RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254781174|ref|YP_003065587.1| outer membrane assembly
lipoprotein YfiO [Candidatus Liberibacter asiaticus str. psy62]
(271 letters)
>gnl|CDD|33862 COG4105, ComL, DNA uptake lipoprotein [General function prediction
only].
Length = 254
Score = 160 bits (407), Expect = 3e-40
Identities = 85/244 (34%), Positives = 119/244 (48%), Gaps = 2/244 (0%)
Query: 22 FALTIFFSIAVCFLVGWERQSSRDVYLDSVTDVRYQREVYEKAVLFLKEQNFSKAYEYFN 81
L + I + LV S E+Y + + L++ N+ +A +YF
Sbjct: 1 KKLKLLLVIGLLLLVASTGCSGDKDKNG--VYNLPASELYNEGLTELQKGNYEEAIKYFE 58
Query: 82 QCSRDFPFAGVARKSLLMSAFVQYSAGKYQQAASLGEEYITQYPESKNVDYVYYLVGMSY 141
PF+ + ++ L A+ Y G+Y A + + +I YP N DY YYL G+SY
Sbjct: 59 ALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSY 118
Query: 142 AQMIRDVPYDQRATKLMLQYMSRIVERYTNSPYVKGARFYVTVGRNQLAAKEVEIGRYYL 201
I DV DQ A + +V+RY NS Y A+ + + LA E+ I RYYL
Sbjct: 119 FFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYL 178
Query: 202 KRGEYVAAIPRFQLVLANYSDAEHAEEAMARLVEAYVALALMDEAREVVSLIQERYPQGY 261
KRG YVAAI RF+ VL NY D EA+ARL EAY AL L DEA++ ++ YP
Sbjct: 179 KRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ 238
Query: 262 WARY 265
W +
Sbjct: 239 WYKD 242
>gnl|CDD|31915 COG1729, COG1729, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 262
Score = 38.8 bits (90), Expect = 0.002
Identities = 22/93 (23%), Positives = 40/93 (43%), Gaps = 14/93 (15%)
Query: 166 VERYTNSPYVKGARFYVTVGRNQLAAKEVEIGRYYLKRGEYVAAIPRFQLVLANYSDAEH 225
+++Y NS Y A ++ +G +G+Y A F V+ +Y +
Sbjct: 168 IKKYPNSTYTPNAYYW--------------LGESLYAQGDYEDAAYIFARVVKDYPKSPK 213
Query: 226 AEEAMARLVEAYVALALMDEAREVVSLIQERYP 258
A +A+ +L + L DEA + + +RYP
Sbjct: 214 APDALLKLGVSLGRLGNTDEACATLQQVIKRYP 246
Score = 34.2 bits (78), Expect = 0.037
Identities = 29/135 (21%), Positives = 46/135 (34%), Gaps = 22/135 (16%)
Query: 101 AFVQYSAGKYQQAASLGEEYITQYPESKNVDYVYYLVGMSYAQMIRDVPYDQRATKLMLQ 160
A Y +G Y +A + +I +YP S YY +G S Y Q +
Sbjct: 148 ALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESL--------YAQGDYEDAAY 199
Query: 161 YMSRIVERYTNSPYVKGARFYVTVGRNQLAAKEVEIGRYYLKRGEYVAAIPRFQLVLANY 220
+R+V+ Y SP A + +G + + L Q V+ Y
Sbjct: 200 IFARVVKDYPKSPKAPDA--LLKLGVSLGRLGNTDEACATL------------QQVIKRY 245
Query: 221 SDAEHAEEAMARLVE 235
+ A+ A L
Sbjct: 246 PGTDAAKLAKVALKA 260
Score = 32.7 bits (74), Expect = 0.11
Identities = 12/62 (19%), Positives = 26/62 (41%)
Query: 66 LFLKEQNFSKAYEYFNQCSRDFPFAGVARKSLLMSAFVQYSAGKYQQAASLGEEYITQYP 125
+ ++ A F + +D+P + A +LL G +A + ++ I +YP
Sbjct: 187 SLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRYP 246
Query: 126 ES 127
+
Sbjct: 247 GT 248
Score = 28.8 bits (64), Expect = 1.6
Identities = 17/77 (22%), Positives = 30/77 (38%)
Query: 187 NQLAAKEVEIGRYYLKRGEYVAAIPRFQLVLANYSDAEHAEEAMARLVEAYVALALMDEA 246
A K K G+Y A FQ + Y ++ + A L E+ A ++A
Sbjct: 138 VSPATKLYNAALDLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDA 197
Query: 247 REVVSLIQERYPQGYWA 263
+ + + + YP+ A
Sbjct: 198 AYIFARVVKDYPKSPKA 214
>gnl|CDD|36573 KOG1359, KOG1359, KOG1359, Glycine
C-acetyltransferase/2-amino-3-ketobutyrate-CoA ligase
[Amino acid transport and metabolism].
