RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781113|ref|YP_003065526.1| amino acid ABC transporter
(permease) [Candidatus Liberibacter asiaticus str. psy62]
(226 letters)
>3dhw_A D-methionine transport system permease protein METI;
ABC-transporter, methionine uptake transporter, membrane
protein, amino-acid transport; 3.70A {Escherichia coli
K12} SCOP: f.58.1.1
Length = 217
Score = 65.2 bits (158), Expect = 1e-11
Identities = 36/205 (17%), Positives = 85/205 (41%), Gaps = 6/205 (2%)
Query: 11 DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVI------RIFFSDTIISLIMHFYVWI 64
+ LL + TL + +S +IG + V+ ++ + + V I
Sbjct: 3 EPMMWLLVRGVWETLAMTFVSGFFGFVIGLPVGVLLYVTRPGQIIANAKLYRTVSAIVNI 62
Query: 65 FRGTPLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDA 124
FR P ++ L + I A I+ LT+ + +I+ ++ ++++ IP G +A
Sbjct: 63 FRSIPFIILLVWMIPFTRVIVGTSIGLQAAIVPLTVGAAPFIARMVENALLEIPTGLIEA 122
Query: 125 SYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQRIVST 184
S A+G T Q +R ++LP+ + + I+++ +++ + + Q +
Sbjct: 123 SRAMGATPMQIVRKVLLPEALPGLVNAATITLITLVGYSAMGGAVGAGGLGQIGYQYGYI 182
Query: 185 TYQPLIIYCELAFVYLILTSFCYII 209
Y ++ L + +++ +
Sbjct: 183 GYNATVMNTVLVLLVILVYLIQFAG 207
>3d31_C Sulfate/molybdate ABC transporter, permease protein; ATP-binding,
nucleotide-binding, membrane, transmembrane, transport
protein; 3.00A {Methanosarcina acetivorans} SCOP:
f.58.1.1
Length = 295
Score = 51.5 bits (123), Expect = 2e-07
Identities = 22/208 (10%), Positives = 71/208 (34%), Gaps = 9/208 (4%)
Query: 17 LYAAIVVTLPIACISFVISLIIGFFIAVI---------RIFFSDTIISLIMHFYVWIFRG 67
+ ++I ++L ++ +++L++G I R+ S + +++ V
Sbjct: 80 VISSIFLSLYAGFLATLLALLLGAPTGYILARFDFPGKRLVESIIDVPVVVPHTVAGIAL 139
Query: 68 TPLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDASYA 127
+ +I L D+ I++++ Y++ R S+ +A+ +
Sbjct: 140 LTVFGSRGLIGEPLESYIQFRDALPGIVVAMLFVSMPYLANSAREGFKSVDPRLENAARS 199
Query: 128 IGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQTAQRIVSTTYQ 187
+G + + LP + + + + + +
Sbjct: 200 LGAPLWKAFFFVTLPLSARYLLIGSVMTWARAISEFGAVVILAYYPMVGPTLIYDRFISY 259
Query: 188 PLIIYCELAFVYLILTSFCYIIQIKIES 215
L +A + +++T +++ + +
Sbjct: 260 GLSASRPIAVLLILVTLSIFLVIRTLSA 287
>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 = 48.0 bits (114), Expect = 2e-06
Identities = 44/234 (18%), Positives = 78/234 (33%), Gaps = 86/234 (36%)
Query: 11 DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYV--WIFRGT 68
+ P Y ++++PI S + IG +I L H+ V + T
Sbjct: 223 SNTPDKDY---LLSIPI---SCPL---IG-------------VIQLA-HYVVTAKLLGFT 259
Query: 69 PLLVQLFVIFYGLP-HI-GIVFDSFVAIIIS---------------LTLNF-------SA 104
P +L G H G+V A+ I+ +T+ F A
