RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4375
(62 letters)
>3bvx_A Alpha-mannosidase 2; family 38 glycoysl hydrolase, glycosidase,
golgi apparatus, membrane, signal-anchor, transmembrane;
HET: WZ5; 1.10A {Drosophila melanogaster} SCOP: a.8.3.1
b.30.5.6 c.6.2.1 PDB: 3bud_A 3buq_A* 3bvt_A* 3bui_A*
3bvv_A* 3bvw_A* 3bvu_A* 3cv5_A* 3czn_A* 3czs_A* 2ow6_A*
1r33_A* 1r34_A* 1tqs_A* 1tqt_A* 1tqu_A* 1tqv_A* 1tqw_A*
2alw_A* 2f18_A* ...
Length = 1045
Score = 59.9 bits (144), Expect = 9e-13
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 6/60 (10%)
Query: 1 MEIVHPTKRNIVKKLIAEGRLEMVTGGWVMTDEATSHIFAMVDQL------IEETFSTFS 54
+ K+ +K ++ G+LE VTGGWVM DEA SH ++ QL +++ +
Sbjct: 138 YHDLGENKKLQMKSIVKNGQLEFVTGGWVMPDEANSHWRNVLLQLTEGQTWLKQFMNVTP 197
>1o7d_A Lysosomal alpha-mannosidase; hydrolase, glycosyl hydrolase family
38; HET: NAG BMA MAN NDG; 2.70A {Bos taurus} SCOP:
c.6.2.1
Length = 298
Score = 57.7 bits (139), Expect = 3e-12
Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 6/56 (10%)
Query: 1 MEIVHPTKRNIVKKLIAEGRLEMVTGGWVMTDEATSHIFAMVDQL------IEETF 50
+ IV++L+ +GRLE GGWVM DEAT+H A++DQ+ +EETF
Sbjct: 79 WRQQTNATQKIVRELVRQGRLEFANGGWVMNDEATTHYGAIIDQMTLGLRFLEETF 134
>2wyh_A Alpha-mannosidase; hydrolase, glycosidase, glycoside hydrolase;
1.90A {Streptococcus pyogenes} PDB: 2wyi_A*
Length = 923
Score = 51.8 bits (123), Expect = 5e-10
Identities = 8/46 (17%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 1 MEIVHPTKRNIVKKLIAEGRLEMVTGGWVMTDEATSHIFAMVDQLI 46
V P + +++ IA G+L + +++ D+ + + V ++
Sbjct: 83 YLKVRPEREPEIRQAIASGKLR-IGPFYILQDDFLTSSESNVRNML 127
>3lvt_A Glycosyl hydrolase, family 38; PSI, MCSG, structural genomics,
midwest center for structural genomics, protein
structure initiative; 2.55A {Enterococcus faecalis}
Length = 899
Score = 49.1 bits (116), Expect = 6e-09
Identities = 10/46 (21%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 1 MEIVHPTKRNIVKKLIAEGRLEMVTGGWVMTDEATSHIFAMVDQLI 46
V P K+ VKK + G+L+ + +++ D+ + V ++
Sbjct: 64 YLQVRPEKKEAVKKAVQAGKLK-IGPFYILQDDFLISSESNVRNML 108
>1k1x_A 4-alpha-glucanotransferase; 2.40A {Thermococcus litoralis} SCOP:
a.8.3.2 b.30.5.8 c.6.2.2 PDB: 1k1w_A 1k1y_A*
Length = 659
Score = 27.7 bits (61), Expect = 0.17
Identities = 7/18 (38%), Positives = 12/18 (66%)
Query: 12 VKKLIAEGRLEMVTGGWV 29
++ LI G+LE+V G+
Sbjct: 69 LRSLIKRGQLEIVVAGFY 86
>1qf6_A THRRS, threonyl-tRNA synthetase; tRNA(Thr), AMP, mRNA, aminoacylati
translational regulation, protein/RNA, ligase-RNA
complex; HET: H2U AET G7M 5MU PSU AMP; 2.90A
{Escherichia coli} SCOP: c.51.1.1 d.15.10.1 d.67.1.1
d.104.1.1
Length = 642
Score = 24.8 bits (55), Expect = 1.9
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 17/45 (37%)
Query: 32 DEATSHIFAMVDQLIEET---------------FSTFSVQSSKRP 61
D+A HIF +Q+ +E F V+ S RP
Sbjct: 382 DDA--HIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRP 424
>1evl_A Threonyl-tRNA synthetase; amino acid recognition, zinc ION,
