RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1877
(76 letters)
>3a21_A Putative secreted alpha-galactosidase; beta-alpha-barrel, greek KEY
motif, beta-jellyroll, beta-TRE hydrolase; HET: GOL 1PG
EPE; 1.51A {Streptomyces avermitilis} PDB: 3a22_A*
3a23_A*
Length = 614
Score = 64.8 bits (157), Expect = 3e-14
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 10/58 (17%)
Query: 1 MYEDYGNYTCAGY----------PGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMD 48
+Y D G C Y G G+ ++D F+ W D++K+D C +D
Sbjct: 95 IYTDAGKDGCGYYYPTGRPAAPGSGSEGHYDQDMLQFSTWGFDFVKVDWCGGDAEGLD 152
>1szn_A Alpha-galactosidase; (beta/alpha)8 barrel,TWO domains,
glycoprotein, hydrolase; HET: NAG BMA MAN; 1.54A
{Hypocrea jecorina} SCOP: b.71.1.1 c.1.8.1 PDB: 1t0o_A*
Length = 417
Score = 54.0 bits (129), Expect = 2e-10
Identities = 23/48 (47%), Positives = 27/48 (56%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMD 48
+Y G TCAGYP LGY + DA FA+W VDY+K D C D
Sbjct: 95 IYSTAGTATCAGYPASLGYEDVDAADFADWGVDYLKYDNCNVPSDWQD 142
>3hg3_A Alpha-galactosidase A; glycoprotein, carbohydrate-binding protein,
glycosidase, Lys enzyme, (beta/alpha)8 barrel, disease
mutation; HET: NAG BMA MAN GLA GLC 2PE; 1.90A {Homo
sapiens} PDB: 3tv8_A* 3lx9_A* 3lxa_A* 3lxb_A* 3lxc_A*
3s5z_A* 1r47_A* 1r46_A* 3gxn_A* 3gxt_A* 3hg2_A* 3hg4_A*
3hg5_A* 3gxp_A* 3s5y_A*
Length = 404
Score = 53.3 bits (127), Expect = 3e-10
Identities = 23/46 (50%), Positives = 30/46 (65%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSD 46
+Y D GN TCAG+PG GY + DA +FA+W VD +K GCY +
Sbjct: 102 IYADVGNKTCAGFPGSFGYYDIDAQTFADWGVDLLKFAGCYCDSLE 147
>3a5v_A Alpha-galactosidase; beta/alpha barrel, N-glycosylation, hydrolase;
HET: MAN NAG BMA 1PG; 2.00A {Umbelopsis vinacea}
Length = 397
Score = 52.5 bits (125), Expect = 5e-10
Identities = 18/49 (36%), Positives = 27/49 (55%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDR 49
+Y G TC G+ LGY + DA ++A+W +DY+K D CY+
Sbjct: 92 IYSSAGTLTCGGHIASLGYEDIDAKTWAKWGIDYLKYDNCYNQGQSGTP 140
>1uas_A Alpha-galactosidase; TIM-barrel, beta-alpha-barrel, greek KEY
motif, hydrolase; HET: GLA; 1.50A {Oryza sativa} SCOP:
b.71.1.1 c.1.8.1
Length = 362
Score = 50.5 bits (120), Expect = 2e-09
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 1 MYEDYGNYTCAG-YPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRG 50
+Y D G+ TC+ PG L + E+D +FA W VDY+K D C +
Sbjct: 92 IYSDAGSQTCSNKMPGSLDHEEQDVKTFASWGVDYLKYDNCNDAGRSVMER 142
>3lrk_A Alpha-galactosidase 1; tetramer, GH27, glycoprotein, glycosida
hydrolase; HET: NAG BTB; 1.95A {Saccharomyces
cerevisiae} PDB: 3lrl_A* 3lrm_A*
Length = 479
Score = 47.2 bits (111), Expect = 4e-08
Identities = 25/43 (58%), Positives = 27/43 (62%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSH 43
MY G YTCAGYPG LG E DA FA VDY+K D CY+
Sbjct: 112 MYSSAGEYTCAGYPGSLGREEEDAQFFANNRVDYLKYDNCYNK 154
>1ktb_A Alpha-N-acetylgalactosaminidase; glycoprotein, (beta/alpha)8
barrel, hydrolase; HET: NAG; 1.90A {Gallus gallus} SCOP:
b.71.1.1 c.1.8.1 PDB: 1ktc_A* 3h55_A* 3h54_A* 3h53_A*
3igu_A*
Length = 405
Score = 44.8 bits (105), Expect = 3e-07
Identities = 26/51 (50%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
