RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254780529|ref|YP_003064942.1| flagellar motor protein MotB
[Candidatus Liberibacter asiaticus str. psy62]
(343 letters)
>gnl|CDD|168338 PRK05996, motB, flagellar motor protein MotB; Validated.
Length = 423
Score = 163 bits (414), Expect = 7e-41
Identities = 70/194 (36%), Positives = 111/194 (57%), Gaps = 7/194 (3%)
Query: 149 RDSEKGKDLCKSTDLEKSINKEENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVA 208
+ E D K+ E + N + +K + + ++K + L I+ + G VA
Sbjct: 237 TEEELIADAKKAATGEPAANAAKA------AKPEPMPDDQQKEAEQLQAAIAQAIGG-VA 289
Query: 209 DNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISI 268
+ +GV G+LIS+ DQ + MF S++P E ++ ++KIG++LA + I
Sbjct: 290 GKLAEGVTVTPVEGGLLISLTDQVDYGMFAIGSAVPRAELVLAMEKIGQLLAERPGAVII 349
Query: 269 RGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPMN 328
RGHTDA PF++ DNWRLS RA SAY +L++ G+ E RI ++ GFA R K+ +DP
Sbjct: 350 RGHTDARPFKSATYDNWRLSTARAQSAYYMLVRGGLDEKRIEQVEGFADRRPKLPNDPNA 409
Query: 329 SANRRIDILVEDRQ 342
+ANRRI+IL++ +Q
Sbjct: 410 AANRRIEILIQSKQ 423
Score = 93.2 bits (232), Expect = 9e-20
Identities = 39/102 (38%), Positives = 53/102 (51%), Gaps = 10/102 (9%)
Query: 2 NSHGDKNQENDQFIIIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDT 61
H KN+ II+++ D ++ G WKI YADFMT +MAFFLVMW+INA +++T
Sbjct: 5 IHHEGKNE----IIIVRRGGDDDHEGHHGGVWKIAYADFMTAMMAFFLVMWLINAANEET 60
Query: 62 KKAIEQYFNPFGKNLM---TASKGIFD-EQNPPERSSQNKID 99
K A+ YFNP L + KG+ D K
Sbjct: 61 KAAVASYFNPI--KLTDRKPSEKGLKDPVDGAEGEQKPGKSK 100
>gnl|CDD|181621 PRK09041, motB, flagellar motor protein MotB; Validated.
Length = 317
Score = 148 bits (375), Expect = 3e-36
Identities = 98/338 (28%), Positives = 150/338 (44%), Gaps = 74/338 (21%)
Query: 10 ENDQFIIIK--KKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQ 67
EN I++K KK ++ GSWKI YADFMT +MAFFLVMW+++++ + I +
Sbjct: 4 ENHPPIVVKRVKKKGH---GHHGGSWKIAYADFMTAMMAFFLVMWLLSSSTPEQLIGIAE 60
Query: 68 YF-NPFGKNLMTASKGIFDEQNPPERSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQR 126
YF P L A G S + I D+ IT+ ++ +
Sbjct: 61 YFRTP----LKVALTG-----GDRSSDSTSPIPGGGDD-ITQQDGEVNKQPNIAELAQGE 110
Query: 127 LENNIFYLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLPPLSKEKILAM 186
E R+ E+ + L + +L+++I E N P L
Sbjct: 111 KER-------------------REQERLEKLKQ--ELDQAI--ESN---PKLR------- 137
Query: 187 KRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLP 246
+ K +L I T GL R I I+D +N PMF S+ P
Sbjct: 138 QFKPQL-----LIDLTQEGL--------------R----IQIVDSQNRPMFATGSAEVEP 174
Query: 247 ETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARD--NWRLSLDRAYSAYQVLMKSGV 304
+L++I VL IS+ GHTDA+P+ N + NW LS DRA ++ + L+ G+
Sbjct: 175 YMRDILREIAPVLNDVPNRISLSGHTDATPYANGEKGYSNWELSADRANASRRELVAGGM 234
Query: 305 SEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDRQ 342
E ++ ++ G A L DP+N NRRI I+V +++
Sbjct: 235 DEGKVLRVVGLASTMLLDKKDPLNPVNRRISIVVLNKK 272
>gnl|CDD|180691 PRK06778, PRK06778, hypothetical protein; Validated.
