RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780547|ref|YP_003064960.1| OmpA/MotB [Candidatus
Liberibacter asiaticus str. psy62]
(160 letters)
>2aiz_P Outer membrane protein P6; alpha-beta sandwich; HET: UDP AMU
DGL 6CL DAL; NMR {Haemophilus influenzae} (P:)
Length = 134
Score = 82.5 bits (203), Expect = 2e-17
Identities = 42/104 (40%), Positives = 60/104 (57%), Gaps = 1/104 (0%)
Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105
++V+F Y I +Q+L ++L L+EG+ DE G+ +IALG RR
Sbjct: 27 QRYNTVYFGFDKYDITGEYVQILDAHAAYLNATPAAKVLVEGNTDERGTPEYNIALGQRR 86
Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRA 149
A AV Y +G+ A ++ SYG+E P+V GHDE AY+KNRRA
Sbjct: 87 ADAVKGYLAGKGVDAGKLGTVSYGEEKPAVLGHDEAAYSKNRRA 130
>1r1m_A Outer membrane protein class 4; 1.90A {Neisseria
meningitidis} (A:)
Length = 164
Score = 82.5 bits (203), Expect = 3e-17
Identities = 30/109 (27%), Positives = 42/109 (38%), Gaps = 1/109 (0%)
Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105
S+ F S+R L L L + +EGH D +GS + AL RR
Sbjct: 12 SLSAKTLFGFDKDSLRAEAQDNLKVLAQRLSRTNIQSVRVEGHTDFMGSDKYNQALSERR 71
Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLK 154
AY V N V+ G+ SR+ G+ + E AK + K
Sbjct: 72 AYVVANNLVSNGVPVSRISAVGLGESQAQMTQVCEAEVAKLGAKVSKAK 120
>2k1s_A Inner membrane lipoprotein YIAD; abbababab, OMPA, alpha
beta, palmitate, transmembrane, structural genomics,
PSI-2; NMR {Escherichia coli K12} (A:)
Length = 149
Score = 80.9 bits (199), Expect = 8e-17
Identities = 27/110 (24%), Positives = 56/110 (50%), Gaps = 1/110 (0%)
Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105
++ ++V FD+SS +++PA L+ + L+++ + G+ D G + ++ L +R
Sbjct: 31 NMPNNVTFDSSSATLKPAGANTLTGVAMVLKEYPKTAVNVIGYTDSTGGHDLNMRLSQQR 90
Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155
A +V + + +G+ ASR++ G P + A+NRR + L
Sbjct: 91 ADSVASALITQGVDASRIRTQGLGPANPIASNSTAEGKAQNRRVEITLSP 140
>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 = 80.1 bits (197), Expect = 1e-16
Identities = 22/113 (19%), Positives = 41/113 (36%), Gaps = 7/113 (6%)
Query: 50 DSVFFDT-SSYSIRPADIQVLSNLGSWLEKH--DCDFLIEGHADE----LGSRNSSIALG 102
D F+ +S +I + + + ++K + G D+ S L
Sbjct: 3 DPFTFENATSDAINQDMMLYIERIAKIIQKLPKRVHINVRGFTDDTPLVKTRFKSHYELA 62
Query: 103 LRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155
RAY V + G++ +++ +SYG P + KN R +F
Sbjct: 63 ANRAYRVMKVLIQYGVNPNQLSFSSYGSTNPIAPNDSLENRMKNNRVEIFFST 115
>3khn_A MOTB protein, putative; structural genomics, OMPA-like
domain, PSI-2, protein structure initiative; 2.03A
{Desulfovibrio vulgaris str} (A:)
Length = 174
Score = 78.6 bits (193), Expect = 3e-16
Identities = 26/131 (19%), Positives = 51/131 (38%), Gaps = 6/131 (4%)
Query: 31 PDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHA 89
+ V+ + + V V F + + P +VL+ L + + + I+G
Sbjct: 32 VEGVIGAVFDEGVITLRVPSEVLFAPGAVELAPGADRVLATLKDLFIRRREQNINIKGFT 91
Query: 90 DELG-----SRNSSIALGLRRAYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYA 144
D++ + + R+ V YF+ GI +R+ T G+ P ++ A
Sbjct: 92 DDVQPSANARFKDNWEVSALRSVNVLRYFLGAGIEPARLTATGLGELDPLFPNTSDENRA 151
Query: 145 KNRRAIVFLKG 155
+NRR L+
Sbjct: 152 RNRRVEFVLER 162
>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 = 78.6 bits (193), Expect = 4e-16
Identities = 24/106 (22%), Positives = 48/106 (45%), Gaps = 2/106 (1%)
Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCD--FLIEGHADELGSRNSSIALGLRRAY 107
+ ++ + A + LS + ++ + L+ + D +++S +L RRA
Sbjct: 8 TILHYERQGDQLTKASKKRLSQIADYIRHNQDIDLVLVATYTDSTDGKSASQSLSERRAE 67
Query: 108 AVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153
++ +YF + G+ R++V YGK P KNRR ++ L
Sbjct: 68 SLRDYFQSLGLPEDRIQVQGYGKRRPIADNGSPIGKDKNRRVVISL 113
>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 = 78.3 bits (192), Expect = 5e-16
Identities = 25/110 (22%), Positives = 41/110 (37%), Gaps = 1/110 (0%)
Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105
+ +F SS + L+N+ L + + G D +GSR+ L +
Sbjct: 51 IIPTDKYFXFSSPRLNEICYPGLNNVIRLLNFYPQSTIYVAGFTDNVGSRSHKRKLSQAQ 110
Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFLKG 155
A + A GI+A R+K YG + A+NRR +
Sbjct: 111 AETXXTFLWANGIAAKRLKAEGYGDKNAISDNAIIHGSAQNRRIEIQWFT 160
>2hqs_H Peptidoglycan-associated lipoprotein; TOLB, PAL, TOL,
transport protein/lipoprotein complex; 1.50A
{Escherichia coli} (H:)
Length = 118
Score = 78.2 bits (192), Expect = 6e-16
Identities = 46/108 (42%), Positives = 65/108 (60%), Gaps = 1/108 (0%)
Query: 47 SVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH-DCDFLIEGHADELGSRNSSIALGLRR 105
+ V+FD Y IR Q+L ++L + +EGHADE G+ +I+LG RR
Sbjct: 3 QQNNIVYFDLDKYDIRSDFAQMLDAHANFLRSNPSYKVTVEGHADERGTPEYNISLGERR 62
Query: 106 AYAVFNYFVARGISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153
A AV Y +G+SA ++ + SYGKE P+V GHDE AY+KNRRA++
Sbjct: 63 ANAVKMYLQGKGVSADQISIVSYGKEKPAVLGHDEAAYSKNRRAVLVY 110
>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 = 77.2 bits (189), Expect = 9e-16
Identities = 21/110 (19%), Positives = 33/110 (30%), Gaps = 8/110 (7%)
Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADE-----LGSRNSSIALGLR 104
+ F T S + P +L + L + GH D+ S+ L
Sbjct: 71 NRPXFKTGSAEVEPYXRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSAD 130
Query: 105 RAYAVFNYFVAR-GISASRMKVTSYGKEMPSVYGHDEDAYAKNRRAIVFL 153
RA A VA + ++V A NRR + +
Sbjct: 131 RANASRRELVAGGLDNGKVLRVVGXAATXR--LSDRGPDDAINRRISLLV 178
>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 = 76.4 bits (187), Expect = 2e-15
Identities = 24/112 (21%), Positives = 36/112 (32%), Gaps = 9/112 (8%)
Query: 50 DSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFLIEGHADE-----LGSRNSSIALGLR 104
+ F T S + P +L + L + GH D+ S+ L
Sbjct: 60 NRPMFKTGSAEVEPYMRDILRAIAPVLNGIPNRISLAGHTDDFPYANGEKGYSNWELSAD 119
Query: 105 RAYAVFNYFVARG-ISASRMKVTSYGKEMPSVYGHDEDAYAKNRRA-IVFLK 154
RA A VA G + ++V M A NRR ++ L
Sbjct: 120 RANASRRELVAGGLDNGKVLRVVGMAATMRLS--DRGPDDAINRRISLLVLN 169
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator,
disease mutation, guanine-nucleotide releasing factor,
signaling protein; 3.18A {Homo sapiens} PDB: 1xd4_A
1xdv_A 1q9c_A (A:634-762)
Length = 129
Score = 26.5 bits (58), Expect = 1.7
Identities = 9/53 (16%), Positives = 17/53 (32%)
Query: 31 PDTVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDF 83
+ + + I+P ++VL+ W+E H DF
Sbjct: 19 EPEPTEADRIAIENGDQPLSAELKRFRKEYIQPVQLRVLNVCRHWVEHHFYDF 71
>2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein;
2.02A {Homo sapiens} (A:75-202)
Length = 128
Score = 25.7 bits (56), Expect = 2.8
Identities = 10/64 (15%), Positives = 22/64 (34%), Gaps = 1/64 (1%)
Query: 21 IDNLDTKISSPD-TVLNESSLQEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKH 79
+ + + P+ + + + I+P ++VL+ W+E H
Sbjct: 8 LSLIIERFEIPEPEPTEADRIAIENGDQPLSAELKRFRKEYIQPVQLRVLNVCRHWVEHH 67
Query: 80 DCDF 83
DF
Sbjct: 68 FYDF 71
>1gxs_A HNL, hydroxynitrIle lyase; inhibitor complex, cyanogenesis
mechanism; HET: NAG FUL FUC DKA; 2.3A {Sorghum bicolor}
(A:1-190)
Length = 190
Score = 24.0 bits (51), Expect = 9.2
Identities = 7/44 (15%), Positives = 16/44 (36%)
Query: 41 QEQFSSSVGDSVFFDTSSYSIRPADIQVLSNLGSWLEKHDCDFL 84
SS+G + ++ + +L N +W + + F
Sbjct: 62 GGPGCSSIGLGAMQELGAFRVHTNGESLLLNEYAWNKAANILFA 105
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
0.318 0.132 0.372
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: 1,115,260
Number of extensions: 44798
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 15
Length of query: 160
Length of database: 4,956,049
Length adjustment: 82
Effective length of query: 78
Effective length of database: 2,184,039
Effective search space: 170355042
Effective search space used: 170355042
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 (21.8 bits)
S2: 51 (24.0 bits)