Query: 1 MYEDYGNYTCAGYPGI-LGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRG 50
+Y D G TC GYPG L +E+DA +FAEW VD +K+DGCYS + +G
Sbjct: 102 IYGDLGRLTCGGYPGTTLDRVEQDAQTFAEWGVDMLKLDGCYSSGKEQAQG 152
>3cc1_A BH1870 protein, putative alpha-N-acetylgalactosaminidase;
structural genomic center for structural genomics, JCSG;
HET: MSE PGE PG4 P33; 2.00A {Bacillus halodurans c-125}
Length = 433
Score = 34.4 bits (78), Expect = 0.001
Identities = 8/48 (16%), Positives = 11/48 (22%), Gaps = 7/48 (14%)
Query: 1 MYEDYGNYTCAGYPG-------ILGYLERDAYSFAEWNVDYIKIDGCY 41
++ G A Y S WN D +D
Sbjct: 112 IHIMRGIPRQAVYENSPVLGSTKTAREIAHTNSICPWNTDMYGVDPTK 159
Score = 30.2 bits (67), Expect = 0.046
Identities = 8/38 (21%), Positives = 14/38 (36%)
Query: 11 AGYPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMD 48
G Y +A+W VD++K+D +
Sbjct: 157 PTKEGAQSYYNSLFELYAQWGVDFVKVDDIAASRLYDT 194
>3kfu_F Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 466
Score = 29.4 bits (67), Expect = 0.063
Identities = 17/61 (27%), Positives = 20/61 (32%), Gaps = 15/61 (24%)
Query: 9 TCAGYPGILGYLERDAYSFAEWNVDYIKID---GCYSHP-SDMDRGKTTSYP----NYQI 60
C G PG L R A +++ G R K YP NYQI
Sbjct: 40 VCLGLPGALPVPNRVAVEHG------LRLALALGAEVPERLVFHR-KNYFYPDLPKNYQI 92
Query: 61 S 61
S
Sbjct: 93 S 93
>1zy9_A Alpha-galactosidase; TM1192, struc genomics, joint center for
structural genomics, JCSG, prote structure initiative,
PSI, hydrolase; 2.34A {Thermotoga maritima} SCOP:
b.30.5.11 c.1.8.13
Length = 564
Score = 29.3 bits (65), Expect = 0.080
Identities = 6/29 (20%), Positives = 11/29 (37%)
Query: 27 FAEWNVDYIKIDGCYSHPSDMDRGKTTSY 55
+ Y KID ++ +R K +
Sbjct: 328 LRKMGYRYFKIDFLFAGAVPGERKKNITP 356
>3ip4_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; multi protein
complex, ligase, ATP-binding, nucleotide-bindi protein
biosynthesis; 1.90A {Staphylococcus aureus subsp} PDB:
2df4_B 2dqn_B* 2g5h_B 2g5i_B* 2f2a_B
Length = 483
Score = 26.7 bits (60), Expect = 0.57
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 15/61 (24%)
Query: 9 TCAGYPGILGYLERDAYSFAEWNVDYIKID---GCYSHP-SDMDRGKTTSYP----NYQI 60
YPG+L + + A +A ++ S DR K YP YQI
Sbjct: 40 IDLAYPGVLPVVNKRAVDWA------MRAAMALNMEIATESKFDR-KNYFYPDNPKAYQI 92
Query: 61 S 61
S
Sbjct: 93 S 93
>3h0l_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase subunit B; multi
protein complex, ligase, protein biosynthesis; HET:
ADP; 2.30A {Aquifex aeolicus} PDB: 3h0m_B 3h0r_B*
Length = 478
Score = 26.7 bits (60), Expect = 0.69
Identities = 19/61 (31%), Positives = 23/61 (37%), Gaps = 15/61 (24%)
Query: 9 TCAGYPGILGYLERDAYSFAEWNVDYIKID---GCYSHP-SDMDRGKTTSYP----NYQI 60
C G PG L + + A +A I+ C H S R K YP YQI
Sbjct: 42 VCLGMPGALPIVNKRAVEYA------IRASLALNCEVHEESVFAR-KHYFYPDLPKGYQI 94
Query: 61 S 61
S
Sbjct: 95 S 95
>3al0_B Aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase; protein-RNA
complex, ligase-RNA complex; HET: GSU; 3.37A
{Thermotoga maritima}
Length = 482
Score = 26.7 bits (60), Expect = 0.72
Identities = 20/61 (32%), Positives = 22/61 (36%), Gaps = 15/61 (24%)
Query: 9 TCAGYPGILGYLERDAYSFAEWNVDYIKID---GCYSHP-SDMDRGKTTSYP----NYQI 60
C G PG L + FA +K C H S DR K YP YQI
