RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1336
(96 letters)
>3czg_A Sucrose hydrolase; (alpha/beta)8-barrel; HET: GLC; 1.80A
{Xanthomonas axonopodis PV} PDB: 3cze_A* 3czl_A* 3czk_A*
2wpg_A
Length = 644
Score = 32.2 bits (73), Expect = 0.014
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 9/53 (16%)
Query: 18 YSLSSQLDLNPLFSTPEHKLSWDDVIAFTEKMRTEWQMLSLC-DIVLNHTANE 69
+++S + P + DD++A T ++R +SLC D VLNHTA++
Sbjct: 140 FAVSDYGQVEPSLGS------NDDLVALTSRLREAG--ISLCADFVLNHTADD 184
>1r7a_A Sucrose phosphorylase; beta-alpha-barrels, dimer, glycoside
hydrolase, transferase; 1.77A {Bifidobacterium
adolescentis} SCOP: b.71.1.1 c.1.8.1 PDB: 2gdv_A*
2gdu_A*
Length = 504
Score = 31.7 bits (72), Expect = 0.024
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 38 SWDDVIAFTEKMRTEWQMLSLCDIVLNHTANE 69
SWDDV ++ M+ D ++NH + E
Sbjct: 67 SWDDVAELSKTHNI---MV---DAIVNHMSWE 92
>3ucq_A Amylosucrase; thermostability, amylose synthesis, sucrose
isomerization, beta/alpha-barrel, carbohydrate binding,
transferase; 1.97A {Deinococcus geothermalis} PDB:
3uer_A*
Length = 655
Score = 31.0 bits (70), Expect = 0.035
Identities = 16/53 (30%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 18 YSLSSQLDLNPLFSTPEHKLSWDDVIAFTEKMRTEWQMLSLC-DIVLNHTANE 69
Y++ + P T DD+ A +R +SL D+VLNH A E
Sbjct: 145 YAVQDYRAVRPDLGT------MDDLSALARALRGRG--ISLVLDLVLNHVARE 189
>1g5a_A Amylosucrase; glycosyltransferase, glycoside hydrolase,
(beta-alpha)8 barrel; HET: EPE; 1.40A {Neisseria
polysaccharea} SCOP: b.71.1.1 c.1.8.1 PDB: 1jg9_A*
1mw1_A* 1mw2_A* 1mw3_A* 3ueq_A* 1jgi_A* 1mvy_A* 1mw0_A*
1s46_A* 1zs2_A*
Length = 628
Score = 31.0 bits (70), Expect = 0.040
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 9/53 (16%)
Query: 18 YSLSSQLDLNPLFSTPEHKLSWDDVIAFTEKMRTEWQMLSLC-DIVLNHTANE 69
Y++SS D+NP T D+ + +S D + NHT+NE
Sbjct: 147 YAVSSYRDVNPALGT------IGDLREVIAALHEA--GISAVVDFIFNHTSNE 191
>1gjw_A Maltodextrin glycosyltransferase; alpha-amylase,
maltosyltransferase; HET: MAL GLC; 2.1A {Thermotoga
maritima} SCOP: b.71.1.1 c.1.8.1 PDB: 1gju_A*
Length = 637
Score = 29.8 bits (66), Expect = 0.11
Identities = 11/60 (18%), Positives = 25/60 (41%), Gaps = 3/60 (5%)
Query: 12 GGSNSCYSLSSQLDLNPLFSTPEHKL--SWDDVIAFTEKMRTEWQMLSLCDIVLNHTANE 69
G + S YS+ + ++L+ + P + ++ AF E + + D + A +
Sbjct: 152 GDAPSPYSVKNPMELDERYHDPLLEPFKVDEEFKAFVEACH-ILGIRVILDFIPRTAARD 210
>3goc_A Endonuclease V; alpha-beta protein, structural genomics, PSI-2,
protein STRU initiative, northeast structural genomics
consortium, NESG; HET: YES; 1.60A {Streptomyces
avermitilis}
Length = 237
Score = 28.4 bits (63), Expect = 0.30
Identities = 10/41 (24%), Positives = 18/41 (43%)
Query: 9 LELGGSNSCYSLSSQLDLNPLFSTPEHKLSWDDVIAFTEKM 49
L G +L +Q + P+F + H++ D A T +
Sbjct: 163 LLAGADEVGRALRTQSGVKPVFVSVGHRVDLDHACAHTLAL 203
>3ga2_A Endonuclease V; alpha-beta protein, structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.10A {Bacillus subtilis}
Length = 246
Score = 28.4 bits (63), Expect = 0.32
Identities = 7/43 (16%), Positives = 18/43 (41%)
