RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780558|ref|YP_003064971.1| hypothetical protein
CLIBASIA_02225 [Candidatus Liberibacter asiaticus str. psy62]
(396 letters)
>gnl|CDD|32688 COG2861, COG2861, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 250
Score = 184 bits (468), Expect = 4e-47
Identities = 73/229 (31%), Positives = 125/229 (54%), Gaps = 3/229 (1%)
Query: 162 KNFCSNASGARIAIVVSGLGISQTGTQRAINLLPANITLAFASNGNSLDRWMKEAKKKGQ 221
S A G ++AIV+ LG+SQTGTQ AI LP +TLAFA W ++A+ G
Sbjct: 20 ARPWSGARGPKLAIVIDDLGLSQTGTQ-AILALPPEVTLAFAPFAPHAREWAQKARNAGH 78
Query: 222 EAILQIPMQAFDESYNEDDSYTLKVTQTVQQLLNRLRYSLRRGTGYFGVMNYRGAMLLSN 281
E ++ +PM+ F E TL+ + +++L RLR ++ + G+ N+ G+ SN
Sbjct: 79 EVLIHMPMEPFSYPKIEPG--TLRPGMSAEEILRRLRKAMNKVPDAVGLNNHMGSRFTSN 136
Query: 282 KESAEVIFKEFAKRGLLFFDDGSSPRNLTRVLAPKLNLPYMVADLYLDDQVDRDKIREKL 341
+++ E + + +RGL F D G+ +L +A ++ +P + D++LDD+ + ++L
Sbjct: 137 EDAMEKLMEALKERGLYFLDSGTIANSLAGKIAKEIGVPVIKRDVFLDDEDTEAAVLKQL 196
Query: 342 KGLEEIARTTGQAIGVAVAFDESIEVISQWLQQEHVRDVSVVPLSCLAK 390
E++AR G AIG+ ++ V+ QWL + R + +VP+S L
Sbjct: 197 DAAEKLARKNGSAIGIGHPHKNTVAVLQQWLDELPARGIELVPVSALLG 245
>gnl|CDD|147083 pfam04748, Polysacc_deac_2, Divergent polysaccharide deacetylase.
This family is divergently related to pfam01522
(personal obs:Yeats C).
Length = 213
Score = 182 bits (464), Expect = 2e-46
Identities = 63/216 (29%), Positives = 106/216 (49%), Gaps = 3/216 (1%)
Query: 175 IVVSGLGISQTGTQRAINLLPANITLAFASNGNSLDRWMKEAKKKGQEAILQIPMQAFDE 234
IV+ LG + T A+ LPA +TLA + A+ G E +L +PM+
Sbjct: 1 IVIDDLGYN-LATDEALLALPAPVTLAILPYAPHAAELAEAARAAGHEVLLHLPMEPLG- 58
Query: 235 SYNEDDSYTLKVTQTVQQLLNRLRYSLRRGTGYFGVMNYRGAMLLSNKESAEVIFKEFAK 294
Y + TL V + +++ RL +L R GV N+ G+ +++ + + +E K
Sbjct: 59 -YKDPGPGTLTVGMSAEEIEKRLEAALSRVPYAVGVNNHMGSRFTADRAAMRWVMEELKK 117
Query: 295 RGLLFFDDGSSPRNLTRVLAPKLNLPYMVADLYLDDQVDRDKIREKLKGLEEIARTTGQA 354
RGL F D +S R++ LA +L +P D++LD++ IR +L +AR G A
Sbjct: 118 RGLFFVDSRTSGRSVAPKLAKELGVPAAKRDVFLDNEQTEAAIRRQLDQAAALARKEGSA 177
Query: 355 IGVAVAFDESIEVISQWLQQEHVRDVSVVPLSCLAK 390
I + E+I + +WL + R + +VP+S L +
Sbjct: 178 IAIGHPHPETIAALKEWLPELRARGIELVPVSALLR 213
>gnl|CDD|38804 KOG3598, KOG3598, KOG3598, Thyroid hormone receptor-associated
protein complex, subunit TRAP230 [Transcription].
