFs recognize sigma70 type
promoters and direct transcription of the major plastid
RNA polymerase, plastid-encoded RNA polymerase (PEP)..
Length = 55
Score = 35.2 bits (82), Expect = 0.017
Identities = 21/44 (47%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 174 LTERETSCLQLA-GDGYTSEEIAEKLGLSVHTVNAYLGSATVKL 216
L ERE + L G+G + EEIAE LG+S TV L A KL
Sbjct: 11 LPEREREVILLRFGEGLSYEEIAEILGISRSTVRQRLHRALKKL 54
>gnl|CDD|31783 COG1595, RpoE, DNA-directed RNA polymerase specialized sigma
subunit, sigma24 homolog [Transcription].
Length = 182
Score = 34.3 bits (78), Expect = 0.032
Identities = 20/51 (39%), Positives = 25/51 (49%), Gaps = 1/51 (1%)
Query: 169 SAARNLTERETSCLQLA-GDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDA 218
A L R+ L +G + EEIAE LG+SV TV + L A KL
Sbjct: 123 RALARLPPRQREAFLLRYLEGLSYEEIAEILGISVGTVKSRLHRARKKLRE 173
>gnl|CDD|146939 pfam04545, Sigma70_r4, Sigma-70, region 4. Region 4 of sigma-70
like sigma-factors are involved in binding to the -35
promoter element via a helix-turn-helix motif. Due to
the way Pfam works, the threshold has been set
artificially high to prevent overlaps with other
helix-turn-helix families. Therefore there are many
false negatives.
Length = 50
Score = 33.9 bits (79), Expect = 0.034
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 174 LTERETSCLQLA-GDGYTSEEIAEKLGLSVHTV 205
L RE L L G+G T EEI E+LG+S V
Sbjct: 5 LPPREREVLVLRFGEGLTLEEIGERLGISRERV 37
>gnl|CDD|143331 cd01392, HTH_LacI, Helix-turn-helix (HTH) DNA binding domain of the
LacI family of transcriptional regulators. HTH-DNA
binding domain of the LacI (lactose operon repressor)
family of bacterial transcriptional regulators and their
putative homologs found in plants. The LacI family has
more than 500 members distributed among almost all
bacterial species. The monomeric proteins of the LacI
family contain common structural features that include a
small DNA-binding domain with a helix-turn-helix motif
in the N-terminus, a regulatory ligand-binding domain
which exhibits the type I periplasmic binding protein
fold in the C-terminus for oligomerization and for
effector binding, and an approximately 18-amino acid
linker connecting these two functional domains. In
LacI-like transcriptional regulators, the ligands are
monosaccharides including lactose, ribose, fructose,
xylose, arabinose, galactose/glucose, and other sugars,
with a few exceptions. When the C-terminal domain of the
LacI family repressor binds its ligand, it undergoes a
conformational change which affects the DNA-binding
affinity of the repressor. In Escherichia coli, LacI
represses transcription by binding with high affinity to
the lac operon at a specific operator DNA sequence until
it interacts with the physiological inducer allolactose
or a non-degradable analog IPTG
(isopropyl-beta-D-thiogalactopyranoside). Induction of
the repressor lowers its affinity for the operator
sequence, thereby allowing transcription of the lac
operon structural genes (lacZ, lacY, and LacA). The lac
repressor occurs as a tetramer made up of two functional
dimers. Thus, two DNA binding domains of a dimer are
required to bind the inverted repeat sequences of the
operator DNA binding sites.
Length = 52
Score = 32.8 bits (76), Expect = 0.090
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 193 EIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAIRFGYI 234
+IA G+SV TV+ L G V + R+ A A+ + GY
Sbjct: 2 DIARAAGVSVATVSRVLNGKPRVSEETRERVLAAAEEL--GYR 42
>gnl|CDD|33219 COG3413, COG3413, Predicted DNA binding protein [General function
prediction only].
