RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780548|ref|YP_003064961.1| translocation protein TolB
[Candidatus Liberibacter asiaticus str. psy62]
(447 letters)
>gnl|CDD|179945 PRK05137, tolB, translocation protein TolB; Provisional.
Length = 435
Score = 493 bits (1272), Expect = e-140
Identities = 200/432 (46%), Positives = 282/432 (65%), Gaps = 11/432 (2%)
Query: 17 LCLLLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKFVS----IDELGGKVSEVVSKD 72
L LL +L + A +++ N P+ IA FV+ DELG +++V++ D
Sbjct: 4 LALLALLAAAAAAAAARAALEIDITKGNVEPLPIAIPDFVAGTALADELGADIAKVIAND 63
Query: 73 LQRSDVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWD 132
L+RS +F I + +F +KITNPD+ PRF DW ++ AQ LVTG V K+ RL+VEFRLWD
Sbjct: 64 LKRSGLFAPIDKAAFIEKITNPDAAPRFADWKAINAQALVTGSVTKQSDGRLKVEFRLWD 123
Query: 133 VKDRKQIIGKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGIIKNS 192
V +Q+ G++F + P +WR+ AH I+D IY+ +TGEKG F++RI++V+ES
Sbjct: 124 VFAGQQLTGQQFVTPPENWRRAAHKIADAIYERLTGEKGYFDTRIVYVAESGPKNKRIKR 183
Query: 193 LCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKR 252
L +MD+DGAN+RYLT +L PRFSPN+Q++ Y +Y + RVYL+D ++ +
Sbjct: 184 LAIMDQDGANVRYLTDGSSLVLT-PRFSPNRQEITYMSYAN-GRPRVYLLD--LETGQRE 239
Query: 253 I-GNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSP 311
+ GNF M APRFS +G++ ++S+ + DIY++DL+S T RLT++ I+ S SYSP
Sbjct: 240 LVGNFPGMTFAPRFSPDGRKVVMSLSQGGNTDIYTMDLRSGTTTRLTDSPAIDTSPSYSP 299
Query: 312 DSSQIVFESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSGEKF 371
D SQIVFESDR G QLYVM ++GS+ +RIS Y PVWSP+GDLIAFTK G +F
Sbjct: 300 DGSQIVFESDRSGSPQLYVMNADGSNPRRISFG-GGRYSTPVWSPRGDLIAFTKQGGGQF 358
Query: 372 AIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRK-KDGDTGSKLYSIDLNGRNETL 430
+IGVMK DGS ER+L ++ PTW+P+GR ++F R+ KLY++DL GRNE
Sbjct: 359 SIGVMKPDGSGERILTSGFLVEGPTWAPNGRVIMFFRQTPGSGGAPKLYTVDLTGRNERE 418
Query: 431 INTPAYASDPQW 442
+ TP ASDP W
Sbjct: 419 VPTPGDASDPAW 430
>gnl|CDD|163025 TIGR02800, propeller_TolB, tol-pal system beta propeller repeat
protein TolB. The Tol-PAL system is required for
bacterial outer membrane integrity. E. coli TolB is
involved in the tonB-independent uptake of group A
colicins (colicins A, E1, E2, E3 and K), and is
necessary for the colicins to reach their respective
targets after initial binding to the bacteria. It is
also involved in uptake of filamentous DNA. Study of its
structure suggest that the TolB protein might be
involved in the recycling of peptidoglycan or in its
covalent linking with lipoproteins. The Tol-Pal system
is also implicated in pathogenesis of E. coli,
Haemophilus ducreyi, Salmonella enterica and Vibrio
cholerae, but the mechanism(s) is unclear.