Query: 9 LELGGSNSCYSLSSQLDLNPLFSTPEHKLSWDDVIAFTEKMRT 51
+ + G +L ++ D+ P+F + + + D T +
Sbjct: 168 IIIDGEVYGRALRTRRDVKPIFLSCGNYIDLDSSYQITMSLIN 210
>2uz8_A Eukaryotic translation elongation factor 1 epsilon-1; protein
biosynthesis, aminoacyl-tRNA synthetase, GST, nuclear
protein, RNA-binding protein; HET: MSE; 2.0A {Homo
sapiens}
Length = 174
Score = 27.8 bits (62), Expect = 0.47
Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 10/91 (10%)
Query: 2 VFIIDSRLELGGSNS-CYSLSSQLDLNPLF-STPEHK------LSWDDVIAFTEKMRTEW 53
V ++ L G + L Q + L ST E K L + + +
Sbjct: 32 VLQTNNGPSLMGLTTIAAHLVKQANKEYLLGSTAEEKAMVQQWLEYRVTQVDGHSSKNDI 91
Query: 54 QMLSLCDIVLNHTANETYLSLNMLSLCDIVL 84
+L + ++ ++ YL+ +L DI+L
Sbjct: 92 H--TLLMDLNSYLEDKVYLTGYNFTLADILL 120
>2w36_A Endonuclease V; hypoxanthine, endonuclease, endonucleasev,
hydrolase, inosine, DNA damage, DNA repair; HET: BRU;
2.10A {Thermotoga maritima} PDB: 2w35_A 3hd0_A
Length = 225
Score = 26.5 bits (58), Expect = 1.2
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 9 LELGGSNSCYSLSSQLDLNPLFSTPEHKLSWDDVIAFTEKM 49
L G + ++ P+F +P H + + +
Sbjct: 159 LYDGEEIIGCVIRTKEGSAPIFVSPGHLMDVESSKRLIKAF 199
>1mxg_A Alpha amylase; hyperthermostable, family 13 glycosyl hydrola
(beta/alpha)8-barrel, hydrolase; HET: ACR ETE; 1.60A
{Pyrococcus woesei} SCOP: b.71.1.1 c.1.8.1 PDB: 1mwo_A*
1mxd_A* 3qgv_A*
Length = 435
Score = 26.3 bits (58), Expect = 1.5
Identities = 7/33 (21%), Positives = 13/33 (39%), Gaps = 7/33 (21%)
Query: 68 NETYLSL-------NMLSLCDIVLNHTANETFD 93
E + L + + D+V+NH A +
Sbjct: 86 KEELVRLIQTAHAYGIKVIADVVINHRAGGDLE 118
Score = 24.8 bits (54), Expect = 6.2
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 60 DIVLNHTANETY 71
D+V+NH A
Sbjct: 106 DVVINHRAGGDL 117
>1wpc_A Glucan 1,4-alpha-maltohexaosidase; maltohexaose-producing amylase,
alpha-amylase, acarbose, HYD; HET: ACI GLC GAL; 1.90A
{Bacillus SP} SCOP: b.71.1.1 c.1.8.1 PDB: 1wp6_A*
2d3l_A* 2d3n_A* 2die_A 2gjp_A* 2gjr_A 1w9x_A*
Length = 485
Score = 26.4 bits (58), Expect = 1.6
Identities = 4/12 (33%), Positives = 6/12 (50%)
Query: 60 DIVLNHTANETY 71
D+V+NH
Sbjct: 102 DVVMNHKGGADA 113
Score = 26.0 bits (57), Expect = 2.2
Identities = 4/11 (36%), Positives = 6/11 (54%)
Query: 81 DIVLNHTANET 91
D+V+NH
Sbjct: 102 DVVMNHKGGAD 112
>3bh4_A Alpha-amylase; calcium, carbohydrate metabolism, glycosidase,
hydrolase, metal-binding, secreted; 1.40A {Bacillus
amyloliquefaciens} PDB: 1e43_A 1e3z_A* 1e40_A* 1e3x_A
1vjs_A 1ob0_A 1bli_A 1bpl_B 1bpl_A
Length = 483
Score = 25.9 bits (57), Expect = 2.1
Identities = 6/10 (60%), Positives = 7/10 (70%)
Query: 60 DIVLNHTANE 69
D+VLNH A
Sbjct: 98 DVVLNHKAGA 107
Score = 25.9 bits (57), Expect = 2.1
Identities = 6/10 (60%), Positives = 7/10 (70%)
Query: 81 DIVLNHTANE 90
D+VLNH A
Sbjct: 98 DVVLNHKAGA 107
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA
topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus
aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A*
Length = 692
Score = 26.1 bits (58), Expect = 2.3
Identities = 7/26 (26%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 60 DIVLN----HTANETYLSLNMLSLCD 81