Length = 289
Score = 102 bits (255), Expect = 1e-22
Identities = 79/323 (24%), Positives = 132/323 (40%), Gaps = 70/323 (21%)
Query: 16 IIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFGKN 75
IIK+ + G+WK+ +ADF +MA F+V+WI+N+ +++I +
Sbjct: 5 IIKRANRKKHHVRHSGAWKVAFADFTLAMMALFMVLWIVNSVSKSERESIIAALH----- 59
Query: 76 LMTASKGIFDEQNPPERSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQRLENNIFYLS 135
+ IF N S NKI S
Sbjct: 60 ----GQSIF---NGGGLSPLNKISPSHP-------------------------------P 81
Query: 136 NSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLPPLSKEKILAMKRKKRLQDL 195
+ + +K +D+ + T L K K L +L
Sbjct: 82 KPATVAVPEET----EKKARDVNEKTALLKK--------------------KSATELGEL 117
Query: 196 AKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKI 255
A I++ ++ + E G+ + I D +N MF++ S+ +P +L ++
Sbjct: 118 ATSINTIAR---DAHMEANLEMEIVPQGLRVLIKDDQNRNMFERGSAQIMPFFKTLLVEL 174
Query: 256 GEVLAHSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGF 315
V I I GHTDA ++N +NW LS DRA SA +VL ++G+ ED++ ++S
Sbjct: 175 APVFDSLDNKIIITGHTDAMAYKNNIYNNWNLSGDRALSARRVLEEAGMPEDKVMQVSAM 234
Query: 316 AHHRLKIASDPMNSANRRIDILV 338
A L A +P ++ NRRI+I+V
Sbjct: 235 ADQMLLDAKNPQSAGNRRIEIMV 257
>gnl|CDD|183756 PRK12799, motB, flagellar motor protein MotB; Reviewed.
Length = 421
Score = 70.1 bits (171), Expect = 9e-13
Identities = 48/133 (36%), Positives = 70/133 (52%), Gaps = 8/133 (6%)
Query: 215 VLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDA 274
+L G+ I IID +N PMF S+ P +L+ I +L +S+ GHTD
Sbjct: 138 LLINMMDEGLRIQIIDSQNRPMFKMGSAQVEPYMRDILRAIAPILNDIPNKLSLSGHTDD 197
Query: 275 SPFRNIAR--DNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAH-HRLK--IASDPMNS 329
P+ R NW LS DRA ++ + L+ G+ E +I ++ G A RLK + DP+
Sbjct: 198 LPYARGERGYSNWELSADRANASRRELLAGGLDEGKILRVVGMASTMRLKEQASDDPV-- 255
Query: 330 ANRRIDILVEDRQ 342
NRRI ILV ++Q
Sbjct: 256 -NRRISILVLNKQ 267
Score = 63.2 bits (153), Expect = 1e-10
Identities = 29/81 (35%), Positives = 42/81 (51%)
Query: 9 QENDQFIIIKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQY 68
+N I++KK+ + GSWKI YADFMT +MAFFLVMW++ + I +Y
Sbjct: 3 HQNHPVILVKKRKTKHGAAHYGGSWKIAYADFMTAMMAFFLVMWLLAVSSPQELTQIAEY 62
Query: 69 FNPFGKNLMTASKGIFDEQNP 89
F K +T+ +P
Sbjct: 63 FRTPLKVALTSGDKSSSSTSP 83
>gnl|CDD|181590 PRK08944, motB, flagellar motor protein MotB; Reviewed.
Length = 302
Score = 66.6 bits (163), Expect = 8e-12
Identities = 50/155 (32%), Positives = 79/155 (50%), Gaps = 13/155 (8%)
Query: 193 QDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVL 252
+DL KK++ L + D ++ E+ I+I I R F S+ P+ V+
Sbjct: 145 EDLVKKLAQQLEKEIEDGAIE---IESLGQQIIIRI---REKGSFPSGSAFLQPKFKPVV 198
Query: 253 QKIGEVLAHSTEVISIRGHTDASPFRN-IARDNWRLSLDRAYSAYQVLMKS-GVSEDRIS 310
+KIGE+L +I++ GHTD P + + R NW LS RA + L+K G R+
Sbjct: 199 RKIGELLKDVPGIITVSGHTDNVPISSELYRSNWDLSSARAVAVAHELLKVKGFDPQRL- 257
Query: 311 KISGFAHHRLKIASD-PMNSA-NRRIDILVEDRQG 343
K+ G A + + +D N A NRR++I++E QG
Sbjct: 258 KVVGMADTQPLVPNDTAENRARNRRVEIIIE--QG 290
Score = 36.9 bits (86), Expect = 0.008
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 24 DDTPNNLGSWKIVYADFMTVLMAFFLVM 51
P +W +AD M++LM FF+++
Sbjct: 8 KCPPPGAPAWLATFADLMSLLMCFFVLL 35
>gnl|CDD|181618 PRK09038, PRK09038, flagellar motor protein MotD; Reviewed.