Sbjct: 260 PG--ELRSYLKGATGHSQGLV----TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA 313
Query: 105 YISEIIRSSII--SIPKGQWDASYAI---GLTRKQTIRHI-----ILPQT--ITTSAV-- 150
Y + + SI+ S+ + S + LT++Q ++ LP + S V
Sbjct: 314 YPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNG 373
Query: 151 --------PLSS--EFISILKSTSVASTIT---IPEIFQTAQRIVSTTYQPLII 191
P S L+ S + IP F ++R + + + L +
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIP--F--SERKLKFSNRFLPV 423
Score = 27.6 bits (61), Expect = 2.6
Identities = 20/101 (19%), Positives = 31/101 (30%), Gaps = 29/101 (28%)
Query: 131 TRKQTIRH------IILPQTITTSAVPLSSEFISILKSTSVASTITIPEIFQT-AQRIVS 183
TR T+ H +++P A L +F +PE + A
Sbjct: 6 TRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNK-----------ILPEPTEGFAADDEP 54
Query: 184 TTYQPLIIYCELAFVYLILTSFCYIIQIKIESSVTQHTYSV 224
T P EL +L Y+ + S V Q +
Sbjct: 55 T--TPA----ELVGKFL-----GYVSSLVEPSKVGQFDQVL 84
Score = 26.4 bits (58), Expect = 5.8
Identities = 28/163 (17%), Positives = 48/163 (29%), Gaps = 47/163 (28%)
Query: 69 PLLVQL---FVIFYGLPHIGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDAS 125
+ QL F P G D L F Y+S ++ S GQ+D
Sbjct: 28 FIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPS----KVGQFDQV 83
Query: 126 YAIGLTRKQT-------IRHII---LPQTITTSAVPLSSEFISILKSTSVASTITIPEI- 174
+ LT + I H + L Q T+ + + E I + + + +
Sbjct: 84 LNLCLTEFENCYLEGNDI-HALAAKLLQENDTT-LVKTKELIKNYITARIMAKRPFDKKS 141
Query: 175 ----FQTAQ----RIVS-------------------TTYQPLI 190
F+ ++V+ TY L+
Sbjct: 142 NSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV 184
>2r6g_F Maltose transport system permease protein MALF; ABC transporter,
catalytic intermediate, E. coli maltose transporter,
MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} SCOP:
e.70.1.1 f.58.1.1 PDB: 3fh6_F
Length = 514
Score = 34.4 bits (78), Expect = 0.022
Identities = 27/202 (13%), Positives = 59/202 (29%), Gaps = 20/202 (9%)
Query: 11 DSFPQLLYAAIVVTLPIACISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTPL 70
+ + A V T+ + I+ +++ +G +A + + + ++ + +
Sbjct: 271 EGIQKPFLAIFVWTVVFSLITVFLTVAVGMVLACLVQWEALRGKAVYRVLLILPYAVPSF 330
Query: 71 LVQLFVIFYGLPHIGIVFDSFVAIII------------------SLTLNFSAYISEIIRS 112
+ L G + A+ T Y+ +
Sbjct: 331 ISILIFKGLFNQSFGEINMMLSALFGVKPAWFSDPTTARTMLIIVNTWLGYPYMMILCMG 390
Query: 113 SIISIPKGQWDASYAIGLTRKQTIRHIILPQTITTSAVPLSSEFISILKSTSVASTIT-- 170
+ +IP ++AS G Q I LP I + + F + + +T
Sbjct: 391 LLKAIPDDLYEASAMDGAGPFQNFFKITLPLLIKPLTPLMIASFAFNFNNFVLIQLLTNG 450
Query: 171 IPEIFQTAQRIVSTTYQPLIIY 192
P+ T T Y
Sbjct: 451 GPDRLGTTTPAGYTDLLVNYTY 472
>3bow_A Calpain-2 catalytic subunit; cysteine protease, calcium, inhibitor,