++LN T +T +NM++L +
Sbjct: 516 SVILNNLYKQTPLQTSFGVNMIALVN 541
>3ilw_A DNA gyrase subunit A; DNA topology, topoisomerase, antibiotic
resistance, breakage-reunion domain, struct genomics;
HET: DNA; 1.60A {Mycobacterium tuberculosis} PDB:
3ifz_A*
Length = 470
Score = 25.2 bits (56), Expect = 3.5
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 60 DIVLN----HTANETYLSLNMLSLCD 81
+V+N HT +T NML++ D
Sbjct: 295 KVVINNLYKHTQLQTSFGANMLAIVD 320
>1iv8_A Maltooligosyl trehalose synthase; beta alpha barrel,
intramolecular transglucosylation, isomerase; HET: MLZ
MLY; 1.90A {Sulfolobus acidocaldarius} SCOP: b.71.1.1
c.1.8.1
Length = 720
Score = 25.3 bits (55), Expect = 3.6
Identities = 6/10 (60%), Positives = 6/10 (60%)
Query: 60 DIVLNHTANE 69
DIV NH A
Sbjct: 85 DIVPNHMAVN 94
Score = 25.3 bits (55), Expect = 3.6
Identities = 6/10 (60%), Positives = 6/10 (60%)
Query: 81 DIVLNHTANE 90
DIV NH A
Sbjct: 85 DIVPNHMAVN 94
>1hx0_A Alpha amylase (PPA); inhibitor, carbohydrate, pancreas, hydrolase;
HET: GLC AC1 BGC MAL; 1.38A {Sus scrofa} SCOP: b.71.1.1
c.1.8.1 PDB: 1wo2_A* 1ua3_A* 1kxq_A 1kxt_A 1kxv_A
1jfh_A* 1vah_A* 1ppi_A* 3l2m_A* 3l2l_A* 1dhk_A* 1ose_A*
1pig_A* 1pif_A* 1bvn_P 3oli_A* 3old_A* 3olg_A* 3ole_A*
3ij8_A* ...
Length = 496
Score = 25.5 bits (55), Expect = 3.8
Identities = 4/18 (22%), Positives = 8/18 (44%)
Query: 73 SLNMLSLCDIVLNHTANE 90
++ + D V+NH
Sbjct: 88 NVGVRIYVDAVINHMCGS 105
Score = 24.8 bits (53), Expect = 5.8
Identities = 4/32 (12%), Positives = 10/32 (31%), Gaps = 1/32 (3%)
Query: 38 SWDDVIAFTEKMRTEWQMLSLCDIVLNHTANE 69
+ ++ + + D V+NH
Sbjct: 75 NENEFRDMVTRCN-NVGVRIYVDAVINHMCGS 105
>1ud2_A Amylase, alpha-amylase; calcium-free, alkaline, hydrolase; 2.13A
{Bacillus SP} SCOP: b.71.1.1 c.1.8.1 PDB: 1ud4_A 1ud5_A
1ud6_A 1ud8_A 1ud3_A
Length = 480
Score = 25.2 bits (55), Expect = 3.8
Identities = 4/12 (33%), Positives = 7/12 (58%)
Query: 60 DIVLNHTANETY 71
D+V+NH +
Sbjct: 100 DVVMNHKMGADF 111
Score = 24.8 bits (54), Expect = 5.0
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 81 DIVLNHTANETF 92
D+V+NH F
Sbjct: 100 DVVMNHKMGADF 111
>3lpx_A GYRA, DNA gyrase, A subunit; topoisomraseii, ATP-binding,
isomerase, nucleo binding; HET: DNA; 2.60A {Colwellia
psychrerythraea} PDB: 2wl2_A* 2y3p_A* 3nuh_A* 1ab4_A
Length = 500
Score = 25.2 bits (56), Expect = 4.3
Identities = 8/26 (30%), Positives = 14/26 (53%), Gaps = 4/26 (15%)
Query: 60 DIVLN----HTANETYLSLNMLSLCD 81
++VLN T + LNM++L +
Sbjct: 284 EVVLNNLYKLTQMQVSFGLNMVALTN 309
>3hje_A 704AA long hypothetical glycosyltransferase; trehalose
biosynthesis, maltooligoside trehalose synthase (M
family 13 glycoside hydrolases; 1.90A {Sulfolobus
tokodaii str}
Length = 704
Score = 25.1 bits (55), Expect = 4.4
Identities = 6/10 (60%), Positives = 6/10 (60%)
Query: 60 DIVLNHTANE 69
DIV NH A
Sbjct: 83 DIVPNHMAVH 92
Score = 25.1 bits (55), Expect = 4.4
Identities = 6/10 (60%), Positives = 6/10 (60%)
Query: 81 DIVLNHTANE 90
DIV NH A
Sbjct: 83 DIVPNHMAVH 92
>1hvx_A Alpha-amylase; hydrolase, glycosyltransferase, thermostability;