Length = 281
Score = 63.1 bits (154), Expect = 9e-11
Identities = 37/161 (22%), Positives = 70/161 (43%), Gaps = 20/161 (12%)
Query: 187 KRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLP 246
+ + +L+ +A + L L+ V I I I ++ +F ++
Sbjct: 93 RAQDQLKTIADDLRKALGPLIESGQVT---VRRNELWIEIEI---NSSLLFGSGDAMLSD 146
Query: 247 ETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQVLMKSGV 304
+ +L+K+ EVL + I + G TD P A+ NW LS RA S ++L GV
Sbjct: 147 QAFAILEKVAEVLKPAPNPIHVEGFTDNVPIAT-AQFPSNWELSAARAASVVRLLADDGV 205
Query: 305 SEDRISKISGFAHHRLKIASDPMN------SANRRIDILVE 339
+ R++ + G+ + +A N + NRR+ +++
Sbjct: 206 APSRLAAV-GYGEFQ-PVAD---NDTAEGRARNRRVVLVIL 241
Score = 41.5 bits (98), Expect = 3e-04
Identities = 13/22 (59%), Positives = 18/22 (81%)
Query: 33 WKIVYADFMTVLMAFFLVMWII 54
W + YADF+T+L AFF+VM+ I
Sbjct: 17 WLVSYADFITLLFAFFVVMYAI 38
>gnl|CDD|132393 TIGR03350, type_VI_ompA, type VI secretion system OmpA/MotB family
protein. The flagellar motor protein MotB and the
Gram-negative bacterial outer membrane protein OmpA
share a region of sequence homology. This model
describes a domain found fused to type VI secretion
system homologs of the type IV system protein DotU (see
model TIGR03349), with OmpA/MotB homology.
Length = 137
Score = 60.0 bits (146), Expect = 8e-10
Identities = 40/147 (27%), Positives = 62/147 (42%), Gaps = 20/147 (13%)
Query: 202 TLSGLVADNIVKGVL-FETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLA 260
L L+A I G+L + ++ + R +F S+ + +L +I + LA
Sbjct: 1 RLRALLAPEIAAGLLTVDEDGDRSVVRL---RGDELFASGSAEVRADFEPLLDRIAKALA 57
Query: 261 HSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHR 319
I++ GHTD P R NW LS RA + VL + GV R+ G
Sbjct: 58 AVPGRITVVGHTDNVPIRTSRFPSNWHLSEARAKAVADVLAQGGVPAGRVR-AEG----- 111
Query: 320 LKIASDPMNS--------ANRRIDILV 338
+ S+P+ S NRR++I V
Sbjct: 112 -RGDSEPIASNATAAGRAQNRRVEIDV 137
>gnl|CDD|102525 PRK06742, PRK06742, flagellar motor protein MotS; Reviewed.
Length = 225
Score = 51.6 bits (123), Expect = 3e-07
Identities = 53/190 (27%), Positives = 85/190 (44%), Gaps = 11/190 (5%)
Query: 155 KDLCKSTDLEKSINKEENYFLPPLSKEK-ILAMKRKKRLQDLAKKISSTLSGLVADNIVK 213
K L K +D E+ K +P +S EK M KKR+ +L KK L V +N +
Sbjct: 43 KMLEKFSDTEQVDAKVMENTIPDISHEKNDEKMISKKRMDELYKK----LKAYVDNNGIS 98
Query: 214 GVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTD 273
V TG+ + I+D +FD + PE ++ ++ I + GHTD
Sbjct: 99 QVNVYREDTGVSVVIVDNL---IFDTGDANVKPEAKEIISQLVGFFQSVPNPIVVEGHTD 155
Query: 274 ASPFRNIA-RDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD-PMN-SA 330
+ P N NW LS RA + L++ +D+ G+A + + +D P N
Sbjct: 156 SRPIHNDKFPSNWELSSARAANMIHHLIEVYNVDDKRLAAVGYADTKPVVPNDSPQNWEK 215
Query: 331 NRRIDILVED 340
NRR+ I +++
Sbjct: 216 NRRVVIYIKE 225
>gnl|CDD|180801 PRK07033, PRK07033, hypothetical protein; Provisional.