Length = 417
Score = 321 bits (826), Expect = 2e-88
Identities = 133/386 (34%), Positives = 207/386 (53%), Gaps = 11/386 (2%)
Query: 59 DELGGKVSEVVSKDLQRSDVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIK 118
LG ++EV++ DL+RS +F+ + + S W +LGA LV G V
Sbjct: 40 ANLGESIAEVIANDLKRSGLFSPVDKAGLPSNPIAE-SQVNPAAWQALGADALVVGSVTP 98
Query: 119 EGKDRLRVEFRLWDVKDRKQII-GKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRI 177
G R V FRL+DV + + GK++ + + R++AH I+D IY+ +TGE+G F++RI
Sbjct: 99 NGNGRYTVRFRLYDVVSGQLQLLGKQYTVTASQLRRVAHRIADAIYEKLTGERGAFSTRI 158
Query: 178 LFVSESVVSGIIKNSLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDIL 237
+VS+S S + L V D DGAN + +T SR+ IL P +SP+ QK+AY +++
Sbjct: 159 AYVSKSGKSR--RYELQVADYDGANPQTITRSREPILS-PAWSPDGQKLAYVSFES-GKP 214
Query: 238 RVYLMDTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERL 297
+Y+ D +++ +F M AP FS +G + +S+ KD DIY +DL RL
Sbjct: 215 EIYVQD-LATGQREKVASFPGMNGAPAFSPDGSKLAVSLSKDGNPDIYVMDLDGKQLTRL 273
Query: 298 TNTLFINISASYSPDSSQIVFESDREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQ 357
TN I+ S+SPD I F SDR G Q+Y+M ++G + +R++ P WSP
Sbjct: 274 TNGPGIDTEPSWSPDGKSIAFTSDRGGSPQIYMMDADGGEVRRLTFR-GGYNASPSWSPD 332
Query: 358 GDLIAFTKFSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSK 417
GDLIAF G F I VM DG ER+L + ++P+++P+GR ++++ + G
Sbjct: 333 GDLIAFVHREGGGFNIAVMDLDGGGERVLTDTGLDESPSFAPNGRMILYATTRGG--RGV 390
Query: 418 LYSIDLNGRN-ETLINTPAYASDPQW 442
L + +GR L +P W
Sbjct: 391 LGLVSTDGRFRARLPLGNGDVREPAW 416
>gnl|CDD|179892 PRK04922, tolB, translocation protein TolB; Provisional.
Length = 433
Score = 219 bits (561), Expect = 8e-58
Identities = 122/419 (29%), Positives = 208/419 (49%), Gaps = 12/419 (2%)
Query: 12 NMKINLCLLLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKFVSIDELGG---KVSEV 68
L LL+L+ + A + + S IA F V+ V
Sbjct: 3 KKPRWLAALLLLLLPLAALAAQAGLTIDIVGGPESATPIAIVPFPYQGSGAAPDTDVAAV 62
Query: 69 VSKDLQRSDVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEF 128
V DL RS F + + ++ T I +F W +LG LV GRV G R VE+
Sbjct: 63 VEADLARSGRFRTLPAEQIVERPTRGSDI-QFSTWRALGQDYLVVGRVKDAGDGRYEVEY 121
Query: 129 RLWDVKDRKQIIGKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGI 188
L+DV ++++G + + ++ R+ AH I+D IY+ ITG G F +RI +V+ S G
Sbjct: 122 ELFDVFKGERLLGLRLTAPASAMRQAAHQIADAIYEKITGVPGAFWTRIAYVTVSGAGGA 181
Query: 189 IKNSLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDR 248
++ +L V D DG N + + S + IL P +SP+ +K+AY +++ +Y+ D +
Sbjct: 182 MRYALQVADSDGYNPQTILRSAEPIL-SPAWSPDGKKLAYVSFERGRS-AIYVQDLATGQ 239
Query: 249 APKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISAS 308
+ + +FR + AP FS +G+R +++ +D +IY +DL S RLTN I+ +
Sbjct: 240 R-ELVASFRGINGAPSFSPDGRRLALTLSRDGNPEIYVMDLGSRQLTRLTNHFGIDTEPT 298
Query: 309 YSPDSSQIVFESDREGKEQLYVMQSNGSDQKRISQDKEASY-FDPVWSPQGDLIAFTKFS 367
++PD I F SDR G+ Q+Y + ++G +R++ +Y SP G IA S
Sbjct: 299 WAPDGKSIYFTSDRGGRPQIYRVAASGGSAERLTFQ--GNYNARASVSPDGKKIAMVHGS 356
Query: 368 GEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGR 426
G ++ I VM R L S ++P+++P+G ++++ ++ G L ++ +GR
Sbjct: 357 GGQYRIAVMDLSTGSVRTLTPGSLDESPSFAPNGSMVLYATREGG--RGVLAAVSTDGR 413
Score = 37.0 bits (86), Expect = 0.011
Identities = 38/166 (22%), Positives = 76/166 (45%), Gaps = 13/166 (7%)
Query: 195 VMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRI- 253
VMD + LT I EP ++P+ + + + T D ++Y + + +R+
Sbjct: 276 VMDLGSRQLTRLTNHF-GIDTEPTWAPDGKSIYF-TSDRGGRPQIYRVAAS-GGSAERLT 332
Query: 254 --GNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSP 311
GN+ + S +GK+ + I +DL + + LT ++ S S++P
Sbjct: 333 FQGNYNA---RASVSPDGKKIAMVHGSGGQYRIAVMDLSTGSVRTLTPGS-LDESPSFAP 388
Query: 312 DSSQIVFESDREGKEQLYVMQSNGSDQKRI-SQDKEASYFDPVWSP 356
+ S +++ + G+ L + ++G ++R+ S D E +P WSP
Sbjct: 389 NGSMVLYATREGGRGVLAAVSTDGRVRQRLVSADGEVR--EPAWSP 432
>gnl|CDD|166839 PRK00178, tolB, translocation protein TolB; Provisional.