2.00A {Geobacillus stearothermophilus} SCOP: b.71.1.1
c.1.8.1
Length = 515
Score = 25.2 bits (55), Expect = 4.7
Identities = 3/9 (33%), Positives = 5/9 (55%)
Query: 60 DIVLNHTAN 68
D+V +H
Sbjct: 101 DVVFDHKGG 109
Score = 25.2 bits (55), Expect = 4.7
Identities = 3/9 (33%), Positives = 5/9 (55%)
Query: 81 DIVLNHTAN 89
D+V +H
Sbjct: 101 DVVFDHKGG 109
>3bc9_A AMYB, alpha amylase, catalytic region; acarbose, thermostable,
halophilic, N domain, starch binding, hydrolase; HET:
G6D GLC ACI BGC ACR; 1.35A {Halothermothrix orenii} PDB:
3bcd_A* 3bcf_A
Length = 599
Score = 24.9 bits (54), Expect = 5.0
Identities = 6/12 (50%), Positives = 6/12 (50%)
Query: 60 DIVLNHTANETY 71
D VLNH Y
Sbjct: 228 DAVLNHRMGADY 239
Score = 24.5 bits (53), Expect = 7.0
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 75 NMLSLCDIVLNHTA 88
++ D VLNH
Sbjct: 222 DIKVYFDAVLNHRM 235
>1ht6_A AMY1, alpha-amylase isozyme 1; barley, beta-alpha-barrel,
hydrolase; 1.50A {Hordeum vulgare} SCOP: b.71.1.1
c.1.8.1 PDB: 1p6w_A* 1rpk_A* 3bsg_A 2qpu_A* 1rp8_A*
1rp9_A* 2qps_A 3bsh_A* 1ava_A 1amy_A 1bg9_A*
Length = 405
Score = 24.7 bits (54), Expect = 6.7
Identities = 8/33 (24%), Positives = 13/33 (39%), Gaps = 7/33 (21%)
Query: 68 NETYLSL-------NMLSLCDIVLNHTANETFD 93
SL + ++ DIV+NH + D
Sbjct: 68 AAELKSLIGALHGKGVQAIADIVINHRCADYKD 100
>3o3v_A Beta-lactamase, CLBP protein; alpha/beta, disulfide bridge,
hydrolase; 2.40A {Escherichia coli}
Length = 335
Score = 24.2 bits (53), Expect = 8.4
Identities = 9/39 (23%), Positives = 15/39 (38%), Gaps = 6/39 (15%)
Query: 34 EHKLSWDDVIA-----FTEKMRTEWQMLSLCDIVLNHTA 67
E +L D I + + L++ D L HT+
Sbjct: 71 EGRLRQGDDIITYLPEMRLNYQGKPASLTVADF-LYHTS 108
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA;
2.80A {Staphylococcus aureus}
Length = 514
Score = 24.4 bits (54), Expect = 8.7
Identities = 4/26 (15%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 60 DIVLN----HTANETYLSLNMLSLCD 81
+ + N ++ + + NM+++ D
Sbjct: 333 ESIKNYLYKNSDLQISYNFNMVAISD 358
>1ua7_A Alpha-amylase; beta-alpha-barrels, acarbose, greek-KEY motif,
hydrolase; HET: ACI GLD GLC G6D BGC; 2.21A {Bacillus
subtilis} SCOP: b.71.1.1 c.1.8.1 PDB: 1bag_A* 3dc0_A
Length = 422
Score = 24.4 bits (53), Expect = 9.1
Identities = 5/10 (50%), Positives = 7/10 (70%)
Query: 60 DIVLNHTANE 69
D V+NHT +
Sbjct: 94 DAVINHTTFD 103
Score = 24.4 bits (53), Expect = 9.1
Identities = 5/10 (50%), Positives = 7/10 (70%)
Query: 81 DIVLNHTANE 90
D V+NHT +
Sbjct: 94 DAVINHTTFD 103
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.134 0.402
Gapped
Lambda K H
0.267 0.0598 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,375,755
Number of extensions: 63251
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 289
Number of HSP's successfully gapped: 53
Length of query: 96
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 34
Effective length of database: 4,970,691
Effective search space: 169003494
Effective search space used: 169003494
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 (21.9 bits)
S2: 51 (23.7 bits)