RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780529|ref|YP_003064942.1| flagellar motor protein MotB
[Candidatus Liberibacter asiaticus str. psy62]
(343 letters)
>2zov_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial
flagellum, cell projection, flagellar rotation, inner
membrane, membrane; 2.00A {Salmonella typhimurium} (A:)
Length = 210
Score = 83.3 bits (205), Expect = 5e-17
Identities = 43/182 (23%), Positives = 77/182 (42%), Gaps = 5/182 (2%)
Query: 165 KSINKEENYFLPPLSKEKILAMKRKKRLQDLAKKISSTLSGLVA-DNIVKGVLFETTRTG 223
+++ + +++ + RL L + + + + + + G
Sbjct: 2 DDYTQQQGEVEKQPNIDELKKRXEQSRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEG 61
Query: 224 ILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARD 283
+ I IID +N P F S+ P +L+ I VL IS+ GHTD P+ N +
Sbjct: 62 LRIQIIDSQNRPXFKTGSAEVEPYXRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKG 121
Query: 284 --NWRLSLDRAYSAYQVLM-KSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVED 340
NW LS DRA ++ + L+ + + + G A P ++ NRRI +LV +
Sbjct: 122 YSNWELSADRANASRRELVAGGLDNGKVLR-VVGXAATXRLSDRGPDDAINRRISLLVLN 180
Query: 341 RQ 342
+Q
Sbjct: 181 KQ 182
>2zvy_A Chemotaxis protein MOTB; 2-layer sandwich, bacterial
flagellum, cell inner membrane, cell membrane, flagellar
rotation, membrane; 1.75A {Salmonella typhimurium} PDB:
2zvz_A (A:)
Length = 183
Score = 81.8 bits (201), Expect = 1e-16
Identities = 45/165 (27%), Positives = 77/165 (46%), Gaps = 3/165 (1%)
Query: 181 EKILAMKRKKRLQDLAKKISSTLSGLVA-DNIVKGVLFETTRTGILISIIDQRNTPMFDK 239
+++ + RL L + + + + + + G+ I IID +N PMF
Sbjct: 7 DELKKRMEQSRLNKLRGDLDQLIESDPKLRALRPHLKIDLVQEGLRIQIIDSQNRPMFKT 66
Query: 240 SSSIPLPETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNIARD--NWRLSLDRAYSAYQ 297
S+ P +L+ I VL IS+ GHTD P+ N + NW LS DRA ++ +
Sbjct: 67 GSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSADRANASRR 126
Query: 298 VLMKSGVSEDRISKISGFAHHRLKIASDPMNSANRRIDILVEDRQ 342
L+ G+ ++ ++ G A P ++ NRRI +LV ++Q
Sbjct: 127 ELVAGGLDNGKVLRVVGMAATMRLSDRGPDDAINRRISLLVLNKQ 171
>3khn_A MOTB protein, putative; structural genomics, OMPA-like
domain, PSI-2, protein structure initiative; 2.03A
{Desulfovibrio vulgaris str} (A:)
Length = 174
Score = 64.8 bits (157), Expect = 1e-11
Identities = 27/160 (16%), Positives = 60/160 (37%), Gaps = 10/160 (6%)
Query: 187 KRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLP 246
+ + + + + + + + I + + + +F + P
Sbjct: 11 ELIEAQRQTYNEXRTYFTVNGVEG---VIGAVFDEGVITLRV---PSEVLFAPGAVELAP 64
Query: 247 ETIVVLQKIGEVL-AHSTEVISIRGHTDASPFRNIAR--DNWRLSLDRAYSAYQVLMKSG 303
VL + ++ + I+I+G TD AR DNW +S R+ + + + +G
Sbjct: 65 GADRVLATLKDLFIRRREQNINIKGFTDDVQPSANARFKDNWEVSALRSVNVLRYFLGAG 124
Query: 304 VSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342
+ R++ G SD + NRR++ ++E R
Sbjct: 125 IEPARLTATGLGELDPLFPNTSDENRARNRRVEFVLERRV 164
>2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL,
transport protein/lipoprotein complex; 1.50A
{Escherichia coli} (H:)
Length = 118
Score = 59.7 bits (144), Expect = 5e-10
Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 5/117 (4%)
Query: 228 IIDQRNTPMFDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGHTDASPFRNIARDNWR 286
++ Q N FD + +L L ++ + +++ GH D N
Sbjct: 1 MLQQNNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADERG---TPEYNIS 57