Length = 430
Score = 194 bits (496), Expect = 3e-50
Identities = 115/421 (27%), Positives = 203/421 (48%), Gaps = 25/421 (5%)
Query: 11 LNMKINLCLLLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKF--VSIDELGGKVSEV 68
+ +K +L L+ G + A + + S + IA F L ++++
Sbjct: 2 ITLKRIALFVLCLLAG---GAAAAELNIEITSGSDRATPIAVVPFGWQGGSVLPEDMAQI 58
Query: 69 VSKDLQRSDVF------NLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKD 122
+ DL+ S F N+IS S ++ F+DW +LGAQ ++ G ++ G
Sbjct: 59 IGNDLRNSGYFEPIPRQNMISLPSQASEVI-------FRDWKALGAQYVMVGNIVPAG-G 110
Query: 123 RLRVEFRLWDVKDRKQIIGKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSE 182
RL+V++ L++V +Q++ S R +AH ISD ++ +TG KG F++RIL+V+
Sbjct: 111 RLQVQYALFNVATEQQVLTGSVSGSTDQLRDMAHYISDQSFEKLTGIKGAFSTRILYVTA 170
Query: 183 SVVSGIIKNSLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLM 242
S + +L D DGA L SR+ IL PR+SP+ +++AY +++ + R+++
Sbjct: 171 ERFSVNTRYTLQRSDYDGARAVTLLQSREPIL-SPRWSPDGKRIAYVSFEQKRP-RIFVQ 228
Query: 243 DTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLF 302
+ R ++I NF + AP +S +G + + KD +IY +DL S R+TN
Sbjct: 229 NLDTGRR-EQITNFEGLNGAPAWSPDGSKLAFVLSKDGNPEIYVMDLASRQLSRVTNHPA 287
Query: 303 INISASYSPDSSQIVFESDREGKEQLYVMQSNGSDQKRISQDKEASY-FDPVWSPQGDLI 361
I+ + D + F SDR GK Q+Y + NG +R++ +Y P S G +
Sbjct: 288 IDTEPFWGKDGRTLYFTSDRGGKPQIYKVNVNGGRAERVT--FVGNYNARPRLSADGKTL 345
Query: 362 AFTKFSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSI 421
F + R+L + S ++P+ +P+G LI++ ++ G L SI
Sbjct: 346 VMVHRQDGNFHVAAQDLQRGSVRILTDTSLDESPSVAPNGTMLIYATRQQGRGVLMLVSI 405
Query: 422 D 422
+
Sbjct: 406 N 406
>gnl|CDD|179493 PRK02889, tolB, translocation protein TolB; Provisional.