Sbjct: 41 VCTGQPGALPVPNEEMIRFA------VKTALALNCKIHKYSRFDR-KNYFYPDLPKGYQI 93
Query: 61 S 61
S
Sbjct: 94 S 94
>3ktm_A Amyloid beta A4 protein; protein structure, alzheimer disease,
amyloidosis, apoptosis, cell adhesion, copper, disease
mutation, disulfi endocytosis; 2.70A {Homo sapiens}
PDB: 1owt_A 2fkl_A
Length = 191
Score = 25.5 bits (55), Expect = 1.6
Identities = 7/33 (21%), Positives = 12/33 (36%)
Query: 29 EWNVDYIKIDGCYSHPSDMDRGKTTSYPNYQIS 61
+W+ D C + + YP QI+
Sbjct: 35 KWDSDPSGTKTCIDTKEGILQYCQEVYPELQIT 67
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 25.3 bits (55), Expect = 1.8
Identities = 7/62 (11%), Positives = 19/62 (30%)
Query: 12 GYPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRGKTTSYPNYQISLTARLVSLFG 71
G ++ + + ++ Y + D+ S I+L +++ G
Sbjct: 24 GQLALIKDIPIYMRAEIAFSDSYRIYSDMFDFAVDLRPNPDYSLIQETIALMGDFLAVRG 83
Query: 72 SA 73
Sbjct: 84 QN 85
>3mi6_A Alpha-galactosidase; NESG, structural genomics, PSI-2, protein
structure initiati northeast structural genomics
consortium, hydrolase; 2.70A {Lactobacillus brevis}
Length = 745
Score = 25.0 bits (54), Expect = 3.2
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 1/36 (2%)
Query: 8 YTCAGYPGILGYL-ERDAYSFAEWNVDYIKIDGCYS 42
P ++ YL + + N+DYIK D
Sbjct: 448 VLDMARPEVVDYLFKLMSQMIESANLDYIKWDMNRY 483
>3ht4_A Aluminum resistance protein; lyase, putative cystathionine
BEAT-lyase, aluminium resistance protein, Q81A77_baccr,
NESG, BCR213; 2.90A {Bacillus cereus atcc 14579}
Length = 431
Score = 24.3 bits (53), Expect = 5.3
Identities = 8/34 (23%), Positives = 14/34 (41%)
Query: 15 GILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMD 48
I+G + SF E+N+ Y + D +
Sbjct: 123 EIVGVRGKGVGSFKEYNIGYNAVPLTEGGLVDFE 156
>1fn9_A Outer-capsid protein sigma 3; zinc binding motif, viral protein;
1.80A {Reovirus SP} SCOP: d.196.1.1 PDB: 2cse_S 1jmu_G*
Length = 365
Score = 24.2 bits (51), Expect = 6.6
Identities = 6/22 (27%), Positives = 9/22 (40%)
Query: 6 GNYTCAGYPGILGYLERDAYSF 27
G C G++G L+R
Sbjct: 47 GAVVCMHCLGVVGSLQRKLKHL 68
>3ryc_B Tubulin beta chain; alpha-tubulin, beta-tubulin, GTPase,
microtubule, tubulin, cell cycle; HET: GTP GDP; 2.10A
{Ovis aries} PDB: 3ryf_B* 3ryh_B* 3ryi_B* 3hke_B*
3du7_B* 3e22_B* 3hkc_B* 3hkd_B* 3hkb_B* 3n2g_B* 3n2k_B*
1z2b_B* 2xrp_A* 1tvk_B* 1tub_B* 1jff_B* 1ia0_B* 1ffx_B*
1sa0_B* 1sa1_B* ...
Length = 445
Score = 23.9 bits (52), Expect = 7.3
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 21 ERDAYSFAEWNVDYIKIDGCYSHPSDMDR 49
+++ F EW + +K C P +
Sbjct: 335 NKNSSYFVEWIPNNVKTAVCDIPPRGLKM 363
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 0.137 0.430
Gapped
Lambda K H
0.267 0.0669 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,231,386
Number of extensions: 60256
Number of successful extensions: 324
Number of sequences better than 10.0: 1
Number of HSP's gapped: 323
Number of HSP's successfully gapped: 25
Length of query: 76
Length of database: 6,701,793
Length adjustment: 45
Effective length of query: 31
Effective length of database: 5,445,348
Effective search space: 168805788
Effective search space used: 168805788
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 (21.7 bits)
S2: 51 (23.5 bits)