Length = 215
Score = 30.4 bits (68), Expect = 0.47
Identities = 17/52 (32%), Positives = 31/52 (59%), Gaps = 8/52 (15%)
Query: 173 NLTERETSCLQLAGD-GY-------TSEEIAEKLGLSVHTVNAYLGSATVKL 216
+LT+R+ L+LA GY + +++A++LG+S T++ +L A KL
Sbjct: 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAERKL 206
>gnl|CDD|31797 COG1609, PurR, Transcriptional regulators [Transcription].
Length = 333
Score = 30.3 bits (68), Expect = 0.49
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 190 TSEEIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAIRFGYI 234
T +++A+ G+S TV+ L GS V + ++ A K + GY
Sbjct: 2 TIKDVAKLAGVSKATVSRVLNGSPYVSEETREKVLAAIKEL--GYR 45
>gnl|CDD|113729 pfam04967, HTH_10, HTH DNA binding domain.
Length = 53
Score = 30.3 bits (69), Expect = 0.51
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 8/51 (15%)
Query: 174 LTERETSCLQLAGD-GY-------TSEEIAEKLGLSVHTVNAYLGSATVKL 216
LT+R+ L+LA GY T +++A++LG+S T++ +L A KL
Sbjct: 1 LTDRQREILRLAYKMGYFDYPRRVTLKDLAKELGISKSTLSEHLRRAESKL 51
>gnl|CDD|31509 COG1318, COG1318, Predicted transcriptional regulators
[Transcription].
Length = 182
Score = 29.2 bits (65), Expect = 0.97
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 188 GYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRI 222
G T EIAE+LG + TV +L T V
Sbjct: 61 GMTISEIAEELGRTEQTVRNHLKGETKAGQLVRET 95
>gnl|CDD|32535 COG2390, DeoR, Transcriptional regulator, contains sigma
factor-related N-terminal domain [Transcription].
Length = 321
Score = 29.4 bits (66), Expect = 0.98
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 187 DGYTSEEIAEKLGLSVHTVNAYLGSA 212
+G T EIAE+LG+S TV+ L A
Sbjct: 25 EGLTQSEIAERLGISRATVSRLLAKA 50
>gnl|CDD|144828 pfam01381, HTH_3, Helix-turn-helix. This large family of DNA
binding helix-turn helix proteins includes Cro and CI.
Length = 55
Score = 28.7 bits (65), Expect = 1.5
Identities = 14/44 (31%), Positives = 25/44 (56%), Gaps = 4/44 (9%)
Query: 188 GYTSEEIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAIR 230
G + EE+AEKLG+S T++ G L+ ++ +A+A+
Sbjct: 9 GLSQEELAEKLGVSRSTISKIENGKREPSLE---TLKKLAEALG 49
>gnl|CDD|33163 COG3355, COG3355, Predicted transcriptional regulator
[Transcription].
Length = 126
Score = 28.3 bits (63), Expect = 1.7
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 4/65 (6%)
Query: 173 NLTERETSCLQL---AGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAI 229
L+E + + T +E+AE L S TV L + ++ V R + K
Sbjct: 24 GLSELDVEVYKALLEENGPLTVDELAEILNRSRSTVYRSLQN-LLEAGLVEREKVNLKGG 82
Query: 230 RFGYI 234
+ Y+
Sbjct: 83 GYYYL 87
>gnl|CDD|31547 COG1356, COG1356, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 143
Score = 28.0 bits (62), Expect = 2.5
Identities = 15/57 (26%), Positives = 23/57 (40%)
Query: 174 LTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGSATVKLDAVNRIQAIAKAIR 230
LTE++ L L G T EIA L + V+A A ++ + + I
Sbjct: 9 LTEQQIKVLVLREKGLTQSEIARILKTTRANVSAIEKRALENIEKARNTLLLWEQIN 65
>gnl|CDD|37022 KOG1811, KOG1811, KOG1811, Predicted Zn2+-binding protein, contains
FYVE domain [General function prediction only].