Query: 287 LSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342
L RA + L GVS D+IS +S G + + S NRR ++ +
Sbjct: 58 LGERRANAVKMYLQGKGVSADQISIVSYGKEKPAVLGHDEAAYSKNRRAVLVYLEHH 114
>3cyp_B Chemotaxis protein MOTB; bacterial flagellar motor,
peptidoglycan binding, bacterial flagellum, flagellar
rotation, inner membrane, membrane; 1.60A {Helicobacter
pylori} PDB: 3cyq_B* (B:)
Length = 138
Score = 58.9 bits (142), Expect = 9e-10
Identities = 24/116 (20%), Positives = 56/116 (48%), Gaps = 5/116 (4%)
Query: 233 NTPMFDKSSSIPL-PETIVVLQKIGEVLAH--STEVISIRGHTDASPFRN-IARDNWRLS 288
+ F+ ++S + + ++ +++I +++ I++RG TD +P + ++ L+
Sbjct: 3 DPFTFENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELA 62
Query: 289 LDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQG 343
+RAY +VL++ GV+ +++S S G + S N R++I
Sbjct: 63 ANRAYRVMKVLIQYGVNPNQLSFSSYGSTNPIAPNDSLENRMKNNRVEIFFSTDAN 118
>2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha
beta, palmitate, transmembrane, structural genomics,
PSI-2; NMR {Escherichia coli K12} (A:)
Length = 149
Score = 57.8 bits (139), Expect = 2e-09
Identities = 35/154 (22%), Positives = 60/154 (38%), Gaps = 15/154 (9%)
Query: 191 RLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIV 250
+ K+ + G GV + I++++ N FD SS+ P
Sbjct: 2 YMDVQEAKLRDKMRG-------TGVSVTRSGDNIILNM---PNNVTFDSSSATLKPAGAN 51
Query: 251 VLQKIGEVLA-HSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRI 309
L + VL + +++ G+TD++ N RLS RA S L+ GV RI
Sbjct: 52 TLTGVAMVLKEYPKTAVNVIGYTDSTGGH---DLNMRLSQQRADSVASALITQGVDASRI 108
Query: 310 SKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342
G A+ ++ + NRR++I +
Sbjct: 109 RTQGLGPANPIASNSTAEGKAQNRRVEITLSPLL 142
>3ldt_A Outer membrane protein, OMPA family protein; OMPA-like
domain, PSI-II, NYSGXRC, structural genomics, protein
structure initiative; 2.30A {Legionella pneumophila}
(A:)
Length = 169
Score = 56.7 bits (136), Expect = 4e-09
Identities = 27/156 (17%), Positives = 52/156 (33%), Gaps = 8/156 (5%)
Query: 190 KRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETI 249
+ +A + ++ D + + + + I F SS
Sbjct: 14 GTVGLVASIYRDSKRKIIRDLQKQDIQYVEYGDTRTLII---PTDKYFXFSSPRLNEICY 70
Query: 250 VVLQKIGEVLA-HSTEVISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSGVSEDR 308
L + +L + I + G TD R +LS +A + L +G++ R
Sbjct: 71 PGLNNVIRLLNFYPQSTIYVAGFTDNVGSR---SHKRKLSQAQAETXXTFLWANGIAAKR 127
Query: 309 ISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQG 343
+ G + A ++ NRRI+I +G
Sbjct: 128 LKAEGYGDKNAISDNAIIHGSAQNRRIEIQWFTSEG 163
>1r1m_A Outer membrane protein class 4; 1.90A {Neisseria
meningitidis} (A:)
Length = 164
Score = 56.3 bits (135), Expect = 6e-09
Identities = 23/117 (19%), Positives = 42/117 (35%), Gaps = 5/117 (4%)
Query: 228 IIDQRNTPMFDKSSSIPLPETIVVLQKIGEVLAHSTEV-ISIRGHTDASPFRNIARDNWR 286
I +F E L+ + + L+ + + + GHTD + N
Sbjct: 10 TISLSAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFMGSD---KYNQA 66
Query: 287 LSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILVEDRQ 342
LS RAY L+ +GV RIS + G + ++ + + + R+
Sbjct: 67 LSERRAYVVANNLVSNGVPVSRISAVGLGESQAQMTQVCEAEVAKLGAKVSKAKKRE 123
>2aiz_P Outer membrane protein P6; alpha-beta sandwich; HET: UDP AMU
DGL 6CL DAL; NMR {Haemophilus influenzae} (P:)
Length = 134
Score = 56.0 bits (134), Expect = 6e-09
Identities = 24/121 (19%), Positives = 40/121 (33%), Gaps = 5/121 (4%)
