RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780688|ref|YP_003065101.1| putative flagellar motor
switch protein [Candidatus Liberibacter asiaticus str. psy62]
(147 letters)
>1o6a_A Putative flagelar motor switch protein FLIN; TM0680A, C- terminal
proteolytic fragment of TM0680A, structural genomics,
JCSG, PSI; 1.85A {Thermotoga maritima} SCOP: b.139.1.1
PDB: 1yab_A
Length = 96
Score = 75.1 bits (185), Expect = 5e-15
Identities = 31/85 (36%), Positives = 56/85 (65%), Gaps = 3/85 (3%)
Query: 63 EKSTDNFDLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGESVDITINNQKIA 122
E +D +L+++IP+K+ + LG M + ++ + G +I LDK GE VDI +N + IA
Sbjct: 7 EVPSDKLELLLDIPLKVTVELGRTRMTLKRVLEMIHGSIIELDKLTGEPVDILVNGKLIA 66
Query: 123 KGEITIMEEDDTHFGVRVIEILNAQ 147
+GE+ +++E +FGVR+ EI++ +
Sbjct: 67 RGEVVVIDE---NFGVRITEIVSPK 88
>1o9y_A HRCQ2; secretory protein, HRP, type III secretion system,
phytopathogenicity; 2.29A {Pseudomonas syringae} SCOP:
b.139.1.1
Length = 84
Score = 62.5 bits (152), Expect = 4e-11
Identities = 11/78 (14%), Positives = 33/78 (42%), Gaps = 3/78 (3%)
Query: 67 DNFDLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGESVDITINNQKIAKGEI 126
D + ++ + + + G + ++ L L G ++ + + Q +A+GE+
Sbjct: 7 DEPPALDSLALDLTLRCGELRLTLAELRRLDAGTILEVTGISPGHATLCHGEQVVAEGEL 66
Query: 127 TIMEEDDTHFGVRVIEIL 144
+E G+++ ++
Sbjct: 67 VDVEG---RLGLQITRLV 81
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 2006
Score = 31.1 bits (70), Expect = 0.093
Identities = 24/88 (27%), Positives = 33/88 (37%), Gaps = 33/88 (37%)
Query: 64 KSTDNF---DLIMNIPVKMQIILGSCCMQISNLVNLSKGDVITLDKRVGES--------- 111
K T F D+++N PV + I G KG KR+ E+
Sbjct: 1654 KDTYGFSILDIVINNPVNLTIHFGG-----------EKG------KRIRENYSAMIFETI 1696
Query: 112 VDITINNQKIAKGEITIMEEDDTHFGVR 139
VD + +KI K EI E T + R
Sbjct: 1697 VDGKLKTEKIFK-EIN---EHSTSYTFR 1720
Score = 29.5 bits (66), Expect = 0.29
Identities = 28/161 (17%), Positives = 48/161 (29%), Gaps = 62/161 (38%)
Query: 6 SKISYIKDNLEGRSMHIDN---PLQDTNVSSP------TNNSEMLIQKNDVDNISEPISS 56
S+I + + R + N P V+SP S+++ D+ + ++
Sbjct: 405 SRIPFSE-----RKLKFSNRFLP-----VASPFHSHLLVPASDLI--NKDLVKNNVSFNA 452
Query: 57 DSNNI----------LEKSTDNFDLIMNIP--VKMQIILGSCCMQI--SNLVNLSKGDVI 102
I L + + I V I + +
Sbjct: 453 KDIQIPVYDTFDGSDLRVLSGS---I--SERIVDC--I---IRLPVKWETTTQFK----A 498
Query: 103 T--LDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVRVI 141
T LD G + + G +T +D T GVRVI
Sbjct: 499 THILDFGPGGASGL---------GVLTHRNKDGT--GVRVI 528
>1zdv_A Outer membrane usher protein FIMD; beta sheet, alpha helix,
membrane protein; NMR {Escherichia coli} SCOP: b.167.1.1
Length = 115
Score = 26.4 bits (58), Expect = 2.9
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 111 SVDITINNQKIAKGEITIMEEDD 133
VDI +NN +A ++T D
Sbjct: 10 RVDIYLNNGYMATRDVTFNTGDS 32
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl
reductase, beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 25.9 bits (56), Expect = 3.2
Identities = 24/113 (21%), Positives = 40/113 (35%), Gaps = 23/113 (20%)
Query: 30 NVSSPTNNSEMLIQKNDVDNISEPISSDSNNILEKSTDNFDLIM--NIPVKMQI-ILGSC 86
N+ + +N E +S P ++ N +E +IM ++ +KM + I G
Sbjct: 1146 NMKATSNTLEEFEHGRTPAEMSRPATTTRNGFMEAQGAGIQIIMQADLALKMGVPIYGIV 1205
Query: 87 CMQISNLVNLSKGDVITLDKRVGESVDITINNQKIAKGEITIMEEDDTHFGVR 139
M T ++G SV KG +T E H V+
Sbjct: 1206 AM------------AATATDKIGRSVPAP------GKGILTTAREH--HSSVK 1238
>3c9g_A UPF0200/UPF0201 protein AF_1395; uncharacterized UPF0201 protein
AF_135, structural genomics, PSI-II, dimer; 2.30A
{Archaeoglobus fulgidus dsm 4304}
Length = 142
Score = 25.8 bits (57), Expect = 4.2
Identities = 9/39 (23%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 104 LDKRV-GESVDITINNQKIAKGEITIMEEDDTHFGVRVI 141
+ K G+ V I +N Q I +E+ ++V
Sbjct: 73 ILKGRNGKEVTIYLNKQTATVSRINFCDENAVLSPIKVT 111
>2c0y_A Procathepsin S; proenzyme, proteinase, hydrolase, thiol protease,
prosegment binding loop, glycoprotein, lysosome,
protease, zymogen; 2.1A {Homo sapiens}
Length = 315
Score = 25.0 bits (53), Expect = 6.4
Identities = 10/37 (27%), Positives = 14/37 (37%)
Query: 51 SEPISSDSNNILEKSTDNFDLIMNIPVKMQIILGSCC 87
+ S+ N IL S D + VK Q G+
Sbjct: 88 NITYKSNPNRILPDSVDWREKGCVTEVKYQGSCGAAW 124
>3bwu_D FIMD, outer membrane usher protein FIMD, N-terminal domain; usher,
N-terminal domain, ternary complex with chaperone and
pilus subunit, chaperone, structural protein, mebrane
protein; 1.76A {Escherichia coli K12} SCOP: b.167.1.1
PDB: 1ze3_D 1zdx_A
Length = 125
Score = 24.8 bits (54), Expect = 8.3
Identities = 8/23 (34%), Positives = 12/23 (52%)
Query: 111 SVDITINNQKIAKGEITIMEEDD 133
VDI +NN +A ++T D
Sbjct: 34 RVDIYLNNGYMATRDVTFNTGDS 56
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.313 0.131 0.351
Gapped
Lambda K H
0.267 0.0600 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,146,632
Number of extensions: 47438
Number of successful extensions: 127
Number of sequences better than 10.0: 1
Number of HSP's gapped: 127
Number of HSP's successfully gapped: 20
Length of query: 147
Length of database: 5,693,230
Length adjustment: 84
Effective length of query: 63
Effective length of database: 3,656,734
Effective search space: 230374242
Effective search space used: 230374242
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.1 bits)