adenylate analog, deletion mutant, ligase; HET: TSB;
1.55A {Escherichia coli} SCOP: c.51.1.1 d.104.1.1 PDB:
1evk_A* 1fyf_A* 1kog_A*
Length = 401
Score = 24.5 bits (54), Expect = 2.1
Identities = 12/45 (26%), Positives = 17/45 (37%), Gaps = 17/45 (37%)
Query: 32 DEATSHIFAMVDQLIEET---------------FSTFSVQSSKRP 61
D+A HIF +Q+ +E F V+ S RP
Sbjct: 141 DDA--HIFCTEEQIRDEVNGCIRLVYDMYSTFGFEKIVVKLSTRP 183
>1nyr_A Threonyl-tRNA synthetase 1; ATP, threonine, ligase; HET: ATP; 2.80A
{Staphylococcus aureus} SCOP: c.51.1.1 d.15.10.1
d.67.1.1 d.104.1.1 PDB: 1nyq_A*
Length = 645
Score = 24.4 bits (54), Expect = 2.4
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 18/49 (36%)
Query: 30 MT-DEATSHIFAMVDQLIEET---------------FSTFSVQSSKRPP 62
MT +++ HIF DQ+ EE F +S + S R P
Sbjct: 381 MTLNDS--HIFVRPDQIKEEFKRVVNMIIDVYKDFGFEDYSFRLSYRDP 427
>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein,
structural genomics, PSI- 2, protein structure
initiative; 3.00A {Corynebacterium diphtheriae}
Length = 583
Score = 23.8 bits (51), Expect = 4.9
Identities = 9/36 (25%), Positives = 15/36 (41%), Gaps = 4/36 (11%)
Query: 6 PTKRNIVKKLIAEGRLEMVTGG----WVMTDEATSH 37
T + V L+ E R+ V GG + + + H
Sbjct: 545 GTAKACVDGLVDEERVVAVGGGRSRRYRLVELEHHH 580
>3r9u_A Thioredoxin reductase; structural genomics, center for structural
genomics of infec diseases, csgid, thioredoxin-disulfide
reductase, FAD; HET: FAD; 2.36A {Campylobacter jejuni}
Length = 315
Score = 23.2 bits (51), Expect = 6.0
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 11 IVKKLIAEGRLEMVTGGWVMTDEAT 35
I+K+ ++ M GG V D
Sbjct: 248 ILKQDDSKFLCNMEEGGQVSVDLKM 272
>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance
regulator, residues 1193-1427...; CFTR, ABC transporter,
nucleotide binding domain, NBD; HET: B44; 2.70A {Homo
sapiens}
Length = 390
Score = 23.1 bits (50), Expect = 7.7
Identities = 6/18 (33%), Positives = 11/18 (61%)
Query: 32 DEATSHIFAMVDQLIEET 49
DE ++H+ + Q+I T
Sbjct: 180 DEPSAHLDPVTYQIIRRT 197
>3uh0_A Threonyl-tRNA synthetase, mitochondrial; threonine tRNA, threonyl
ADE threonyl sulfamoyl adenylate; HET: TSB; 2.00A
{Saccharomyces cerevisiae} PDB: 3ugt_A 3ugq_A* 4eo4_A*
Length = 460
Score = 23.0 bits (50), Expect = 8.2
Identities = 6/17 (35%), Positives = 9/17 (52%)
Query: 37 HIFAMVDQLIEETFSTF 53
HIF Q+ E F++
Sbjct: 182 HIFCTPSQVKSEIFNSL 198
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
0.318 0.130 0.371
Gapped
Lambda K H
0.267 0.0750 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 902,687
Number of extensions: 39997
Number of successful extensions: 167
Number of sequences better than 10.0: 1
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 13
Length of query: 62
Length of database: 6,701,793
Length adjustment: 33
Effective length of query: 29
Effective length of database: 5,780,400
Effective search space: 167631600
Effective search space used: 167631600
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 (21.8 bits)
S2: 51 (23.4 bits)