Query: 218 ETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKIGEVL-AHSTEVISIRGHTDASP 276
+T + + + NT F E + +L L A + + G+TD
Sbjct: 15 QTFGGYSVADLQQRYNTVYFGFDKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDERG 74
Query: 277 FRNIARDNWRLSLDRAYSAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRID 335
N L RA + L GV ++ +S G + + S NRR
Sbjct: 75 TP---EYNIALGQRRADAVKGYLAGKGVDAGKLGTVSYGEEKPAVLGHDEAAYSKNRRAV 131
Query: 336 I 336
+
Sbjct: 132 L 132
>2zf8_A MOTY, component of sodium-driven polar flagellar motor; beta
barrel, 2-layer sandwich, flagellum, structural protein;
2.85A {Vibrio alginolyticus} (A:155-278)
Length = 124
Score = 53.5 bits (128), Expect = 4e-08
Identities = 21/106 (19%), Positives = 39/106 (36%), Gaps = 6/106 (5%)
Query: 236 MFDKSSSIPLPETIVVLQKIGEVLAH--STEVISIRGHTDASPFRNIARDNWRLSLDRAY 293
+++ + L +I + + H +++ + +TD+ + + LS RA
Sbjct: 11 HYERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDS---TDGKSASQSLSERRAE 67
Query: 294 SAYQVLMKSGVSEDRISKIS-GFAHHRLKIASDPMNSANRRIDILV 338
S G+ EDRI G S NRR+ I +
Sbjct: 68 SLRDYFQSLGLPEDRIQVQGYGKRRPIADNGSPIGKDKNRRVVISL 113
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase,
translation termination, ATP-binding, cytoplasm,
hydrolase, membrane; 2.80A {Schizosaccharomyces pombe}
(A:1-326)
Length = 326
Score = 30.5 bits (68), Expect = 0.37
Identities = 14/84 (16%), Positives = 25/84 (29%), Gaps = 13/84 (15%)
Query: 191 RLQDLAKKISSTLSGLV------ADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIP 244
+ DL K+ + ADN++ I + +F S
Sbjct: 245 TVMDLMKRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLF----SAT 300
Query: 245 LPETIVVLQKIGEVLAHSTEVISI 268
E + +K E A + I +
Sbjct: 301 FSERV---EKYAERFAPNANEIRL 321
>1skn_P DNA-binding domain of SKN-1; complex (transcription
factor/DNA), transcription/DNA complex; HET: DNA LDA;
2.50A {Caenorhabditis elegans} (P:)
Length = 92
Score = 26.5 bits (58), Expect = 4.8
Identities = 9/63 (14%), Positives = 23/63 (36%), Gaps = 3/63 (4%)
Query: 133 YLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFLP---PLSKEKILAMKRK 189
+ +S Q + + S +L S ++ E + LS+ + +++
Sbjct: 5 HHHHSGQRKRGRQSKDEQLASDNELPVSAFQISEMSLSELQQVLKNESLSEYQRQLIRKI 64
Query: 190 KRL 192
+R
Sbjct: 65 RRR 67
>2f7v_A Aectylcitrulline deacetylase; alpha/beta, hydrolase; 1.75A
{Xanthomonas campestris} PDB: 2f8h_A (A:1-164,A:287-369)
Length = 247
Score = 26.6 bits (58), Expect = 5.4
Identities = 5/35 (14%), Positives = 10/35 (28%)
Query: 246 PETIVVLQKIGEVLAHSTEVISIRGHTDASPFRNI 280
E + + ++ T+AS F
Sbjct: 171 AEERRLAARDVADALDLPIGNAVDFWTEASLFSAG 205
Database: mmdb70
Posted date: Jun 20, 2010 3:12 AM
Number of letters in database: 4,956,049
Number of sequences in database: 33,805
Lambda K H
0.315 0.131 0.366
Gapped
Lambda K H
0.267 0.0486 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 2,404,793
Number of extensions: 103188
Number of successful extensions: 348
Number of sequences better than 10.0: 1
Number of HSP's gapped: 337
Number of HSP's successfully gapped: 20
Length of query: 343
Length of database: 4,956,049
Length adjustment: 89
Effective length of query: 254
Effective length of database: 1,947,404
Effective search space: 494640616
Effective search space used: 494640616
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: 55 (25.5 bits)