RPS-BLAST 2.2.22 [Sep-27-2009]
Database: mmdb70
33,805 sequences; 4,956,049 total letters
Searching..................................................done
Query= gi|254780837|ref|YP_003065250.1| putative restriction
endonuclease S subunit [Candidatus Liberibacter asiaticus str. psy62]
(426 letters)
>1ydx_A Type I restriction enzyme specificity protein Mg438; type-I
HSDS, DNA binding protein; 2.30A {Mycoplasma genitalium}
(A:1-164)
Length = 164
Score = 63.6 bits (154), Expect = 5e-11
Identities = 28/162 (17%), Positives = 45/162 (27%), Gaps = 16/162 (9%)
Query: 4 YKAYPQYKDSGVQWIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGTGKY 63
K + +W I L G E + GKY
Sbjct: 15 GHIDDDDKHXTPKLKLNNNINWTKRTIDSLFDLKKGEXLEKEL----------ITPEGKY 64
Query: 64 LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKD---VL 120
+G + S + K I G +AD + C L D +
Sbjct: 65 EYFNGGVKNSGRTDKFNTFKNTISVIVGG-SCGYVRLADKNFFCGQSNCTLNLLDPLELD 123
Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIP 162
+ L S +RIEA+ G T+ + + + +P
Sbjct: 124 LKFAYYALKSQ--QERIEALAFGTTIQNIRISDLKELEIPFT 163
Score = 48.6 bits (115), Expect = 2e-06
Identities = 18/179 (10%), Positives = 41/179 (22%), Gaps = 20/179 (11%)
Query: 193 ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVKPFFALVTELNRKNTKLI 252
+I K + +W + +L + +
Sbjct: 4 HHHHHHHHHSSGHIDDD-------DKHXTPKLKLNNNINWTKRTIDSLFDLKKGEXLEKE 56
Query: 253 ESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRFIDLQNDKRSLRSAQVME 312
G N G+K I R
Sbjct: 57 LIT----PEGKYEY----FNGGVKNSGRTDKFNTFKNTISVIVGGSCGYVRLADK---NF 105
Query: 313 RGIITSAYMAVKPH-GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVP 370
++ + + +D + + ++S A G+ Q+++ D+K L +
Sbjct: 106 FCGQSNCTLNLLDPLELDLKFAYYALKSQQERIEALAFGTT-IQNIRISDLKELEIPFT 163
>1yf2_A Type I restriction-modification enzyme, S subunit;
structural genomics, PSI, protein structure initiative;
2.40A {Methanocaldococcus jannaschii DSM2661}
(A:1-6,A:168-211,A:378-425)
Length = 98
Score = 54.9 bits (132), Expect = 2e-08
Identities = 11/94 (11%), Positives = 35/94 (37%), Gaps = 5/94 (5%)
Query: 329 DSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRLPVLVPPIKEQFDITNVINVETAR 388
+ +A ++ D + + + + ++EQ I +++
Sbjct: 9 EQKQIAKILTKIDEGIEIIEKSIN-KLERIKKGLMHKLLTKGILEEQKQIAKILS----S 63
Query: 389 IDVLVEKIEQSIVLLKERRSSFIAAAVTGQIDLR 422
+D +E +Q L+ + + +TG++ ++
Sbjct: 64 VDKSIELKKQKKEKLQRMKKKIMELLLTGKVRVK 97
Score = 49.1 bits (117), Expect = 1e-06
Identities = 18/91 (19%), Positives = 37/91 (40%), Gaps = 6/91 (6%)
Query: 121 PELLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVR 180
+ + L ID + IE I + KG+ + + L EQ ++I
Sbjct: 10 QKQIAKILTKID--EGIEIIEKSINKLERIKKGLMHKLLTKGILEEQ----KQIAKILSS 63
Query: 181 IDTLITERIRFIELLKEKKQALVSYIVTKGL 211
+D I + + E L+ K+ ++ ++T +
Sbjct: 64 VDKSIELKKQKKEKLQRMKKKIMELLLTGKV 94
>2ywb_A GMP synthase [glutamine-hydrolyzing]; GMP synthetase, XMP
binding, ATP binding, purine nucleotide biosynthetic
pathway; 2.10A {Thermus thermophilus HB8} PDB: 2ywc_A*
(A:189-382)
Length = 194
Score = 29.3 bits (64), Expect = 1.1
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL------PVLVPPIKEQFD 377
G+DS+ LA L+ + + + GL + + E+V+ +LV KE+F
Sbjct: 31 GVDSSTLALLLAKAGVDHLAVFVDHGLLRLGEREEVEGALRALGVNLLVVDAKERFL 87
>1qlm_A Methenyltetrahydromethanopterin cyclohydrolase;
methanogenesis, biological methanogenesis; 2.0A
{Methanopyrus kandleri} (A:1-59,A:90-172)
Length = 142
Score = 28.6 bits (64), Expect = 1.5
Identities = 16/103 (15%), Positives = 43/103 (41%), Gaps = 10/103 (9%)
Query: 297 DLQNDKRSLRSAQVMERGIITSAYMA-VKPHGIDSTYLAWLMRSYDLCKVFYAMGSGLRQ 355
+L+N + G + V G+ + W ++ D ++AMGSG +
Sbjct: 28 ELENGTTVIDCGVEAAGGFEAGLLFSEVCMGGLAAQKAGWQVQVGD----YFAMGSGPAR 83
Query: 356 SLKFEDVKRLPVLVPPIKEQFDITNVINVETARI--DVLVEKI 396
+L + + + ++ D+ ++ +E++ + + + E +
Sbjct: 84 ALALKPKETYEEI--DYEDDADVA-ILCLESSELPDEDVAEHV 123
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase
class II, ligase; 3.23A {Methanococcus maripaludis S2}
(B:550-611)
Length = 62
Score = 27.4 bits (60), Expect = 3.9
Identities = 6/15 (40%), Positives = 6/15 (40%), Gaps = 8/15 (53%)
Query: 383 NVETARIDVLVEKIE 397
NVE KIE
Sbjct: 1 NVEV--------KIE 7
>3dsa_A D-ribose high-affinity transport system; D-ribose transport
system, RBSD, decamer, csgid, transport protein,
structural genomics; 2.45A {Salmonella typhimurium} PDB:
3e7n_A (A:)
Length = 142
Score = 27.1 bits (60), Expect = 4.5
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 144 ATMSHADWKGIGNIPMPIPPLAEQV 168
+ + H D + + +PIP ++
Sbjct: 19 SRLGHTDTLVVCDAGLPIPNSTARI 43
>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} (A:1221-1330,A:1541-1688)
Length = 258
Score = 26.8 bits (59), Expect = 4.8
Identities = 7/43 (16%), Positives = 15/43 (34%), Gaps = 3/43 (6%)
Query: 166 EQVLIREKIIA-ETVRIDTLITERIRFIELLKEK--KQALVSY 205
E ++ + + + + ER R I E + A +
Sbjct: 47 ELEALKLEAEEIPSEDQNEFLLERTREIHNEAESQLRAAQQQW 89
>3fiu_A NH(3)-dependent NAD(+) synthetase; rossman fold, adenine
nucleotide alpha hydrolase-like, ATP- binding, ligase,
nucleotide-binding; HET: AMP; 1.85A {Francisella
tularensis subsp} (A:)
Length = 249
Score = 26.5 bits (57), Expect = 6.3
Identities = 15/94 (15%), Positives = 25/94 (26%), Gaps = 6/94 (6%)
Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL------PVLVPPIKEQFDITN 380
GIDS A L L + S Q +D L I+ ++
Sbjct: 39 GIDSAVAASLAVKTGLPTTALILPSDNNQHQDMQDALELIEMLNIEHYTISIQPAYEAFL 98
Query: 381 VINVETARIDVLVEKIEQSIVLLKERRSSFIAAA 414
+ + + + + R A A
Sbjct: 99 ASTQSFTNLQNNRQLVIKGNAQARLRMMYLYAYA 132
>1d0q_A DNA primase; zinc-binding motif, protein; HET: DNA; 1.71A
{Bacillus stearothermophilus} (A:23-69)
Length = 47
Score = 26.5 bits (59), Expect = 6.4
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 215 VKMKDSGIEWVGLVPDHWEVKPFFALVTELNR 246
V++K G + GL P H E P F++ E
Sbjct: 5 VQLKRQGRNYFGLCPFHGEKTPSFSVSPEKQI 36
>3ju4_A Endo-N-acetylneuraminidase; endonf, polysia,
high-resolution, glycosidase, hydrolase; HET: SLB; 0.98A
{Enterobacteria phage K1F} PDB: 1v0e_A 1v0f_A*
(A:72-140,A:461-524)
Length = 133
Score = 26.1 bits (57), Expect = 8.1
Identities = 8/28 (28%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 314 GIITSAYMAVKPHGIDSTYLAWLMRSYD 341
+I + YM HG+ +++W+ +S D
Sbjct: 27 NVIYAPYMGSDRHGVSRLHVSWV-KSGD 53
>3bl5_A Queuosine biosynthesis protein QUEC; PREQ1 biosynthesis, RNA
modification, tRNA, hydrolase; 2.95A {Bacillus subtilis}
(A:)
Length = 219
Score = 26.2 bits (56), Expect = 8.2
Identities = 8/39 (20%), Positives = 10/39 (25%)
Query: 327 GIDSTYLAWLMRSYDLCKVFYAMGSGLRQSLKFEDVKRL 365
G DST R S + E K +
Sbjct: 13 GQDSTTCLLWALKEFEEVETVTFHYNQRHSQEVEVAKSI 51
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae} (B:1772-1800,B:1916-2006)
Length = 120
Score = 26.3 bits (58), Expect = 8.6
Identities = 6/18 (33%), Positives = 9/18 (50%), Gaps = 1/18 (5%)
Query: 154 IGNIPMPIPPLAEQVLIR 171
+ ++ M I L E V R
Sbjct: 2 LADV-MSIESLVEVVFYR 18
>1ogd_A High affinity ribose transport protein RBSD; sugar
transport; HET: RIP; 1.95A {Bacillus subtilis} (A:)
Length = 131
Score = 26.0 bits (57), Expect = 8.7
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 144 ATMSHADWKGIGNIPMPIPPLAEQV 168
A + H D I + +P+P ++
Sbjct: 16 ADLGHTDKIVIADAGLPVPDGVLKI 40
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
0.319 0.138 0.400
Gapped
Lambda K H
0.267 0.0552 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 3,274,352
Number of extensions: 149689
Number of successful extensions: 310
Number of sequences better than 10.0: 1
Number of HSP's gapped: 307
Number of HSP's successfully gapped: 19
Length of query: 426
Length of database: 4,956,049
Length adjustment: 91
Effective length of query: 335
Effective length of database: 1,879,794
Effective search space: 629730990
Effective search space used: 629730990
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.7 bits)