RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15572
(144 letters)
>2je8_A Beta-mannosidase; glycoside hydrolase, hydrolase; HET: B3P; 1.7A
{Bacteroides thetaiotaomicron} SCOP: b.1.4.1 b.1.4.1
b.1.4.1 b.18.1.5 c.1.8.3 PDB: 2vr4_A* 2vl4_A* 2vmf_A*
2vo5_A* 2vot_A* 2vqt_A* 2vjx_A* 2vqu_A* 2wbk_A*
Length = 848
Score = 107 bits (269), Expect = 2e-28
Identities = 40/128 (31%), Positives = 54/128 (42%), Gaps = 30/128 (23%)
Query: 8 EATVPGGIYSDLRRGNILKEDVYYRDNDLKYRWVSKTGWTYSTEFEEEDVYYRDNDLKYR 67
ATVPG ++ DL +L + +Y N+ K +
Sbjct: 29 PATVPGTVHQDLISHELL-----------------------------PNPFYGMNEKKIQ 59
Query: 68 WVSKTGWTYSTEFEVTDKNFLALPNQFLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDV 127
WV W Y T F V++ L L+F G+DT A +YLN L K DNMFV Y V
Sbjct: 60 WVENEDWEYRTSFIVSE-EQLNRDGIQLIFEGLDTYADVYLNGSLLLKADNMFVGYTLPV 118
Query: 128 KDKLQENE 135
K L++ E
Sbjct: 119 KSVLRKGE 126
>2vzs_A CSXA, EXO-beta-D-glucosaminidase; hydrolase, GH2, glucosamine,
glycoside hydrolase; HET: GCS; 1.85A {Amycolatopsis
orientalis} SCOP: b.1.4.1 b.1.4.1 b.1.4.1 b.18.1.5
c.1.8.3 PDB: 2x05_A* 2x09_A* 2vzo_A 2vzt_A* 2vzv_A*
2vzu_A*
Length = 1032
Score = 89.7 bits (222), Expect = 5e-22
Identities = 19/131 (14%), Positives = 39/131 (29%), Gaps = 35/131 (26%)
Query: 8 EATVPGGIYSDLRRGNILKEDVYYRDNDLKYRWVSKTGWTYSTEFEEEDVYYRDNDLKYR 67
+ +Y+ L + D +Y N
Sbjct: 83 PVSSRSTVYAGLLQNGKY-ADPFYSTNMQNVPAAQ------------------------- 116
Query: 68 WVSKTGWTYSTEFEVTDKNFLALPNQFLVFHGVDTIATIYLNDKELGKTDNM---FVRYR 124
W Y T+ V D + +L F GV + A +++N ++ D + + R+
Sbjct: 117 --FSVPWWYRTDLNVDDTS----SRTYLDFSGVLSKADVWVNGTKVATKDQVNGAYTRHD 170
Query: 125 FDVKDKLQENE 135
D+ ++
Sbjct: 171 LDITAQVHTGV 181
>3lpf_A Beta-glucuronidase; alpha/beta barrel, sugar-binding domain,
beta-sandwich domai glycosyl hydrolase, glycosida
hydrolase; HET: Z77; 2.26A {Escherichia coli} PDB:
3k46_A* 3k4d_A* 3lpg_A* 3k4a_A
Length = 605
Score = 42.0 bits (99), Expect = 2e-05
Identities = 12/65 (18%), Positives = 24/65 (36%), Gaps = 3/65 (4%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQFLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKDKL 131
W Y E + A L F V +++N++E+ + + + DV +
Sbjct: 68 NVW-YQREVFIPKG--WAGQRIVLRFDAVTHYGKVWVNNQEVMEHQGGYTPFEADVTPYV 124
Query: 132 QENES 136
+S
Sbjct: 125 IAGKS 129
>1jz7_A Lactase, beta-galactosidase, LACZ; TIM barrel (alpha/beta barrel),
jelly-roll barrel, immunoglobulin, beta supersandwich,
hydrolase; HET: GAL; 1.50A {Escherichia coli} SCOP:
b.1.4.1 b.1.4.1 b.18.1.5 b.30.5.1 c.1.8.3 PDB: 1hn1_A
1jyx_A* 1jz3_A* 1jz4_A* 1jz5_A* 1jz6_A* 1dp0_A* 3iap_A*
1jz8_A* 1jyn_A* 1jyv_A* 1jyw_A* 3iaq_A* 1px3_A 1px4_A*
3czj_A* 3i3e_A 3i3d_A* 3i3b_A 3dym_A ...