Length = 427
Score = 50.4 bits (121), Expect = 7e-07
Identities = 32/122 (26%), Positives = 54/122 (44%), Gaps = 18/122 (14%)
Query: 227 SIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR--DN 284
S++ R +F +S+ VL ++ + L + + G++D P R AR N
Sbjct: 308 SVVTLRGDGLFASASTSVRDRYQPVLARVADALNQVKGNVLVTGYSDNVPIRT-ARFPSN 366
Query: 285 WRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPM---NSA-----NRRIDI 336
W LS RA + +L +R++ A R SDP+ +SA NRR++I
Sbjct: 367 WELSQARAQAVRALLAARLGQPERVT-----AEGR--GDSDPVAPNDSAENRARNRRVEI 419
Query: 337 LV 338
+
Sbjct: 420 TL 421
>gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated.
Length = 343
Score = 50.3 bits (121), Expect = 7e-07
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 11/84 (13%)
Query: 265 VISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKI 322
V+ + GHTD P R DNW LS RA S + L+ GV DR++ +GF +
Sbjct: 264 VLRVDGHTDNVPLSGTGRFRDNWELSSARAISVVKFLIALGVPADRLAA-AGFGEFQ--- 319
Query: 323 ASDPMNSA-----NRRIDILVEDR 341
DP ++ NRRI++ + +R
Sbjct: 320 PLDPGDTPEARARNRRIELKLTER 343
>gnl|CDD|180652 PRK06667, motB, flagellar motor protein MotB; Validated.
Length = 252
Score = 50.2 bits (120), Expect = 7e-07
Identities = 49/174 (28%), Positives = 70/174 (40%), Gaps = 22/174 (12%)
Query: 175 LPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNT 234
LP K K L+ +K +I S K + E R G++IS+ +
Sbjct: 81 LPSTEKGKQLSQAKKNASSLFKPEIQSN----------KVAVTEDER-GLVISLA---SD 126
Query: 235 PMFDKSSS-IPLPETIVVLQKIGEV---LAHSTEVISIRGHTD--ASPFRNIARDNWRLS 288
F S+ + L E LQKI L + I GHTD + NW LS
Sbjct: 127 AFFYPGSAEVKLEENRETLQKIASFIGFLDLAGRNFRIEGHTDNVDVNPEGPWKSNWELS 186
Query: 289 LDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASD-PMNSA-NRRIDILVED 340
RA + + ++ G + ++SGFA R D P A NRRIDI++
Sbjct: 187 GARAVNMLEYILNYGDQSESWFQVSGFAGSRPLATEDTPEGRAYNRRIDIVILT 240
Score = 29.4 bits (66), Expect = 1.3
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 33 WKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFG--KNLMTASKG 82
+ + Y D +T+L+ FF++++ N D++ + I F G K T SKG
Sbjct: 18 YMLTYGDMVTLLLCFFVMLFTTNDVDENVLQIISASFTGTGFFKGGQTLSKG 69
>gnl|CDD|181095 PRK07734, motB, flagellar motor protein MotB; Reviewed.
Length = 259
Score = 46.3 bits (110), Expect = 1e-05
Identities = 44/171 (25%), Positives = 81/171 (47%), Gaps = 12/171 (7%)
Query: 180 KEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKGVLFET--TRTGILISIIDQRNTPMF 237
K+K A +KK+ + K + + + + + L +T T G+LI+I+D +F
Sbjct: 91 KKKEEAEAKKKKEMEELKAVQKKIDQYIKEKQLSSSL-QTKLTEEGLLITILD---NILF 146
Query: 238 DKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSA 295
D + E + + ++I +L + I+I GHTD P N NW LS+ RA +
Sbjct: 147 DSGKADVRLEDLPLAKEISNLLVSNPPRNITISGHTDNVPIANAQFASNWELSVMRAVNF 206
Query: 296 YQVLMKSGVSEDRISKISGFAHHRLKIASDPM---NSANRRIDILVEDRQG 343
QVL+++ + G+ ++ IAS+ + NRR+++L+
Sbjct: 207 MQVLLENKELDPEKFSAKGYGEYK-PIASNDTAEGRAKNRRVEVLILPLTE 256
>gnl|CDD|181240 PRK08126, PRK08126, hypothetical protein; Provisional.
