RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780548|ref|YP_003064961.1| translocation protein TolB
[Candidatus Liberibacter asiaticus str. psy62]
(447 letters)
>gnl|CDD|31165 COG0823, TolB, Periplasmic component of the Tol biopolymer
transport system [Intracellular trafficking and
secretion].
Length = 425
Score = 249 bits (637), Expect = 9e-67
Identities = 142/431 (32%), Positives = 213/431 (49%), Gaps = 12/431 (2%)
Query: 20 LLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKFVSIDE--LGGKVSEVVSKDLQRSD 77
+L+ I F + A V + NS SP+ IA F G +S +V+ DL+ S
Sbjct: 3 ILLAITLVFQVTA-ALVLIVINSGVDSPLPIAVVSFSPDGGALPGEDISGIVAADLKASG 61
Query: 78 VFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDRK 137
F + + + + + S P DW +LGA +V G+V R F+L+D
Sbjct: 62 KFIPLDRAGYIELPSGA-SEPLPPDWKALGADAVVLGQVTPSPDGSYRSSFQLFDTSTGF 120
Query: 138 QIIGKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGIIKNSLCVMD 197
Q++G + R+ AHTI+D IY+ +TG KG F++RI +V+ES + L + D
Sbjct: 121 QLLGNSLVVTALLLRRAAHTIADAIYEKLTGIKGAFDTRIAYVAESDGGPLPYE-LALGD 179
Query: 198 RDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFR 257
DG N + LT S IL P +SP+ +K+AY +++ R+Y +D + P I NF
Sbjct: 180 YDGYNQQKLTDSGSLILT-PAWSPDGKKLAYVSFELGGCPRIYYLDLNTGKRP-VILNFN 237
Query: 258 SMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIV 317
AP FS +G + S +D + DIY +DL RLTN IN S S+SPD S+IV
Sbjct: 238 GNNGAPAFSPDGSKLAFSSSRDGSPDIYLMDLDGKNLPRLTNGFGINTSPSWSPDGSKIV 297
Query: 318 FESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSGEKFAIGVMK 377
F SDR G+ Q+Y+ GS R++ +PVWSP GD I F SG ++ I
Sbjct: 298 FTSDRGGRPQIYLYDLEGSQVTRLT-FSGGGNSNPVWSPDGDKIVFESSSGGQWDIDKND 356
Query: 378 -KDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLINTP-A 435
G + R+L ++P+W+P+GR ++FS GS L + L+GR +
Sbjct: 357 LASGGKIRILTSTYLNESPSWAPNGRMIMFS--SGQGGGSVLSLVSLDGRVSRPLPLADG 414
Query: 436 YASDPQWVGFM 446
P W +
Sbjct: 415 DVRVPAWSPVL 425
>gnl|CDD|146599 pfam04052, TolB_N, TolB amino-terminal domain. TolB is an
essential periplasmic component of the tol-dependent
translocation system. This function of this amino
terminal domain is uncertain.
Length = 106
Score = 90.8 bits (226), Expect = 7e-19
Identities = 38/101 (37%), Positives = 50/101 (49%), Gaps = 5/101 (4%)
Query: 42 SANYSPVSIAFTKFV---SIDELGGKVSEVVSKDLQRSDVFNLISQDSFKQKITNPDSIP 98
P+ IA F EL +SEV++ DL RS +F I +F T+ +S
Sbjct: 8 GGVDRPLPIAVVPFAGEGGAAELPEDISEVIAADLARSGLFRPIDPSAFPSSPTS-NSEV 66
Query: 99 RFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDRKQI 139
F DW +LGA LV G V D L VEFRL+DV +Q+
Sbjct: 67 DFADWRALGADALVVGSV-TSSGDGLTVEFRLYDVFSGQQL 106
>gnl|CDD|31695 COG1506, DAP2, Dipeptidyl aminopeptidases/acylaminoacyl-peptidases
[Amino acid transport and metabolism].