Length = 427
Score = 193 bits (493), Expect = 6e-50
Identities = 121/435 (27%), Positives = 205/435 (47%), Gaps = 24/435 (5%)
Query: 17 LCLLLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKFVSIDELGGKVSEVVSKDLQRS 76
+ LLL+ GG + HA + V + IA F +L +V+ +V DL+RS
Sbjct: 13 VALLLIAAGG----AAHAQLNVEITGVGATQFPIAIANFAGEAQLPQQVTAIVRADLERS 68
Query: 77 DVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDR 136
F + + W + GA LV G V + R V FRL+D
Sbjct: 69 GKFRNVDAGGAPV---PETASVDLGAWKAKGADALVAGSVTRLADGRYDVRFRLYDTVKG 125
Query: 137 KQIIGKKFFSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGIIKNSLCVM 196
+ + G + R AH I+D IY+ +TGE+G F++RI +V ++ + L +
Sbjct: 126 QSLGGLSLTVTEDQLRLAAHRIADYIYEKLTGERGVFSTRIAYVIKTGN----RYQLQIS 181
Query: 197 DRDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMD--TRIDRAPKRIG 254
D DG N + S + I+ P +SP+ K+AY +++ + + VY+ D T R +
Sbjct: 182 DADGQNAQSALSSPEPII-SPAWSPDGTKLAYVSFESKKPV-VYVHDLATGRRRV---VA 236
Query: 255 NFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSS 314
NF+ AP +S +G+ +++ +D IY+V+ + RLT + I+ +SPD
Sbjct: 237 NFKGSNSAPAWSPDGRTLAVALSRDGNSQIYTVNADGSGLRRLTQSSGIDTEPFFSPDGR 296
Query: 315 QIVFESDREGKEQLYVMQSNGSDQKRISQDKEASY-FDPVWSPQGDLIAFTKFSGEKFAI 373
I F SDR G Q+Y M ++G +R++ SY P SP G L+A+ G F +
Sbjct: 297 SIYFTSDRGGAPQIYRMPASGGAAQRVT--FTGSYNTSPRISPDGKLLAYISRVGGAFKL 354
Query: 374 GVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSIDLNGR-NETLIN 432
V Q L + + ++P+++P+GR ++++ ++ G S L ++ +GR + L
Sbjct: 355 YVQDLATGQVTALTDTTRDESPSFAPNGRYILYATQQGGR--SVLAAVSSDGRIKQRLSV 412
Query: 433 TPAYASDPQWVGFMD 447
+P W FM
Sbjct: 413 QGGDVREPSWGPFMQ 427
>gnl|CDD|179879 PRK04792, tolB, translocation protein TolB; Provisional.
Length = 448
Score = 157 bits (400), Expect = 5e-39
Identities = 122/440 (27%), Positives = 205/440 (46%), Gaps = 39/440 (8%)
Query: 13 MKINLCLLLVLIGGFFPTSIHAFVKVAT---NSANYSPVSIAFTKFVSIDELGGKVSEVV 69
MK LL+ + F + A V T +SA P+++ K+ L +S+VV
Sbjct: 1 MKRLGKWLLLALLLFSQPAKAALEIVITEGIDSAR--PIAVVPFKWQGTGPLPQDISDVV 58
Query: 70 SKDLQRSDVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFR 129
+ DLQRS F+ + Q + I + W +LG + +V G V G + V F
Sbjct: 59 ASDLQRSGKFSPLDTLKMPQTPISEAQI-NYSAWTNLGVEAVVVGSVKPYGPGQYLVSFE 117
Query: 130 LWDVKDRKQIIGKK----------------FFS-----SPASWRKIAHTISDDIYQSITG 168
L DV R Q+ G + S S A +R+ AH ISD +Y+ +TG
Sbjct: 118 LVDVV-RGQLTGGQGPALSNGELVSSKDHVLDSRVAVISAAQFRQYAHRISDIVYEKLTG 176
Query: 169 EKGDFNSRILFVSESVVSGIIKN--SLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQKV 226
E+G F +RI +V VV+ K L + D DG N + L S + L P +SP+ +K+
Sbjct: 177 ERGAFLTRIAYV---VVNDKDKYPYQLMIADYDGYNEQMLLRSP-EPLMSPAWSPDGRKL 232
Query: 227 AYATYDDEDILRVYLMDTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIYS 286
AY ++++ +++ D + +++ +F + APRFS +GK+ + + KD +IY
Sbjct: 233 AYVSFENRKA-EIFVQDI-YTQVREKVTSFPGINGAPRFSPDGKKLALVLSKDGQPEIYV 290
Query: 287 VDLQSNATERLTNTLFINISASYSPDSSQIVFESDREGKEQLYVMQSNGSDQKRISQDKE 346
VD+ + A R+T I+ S+ PD ++F S+R GK Q+Y + R++ + E
Sbjct: 291 VDIATKALTRITRHRAIDTEPSWHPDGKSLIFTSERGGKPQIYRVNLASGKVSRLTFEGE 350
Query: 347 ASYFDPVWSPQGDLIAFTKFSGEKFAIGVMKKDGSQERLLVEDSNLQAPTWSPSGRSLIF 406
+ + +P G + + KF I + ++L ++P+ +P+G +I+
Sbjct: 351 QNLGGSI-TPDGRSMIMVNRTNGKFNIARQDLETGAMQVLTSTRLDESPSVAPNGTMVIY 409
Query: 407 SRKKDGDTGSKLYSIDLNGR 426
S G SID GR
Sbjct: 410 STTYQGKQVLAAVSID--GR 427
>gnl|CDD|179329 PRK01742, tolB, translocation protein TolB; Provisional.