cell membrane, cytoplasm, hydrolase, membrane, protease,
thiol protease; 2.40A {Rattus norvegicus} PDB: 3df0_A
1df0_A 1u5i_A 1kfu_L 1kfx_L
Length = 714
Score = 27.7 bits (61), Expect = 2.3
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 65 FRGTPLLVQLFVIFYGLPHIGIVFDSFVAIIISLTLNFSAY 105
F+ L Q+ V + + I FD+FV ++ L + F +
Sbjct: 636 FKLPCQLHQVIVARFADDELIIDFDNFVRCLVRLEILFKIF 676
>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 = 27.7 bits (60), Expect = 2.5
Identities = 7/15 (46%), Positives = 8/15 (53%), Gaps = 3/15 (20%)
Query: 11 DSFPQLLYAAIVVTL 25
DS P L AI T+
Sbjct: 35 DSAPAL---AIKATM 46
>3nyh_A Lactoperoxidase, LPO; bovine lactoperoxidase, oxidoreductase,
bromide, chloride, I MPD, thiocyanate ION; HET: SEP HEM
NAG MAN; 1.77A {Bos taurus} PDB: 2ips_A* 2nqx_A* 2pum_A*
2qpk_A* 2qqt_A* 2qrb_A* 2pt3_A* 3eri_A* 3gc1_A* 3gcj_A*
3gck_A* 3gcl_A* 3i6n_A* 3bxi_A* 3krq_A* 3erh_A* 3faq_A*
3fnl_A* 2z5z_A* 2o86_A* ...
Length = 595
Score = 27.0 bits (59), Expect = 3.4
Identities = 5/22 (22%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 173 EIFQTAQRIVSTTYQPLIIYCE 194
+++Q A++I+ Q +I + +
Sbjct: 291 KLYQEARKILGAFIQ-IITFRD 311
>1q4g_A Prostaglandin G/H synthase 1; cyclooxygenase, non-steroidal
anti-inflammatory drug, peroxidase, prostaglandin
synthase, EGF-like domain; HET: BOG NAG NDG BMA MAN BFL
HEM; 2.00A {Ovis aries} SCOP: a.93.1.2 g.3.11.1 PDB:
1diy_A* 2ayl_A* 3kk6_A* 2oyu_P* 2oye_P* 1eqg_A* 1cqe_A*
1eqh_A* 1igz_A* 1igx_A* 1fe2_A* 1pge_A* 1pgf_A* 1pgg_A*
1pth_A* 1u67_A* 1ht8_A* 1ebv_A* 1ht5_A* 1prh_A*
Length = 553
Score = 26.8 bits (59), Expect = 3.9
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 173 EIFQTAQRIVSTTYQPLIIY 192
++FQTA+ I+ ++I
Sbjct: 296 QLFQTARLILIGETIKIVIE 315
>1bml_C Streptokinase; human plasmin; 2.90A {Streptococcus equisimilis}
SCOP: d.15.5.1 d.15.5.1 d.15.5.1
Length = 362
Score = 26.8 bits (59), Expect = 4.3
Identities = 17/72 (23%), Positives = 24/72 (33%), Gaps = 24/72 (33%)
Query: 154 SEFISILKSTS------VASTITIPEIFQTAQRIVSTTYQPLIIYCELAFVYLILTSFCY 207
+F LK T + TIT E+ AQ I++ T+ Y
Sbjct: 162 DDFRPGLKDTKLLKTLAIGDTITSQELLAQAQSILNKTHPG------------------Y 203
Query: 208 IIQIKIESSVTQ 219
I + S VT
Sbjct: 204 TIYERDSSIVTH 215
>1qqr_A Streptokinase domain B; non-proteolytic, plasminogen activation,
fibrinolysis, hydrolase activator; 2.30A {Streptococcus
dysgalactiae subsp} SCOP: d.15.5.1 PDB: 1c4p_A
Length = 138
Score = 26.8 bits (59), Expect = 4.4
Identities = 14/62 (22%), Positives = 23/62 (37%), Gaps = 18/62 (29%)
Query: 158 SILKSTSVASTITIPEIFQTAQRIVSTTYQPLIIYCELAFVYLILTSFCYIIQIKIESSV 217
+LK+ ++ TIT E+ AQ I++ + Y I + S V
Sbjct: 33 KLLKTLAIGDTITSQELLAQAQSILNKNHPG------------------YTIYERDSSIV 74