Length = 620
Score = 53.7 bits (128), Expect = 9e-08
Identities = 36/251 (14%), Positives = 76/251 (30%), Gaps = 34/251 (13%)
Query: 199 DGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFRS 258
DG +R LT + E R+SP+ +A+ + D + ++YL+D I
Sbjct: 49 DGKTVRLLTFGGG--VSELRWSPDGSVLAFVSTDGGRVAQLYLVDVG-----GLITKTAF 101
Query: 259 MILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVF 318
+ R+S +G R L + + D + F
Sbjct: 102 GVSDARWSPDGDR--------------IAFLTAEGASKRDG------GDHLFVDRLPVWF 141
Query: 319 ESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSGEKF-----AI 373
+ + LYV+ + G L+A + +
Sbjct: 142 DGRGGERSDLYVVDIES--KLIKLGLGNLDVVSFATDGDGRLVASIRLDDDADPWVTNLY 199
Query: 374 GVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLINT 433
+++ +G E L + ++ + G+S+ + ++ I L ++
Sbjct: 200 VLIEGNGELESLTPGEGSISKLAFDADGKSIALLGTESDRGLAEGDFILLLDGELGEVDG 259
Query: 434 PAYASDPQWVG 444
+ D
Sbjct: 260 DLSSGDDTRGA 270
Score = 36.7 bits (84), Expect = 0.014
Identities = 28/96 (29%), Positives = 38/96 (39%), Gaps = 8/96 (8%)
Query: 351 DPVWSPQGDLIAFTK----FSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIF 406
DP SP G +A+ F + + DG RLL + WSP G L F
Sbjct: 17 DPRVSPPGGRLAYILTGLDFLKPLYKSSLWVSDGKTVRLLTFGGGVSELRWSPDGSVLAF 76
Query: 407 SRKKDGDTGSKLYSIDLNGRNETLINTPAYASDPQW 442
DG ++LY +D+ G T SD +W
Sbjct: 77 VS-TDGGRVAQLYLVDVGGLIT---KTAFGVSDARW 108
>gnl|CDD|144507 pfam00930, DPPIV_N, Dipeptidyl peptidase IV (DPP IV) N-terminal
region. This family is an alignment of the region to
the N-terminal side of the active site. The Prosite
motif does not correspond to this Pfam entry.
Length = 349
Score = 45.8 bits (109), Expect = 2e-05
Identities = 29/124 (23%), Positives = 46/124 (37%), Gaps = 27/124 (21%)
Query: 266 SSNGKRALISVQKDE------AMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFE 319
S +GK L++ ++ Y DL++ E L A +SPD ++ +
Sbjct: 1 SPDGKYLLLATNYEKIWRHSYTASYYIYDLETGTVEPLPPGEGKIQYAKWSPDGHKLAYV 60
Query: 320 SDREGKEQLYVMQSNGSDQKRISQDKEASYF----DPV-------------WSPQGDLIA 362
D LYV + + +I+ D F D V WSP G +A
Sbjct: 61 RDNN----LYVRELATGKETQITSDGSNGIFNGLADWVYEEEVFGSNSAYWWSPDGSRLA 116
Query: 363 FTKF 366
F +F
Sbjct: 117 FLRF 120
Score = 34.2 bits (79), Expect = 0.070
Identities = 14/66 (21%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 282 MDIYSVDLQSNATERL---TNTLFINISAS--YSPDSSQIVFESDREGKEQLYVMQSNGS 336
+D+ VD ++ T L T+ ++ + + D S ++ S+R+G + LY+ +G
Sbjct: 208 LDLVLVDTETGRTVVLLEETSDGWVELHQDPVFLRDGSGFLWISERDGYKHLYLYDLDGK 267
Query: 337 DQKRIS 342
++++
Sbjct: 268 LPRQLT 273
Score = 33.4 bits (77), Expect = 0.13
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 284 IYSVDLQSNATERLTNTLFINISASYSPDSSQIV 317
+Y V L + LT+ + SAS+SP+ V
Sbjct: 306 LYRVSLDGGEPQCLTDESGDHDSASFSPNGKYYV 339
Score = 28.0 bits (63), Expect = 5.6
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 6/54 (11%)
Query: 378 KDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLI 431
+ G+ E L + +Q WSP G L + R + LY +L ET I
Sbjct: 31 ETGTVEPLPPGEGKIQYAKWSPDGHKLAYVRDNN------LYVRELATGKETQI 78
>gnl|CDD|34554 COG4946, COG4946, Uncharacterized protein related to the
periplasmic component of the Tol biopolymer transport
system [Function unknown].