Length = 429
Score = 125 bits (316), Expect = 2e-29
Identities = 100/391 (25%), Positives = 179/391 (45%), Gaps = 47/391 (12%)
Query: 50 IAFTKFVSIDELGGKVSEVVSKDLQRSDVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQ 109
IA F + ++++++ DL+ S FN I+ Q+ T+ + + W+++G
Sbjct: 41 IAVVPFKWNGSVPADIAQIIADDLRNSGKFNPIAVSKMPQQPTSAAEVNP-EAWSNIGID 99
Query: 110 VLVTGRVIKEGKDRLRVEFRLWDVKDRK----QIIGKKFFSSPASW-RKIAHTISDDIYQ 164
+V G+V G + ++L D ++ + ++ PA W R AHT+SD++++
Sbjct: 100 AVVVGQVTPSGNG-YNIAYQLVDTVGASGNPGTVLAQNSYTVPAKWLRYGAHTVSDEVFE 158
Query: 165 SITGEKGDFNSRILFVSESVVSGIIKNSLCVMDRDGANIRYLTPSRDQILFEPRFSPNQQ 224
+T +G F +RI +V + G + V D DG N +++ Q L P +SP+
Sbjct: 159 KLTAIRGAFRTRIAYVVQKN-GGSQPYEVRVADYDGFN-QFIVNRSSQPLMSPAWSPDGS 216
Query: 225 KVAYATYDDEDILRVYLMDTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDI 284
K+AY +++++ ++ + D R A K + +FR AP FS +G R + KD ++I
Sbjct: 217 KLAYVSFENKKS-QLVVHDLR-SGARKVVASFRGHNGAPAFSPDGSRLAFASSKDGVLNI 274
Query: 285 YSVDLQSNATERLTNTLFINISASYSPDSSQIVFESDREGKEQLYVMQSNGSD------- 337
Y + +LT+ N S+SPD I+F SDR G Q+Y M ++G
Sbjct: 275 YVMGANGGTPSQLTSGAGNNTEPSWSPDGQSILFTSDRSGSPQVYRMSASGGGASLVGGR 334
Query: 338 --QKRISQDKE------------------------ASYFD--PVWSPQGDLIAFTKFSGE 369
+IS D + +++ D P SP G +I ++ G
Sbjct: 335 GYSAQISADGKTLVMINGDNVVKQDLTSGSTEVLSSTFLDESPSISPNGIMIIYSSTQGL 394
Query: 370 KFAIGVMKKDGS-QERLLVEDSNLQAPTWSP 399
+ ++ DG + RL D ++ P WSP
Sbjct: 395 GKVLQLVSADGRFKARLPGSDGQVKFPAWSP 425
>gnl|CDD|179613 PRK03629, tolB, translocation protein TolB; Provisional.