Length = 417
Score = 30.0 bits (67), Expect = 0.65
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 10/71 (14%)
Query: 182 VTVGRNQLAAKEVEIGRYYLKRGEYVAAIPRFQLVLANYS------DAEHAEEAMARLVE 235
V +G +LA+K + LKRG YV + +V + A H EE + RL+E
Sbjct: 349 VMLGDARLASK---MADELLKRGIYVIGF-SYPVVPKGKARIRVQISAAHTEEDIDRLIE 404
Query: 236 AYVALALMDEA 246
A+ +
Sbjct: 405 AFSEVGRFLNV 415
>gnl|CDD|32776 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 29.5 bits (66), Expect = 1.00
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 2/63 (3%)
Query: 196 IGRYYLKRGEYVAAIPRFQLVLANYSDAEHAEEAMARLVEAYVALALMDEAREVVSLIQE 255
+GR L +G+Y A+ + VL + E+ E + L E Y L E + E
Sbjct: 220 LGRVELAKGDYQKAVEALERVLEQ--NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME 277
Query: 256 RYP 258
Sbjct: 278 TNT 280
>gnl|CDD|37213 KOG2002, KOG2002, KOG2002, TPR-containing nuclear phosphoprotein
that regulates K(+) uptake [Inorganic ion transport and
metabolism].
Length = 1018
Score = 29.6 bits (66), Expect = 1.0
Identities = 52/279 (18%), Positives = 86/279 (30%), Gaps = 46/279 (16%)
Query: 3 AVLGRAICIFEAWAY----QLYKFALTI--------FFSIAVCFLVGWERQS-----SRD 45
A+LG+A + Y + YK AL I I CF + R
Sbjct: 166 ALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERA 225
Query: 46 VYLDSVTDVRYQREVYEKAVLFLKEQNFSKAYEYFNQCSRDFPFAGVARKSLLMSAFVQY 105
+ LD T V + E + F ++ K + + ++ VA + L + F Y
Sbjct: 226 LQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVA-LNHLANHF--Y 281
Query: 106 SAGKYQQAASLGEEYITQYPESKNVDYVYYLVGMSYAQMIRDVPYDQRATKLMLQYMSRI 165
Y++ L E I +Y +G SY D +
Sbjct: 282 FKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQ-----GDFEKAFKYYMESLKA 336
Query: 166 VERYTNSPYVKGARFYVTVGRNQLAAKEVEIGRYYLKRGEYVAAIPRFQLVLANYSDAEH 225
P V +G+ Y+KRG+ + F+ VL +
Sbjct: 337 DNDNFVLPLVG-------------------LGQMYIKRGDLEESKFCFEKVLKQLPNNYE 377
Query: 226 AEEAMARLVEAYVALA-LMDEAREVVSLIQERYPQGYWA 263
+ + L D+A V+ + E+ P A
Sbjct: 378 TMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEA 416
>gnl|CDD|35763 KOG0543, KOG0543, KOG0543, FKBP-type peptidyl-prolyl cis-trans
isomerase [Posttranslational modification, protein
turnover, chaperones].
Length = 397
Score = 27.6 bits (61), Expect = 3.5
Identities = 14/62 (22%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 186 RNQLAAKEVEIGRYYLKRGEYVAAIPRFQLVLA-----NYSDAEHAEEAMARLVEAYVAL 240
R + A ++ E G K G++ A R++ ++ D E ++A A + ++ L
Sbjct: 204 RLEAADRKKERGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNL 263
Query: 241 AL 242
A
Sbjct: 264 AA 265
Score = 27.6 bits (61), Expect = 3.5
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 3/60 (5%)
Query: 200 YLKRGEYVAAIPRFQLVLANYSDAEHAEEAMARLVEAYVALALMDEAREVVSLIQERYPQ 259
YLK EY AI VL + +A+ R +A +AL D AR+ + P
Sbjct: 267 YLKLKEYKEAIESCNKVLELDPNNV---KALYRRGQALLALGEYDLARDDFQKALKLEPS 323
>gnl|CDD|37051 KOG1840, KOG1840, KOG1840, Kinesin light chain [Cytoskeleton].
Length = 508
Score = 27.2 bits (60), Expect = 5.2
Identities = 15/78 (19%), Positives = 23/78 (29%), Gaps = 5/78 (6%)
Query: 196 IGRYYLKRGEYVAAIPRFQLVLANY-----SDAEHAEEAMARLVEAYVALALMDEAREVV 250
+ Y G+Y A+ ++ L D + L Y EA E
Sbjct: 247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYC 306
Query: 251 SLIQERYPQGYWARYVET 268
E Y + A + E
Sbjct: 307 ERALEIYEKLLGASHPEV 324
>gnl|CDD|36228 KOG1010, KOG1010, KOG1010, Rb (Retinoblastoma tumor
suppressor)-related protein [Cell cycle control, cell
division, chromosome partitioning].
