RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780685|ref|YP_003065098.1| flagellar basal body rod
protein FlgF [Candidatus Liberibacter asiaticus str. psy62]
(243 letters)
>3a69_A Flagellar HOOK protein FLGE; the bacterial flagellar motor,
universal joint, bacterial flagellum, motor protein;
7.10A {Salmonella enterica subsp}
Length = 402
Score = 66.2 bits (160), Expect = 6e-12
Identities = 36/205 (17%), Positives = 77/205 (37%), Gaps = 11/205 (5%)
Query: 4 SFNIGLAAQLALEQRLSTVADNMSNTDTVGFRTIKVKFSEVVGAIKNDIDQKISFVASGK 63
SF+ ++ A L + +N++N+ T GF++ F+++ K + K++ +
Sbjct: 1 SFSQAVSGLNAAATNLDVIGNNIANSATYGFKSGTASFADMFAGSKVGLGVKVAGI---- 56
Query: 64 EYLSKEVGSFISTGTELDFALEGDAWFALESPRG-IILTRDGRFKVTDDGSLVSASGKYP 122
G+ +TG LD A+ + +F L G + +R+G+FK+ ++ +LV+ G
Sbjct: 57 -TQDFTDGTTTNTGRGLDVAISQNGFFRLVDSNGSVFYSRNGQFKLDENRNLVNMQGMQL 115
Query: 123 VLDMASVPIQIPQKDEIFNVGEKGEISQKGKVIATMGLYSVDMSQGFVRRENSGISPNIP 182
A I I+ ++A + M +
Sbjct: 116 TGYPA-----TGTPPTIQQGANPAPITIPNTLMAAKSTTTASMQINLNSTDPVPSKTPFS 170
Query: 183 PTPLEDLSGVTVKRGFLEDSNANSM 207
+ + + + NA+ M
Sbjct: 171 VSDADSYNKKGTVTVYDSQGNAHDM 195
Score = 28.1 bits (61), Expect = 1.9
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 193 TVKRGFLEDSNANSMYEMGQMIHLTQKFNS----ITTLIDENEKSMLEAIRNI 241
+ G LE SN + E+ MI + + S I T D+ +L + N+
Sbjct: 354 KLTNGALEASNVDLSKELVNMIVAQRNYQSNAQTIKT-QDQ----ILNTLVNL 401
>1wlg_A Flagellar HOOK protein FLGE; EAR-& motif, structural protein; 1.80A
{Salmonella typhimurium} SCOP: b.152.1.1 PDB: 2bgy_A
2bgz_A
Length = 299
Score = 41.8 bits (97), Expect = 1e-04
Identities = 13/43 (30%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 80 LDFALEGDAWFALESPRG-IILTRDGRFKVTDDGSLVSASGKY 121
LD A+ + +F L G + +R+G+FK+ ++ +LV+ G
Sbjct: 2 LDVAISQNGFFRLVDSNGSVFYSRNGQFKLDENRNLVNMQGMQ 44
>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 = 30.3 bits (68), Expect = 0.37
Identities = 36/230 (15%), Positives = 61/230 (26%), Gaps = 118/230 (51%)
Query: 52 IDQKISFVASGKEYLSKE---VGSFISTGTELDFALEGDAWFALESPRGIILTRDGRFKV 108
+ I F A L + + G L+ W LE+P
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQG--LNIL----EW--LENP-------SNT--- 225
Query: 109 TDDGSLVSASGKYPVLD-MASVPIQIP-----Q--------KDEIFNVG-EKGEI----- 148
P D + S+PI P Q K +G GE+
Sbjct: 226 -------------PDKDYLLSIPISCPLIGVIQLAHYVVTAK----LLGFTPGELRSYLK 268
Query: 149 -----SQKGKVIAT------------------------MGLYSVDMSQGFVRRENSGISP 179
SQ G V A +G+ + + + + P
Sbjct: 269 GATGHSQ-GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC---YEAYPN---TSLPP 321
Query: 180 NI----------PPTPL---EDLSGVTVKRGFLEDSNANSMYEMGQMIHL 216
+I P+P+ +L+ V+ ++ +N+ HL
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQD-YVNKTNS----------HL 360
Score = 28.0 bits (62), Expect = 1.9
Identities = 30/152 (19%), Positives = 52/152 (34%), Gaps = 43/152 (28%)