Length = 668
Score = 37.6 bits (87), Expect = 0.008
Identities = 31/145 (21%), Positives = 58/145 (40%), Gaps = 7/145 (4%)
Query: 264 RFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESDRE 323
R + + +I + + IY D +R+ L + SPD ++V +DR
Sbjct: 366 RIQVDPEGDVIGTNDGDKLGIY--DKDGGEVKRIEKDLGNIEAVKVSPDGKKVVVANDRF 423
Query: 324 GKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSG-EKFAIGVMKKDGSQ 382
+L+V+ + + + I + + D W P IA+ G +I + DG +
Sbjct: 424 ---ELWVIDIDNGNVRLIDKSEYGLITDFDWHPNSRWIAYAFPEGYYTQSIKLYDMDGGK 480
Query: 383 E-RLLVEDSNLQAPTWSPSGRSLIF 406
+ + +P + P GR L F
Sbjct: 481 IYDVTTPTAYDFSPAFDPDGRYLYF 505
Score = 36.8 bits (85), Expect = 0.012
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 8/90 (8%)
Query: 283 DIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESDREGKE----QLYVMQSNGSDQ 338
D++ L+ R+T+ L + + +SPD ++ F G LYV+ S +
Sbjct: 60 DLWEYSLKDGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSEDGEA 119
Query: 339 KRISQDKEASYFDPV--WSPQGDLIAFTKF 366
KRI+ F V W P G++I T F
Sbjct: 120 KRITY--FGRRFTRVAGWIPDGEIIVSTDF 147
Score = 35.3 bits (81), Expect = 0.034
Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 7/77 (9%)
Query: 247 DRAPKRIGNFRSMILAPRFSSNGKRALISV----QKDEAMDIYSVDLQSNATERLT--NT 300
D P RI + ++ P+FS +G++ S + D+Y V + +R+T
Sbjct: 68 DGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSEDGEAKRITYFGR 127
Query: 301 LFINISASYSPDSSQIV 317
F + A + PD IV
Sbjct: 128 RFTRV-AGWIPDGEIIV 143
Score = 30.7 bits (69), Expect = 0.77
Identities = 14/51 (27%), Positives = 20/51 (39%), Gaps = 2/51 (3%)
Query: 377 KKDGSQERLLVEDSNLQAPTWSPSGRSLIFSR--KKDGDTGSKLYSIDLNG 425
KDG R+ + P +SP GR + FSR + LY +
Sbjct: 66 LKDGKPLRITSGLGVVNNPKFSPDGRKVAFSRVMLGSSLQTADLYVVPSED 116
>gnl|CDD|37350 KOG2139, KOG2139, KOG2139, WD40 repeat protein [General function
prediction only].
Length = 445
Score = 33.5 bits (76), Expect = 0.12
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 5/73 (6%)
Query: 354 WSPQGDLIAFTKFSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGD 413
WSP GD++ F + + ++ER ++ +Q WSP G L+F+
Sbjct: 246 WSPDGDVLFAATCDA-VFRLWQENQSWTKERWILGSGRVQTACWSPCGSFLLFACSGS-- 302
Query: 414 TGSKLYSIDLNGR 426
+LYS+ +G
Sbjct: 303 --PRLYSLTFDGE 313
>gnl|CDD|36659 KOG1446, KOG1446, KOG1446, Histone H3 (Lys4) methyltransferase
complex and RNA cleavage factor II complex, subunit SWD2
[RNA processing and modification, Chromatin structure
and dynamics, Posttranslational modification, protein
turnover, chaperones].
Length = 311
Score = 30.2 bits (68), Expect = 1.2
Identities = 16/60 (26%), Positives = 30/60 (50%), Gaps = 3/60 (5%)
Query: 264 RFSSNGKRALISVQKDEA--MDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESD 321
FS +GK L+S +D + ++S + N + +SA+++PDS ++ SD
Sbjct: 194 EFSPDGKSILLSTNASFIYLLDAFDGTVKSTFSG-YPNAGNLPLSATFTPDSKFVLSGSD 252
>gnl|CDD|38769 KOG3561, KOG3561, KOG3561, Aryl-hydrocarbon receptor nuclear
translocator [Transcription].
Length = 803
Score = 30.1 bits (67), Expect = 1.4
Identities = 24/108 (22%), Positives = 40/108 (37%), Gaps = 8/108 (7%)
Query: 176 RILFVSESVVSGIIKNSLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDED 235
RI++VSESV S + D G ++ + D + SP + +
Sbjct: 116 RIVYVSESVTSVL---GYLQSDLMGQSLYDILHPLDNDKPREQLSPRSNEHTFNCR---- 168
Query: 236 ILRVYLMDTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMD 283
L + A K GNF+ + S G ++ I Q+ +A
Sbjct: 169 -LLDGKTGPPPEEAVKFYGNFQCFTNSQPKSIEGFQSTICRQRRKAEG 215
>gnl|CDD|35574 KOG0353, KOG0353, KOG0353, ATP-dependent DNA helicase [General
function prediction only].
Length = 695
Score = 29.0 bits (64), Expect = 2.5
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 313 SSQIVFESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQ 357
SS + E G ++LY M +D + + K A +FD W P+
Sbjct: 473 SSMVQME--NTGIQKLYEMVRYAADISKCRRVKLAEHFDEAWEPE 515
>gnl|CDD|143923 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 351
Score = 29.2 bits (66), Expect = 2.5
Identities = 5/46 (10%), Positives = 11/46 (23%), Gaps = 8/46 (17%)
Query: 147 SPASWRKIA--------HTISDDIYQSITGEKGDFNSRILFVSESV 184
K+ + D+ Y D + ++E
Sbjct: 154 PLEELEKLLDLAKEHNILLLVDEAYAGFVFGSPDAVATRALLAEGP 199
>gnl|CDD|35514 KOG0293, KOG0293, KOG0293, WD40 repeat-containing protein [Function
unknown].