Length = 429
Score = 122 bits (307), Expect = 2e-28
Identities = 101/413 (24%), Positives = 187/413 (45%), Gaps = 38/413 (9%)
Query: 28 FPTSIHAFVKV----ATNSANYSPVSIAFTKFVSIDELGGKVSEVVSKDLQRSDVFNLIS 83
+ + +HA V++ +SA P+ + K+ + +V+ DL+ S FN +
Sbjct: 14 WASVLHAEVRIEITQGVDSAR--PIGVVPFKWAGPGAAPEDIGGIVAADLRNSGKFNPLD 71
Query: 84 QDSFKQK-ITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDRK-QIIG 141
+ Q+ T + P W++LG +V G+V V ++L D ++
Sbjct: 72 RARLPQQPGTAQEVQPAA--WSALGIDAVVVGQVQPNADGSYNVSYQLVDTSGAPGTVLA 129
Query: 142 KKFFSSPASW-RKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGIIKNSLCVMDRDG 200
+ + W R AHT SD++++ +TG KG F +RI +V ++ G L V D DG
Sbjct: 130 QNQYKVTKQWLRYAAHTASDEVFEKLTGIKGAFRTRIAYVVQTN-GGQFPYELRVSDYDG 188
Query: 201 ANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYLMDTRIDRAPKRIGNFRSMI 260
N +++ Q L P +SP+ K+AY T+ E ++ T + A +++ +F
Sbjct: 189 YN-QFVVHRSPQPLMSPAWSPDGSKLAYVTF--ESGRSALVIQTLANGAVRQVASFPRHN 245
Query: 261 LAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFES 320
AP FS +G + ++ K ++++Y +DL S ++T+ N ++ PDS + + S
Sbjct: 246 GAPAFSPDGSKLAFALSKTGSLNLYVMDLASGQIRQVTDGRSNNTEPTWFPDSQNLAYTS 305
Query: 321 DREGKEQLYVMQSNGSDQKRISQDKEASYFDPVWSPQGDLIAFTKFSGEKFAIGVMKKDG 380
D+ G+ Q+Y + NG +RI+ + + D S G KF + V G
Sbjct: 306 DQAGRPQVYKVNINGGAPQRITWEG-SQNQDADVSSDG-----------KFMVMVSSNGG 353
Query: 381 SQ-----------ERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTGSKLYSID 422
Q ++L + + P+ +P+G +I+S + + L S D
Sbjct: 354 QQHIAKQDLATGGVQVLTDTFLDETPSIAPNGTMVIYSSSQGMGSVLNLVSTD 406
>gnl|CDD|179209 PRK01029, tolB, translocation protein TolB; Provisional.
Length = 428
Score = 68.2 bits (167), Expect = 4e-12
Identities = 82/301 (27%), Positives = 137/301 (45%), Gaps = 24/301 (7%)
Query: 142 KKFFS-----SPASWRKIAHTISDDIYQSITGEKGDFNSRILF-VSESVVSGIIKNS-LC 194
+K FS + R+ H +D I+ ++TG G + +I+F +S + +K L
Sbjct: 109 QKLFSLELSGDLSKDRQKIHEAADTIHYALTGVPGISSGKIIFSLSTTNSDTELKQGELW 168
Query: 195 VMDRDGANIRYLTPSRDQILFEPRFSPNQQKVA--YATYDDEDILRVYLMDTRIDRAPKR 252
+D DG N+R LT + P + Y +Y + +++L + + A K+
Sbjct: 169 SVDYDGQNLRPLT-QEHSLSITPTWMHIGSGFPYLYVSYK-LGVPKIFL-GSLENPAGKK 225
Query: 253 IGNFRSMILAPRFSSNGKR-ALIS-VQKDEAMDIYSVDLQSNAT---ERLTNTLF-INIS 306
I + L P FS K A IS + + I S L++ A RL N F +
Sbjct: 226 ILALQGNQLMPTFSPRKKLLAFISDRYGNPDLFIQSFSLETGAIGKPRRLLNEAFGTQGN 285
Query: 307 ASYSPDSSQIVFESDREGKEQLYVMQSNGSDQK-RISQDKEASYFDPVWSPQGDLIAFTK 365
S+SPD +++VF S+++G+ ++Y+MQ + Q R+ K + P WSP G IAF
Sbjct: 286 PSFSPDGTRLVFVSNKDGRPRIYIMQIDPEGQSPRLLTKKYRNSSCPAWSPDGKKIAFCS 345
Query: 366 FSGEKFAIGVMK-KDGSQERLLVEDSNLQAPTWSPSGRSLIFSRKKDGDTG-SKLYSIDL 423
I V G +L N ++P+W+ L++S G++ S+LY I L
Sbjct: 346 VIKGVRQICVYDLATGRDYQLTTSPENKESPSWAIDSLHLVYSA---GNSNESELYLISL 402
Query: 424 N 424
Sbjct: 403 I 403
Score = 45.1 bits (107), Expect = 4e-05
Identities = 36/143 (25%), Positives = 59/143 (41%), Gaps = 9/143 (6%)
Query: 308 SYSPDSSQIVFESDREGKEQLYVMQSNGSD-----QKRISQDKEASYFDPVWSPQGDLIA 362
++SP + F SDR G L++ + +R+ + + +P +SP G +