Length = 1023
Score = 40.2 bits (94), Expect = 8e-05
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 2/64 (3%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQFLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKDKL 131
TG YS F V D+++L ++F GV++ ++ N + +G + + FD+ L
Sbjct: 120 TG-CYSLTFNV-DESWLQEGQTRIIFDGVNSAFHLWCNGRWVGYGQDSRLPSEFDLSAFL 177
Query: 132 QENE 135
+ E
Sbjct: 178 RAGE 181
>3fn9_A Putative beta-galactosidase; structural genomics, glycosidas
hydrolase, PSI-2, protein structure initiative; 2.70A
{Bacteroides fragilis}
Length = 692
Score = 39.7 bits (93), Expect = 1e-04
Identities = 16/86 (18%), Positives = 28/86 (32%), Gaps = 11/86 (12%)
Query: 52 FEEEDVYYRDNDLKYRWVSKTGWTYSTEFEVTDKNFLALPNQ--FLVFHGVDTIATIYLN 109
+ D+ + Y G+ Y L + FL F GV A +Y+N
Sbjct: 45 WNAMDMQVQSGSF-YE---GAGY-YRKTQFFPHD----LEGKRVFLRFEGVGACAEVYVN 95
Query: 110 DKELGKTDNMFVRYRFDVKDKLQENE 135
K G + + ++ L+
Sbjct: 96 GKLAGTHKGGYSAFACEIGTALKLGA 121
>1yq2_A Beta-galactosidase; glycosyl hydrolase family 2, TIM barrel,
hexamer; 1.90A {Arthrobacter SP} SCOP: b.1.4.1 b.1.4.1
b.18.1.5 b.30.5.1 c.1.8.3
Length = 1024
Score = 39.5 bits (92), Expect = 1e-04
Identities = 16/66 (24%), Positives = 28/66 (42%), Gaps = 4/66 (6%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQ--FLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKD 129
TG + F+V + L F GV++ +++N +E+G + FDV D
Sbjct: 119 TG-DFRRRFDV-PAQWFESTTAALTLRFDGVESRYKVWVNGQEIGVGSGSRLAQEFDVSD 176
Query: 130 KLQENE 135
L+
Sbjct: 177 ALRAGS 182
>3cmg_A Putative beta-galactosidase; structural genomics, PSI-2, Pro
structure initiative, NEW YORK SGX research center for
STRU genomics, nysgxrc; 1.90A {Bacteroides fragilis}
Length = 667
Score = 39.3 bits (92), Expect = 2e-04
Identities = 15/66 (22%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQ--FLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKD 129
G Y + + FL F GV++IA +++N K +G+ + + F++ D
Sbjct: 50 IGN-YEKALYIRP----EWKGKRLFLRFDGVNSIADVFINRKHIGEHRGGYGAFIFEITD 104
Query: 130 KLQENE 135
++ E
Sbjct: 105 LVKYGE 110
>3gm8_A Glycoside hydrolase family 2, candidate beta-GLYC; structural
genomics, glycosidase, PSI-2, protein initiative; 2.40A
{Bacteroides vulgatus}
Length = 801
Score = 39.0 bits (91), Expect = 2e-04
Identities = 16/66 (24%), Positives = 30/66 (45%), Gaps = 7/66 (10%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQ--FLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKD 129
W Y F + N+ ++F GV + +++N LGK N ++ + +D+
Sbjct: 67 ISW-YRKTFTIPS----KWKNKKVQILFEGVYLNSEVWINGHWLGKRPNGYISFVYDLTP 121
Query: 130 KLQENE 135
LQE +
Sbjct: 122 YLQEGK 127
>3hn3_A Beta-G1, beta-glucuronidase; lysosomal enzyme, acid hydrolase,
glycosidase, disease mutat glycoprotein, hydrolase,
lysosome, mucopolysaccharidosis; HET: NDG NAG BMA MAN
GUP; 1.70A {Homo sapiens} PDB: 1bhg_A*
Length = 613
Score = 38.2 bits (89), Expect = 4e-04
Identities = 10/72 (13%), Positives = 28/72 (38%), Gaps = 2/72 (2%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQ-FLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKDK 130
W Y E + ++ L + L + A +++N + + + ++ + D+ +
Sbjct: 78 WVW-YEREVILPERWTQDLRTRVVLRIGSAHSYAIVWVNGVDTLEHEGGYLPFEADISNL 136
Query: 131 LQENESKQNLEL 142
+Q L +
Sbjct: 137 VQVGPLPSRLRI 148
>3bga_A Beta-galactosidase; NYSGXRC, protein structure initiative II
(PSI-II), glycosyl hydrolase family 2, jelly-roll fold;
2.10A {Bacteroides thetaiotaomicron vpi-5482} PDB:
3dec_A
Length = 1010
Score = 37.1 bits (86), Expect = 0.001
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 3/64 (4%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQFLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKDKL 131
G +Y F+V L GV + +++N K LG +D+ D L