Length = 432
Score = 45.5 bits (108), Expect = 2e-05
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 14/160 (8%)
Query: 189 KKRLQDLAKKISST------LSGLVADNIVKGVLF--ETTRTGILISIIDQRNTPMFDKS 240
++R+ + + L L+ + I +G L E R S + R MF
Sbjct: 275 QQRIAAIGRMTPPPAPHRLRLKILLKNEIARGTLSVDEDARH----SSVVFRGDAMFVPG 330
Query: 241 SSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVL 299
+ P ++ KI +A +++ GHTD P R+ N LS RA Q+L
Sbjct: 331 QATVNPAMGPLIAKIAREIARVGGKVTVTGHTDNQPIRSAQFASNLVLSEKRAAQVAQML 390
Query: 300 MKSGVSEDRISKI-SGFAHHRLKIASDPMNSANRRIDILV 338
+GV R+ + G A + + NRR++I V
Sbjct: 391 QSAGVPASRLEAVGKGDAQPVADNRTPQGRAQNRRVEITV 430
>gnl|CDD|181435 PRK08457, motB, flagellar motor protein MotB; Reviewed.
Length = 257
Score = 43.2 bits (102), Expect = 9e-05
Identities = 24/75 (32%), Positives = 44/75 (58%), Gaps = 4/75 (5%)
Query: 266 ISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIAS 324
I++RG+TD SP +D++ L+ RAY+ +VL++ G++ +R+S S + + IA
Sbjct: 158 INVRGYTDNSPLNKSRYKDHYELAAARAYNVMKVLIQYGINPNRLS-FSSYGSNN-PIAP 215
Query: 325 DPMNSANRRIDILVE 339
+ + NR + VE
Sbjct: 216 ND-SLENRLKNNRVE 229
Score = 32.4 bits (74), Expect = 0.16
Identities = 12/37 (32%), Positives = 25/37 (67%)
Query: 33 WKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYF 69
W + YADF+++L+A F+ ++ I+A + +A++ F
Sbjct: 16 WAVPYADFLSLLLALFIALYAISAVNKAKVEALKTEF 52
>gnl|CDD|131849 TIGR02802, Pal_lipo, peptidoglycan-associated lipoprotein. Members
of this protein are Pal (also called OprL), the
Peptidoglycan-Associated Lipoprotein of the Tol-Pal
system. The system appears to be involved both in the
maintenance of outer membrane integrity and in the
import of certain organic molecules as nutrients.
Members of this family contain a hydrodrophobic
lipoprotein signal sequence, a conserved N-terminal
cleavage and modification site, a poorly conserved
low-complexity region, together comprising about 65
amino acids, and a well-conserved C-terminal domain. The
seed alignment for this model includes only the
conserved C-terminal domain.
Length = 104
Score = 39.8 bits (94), Expect = 9e-04
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 8/80 (10%)
Query: 237 FDKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRGHTD--ASPFRNIARDNWRLSLDRAY 293
FD SS E +L L + + ++I GHTD + N+A L RA
Sbjct: 4 FDFDSSDLKSEAQAILDAHAAYLKKNPSVRVTIEGHTDERGTREYNLA-----LGERRAN 58
Query: 294 SAYQVLMKSGVSEDRISKIS 313
+ L GVS +I +S
Sbjct: 59 AVKDYLQAKGVSASQIETVS 78
>gnl|CDD|182507 PRK10510, PRK10510, putative outer membrane lipoprotein;
Provisional.
Length = 219
Score = 39.1 bits (91), Expect = 0.002
Identities = 38/129 (29%), Positives = 59/129 (45%), Gaps = 10/129 (7%)
Query: 212 VKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLA-HSTEVISIRG 270
++G TR+G I I++ N FD SS+ P L + VL + +++ G
Sbjct: 92 MRGTGVSVTRSGDNI-ILNMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVVG 150
Query: 271 HTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKISGFAHHRLKIASDPM--- 327
+TD++ ++ N RLS RA S L+ GV RI G IAS+
Sbjct: 151 YTDSTGSHDL---NMRLSQQRADSVASALITQGVDASRIRT-QGMGPAN-PIASNSTAEG 205
Query: 328 NSANRRIDI 336
+ NRR++I
Sbjct: 206 KAQNRRVEI 214
>gnl|CDD|180754 PRK06925, PRK06925, flagellar motor protein MotS; Reviewed.