Sbjct: 237 TFSPRKKLLAFISDRYGNPDLFIQSFSLETGAIGKPRRLLNEAFGTQGNPSFSPDGTRLV 296
Query: 363 FTKFSGEKFAIGVMKKD--GSQERLLVE-DSNLQAPTWSPSGRSLIFSRKKDGDTGSKLY 419
F + I +M+ D G RLL + N P WSP G+ + F G +Y
Sbjct: 297 FVSNKDGRPRIYIMQIDPEGQSPRLLTKKYRNSSCPAWSPDGKKIAFCSVIKGVRQICVY 356
Query: 420 SIDLNGRNETLINTPAYASDPQW 442
+ GR+ L +P P W
Sbjct: 357 DL-ATGRDYQLTTSPENKESPSW 378
Score = 38.2 bits (89), Expect = 0.004
Identities = 35/142 (24%), Positives = 64/142 (45%), Gaps = 9/142 (6%)
Query: 217 PRFSPNQQKVAYATYDDEDILRVYLMDTRID---RAPKRIGNFRSMILAPRFSSNGKR-A 272
P FSP+ ++ + + D R+Y+M +ID ++P+ + P +S +GK+ A
Sbjct: 286 PSFSPDGTRLVFVSNKDGRP-RIYIM--QIDPEGQSPRLLTKKYRNSSCPAWSPDGKKIA 342
Query: 273 LISVQKDEAMDIYSVDLQSNATERLTNTLFINISASYSPDSSQIVFESDREGKEQLYVMQ 332
SV K I DL + +LT + S S++ DS +V+ + + +LY++
Sbjct: 343 FCSVIKG-VRQICVYDLATGRDYQLTTSPENKESPSWAIDSLHLVYSAGNSNESELYLIS 401
Query: 333 SNGSDQKRISQDKEASYFDPVW 354
++I F P W
Sbjct: 402 LITKKTRKIVIGSGEKRF-PSW 422
Score = 37.8 bits (88), Expect = 0.006
Identities = 34/108 (31%), Positives = 46/108 (42%), Gaps = 22/108 (20%)
Query: 350 FDPVWSPQGDLIAFTK------------FSGEKFAIGVMKKDGSQERLLVEDSNLQA-PT 396
P +SP+ L+AF FS E G + G RLL E Q P+
Sbjct: 234 LMPTFSPRKKLLAFISDRYGNPDLFIQSFSLET---GAI---GKPRRLLNEAFGTQGNPS 287
Query: 397 WSPSGRSLIFSRKKDGDTGSKLYSIDLNGRNETLINTPAY--ASDPQW 442
+SP G L+F KDG + ID G++ L+ T Y +S P W
Sbjct: 288 FSPDGTRLVFVSNKDGRPRIYIMQIDPEGQSPRLL-TKKYRNSSCPAW 334
>gnl|CDD|179726 PRK04043, tolB, translocation protein TolB; Provisional.
Length = 419
Score = 52.3 bits (126), Expect = 3e-07
Identities = 65/323 (20%), Positives = 127/323 (39%), Gaps = 35/323 (10%)
Query: 13 MKINLCLLLVLIGGFFPTSIHAFVKVATNSANYSPVSIAFTKFVSIDELGGKVSEVVSKD 72
MKI LL I F ++ A + + + + ++ L K +++ D
Sbjct: 1 MKILWLFLLFSISLF---AVDATLDIVKKGQKLPKIVVEDASDLNDANLKKKFFKILVND 57
Query: 73 LQRSDVFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWD 132
L+ S F + ++ Q + + L + + K G +L + +L+D
Sbjct: 58 LKVSSHFEVS--ENKDQSSGDINYNELKDKKVDLVFRYSLAN---KNGN-KLSLRVKLYD 111
Query: 133 VKDRKQIIGKKF-FSSPASWRKIAHTISDDIYQSITGEKGDFNSRILFVSESVVSGIIKN 191
V K + +S + +AH + DI + D+ R V S +G K+
Sbjct: 112 VNTGSLKFEKDYTINSLDRYPFLAHKSAIDINDYLKAPSIDWMKR--KVVFSKYTGPKKS 169
Query: 192 SLCVMD----------RDGANIRYLTPSRDQILFEPRFSPNQQKVAYATYDDEDILRVYL 241
++ + D + G NI F P+++ +Q Y T E +Y
Sbjct: 170 NIVLADYTLTYQKVIVKGGLNI-----------F-PKWANKEQTAFYYTSYGERKPTLYK 217
Query: 242 MDTRIDRAPKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIYSVDLQSNATERLTNTL 301
+ ++I + + M++ S +G + L+++ DIY D + ++TN
Sbjct: 218 YNLY-TGKKEKIASSQGMLVVSDVSKDGSKLLLTMAPKGQPDIYLYDTNTKTLTQITNYP 276
Query: 302 FINISASYSPDSSQIVFESDREG 324
I+++ ++ D +IVF SDR G
Sbjct: 277 GIDVNGNFVEDDKRIVFVSDRLG 299
>gnl|CDD|148980 pfam07676, PD40, WD40-like Beta Propeller Repeat. This family
appears to be related to the pfam00400 repeat This This
repeat corresponds to the RIVW repeat identified in cell
surface proteins [Adindla et al. Comparative and
Functional Genomics 2004; 5:2-16].