Length = 2220
Score = 30.8 bits (69), Expect = 0.65
Identities = 19/95 (20%), Positives = 33/95 (34%), Gaps = 7/95 (7%)
Query: 302 DGSSPRNLTRVLAPKLNLPYMVADLYLDDQVDRDKIREKLKGLEEIARTTGQAIGVAVAF 361
DG R+ + N P +Y D+++ KIREK E T I +
Sbjct: 431 DGEEERDKNKDTDVADNEP---EKIYTDEELAEIKIREK----EMKIATLASHIKEKMVS 483
Query: 362 DESIEVISQWLQQEHVRDVSVVPLSCLAKLSSPSS 396
D+ + + + S L L+ + +
Sbjct: 484 DKKWKEKTSHAGWRTLDQCSQFALHLLSSMVQYMA 518
>gnl|CDD|39047 KOG3843, KOG3843, KOG3843, Predicted serine
hydroxymethyltransferase SLA/LP (autoimmune hepatitis
marker in humans) [Translation, ribosomal structure and
biogenesis].
Length = 432
Score = 30.5 bits (68), Expect = 0.76
Identities = 25/97 (25%), Positives = 40/97 (41%), Gaps = 7/97 (7%)
Query: 146 AKNKVGREDTEVPAMDKNFCSNASGARIAIVVSGL--GISQTGTQRAINLLPANITLAFA 203
A + GR D V ++DKNF GA IA I++ RA ++ +
Sbjct: 209 AAAECGRIDAFVQSLDKNFMVPVGGAIIAAFKDNFIQEIAKMYPGRASASPSLDLLITLL 268
Query: 204 SNGNSLDRWMKEAKKKGQEAILQIPMQ--AFDESYNE 238
S G + KE + +E L++ + F E+ E
Sbjct: 269 SLGQNA---FKELFGEQKEMFLKLRNKIIKFAEAIGE 302
>gnl|CDD|144597 pfam01062, Bestrophin, Bestrophin. Bestrophin is a 68-kDa
basolateral plasma membrane protein expressed in
retinal pigment epithelial cells (RPE). It is encoded
by the VMD2 gene, which is mutated in Best macular
dystrophy, a disease characterized by a depressed light
peak in the electrooculogram. VMD2 encodes a 585-amino
acid protein with an approximate mass of 68 kDa which
has been designated bestrophin. Bestrophin shares
homology with the Caenorhabditis elegans RFP gene
family, named for the presence of a conserved arginine
(R), phenylalanine (F), proline (P), amino acid
sequence motif. Bestrophin is a plasma membrane
protein, localized to the basolateral surface of RPE
cells consistent with a role for bestrophin in the
generation or regulation of the EOG light peak.
Bestrophin and other RFP family members represent a new
class of chloride channels, indicating a direct role
for bestrophin in generating the light peak. The VMD2
gene underlying Best disease was shown to represent the
first human member of the RFP-TM protein family. More
than 97% of the disease-causing mutations are located
in the N-terminal RFP-TM domain implying important
functional properties.
Length = 275
Score = 30.2 bits (69), Expect = 1.1
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 8/58 (13%)
Query: 16 RKSFYSQIISRLGLFLLFCTFIVGLSIYILISHAFVGTISEMIPYSVIREIAPIPLTI 73
R S I RL LFLL +V + Y+L F+ P++++ I L+I
Sbjct: 8 RGSVLKSIWPRLLLFLLLSALVVVIYRYLLSQKIFL----PAAPFTLL----GIALSI 57
>gnl|CDD|32760 COG2937, PlsB, Glycerol-3-phosphate O-acyltransferase [Lipid
metabolism].
Length = 810
Score = 29.9 bits (67), Expect = 1.3
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 13/77 (16%)
Query: 261 LRRGTGYFGVMNYRGAMLLSNKESAEVIFKEFA----KRG--LLFFDDGSSPRNLTRVLA 314
RRG +F ++G L S +F+E+ RG L +F +G R R+L
Sbjct: 342 FRRGGAFFIRRTFKGNPLYS------TVFREYLGELFSRGYSLEYFIEGGRSRT-GRLLP 394
Query: 315 PKLNLPYMVADLYLDDQ 331
PK + M L +
Sbjct: 395 PKTGMLSMTLQAMLRGR 411
>gnl|CDD|30386 COG0037, MesJ, Predicted ATPase of the PP-loop superfamily
implicated in cell cycle control [Cell division and
chromosome partitioning].