Length = 230
Score = 37.5 bits (87), Expect = 0.005
Identities = 30/109 (27%), Positives = 49/109 (44%), Gaps = 5/109 (4%)
Query: 236 MFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIAR-DNWRLSLDRAYS 294
+F+ + L + L KIG +L+ I + GHTD+ P NW LS RA S
Sbjct: 121 LFETGEADILKQAEPFLHKIGVLLSTIPNDIKVEGHTDSRPISTYRYPSNWELSAARASS 180
Query: 295 AYQVLM-KSGVSEDRISKISGFAHHR-LKIASDPMN-SANRRIDILVED 340
+ K + R + G+A + + + N NRR++I++ D
Sbjct: 181 VIRYFTSKEKLDSSRFIAV-GYADTKPVVPNTTEENMQENRRVEIVISD 228
Score = 29.0 bits (65), Expect = 1.7
Identities = 19/100 (19%), Positives = 44/100 (44%), Gaps = 10/100 (10%)
Query: 32 SWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFGKNLMTASKGIFDEQNPPE 91
W + ++D +T+++ FF++++ ++ D KA + F +G P
Sbjct: 14 KWMVTFSDLITLILVFFILLFSMSQIDAQKFKAAVESFQ---------QRGSLGFL-PSA 63
Query: 92 RSSQNKIDLSIDEHITKNSVDLKIGSTNQKKQYQRLENNI 131
+N + S DE ++ +D + N+ + L++ I
Sbjct: 64 IEFENPAESSEDEEKQEDQLDELLKKVNEYIEENELKSVI 103
>gnl|CDD|181620 PRK09040, PRK09040, hypothetical protein; Provisional.
Length = 214
Score = 36.1 bits (84), Expect = 0.011
Identities = 42/162 (25%), Positives = 69/162 (42%), Gaps = 18/162 (11%)
Query: 184 LAMKRKKRLQDLAKKISSTLSGLVADNIVKG-VLFETTRTGILISIIDQRNTPMFDKSSS 242
L + K+R + ++ TL +A + G V R GI S+ +F +S
Sbjct: 47 LEAEVKQRQAEAQRRK--TLEQALAGPLAAGRVTLVNGRIGISGSV-------LFALNSD 97
Query: 243 IPLPETIVVLQKIGEVLA----HSTEVISIRGHTDASPFRNIAR---DNWRLSLDRAYSA 295
PE +L+ + LA E++ + G TD P R R DNW LS RA +
Sbjct: 98 QLQPEGRELLKSLAGPLAAYLRARDEILMVSGFTDDQPVRAGNRRFADNWELSAQRALTV 157
Query: 296 YQVLMKSGVSEDRISKISGFAHHRLKIASDPMNSA-NRRIDI 336
+ L+ +GV + + + + +D A NRR++I
Sbjct: 158 TRALIDAGVPASSVFAAAFGSEQPVASNADDEGRAKNRRVEI 199
>gnl|CDD|168775 PRK07034, PRK07034, hypothetical protein; Provisional.
Length = 536
Score = 34.0 bits (77), Expect = 0.056
Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 14/96 (14%)
Query: 252 LQKIGEVLAHSTEVISIRGHTDASPFRNIA-RDNWRLSLDRAYSAYQVLMKSG-VSEDRI 309
++++G LA I + GHTD PFR+ + +N +LS RA L +S ++E
Sbjct: 415 IERLGLALAPWPGDIEVIGHTDNKPFRSTSGNNNLKLSAARASVVADKLRESTQINETHQ 474
Query: 310 SKISGFAHHRLKIASDPM--------NSANRRIDIL 337
+IS SDP+ NRR+DIL
Sbjct: 475 REISAIGRGE----SDPLADNATEEGRKRNRRVDIL 506
>gnl|CDD|182643 PRK10680, PRK10680, molybdopterin biosynthesis protein MoeA;
Provisional.