Query: 1 MQTSFNIGLAAQLA-----LEQRLSTVADNMSNTDTVGFRTIKVKFSEVVG------AIK 49
+ F IG+ A L S + D++ N +E G +I
Sbjct: 300 ITVLFFIGVRCYEAYPNTSLPP--SILEDSLEN-------------NE--GVPSPMLSIS 342
Query: 50 N-DIDQKISFVASGKEYL--SKEVG-SFISTGTELDFALEGDAWFALESPRGIILT-RDG 104
N +Q +V +L K+V S ++ + + G +S G+ LT R
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAK--NLVVSGPP----QSLYGLNLTLR-- 394
Query: 105 RFKVTD--DGSLVSASGKYPVLDMASVPIQIP 134
+ K D S + S + +P+ P
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASP 426
Score = 27.6 bits (61), Expect = 2.8
Identities = 9/31 (29%), Positives = 11/31 (35%), Gaps = 6/31 (19%)
Query: 28 NTDTVGFRTIKVKFSEVVGAIKNDIDQKISF 58
N D G R I V G + + D F
Sbjct: 519 NKDGTGVRVI------VAGTLDINPDDDYGF 543
>1n57_A Chaperone HSP31, protein YEDU; alpha-beta sandwich; 1.60A
{Escherichia coli} SCOP: c.23.16.2 PDB: 1pv2_A 1izy_A
1ons_A 1izz_A
Length = 291
Score = 29.2 bits (65), Expect = 0.90
Identities = 16/88 (18%), Positives = 29/88 (32%), Gaps = 15/88 (17%)
Query: 54 QKISFVASGKEYLSKEVGSFISTGTELDFALEGDAWFALESPRGIILTRDGRFKVTDDGS 113
KI +A+ + YL + G STG L + L F+
Sbjct: 49 HKILVIAADERYLPTDNGKLFSTGNHPIETLL--PLYHL---------HAAGFEFE---- 93
Query: 114 LVSASGKYPVLDMASVPIQIPQKDEIFN 141
+ + SG + ++P + + F
Sbjct: 94 VATISGLMTKFEYWAMPHKDEKVMPFFE 121
>3hrz_A Cobra venom factor; serine protease, glycosilated, multi-domain,
complement system, convertase, complement alternate
pathway, complement pathway; HET: NAG P6G; 2.20A {Naja
kaouthia} PDB: 3frp_A* 3hs0_A*
Length = 627
Score = 28.7 bits (63), Expect = 1.4
Identities = 18/132 (13%), Positives = 39/132 (29%), Gaps = 10/132 (7%)
Query: 36 TIKVKFSEVVGAIKNDIDQKISFVASGKEYLSKEVGSFISTGT-ELDFALEGDAWFALES 94
+ ++K + GK + ++ + D
Sbjct: 439 PVNFNVKGNANSLKQIKYFTYLILNKGKIFKVGRQPRRDGQNLVTMNLHITPDL-----I 493
Query: 95 PRGIILTRDGRFKVTDDGSLVSASGKYPVLDMASVPIQIPQKDEIFNVGEKGEISQKGKV 154
P + + + +V+ S V D + + + I G +I +G
Sbjct: 494 PSFRFVA----YYQVGNNEIVADSVWVDVKDTCMGTLVVKGDNLIQMPGAAMKIKLEGDP 549
Query: 155 IATMGLYSVDMS 166
A +GL +VD +
Sbjct: 550 GARVGLVAVDKA 561
>1rwi_B Serine/threonine-protein kinase PKND; beta propeller, structural
genomics, PSI, protein structure initiative; 1.80A
{Mycobacterium tuberculosis} SCOP: b.68.9.1 PDB: 1rwl_A
Length = 270
Score = 28.3 bits (61), Expect = 1.4
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 9/43 (20%)
Query: 71 GSFISTGTELDFALEGDAWFALESPRGIILTRDGRFKVTDDGS 113
G + T +DF L SP G+ + G VT +G
Sbjct: 11 GQTVLPFTGIDFRL---------SPSGVAVDSAGNVYVTSEGM 44
>2qe8_A Uncharacterized protein; YP_324691.1, structural genomics, joint
center for structural genomics, JCSG; HET: MSE UNL PG4;
1.35A {Anabaena variabilis atcc 29413}
Length = 343
Score = 28.1 bits (61), Expect = 1.6
Identities = 10/39 (25%), Positives = 14/39 (35%), Gaps = 5/39 (12%)
Query: 75 STGTELDFALEGDAWFALESPRGIILTRDGRFKVTDDGS 113