Length = 1141
Score = 27.1 bits (59), Expect = 3.9
Identities = 24/88 (27%), Positives = 33/88 (37%), Gaps = 7/88 (7%)
Query: 131 YVIFTSEFLMLANEVIIEAHGACYQVITDFLELFKKRSSAARNLTERETSCLQLAGDGYT 190
+F +L E GA Y + L+LF A + LQLAG G
Sbjct: 124 IAGKRLKFFLL----FEEMFGASYAHCSS-LKLFMGEQLEAECKEDPAGLALQLAGKGAV 178
Query: 191 SE--EIAEKLGLSVHTVNAYLGSATVKL 216
E+AE+ G S+ + LG K
Sbjct: 179 GAALEVAEEAGFSIDERDELLGRQAEKA 206
>gnl|CDD|28977 cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins.
Prokaryotic DNA binding proteins belonging to the
xenobiotic response element family of transcriptional
regulators..
Length = 58
Score = 27.0 bits (60), Expect = 4.0
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 188 GYTSEEIAEKLGLSVHTVNAYL-GSATVKLDAVNRIQAIAKAI 229
G T EE+AEKLG+S T++ G L+ ++ +AKA+
Sbjct: 12 GLTQEELAEKLGVSRSTISRIENGKRNPSLE---TLEKLAKAL 51
>gnl|CDD|109553 pfam00502, Phycobilisome, Phycobilisome protein.
Length = 157
Score = 26.8 bits (60), Expect = 5.0
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 204 TVNAYLGSATVKLDAVNRIQAIAKAI 229
++ ++ +L+A + A A I
Sbjct: 21 SLKGFVQRGNARLEAAEALTANASKI 46
>gnl|CDD|33221 COG3415, COG3415, Transposase and inactivated derivatives [DNA
replication, recombination, and repair].
Length = 138
Score = 26.8 bits (59), Expect = 5.1
Identities = 10/39 (25%), Positives = 20/39 (51%)
Query: 173 NLTERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYLGS 211
+ RE + G+G + E A++ G+S+ TV ++
Sbjct: 6 SNDLRERVVDAVVGEGLSCREAAKRFGVSISTVYRWVRR 44
>gnl|CDD|133386 cd01111, HTH_MerD, Helix-Turn-Helix DNA binding domain of the MerD
transcription regulator. Helix-turn-helix (HTH)
transcription regulator MerD. The putative secondary
regulator of mercury resistance (mer) operons, MerD, has
been shown to down-regulate the expression of this
operon in gram-negative bacteria. It binds to the same
operator DNA as MerR that activates transcription of the
operon in the presence of mercury ions. The MerD protein
shares the N-terminal DNA binding domain with other
transcription regulators of the MerR superfamily, which
promote transcription by reconfiguring the spacer
between the -35 and -10 promoter elements. A typical
MerR regulator is comprised of two distinct domains that
harbor the regulatory (effector-binding) site and the
active (DNA-binding) site. Their N-terminal domains are
conserved and contain predicted winged HTH motifs that
mediate DNA binding, while the dissimilar C-terminal
domains bind specific coactivator molecules such as
metal ions, drugs, and organic substrates.
Length = 107
Score = 27.0 bits (60), Expect = 5.3
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 189 YTSEEIAEKLGLSVHTVNAYL 209
Y+ ++A G+SVH V YL
Sbjct: 1 YSISQLALDAGVSVHIVRDYL 21
>gnl|CDD|133384 cd01109, HTH_YyaN, Helix-Turn-Helix DNA binding domain of the
MerR-like transcription regulators YyaN and YraB.
Putative helix-turn-helix (HTH) MerR-like transcription
regulators of Bacillus subtilis, YyaN and YraB, and
related proteins; N-terminal domain. Based on sequence
similarity, these proteins are predicted to function as
transcription regulators that mediate responses to
stress in eubacteria. They belong to the MerR
superfamily of transcription regulators that promote
transcription of various stress regulons by
reconfiguring the operator sequence located between the
-35 and -10 promoter elements. A typical MerR regulator
is comprised of distinct domains that harbor the
regulatory (effector-binding) site and the active
(DNA-binding) site. Their N-terminal domains are
homologous and contain a DNA-binding winged HTH motif,
while the C-terminal domains are often dissimilar and
bind specific coactivator molecules such as metal ions,
drugs, and organic substrates.