Length = 298
Score = 29.4 bits (65), Expect = 1.9
Identities = 18/87 (20%), Positives = 37/87 (42%), Gaps = 1/87 (1%)
Query: 306 PRNLTRVLAPKLNLPYMVADLYLDDQVDRDKIREKLKGLEEIARTTGQAIGVAVAFD-ES 364
+ A + LPY+ + D + R++IRE+L LEE ++ A E
Sbjct: 173 REKEIELYAKEKGLPYIEDESNYDLRYTRNRIREELLPLEEERPGLKFSLARAFELLREL 232
Query: 365 IEVISQWLQQEHVRDVSVVPLSCLAKL 391
++ + ++ +R ++ L K+
Sbjct: 233 RLLLEKLSDEKLLRCLACGAKPSLGKI 259
>gnl|CDD|37313 KOG2102, KOG2102, KOG2102, Exosomal 3'-5' exoribonuclease complex,
subunit Rrp44/Dis3 [Translation, ribosomal structure and
biogenesis].
Length = 941
Score = 29.2 bits (65), Expect = 1.9
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 312 VLAPKLNLPYMVADLYLDDQVDRDKIREKLKGLEEIARTTGQ 353
V+ K L Y A LD D + L+ L EIA+ Q
Sbjct: 587 VIRSKAALSYEEAQDILDTPNSSDPLTSSLRLLHEIAKILRQ 628
>gnl|CDD|33662 COG3872, COG3872, Predicted metal-dependent enzyme [General
function prediction only].
Length = 318
Score = 29.1 bits (65), Expect = 2.4
Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 7/79 (8%)
Query: 13 TPKRKSFYSQIISRLGLFLLFCTFIVGLSIYILISHAFVGTISEMIPYSVIREIAPIPLT 72
TP+ S++ R G L T IVG+ +Y L V + + V+ I +P+
Sbjct: 194 TPENVQKQSRLHPRCGTSFLLFTMIVGIFVYSL-----VPFDN--LWLRVVDRIILLPVV 246
Query: 73 IPLNIEDKQSPSKRDNNTV 91
+ ++ E + +K N V
Sbjct: 247 LGISYEVLKLTNKVRNKPV 265
>gnl|CDD|36416 KOG1202, KOG1202, KOG1202, Animal-type fatty acid synthase and
related proteins [Lipid transport and metabolism].
Length = 2376
Score = 28.0 bits (62), Expect = 5.1
Identities = 18/83 (21%), Positives = 34/83 (40%), Gaps = 1/83 (1%)
Query: 213 MKEAKKKGQEAILQIPMQAFDESYNEDDSYTLKVTQTVQQLLNRLRYSLRRGTGYFGVMN 272
+ K + + L + AF + D +L+ ++ + L T Y+ +N
Sbjct: 1399 FRHLKLEEDKPELPVE-HAFVNTLTRGDLSSLRWIESPLRHAQPTCPGLELCTVYYAPLN 1457
Query: 273 YRGAMLLSNKESAEVIFKEFAKR 295
+R ML S K S + I + A +
Sbjct: 1458 FRDIMLASGKLSPDAIPGDLASQ 1480
>gnl|CDD|177158 MTH00095, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 527
Score = 27.2 bits (61), Expect = 8.1
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 25 SRLGL-FLLFCTFIVGLSIYILISHAF 50
S++G L F + + +S L+SHA
Sbjct: 261 SQMGFSMLTFGSGLSFVSFIHLLSHAL 287
>gnl|CDD|35730 KOG0510, KOG0510, KOG0510, Ankyrin repeat protein [General function
prediction only].
Length = 929
Score = 27.3 bits (60), Expect = 8.8
Identities = 13/41 (31%), Positives = 18/41 (43%)
Query: 5 LNHPLRKKTPKRKSFYSQIISRLGLFLLFCTFIVGLSIYIL 45
L HPL K L L++ F+V L+IY+L
Sbjct: 488 LEHPLSSSFLFMKWNRYGKYFHLNNLLIYSLFLVSLTIYVL 528
>gnl|CDD|31822 COG1635, THI4, Flavoprotein involved in thiazole biosynthesis
[Coenzyme metabolism].
Length = 262
Score = 27.1 bits (60), Expect = 8.9
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 275 GAMLLSNKESAEVIFKEFAKR 295
G MLLS K++AE I ++ +
Sbjct: 242 GGMLLSGKKAAEEILEKLKLK 262
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
0.317 0.134 0.373
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,572,319
Number of extensions: 240470
Number of successful extensions: 727
Number of sequences better than 10.0: 1
Number of HSP's gapped: 723
Number of HSP's successfully gapped: 27
Length of query: 396
Length of database: 6,263,737
Length adjustment: 96
Effective length of query: 300
Effective length of database: 4,189,273
Effective search space: 1256781900
Effective search space used: 1256781900
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.0 bits)