Length = 37
Score = 44.4 bits (106), Expect = 6e-05
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 295 ERLTNTLFINISASYSPDSSQIVFESDREGKEQLYV 330
+RLTNT S+SPD ++ F SDR G +YV
Sbjct: 2 KRLTNTPGNEGEPSWSPDGKRLAFTSDRGGSPDIYV 37
Score = 31.7 bits (73), Expect = 0.35
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 383 ERLLVEDSNLQAPTWSPSGRSLIFSRKKDGD 413
+RL N P+WSP G+ L F+ + G
Sbjct: 2 KRLTNTPGNEGEPSWSPDGKRLAFTSDRGGS 32
Score = 30.2 bits (69), Expect = 1.2
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 250 PKRIGNFRSMILAPRFSSNGKRALISVQKDEAMDIY 285
KR+ N P +S +GKR + + + DIY
Sbjct: 1 LKRLTNTPGNEGEPSWSPDGKRLAFTSDRGGSPDIY 36
>gnl|CDD|129816 TIGR00733, TIGR00733, putative oligopeptide transporter, OPT
family. This protein represents a small family of
integral membrane proteins from Gram-negative bacteria,
a Gram-positive bacteria, and an archaeal species.
Members of this family contain 15 to 18 GES predicted
transmembrane regions, and this family has extensive
homology to a family of yeast tetrapeptide transporters,
including isp4 (Schizosaccharomyces pombe) and Opt1
(Candida albicans). EspB, an apparent equivalog from
Myxococcus xanthus, shares an operon with a two
component system regulatory protein, and is required for
the normal timing of sporulation after the aggregation
of cells. This is consistent with a role in transporting
oligopeptides as signals across the membrane.
Length = 591
Score = 27.9 bits (62), Expect = 4.9
Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 7 IAEELNMKINLCLLLVLIGGFFPTSIHAFVKVATNSANYSPVS 49
I + M I + +L+LI GFF +I ++ S+N SP+S
Sbjct: 322 ILHNIGMAIAVMAVLMLIIGFFVAAIAGYMAGLVGSSN-SPIS 363
>gnl|CDD|182707 PRK10762, PRK10762, D-ribose transporter ATP binding protein;
Provisional.
Length = 501
Score = 27.7 bits (62), Expect = 6.2
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 5/29 (17%)
Query: 202 NIRYLTPSRDQILFEPRFSP-NQQKVAYA 229
NI+ TPS +Q + S NQQKVA A
Sbjct: 383 NIK--TPSMEQAIGL--LSGGNQQKVAIA 407
>gnl|CDD|180146 PRK05582, PRK05582, DNA topoisomerase I; Validated.
Length = 650
Score = 27.5 bits (62), Expect = 8.2
Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 27/77 (35%)
Query: 78 VFNLISQDSFKQKITNPDSIPRFQDWNSLGAQVLVTGRVIKEGKDRLRVEFRLWDVKDRK 137
VFN I++D+ K NP I D N + AQ R++ DRL V ++L
Sbjct: 109 VFNEITKDAIKNAFKNPRKI----DMNLVDAQ--QARRIL----DRL-VGYKL------- 150
Query: 138 QIIGKKFFSSPASWRKI 154
SP W+K+
Sbjct: 151 ---------SPLLWKKV 158
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.318 0.134 0.385
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,239,410
Number of extensions: 465518
Number of successful extensions: 937
Number of sequences better than 10.0: 1
Number of HSP's gapped: 811
Number of HSP's successfully gapped: 31
Length of query: 447
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 351
Effective length of database: 3,920,105
Effective search space: 1375956855
Effective search space used: 1375956855
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 (26.5 bits)