Length = 411
Score = 30.4 bits (69), Expect = 0.68
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 6/65 (9%)
Query: 225 LISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARDN 284
L+S+ + T M + + + ET+ ++Q G + A +++S D F N A D
Sbjct: 7 LMSL-ETALTEMLSRVTPLTATETLPLVQCFGRITAS--DIVS---PLDVPGFDNSAMDG 60
Query: 285 WRLSL 289
+ + L
Sbjct: 61 YAVRL 65
>gnl|CDD|163501 TIGR03789, pdsO, proteobacterial sortase system OmpA family
protein. A newly defined histidine kinase (TIGR03785)
and response regulator (TIGR03787) gene pair occurs
exclusively in Proteobacteria, mostly of marine origin,
nearly all of which contain a subfamily 6 sortase
(TIGR03784) and its single dedicated target protein
(TIGR03788) adjacent to to the sortase. This protein
family shows up in only in those species with the
histidine kinase/response regulator gene pair, and often
adjacent to that pair. It belongs to the OmpA protein
family (pfam00691). Its function is unknown. We assign
the gene symbol pdsO, for Proteobacterial Dedicated
Sortase system OmpA family protein.
Length = 239
Score = 30.2 bits (68), Expect = 0.78
Identities = 16/60 (26%), Positives = 29/60 (48%), Gaps = 4/60 (6%)
Query: 252 LQKIGEVLAHSTEV-ISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRIS 310
L ++ ++ S E+ + + G+ D R ++ N LS R L+K GV E R++
Sbjct: 154 LDEVATLMKQSPELKLDLSGYADR---RGDSQYNQALSEQRVLEVRSYLIKQGVDEARLT 210
>gnl|CDD|179889 PRK04885, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 265
Score = 29.4 bits (67), Expect = 1.5
Identities = 15/32 (46%), Positives = 19/32 (59%), Gaps = 4/32 (12%)
Query: 197 KKISSTLSGLVADNIVKGVLFETTR-TGILIS 227
K+I TL VAD + GVLFE R G+ +S
Sbjct: 126 KRIEGTL---VADVYINGVLFERFRGDGLCVS 154
>gnl|CDD|162714 TIGR02123, TRAP_fused, TRAP transporter, 4TM/12TM fusion protein.
In some species, the 12-transmembrane spanning and
4-transmembrane spanning components of tripartite
ATP-independent periplasmic (TRAP)-type transporters are
fused. This model describes such transporters, found in
the Archaea and in Bacteria.
Length = 613
Score = 29.2 bits (66), Expect = 1.5
Identities = 5/41 (12%), Positives = 12/41 (29%), Gaps = 5/41 (12%)
Query: 33 WKIVYADFMTVLMAFFLVMWIINATDDDTKK----AIEQYF 69
+ + A F ++ +V + A+E
Sbjct: 348 YSPIRAAFYSI-ALTLIVSLLSRKDTRMGLGEIFGALEDGA 387
>gnl|CDD|178647 PLN03099, PIR, Protein PIR; Provisional.
Length = 1232
Score = 29.2 bits (65), Expect = 1.9
Identities = 22/105 (20%), Positives = 46/105 (43%), Gaps = 26/105 (24%)
Query: 166 SINKEENYFLPPLSKEKILAMKRKK---RLQDLAKKISSTLSGLVADNIVKGVLFETTRT 222
+++ E + + P + + M+R K R DLA I+ ++ + +N+ LFE +
Sbjct: 688 AVDNGEKFSVQPKRYDALFKMRRVKILGRTIDLASLIAQRMNKIFRENL--DFLFERFES 745
Query: 223 GILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVIS 267
L S+++ LQ++ E+L + E++S
Sbjct: 746 QDLCSVVE---------------------LQRLVEILRLTHELLS 769
>gnl|CDD|149163 pfam07932, DAP_C, D-aminopeptidase, domain C. D-aminopeptidase is
a dimeric enzyme with each monomer being composed of
three domains. Domain C is organized to form a beta
barrel made up of eight antiparallel beta strands. It is
connected to domain B by a short linker sequence, and
interacts extensively with the domain A, the catalytic
domain. The gamma loop of domain C forms part of the
wall of the catalytic pocket; domain C is in fact
thought to confer substrate and inhibitor specificity to
the enzyme.