Length = 519
Score = 29.2 bits (65), Expect = 2.6
Identities = 24/112 (21%), Positives = 48/112 (42%), Gaps = 3/112 (2%)
Query: 206 LTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFRSMILAPRF 265
L D++ F +FS N + +A A+ D I+ + + D +G+ + + +
Sbjct: 220 LQDHTDEVWF-LQFSHNGKYLASASKDSTAIIWIVVYDVHFKLKKTLVGHSQP-VSYIMW 277
Query: 266 SSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIV 317
S + R L++ DE + ++ VD + F S ++ PD + V
Sbjct: 278 SPD-DRYLLACGFDEVLSLWDVDTGDLRHLYPSGLGFSVSSCAWCPDGFRFV 328
>gnl|CDD|33024 COG3211, PhoX, Predicted phosphatase [General function prediction
only].
Length = 616
Score = 28.8 bits (64), Expect = 3.3
Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 16/117 (13%)
Query: 319 ESDREGKEQLYVMQSNGSDQK-----RISQDKEASYFDPVWSPQGDLIAFTKFSGEK--- 370
+D + L+V N S + I+ + S + + P G L T SG
Sbjct: 467 HTDTKFTWDLFVEAGNPSVLEGGASANINANWFNSPDNLAFDPWGRLWIQTDGSGSTLRN 526
Query: 371 FAIGVMKKD------GSQERLLVED--SNLQAPTWSPSGRSLIFSRKKDGDTGSKLY 419
GV + G+ +R L P +SP G++L + + G+TG+
Sbjct: 527 RFRGVTQMLTPDPKTGTIKRFLTGPIGCEFTGPCFSPDGKTLFVNVQHPGETGTTTN 583
>gnl|CDD|107209 cd06448, L-Ser-dehyd, Serine dehydratase is a pyridoxal phosphate
(PLP)-dependent enzyme which catalyzes the conversion of
L- , D-serine, or L-threonine to pyruvate/ketobutyrate
and ammonia..
Length = 316
Score = 28.4 bits (64), Expect = 3.8
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 90 KITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEF 128
+ T P + + +D GA V+V G+V E + LR E
Sbjct: 83 ESTKPRVVEKLRD---EGATVVVHGKVWWEADNYLREEL 118
>gnl|CDD|100087 cd03085, PGM1, Phosphoglucomutase 1 (PGM1) catalyzes the
bidirectional interconversion of glucose-1-phosphate
(G-1-P) and glucose-6-phosphate (G-6-P) via a glucose
1,6-diphosphate intermediate, an important metabolic
step in prokaryotes and eukaryotes. In one direction,
G-1-P produced from sucrose catabolism is converted to
G-6-P, the first intermediate in glycolysis. In the
other direction, conversion of G-6-P to G-1-P generates
a substrate for synthesis of UDP-glucose which is
required for synthesis of a variety of cellular
constituents including cell wall polymers and
glycoproteins. The PGM1 family also includes a
non-enzymatic PGM-related protein (PGM-RP) thought to
play a structural role in eukaryotes, as well as
pp63/parafusin, a phosphoglycoprotein that plays an
important role in calcium-regulated exocytosis in
ciliated protozoans. PGM1 belongs to the
alpha-D-phosphohexomutase superfamily which includes
several related enzymes that catalyze a reversible
intramolecular phosphoryl transfer on their sugar
substrates. Other members of this superfamily include
phosphoglucosamine mutase (PNGM),
phosphoacetylglucosamine mutase (PAGM), the bacterial
phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model..
Length = 548
Score = 28.0 bits (63), Expect = 5.4
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 135 DRKQIIGKKFFSSPA-SWRKIAHTISDDIYQSITGEKG 171
DR I+GK FF +P+ S IA Y G KG
Sbjct: 282 DRNMILGKGFFVTPSDSVAVIAANAKLIPYFYKGGLKG 319
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
0.318 0.134 0.385
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,304,255
Number of extensions: 278515
Number of successful extensions: 672
Number of sequences better than 10.0: 1
Number of HSP's gapped: 651
Number of HSP's successfully gapped: 38
Length of query: 447
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 350
Effective length of database: 4,167,664
Effective search space: 1458682400
Effective search space used: 1458682400
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: 59 (26.4 bits)