+ G L+ E P I LT DGR ++
Sbjct: 4 NLGDRLEVVAELSLA-----PGNITLTPDGRLFLSLHQF 37
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.3 bits (59), Expect = 3.0
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 7/23 (30%)
Query: 144 EKGEISQ--KGKVIATMGLYSVD 164
EK Q K K+ A++ LY+ D
Sbjct: 18 EK----QALK-KLQASLKLYADD 35
>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 = 27.5 bits (60), Expect = 3.1
Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 13/97 (13%)
Query: 136 KDEIFNVGEKGEISQKGKVIATM---------GLYSVDMSQGFVRRENSGISPNIPPT-- 184
K +IF + E GE S K AT+ L + + G+ + GIS +I
Sbjct: 952 KVDIFEIPETGEYSVKLLKGATLYIPKALRFDRLVAGQIPTGW-NAKTYGISDDIISQVD 1010
Query: 185 PLEDLSGVTVKRGFLEDSNANSMYEMGQMIHLTQKFN 221
P+ V+V F+ S YEM + +H+++ N
Sbjct: 1011 PITLFVLVSVVEAFIA-SGITDPYEMYKYVHVSEVGN 1046
>3jsu_A Dihydrofolate reductase-thymidylate synthase; rossmann fold,
oxidoreductase, transferase; HET: KA5 NDP UMP; 2.70A
{Plasmodium falciparum}
Length = 608
Score = 26.9 bits (59), Expect = 4.5
Identities = 7/46 (15%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 98 IILTRDGRFKVTDDGSLVSASGKYPVLDMASVPIQIPQKDEIFNVG 143
+IL+R + + D+ + ++ V + + F +G
Sbjct: 125 VILSRTLKKEDFDEDVYIINK-----VEDLIVLLGKLNYYKCFILG 165
>2bjq_A MFP2A; motility, nematode, MSP; 1.75A {Ascaris suum} SCOP:
b.169.1.1 b.169.1.1
Length = 345
Score = 26.8 bits (59), Expect = 5.1
Identities = 11/32 (34%), Positives = 14/32 (43%), Gaps = 2/32 (6%)
Query: 44 VVGAIKNDIDQKI--SFVASGKEYLSKEVGSF 73
V G D K +F G+E E+GSF
Sbjct: 228 VFGRAYPDSADKTLANFGWGGQENAGAEIGSF 259
>2cnq_A Phosphoribosylaminoimidazole-succinocarboxamide synthase; ligase,
phosphoribosylaminoimidazolesuccinocarboxamide (saicar)
SYN ligase; HET: ADP AMZ AMP; 1.00A {Saccharomyces
cerevisiae} SCOP: d.143.1.1 PDB: 1a48_A* 1obd_A* 2cnu_A*
2cnv_A* 1obg_A*
Length = 306
Score = 26.3 bits (57), Expect = 5.9
Identities = 12/74 (16%), Positives = 25/74 (33%), Gaps = 4/74 (5%)
Query: 136 KDEI--FNVGEKGEISQKGKVIATMGLYSVDMSQGFVRRENSGISPNIPPTPLEDLSGVT 193
D I ++V + I +KG ++ + + VR N + T + L
Sbjct: 36 TDRISAYDVIMENSIPEKGILLTKLSEFWFKFLSNDVR--NHLVDIAPGKTIFDYLPAKL 93
Query: 194 VKRGFLEDSNANSM 207
+ + S+
Sbjct: 94 SEPKYKTQLEDRSL 107
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
0.314 0.132 0.358
Gapped
Lambda K H
0.267 0.0541 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,952,244
Number of extensions: 88525
Number of successful extensions: 191
Number of sequences better than 10.0: 1
Number of HSP's gapped: 189
Number of HSP's successfully gapped: 19
Length of query: 243
Length of database: 5,693,230
Length adjustment: 90
Effective length of query: 153
Effective length of database: 3,511,270
Effective search space: 537224310
Effective search space used: 537224310
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: 42 (22.0 bits)
S2: 55 (25.4 bits)