Length = 97
Score = 28.2 bits (63), Expect = 3.7
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 270 GHTDASPFRNIARDNWRLSLDRAYSA 295
G R + D W L+ R+ A
Sbjct: 36 GKGPMELMRYLGPDVWLLACRRSMDA 61
>gnl|CDD|136018 PRK06721, PRK06721, threonine synthase; Reviewed.
Length = 352
Score = 27.7 bits (61), Expect = 4.9
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 2/43 (4%)
Query: 243 IPLPETIVVLQKIGEVLAHSTEVISIRGHTDAS--PFRNIARD 283
I +PE + K+ + +A+ E+ISI G+ D + RNIA +
Sbjct: 103 IVIPEGKIAHGKLAQAVAYGAEIISIEGNFDDALKAVRNIAAE 145
>gnl|CDD|182744 PRK10802, PRK10802, peptidoglycan-associated outer membrane
lipoprotein; Provisional.
Length = 173
Score = 27.5 bits (61), Expect = 5.4
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 7/50 (14%)
Query: 266 ISIRGHTD--ASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKIS 313
+++ GH D +P NIA L RA + L GVS D+IS +S
Sbjct: 103 VTVEGHADERGTPEYNIA-----LGERRANAVKMYLQGKGVSADQISIVS 147
>gnl|CDD|180494 PRK06260, PRK06260, threonine synthase; Validated.
Length = 397
Score = 27.2 bits (61), Expect = 6.9
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 245 LPETIVVLQKIGEVLAHSTEVISIRGHTD 273
LP V L K+ + L H +V+ + G+ D
Sbjct: 145 LPAGKVALGKLAQALLHGAKVLEVDGNFD 173
>gnl|CDD|178050 PLN02431, PLN02431, ferredoxin--nitrite reductase.
Length = 587
Score = 27.0 bits (60), Expect = 7.0
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 170 EENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVA 208
E+N +P + K+ A+ + LQ + L GLVA
Sbjct: 432 EQNIIIPNVPNSKVEALLAEPLLQRFSPNPGLLLKGLVA 470
>gnl|CDD|179648 PRK03776, PRK03776, phosphoglycerol transferase I; Provisional.
Length = 762
Score = 27.0 bits (60), Expect = 7.7
Identities = 20/69 (28%), Positives = 29/69 (42%), Gaps = 7/69 (10%)
Query: 180 KEKILAMKRK-KRLQDLAKKISSTLSGLVADNIVKGVLFE--TTRTGILISIIDQRNTPM 236
KEK LA K RL + K+I D + F R +L+ + D+R P+
Sbjct: 471 KEKTLAWKPDIIRLWNFPKEIKD----FTIDQQKNMIAFSGSHFRLPLLLRVSDKRVEPL 526
Query: 237 FDKSSSIPL 245
+ S PL
Sbjct: 527 PESEYSAPL 535
>gnl|CDD|148567 pfam07019, Rab5ip, Rab5-interacting protein (Rab5ip). This
family consists of several Rab5-interacting protein
(RIP5 or Rab5ip ) sequences. The ras-related GTPase
rab5 is rate-limiting for homotypic early endosome
fusion. Rab5ip represents a novel rab5 interacting
protein that may function on endocytic vesicles as a
receptor for rab5-GDP and participate in the activation
of rab5.
Length = 81
Score = 26.8 bits (60), Expect = 8.6
Identities = 6/24 (25%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 31 GSWKIVYADFMTVLMAFFLVMWII 54
G W++ +T L F++ W +
Sbjct: 57 GRWELFTEGLLTGLAT-FVLTWTL 79
>gnl|CDD|130828 TIGR01767, MTRK, 5-methylthioribose kinase. This enzyme is
involved in the methionine salvage pathway in certain
bacteria.
Length = 370
Score = 26.8 bits (59), Expect = 9.1
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 274 ASPFRNIARDNWRLSLDRAYSAYQVLMKSG 303
A P+ + ++W L+LDRA L++ G
Sbjct: 28 ALPYVRVVGESWPLTLDRARIESSALIRQG 57
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
0.315 0.131 0.366
Gapped
Lambda K H
0.267 0.0643 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,378,216
Number of extensions: 335082
Number of successful extensions: 774
Number of sequences better than 10.0: 1
Number of HSP's gapped: 758
Number of HSP's successfully gapped: 60
Length of query: 343
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 249
Effective length of database: 3,963,321
Effective search space: 986866929
Effective search space used: 986866929
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 (21.6 bits)
S2: 57 (25.9 bits)