Length = 113
Score = 26.7 bits (60), Expect = 5.6
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 189 YTSEEIAEKLGLSVHT 204
YT +E+AEK GLS T
Sbjct: 1 YTIKEVAEKTGLSADT 16
>gnl|CDD|32494 COG2345, COG2345, Predicted transcriptional regulator
[Transcription].
Length = 218
Score = 26.4 bits (58), Expect = 6.9
Identities = 10/35 (28%), Positives = 17/35 (48%)
Query: 175 TERETSCLQLAGDGYTSEEIAEKLGLSVHTVNAYL 209
T L +++E+AE+LG+S V +L
Sbjct: 12 TRERILELLKKSGPVSADELAEELGISPMAVRRHL 46
>gnl|CDD|35043 COG5484, COG5484, Uncharacterized conserved protein [Function
unknown].
Length = 279
Score = 26.3 bits (57), Expect = 7.0
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 187 DGYTSEEIAEKLGLSVHTVNAY 208
G ++IAEKLG+S +T+ ++
Sbjct: 18 KGMKLKDIAEKLGVSPNTIKSW 39
>gnl|CDD|36988 KOG1777, KOG1777, KOG1777, Putative Zn-finger protein [General
function prediction only].
Length = 625
Score = 26.5 bits (58), Expect = 7.3
Identities = 19/76 (25%), Positives = 26/76 (34%), Gaps = 10/76 (13%)
Query: 20 RLHLIQNRIKARNFALYTINSALDFPRRQQLICELHN------YDLDSGDIPNILIETYG 73
++N I A NFA I S + RQ E+ Y G E YG
Sbjct: 267 LGQFLENSIYANNFAGVWITSNSNPTIRQ---NEIIFGAQGGVYIFGDGRGLFEFNEIYG 323
Query: 74 DDFL-FHFNSGLLPII 88
+ L + PI+
Sbjct: 324 NALLGIQIRTNSTPIV 339
>gnl|CDD|31840 COG1654, BirA, Biotin operon repressor [Transcription].
Length = 79
Score = 26.0 bits (57), Expect = 8.0
Identities = 10/39 (25%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 172 RNLTERETSCLQLAGDGYTS-EEIAEKLGLSVHTVNAYL 209
++ ++ L L + S E++AE+LG+S V ++
Sbjct: 2 KDTSQMLLLLLLLLTGNFVSGEKLAEELGISRTAVWKHI 40
>gnl|CDD|34203 COG4565, CitB, Response regulator of citrate/malate metabolism
[Transcription / Signal transduction mechanisms].
Length = 224
Score = 26.3 bits (58), Expect = 8.2
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 182 LQLAGDGYTSEEIAEKLGLSVHTVNAYL 209
L+ T+EE+A+ LG+S T YL
Sbjct: 167 LKEPDQELTAEELAQALGISRVTARRYL 194
>gnl|CDD|28976 cd00092, HTH_CRP, helix_turn_helix, cAMP Regulatory protein
C-terminus; DNA binding domain of prokaryotic regulatory
proteins belonging to the catabolite activator protein
family..
Length = 67
Score = 26.0 bits (57), Expect = 8.4
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 190 TSEEIAEKLGLSVHTVNAYLGS 211
T +EIA+ LGL+ TV+ L
Sbjct: 27 TRQEIADYLGLTRETVSRTLKE 48
>gnl|CDD|144749 pfam01268, FTHFS, Formate--tetrahydrofolate ligase.
Length = 555
Score = 26.2 bits (59), Expect = 8.9
Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 192 EEIAEKLGLSVHTVNAYLGS--ATVKLDAVNRIQ 223
EIAEKLGL + Y G A V LD ++R++
Sbjct: 17 TEIAEKLGLPEDELEPY-GKYKAKVSLDVLDRLK 49
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.138 0.395
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,735,490
Number of extensions: 143139
Number of successful extensions: 439
Number of sequences better than 10.0: 1
Number of HSP's gapped: 439
Number of HSP's successfully gapped: 38
Length of query: 235
Length of database: 6,263,737
Length adjustment: 91
Effective length of query: 144
Effective length of database: 4,297,318
Effective search space: 618813792
Effective search space used: 618813792
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 (21.9 bits)
S2: 56 (25.2 bits)