Sbjct: 127 VG-SYRRTFKVPAD--WKGRRVVLCCEGVISFYYVWVNGKLLGYNQGSKTAAEWDITDVL 183
Query: 132 QENE 135
E E
Sbjct: 184 SEGE 187
>3oba_A Beta-galactosidase; TIM barrel, tetramer, GH2, glycosidase,
hydrolase; 2.75A {Kluyveromyces lactis} PDB: 3ob8_A
Length = 1032
Score = 37.2 bits (86), Expect = 0.001
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 2/64 (3%)
Query: 72 TGWTYSTEFEVTDKNFLALPNQFLVFHGVDTIATIYLNDKELGKTDNMFVRYRFDVKDKL 131
TG Y+ FE+ D + L F GVD +Y+N + +G FD++ +
Sbjct: 113 TG-VYARTFEL-DSKSIESFEHRLRFEGVDNCYELYVNGQYVGFNKGSRNGAEFDIQKYV 170
Query: 132 QENE 135
E E
Sbjct: 171 SEGE 174
>1cc1_L Hydrogenase (large subunit); NI-Fe-Se hydrogenase, oxidoreductase;
2.15A {Desulfomicrobium baculatum} SCOP: e.18.1.1
Length = 498
Score = 27.6 bits (61), Expect = 1.5
Identities = 9/64 (14%), Positives = 18/64 (28%), Gaps = 3/64 (4%)
Query: 11 VPGGIYSDLRRGNILKEDVYYRDNDLKYRWVSKTGWTYSTEFEEEDVYYRDNDLKYRWVS 70
+ G+Y D G + D + + + + E D Y +V
Sbjct: 265 LKPGVYID---GKDEEFDSKLVKEYVGHSFFDHSAPGGLHYSVGETNPNPDKPGAYSFVK 321
Query: 71 KTGW 74
+
Sbjct: 322 APRY 325
>3i7d_A Sugar phosphate isomerase; YP_168127.1, structural genomics, JO
center for structural genomics, JCSG, protein structure
INI PSI-2; 2.30A {Ruegeria pomeroyi dss-3}
Length = 163
Score = 25.7 bits (56), Expect = 5.4
Identities = 8/54 (14%), Positives = 21/54 (38%), Gaps = 1/54 (1%)
Query: 33 DNDLKYRWVSKTGWTYSTEFEEEDVYYRDNDLKYRWVSKTGWTYSTEFEVTDKN 86
D + V T + + + D+ + + + + K G + + ++ D N
Sbjct: 110 DAPATFLVVGTRTPTETAYYSDMDMMVKQDASGFAFTRKDGSPLTAD-QIGDDN 162
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 26.0 bits (56), Expect = 6.6
Identities = 23/140 (16%), Positives = 49/140 (35%), Gaps = 36/140 (25%)
Query: 27 EDVYYR--DNDLK--YRWVSKTGWTY--------STEFEEE-DVYYRDNDL--KYRWVSK 71
E++ + + L+ Y+++ + + + E+ D Y DN + KY VS+
Sbjct: 76 EEMVQKFVEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYN-VSR 133
Query: 72 TGWTYSTEFEVTDKNFLAL-PNQFLVFHGV-----DTIATIYLNDKELGKT--DNMF--- 120
+ + L L P + ++ GV +A ++ +F
Sbjct: 134 -----LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLN 188
Query: 121 VRYRFDVKDKLQENESKQNL 140
++ + L E Q L
Sbjct: 189 LKNCNSPETVL---EMLQKL 205
>1s4n_A Glycolipid 2-alpha-mannosyltransferase; alpha/beta fold,
nucleotide-binding domain, rossmann fold; HET: NAG BMA
MAN NDG; 2.01A {Saccharomyces cerevisiae} SCOP:
c.68.1.16 PDB: 1s4o_A* 1s4p_A*
Length = 348
Score = 25.8 bits (56), Expect = 7.0
Identities = 15/93 (16%), Positives = 33/93 (35%), Gaps = 15/93 (16%)
Query: 30 YYRDNDLKYRWV---------SKTGWTYSTEFEEEDVYYRDNDLKYRWVSKTG------W 74
+ ++N+ Y + T W S +F +++ Y D + ++S
Sbjct: 169 WMQENEKVYGFTVSIHEYEVTIPTLWQTSMDFIKKNPEYLDENNLMSFLSNDNGKTYNLC 228
Query: 75 TYSTEFEVTDKNFLALPNQFLVFHGVDTIATIY 107
+ + FE+ + N P F +D +
Sbjct: 229 HFWSNFEIANLNLWRSPAYREYFDTLDHQGGFF 261
>1bxv_A Plastocyanin; copper protein, electron transfer; 1.80A
{Synechococcus elongatus} SCOP: b.6.1.1 PDB: 1bxu_A
Length = 91
Score = 24.6 bits (54), Expect = 7.1
Identities = 5/20 (25%), Positives = 6/20 (30%)
Query: 40 WVSKTGWTYSTEFEEEDVYY 59
G T+ F E Y
Sbjct: 54 LAFSPGETFEATFSEPGTYT 73
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
0.315 0.134 0.403
Gapped
Lambda K H
0.267 0.0595 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,236,652
Number of extensions: 124054
Number of successful extensions: 300
Number of sequences better than 10.0: 1
Number of HSP's gapped: 294
Number of HSP's successfully gapped: 27
Length of query: 144
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 59
Effective length of database: 4,328,508
Effective search space: 255381972
Effective search space used: 255381972
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: 41 (21.6 bits)
S2: 52 (24.1 bits)