Query: 218 TQ 219
T
Sbjct: 75 TH 76
>1d2v_C Myeloperoxidase; heme-protein, oxidoreductase, peroxidase- bromide
complex; HET: NAG BMA MAN FUC HEM; 1.75A {Homo sapiens}
SCOP: a.93.1.2 PDB: 1cxp_C* 1d5l_C* 1d7w_C* 1dnu_C*
1dnw_C* 1mhl_C* 1myp_C* 3f9p_C*
Length = 466
Score = 26.5 bits (58), Expect = 5.4
Identities = 7/22 (31%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 173 EIFQTAQRIVSTTYQPLIIYCE 194
++Q A++IV Q +I Y +
Sbjct: 163 RLYQEARKIVGAMVQ-IITYRD 183
>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
protein, P-type ATPase, active transport, cryo-electron
microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
Length = 920
Score = 25.8 bits (56), Expect = 7.8
Identities = 7/52 (13%), Positives = 18/52 (34%), Gaps = 1/52 (1%)
Query: 30 ISFVISLIIGFFIAVIRIFFSDTIISLIMHFYVWIFRGTPLLVQLFVIFYGL 81
+ + I+ + +F + S++ +WIF + V +
Sbjct: 829 GAIFLVDILATCFTIW-GWFEHSDTSIVAVVRIWIFSFGIFCIMGGVYYILQ 879
>3dns_A Ribosomal-protein-alanine acetyltransferase; MCSG, PSI, structural
genomics, protein structure initiative; 2.10A
{Clostridium acetobutylicum}
Length = 135
Score = 25.9 bits (56), Expect = 8.4
Identities = 15/111 (13%), Positives = 28/111 (25%), Gaps = 10/111 (9%)
Query: 32 FVISLIIGFFIAVIRIFFSDTIISLIMHFYVWI---FRGTPLLVQLF-----VIFYGLPH 83
++I+ G I I I + M + ++ +F
Sbjct: 22 YLITDKYGITIGRIFIVDLNKDNRFCMFRMKIYKQGKSINTYIKEILSVFMEFLFKSNDI 81
Query: 84 IGIVFDSFVAIIISLTLNFSAYISEIIRSSIISIPKGQWDASYAIGLTRKQ 134
+ + + II SII K + G+ K
Sbjct: 82 NKVNIIVDEEVSTQPFVELGFAFEGIINKSIIE--KNVLKDEFLFGMDYKN 130
>1w1z_A Delta-aminolevulinic acid dehydratase; synthase, tetrapyrrole
biosynthesis, ALAD, porphyrin biosynthesis, heme
biosynthesis, lyase; 2.6A {Prosthecochloris
vibrioformis} SCOP: c.1.10.3 PDB: 2c1h_A*
Length = 328
Score = 25.7 bits (56), Expect = 9.7
Identities = 7/38 (18%), Positives = 13/38 (34%)
Query: 173 EIFQTAQRIVSTTYQPLIIYCELAFVYLILTSFCYIIQ 210
I Q A R + L I ++A +++
Sbjct: 102 GILQQAIRAIKKAVPELCIMTDVALDPFTPFGHDGLVK 139
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
0.332 0.144 0.423
Gapped
Lambda K H
0.267 0.0506 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,874,494
Number of extensions: 80635
Number of successful extensions: 264
Number of sequences better than 10.0: 1
Number of HSP's gapped: 255
Number of HSP's successfully gapped: 45
Length of query: 226
Length of database: 5,693,230
Length adjustment: 89
Effective length of query: 137
Effective length of database: 3,535,514
Effective search space: 484365418
Effective search space used: 484365418
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (22.0 bits)
S2: 55 (25.5 bits)