Length = 920
Score = 27.3 bits (60), Expect = 5.3
Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 3/80 (3%)
Query: 68 LKEQNFSKAYEYFNQCSRDFPFAGVARKSLLM-SAFVQYSAGKYQQAASLGEEYITQYPE 126
LK++ K +Y N CSRD P + ++ + F Q + S E ++
Sbjct: 417 LKKEPSDKLEQYLNTCSRD-PTESILKRLKEIFEIFEQKFSAAEGSGNSCIEIASQRFKL 475
Query: 127 SKNVDYVYYLVGMSYAQMIR 146
++ + Y L + A++ R
Sbjct: 476 AERL-YYKVLEKILKAELKR 494
>gnl|CDD|63880 cd00788, KU70, Ku-core domain, Ku70 subfamily; Ku70 is a subunit of
the Ku protein, which plays a key role in multiple
nuclear processes such as DNA repair, chromosome
maintenance, transcription regulation, and V(D)J
recombination. The mechanism underlying the regulation
of all the diverse functions of Ku is still unclear,
although it seems that Ku is a multifunctional protein
that works in the nuclei. In mammalian cells, the Ku
heterodimer recruits the catalytic subunit of
DNA-dependent protein kinase (DNA-PK), which is
dependent on its association with the Ku70/80
heterodimer bound to DNA for its protein kinase
activity..
Length = 287
Score = 26.8 bits (59), Expect = 6.1
Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 13/70 (18%)
Query: 112 QAASLGEEYITQYPESKNVDYVYYLVGMSYAQMIRDVP-------YDQRATKLMLQYMSR 164
Q L E P ++LV + +A IR +P + A+ ++ +
Sbjct: 168 QEEELDEPDGQVLPP------GFHLVPLPFADDIRKLPSLLEENASAESASDELVDKAKQ 221
Query: 165 IVERYTNSPY 174
I+++ Y
Sbjct: 222 IIKKLRLLSY 231
>gnl|CDD|132870 cd07232, Pat_PLPL, Patain-like phospholipase. Patatin-like
phospholipase. This family consists of various patatin
glycoproteins from plants and fungi. The patatin protein
accounts for up to 40% of the total soluble protein in
potato tubers. Patatin is a storage protein, but it also
has the enzymatic activity of a lipid acyl hydrolase,
catalyzing the cleavage of fatty acids from membrane
lipids. Members of this family have been found also in
vertebrates.
Length = 407
Score = 26.8 bits (60), Expect = 6.5
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 121 ITQYPESKNVDYVYYLVGMSYAQMIRDVPYDQRAT--KL-MLQYMSRI 165
IT +P S D++ L + + R + Q+A KL ++ RI
Sbjct: 352 ITIWPRSTLSDFLRILSDPTPEDLERMIHEGQQAAFPKLHFIKNRMRI 399
>gnl|CDD|107305 cd06310, PBP1_ABC_sugar_binding_like_2, Periplasmic sugar-binding
domain of uncharacterized ABC-type transport systems.
Periplasmic sugar-binding domain of uncharacterized
ABC-type transport systems that share homology with a
family of pentose/hexose sugar-binding proteins of the
type I periplasmic binding protein superfamily, which
consists of two domains connected by a three-stranded
hinge. The substrate specificity of this group is not
known, but it is predicted to be involved in the
transport of sugar-containing molecules and chemotaxis.
Length = 273
Score = 26.4 bits (59), Expect = 7.9
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 102 FVQYSAGKYQQAASLGEEYITQYPE 126
QYS Y +A + E+ +T P+
Sbjct: 159 ATQYSDSDYAKALDITEDLLTANPD 183
>gnl|CDD|107378 cd06383, PBP1_iGluR_AMPA_Like, N-terminal
leucine/isoleucine/valine-binding protein (LIVBP)-like
domain of uncharacterized AMPA-like receptors.
N-terminal leucine/isoleucine/valine-binding protein
(LIVBP)-like domain of uncharacterized AMPA-like
receptors. While this N-terminal domain belongs to the
periplasmic-binding fold type I superfamily, the
glutamate-binding domain of the iGluR is structurally
homologous to the periplasmic-binding fold type II. The
LIVBP-like domain of iGluRs is thought to play a role in
the initial assembly of iGluR subunits, but it is not
well understood how this domain is arranged and
functions in intact iGluR. AMPA receptors consist of
four types of subunits (GluR1, GluR2, GluR3, and GluR4)
which combine to form a tetramer and play an important
roles in mediating the rapid excitatory synaptic
current.
Length = 368
Score = 26.3 bits (58), Expect = 9.8
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 95 KSLLMSAFVQYSAGKYQQAASLGEEYITQYPESKNVDYVYYLVGMSYAQMIRDV 148
KSLL + ++ S+ +E Q +N+D + S ++IR V
Sbjct: 151 KSLLQNWPTRH---VITIINSIIDEVREQIKRLRNLDIKNIFILGSTEEIIRYV 201
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
0.324 0.135 0.393
Gapped
Lambda K H
0.267 0.0781 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,251,511
Number of extensions: 166878
Number of successful extensions: 656
Number of sequences better than 10.0: 1
Number of HSP's gapped: 653
Number of HSP's successfully gapped: 31
Length of query: 271
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 179
Effective length of database: 4,275,709
Effective search space: 765351911
Effective search space used: 765351911
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: 57 (25.6 bits)