BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy1877
(76 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3H53|A Chain A, Crystal Structure Of Human Alpha-N-Acetylgalactosaminidase
pdb|3H53|B Chain B, Crystal Structure Of Human Alpha-N-Acetylgalactosaminidase
pdb|3H54|A Chain A, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase,Complex With Galnac
pdb|3H54|B Chain B, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase,Complex With Galnac
pdb|3H55|A Chain A, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase, Complex With Galactose
pdb|3H55|B Chain B, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase, Complex With Galactose
pdb|3IGU|A Chain A, Crystal Structure Of Human
Alpha-n-acetylgalactosaminidase, Covalent Intermediate
pdb|3IGU|B Chain B, Crystal Structure Of Human
Alpha-n-acetylgalactosaminidase, Covalent Intermediate
pdb|4DO4|A Chain A, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO4|B Chain B, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO5|A Chain A, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO5|B Chain B, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO6|A Chain A, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO6|B Chain B, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
Length = 400
Score = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 41/65 (63%), Gaps = 5/65 (7%)
Query: 1 MYEDYGNYTCAGYPGI-LGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRGKTTSYPNYQ 59
+Y D GN+TC GYPG L + +DA +FAEW VD +K+DGC+S P + +G YP
Sbjct: 101 IYADMGNFTCMGYPGTTLDKVVQDAQTFAEWKVDMLKLDGCFSTPEERAQG----YPKMA 156
Query: 60 ISLTA 64
+L A
Sbjct: 157 AALNA 161
>pdb|1KTB|A Chain A, The Structure Of Alpha-N-Acetylgalactosaminidase
pdb|1KTC|A Chain A, The Structure Of Alpha-N-Acetylgalactosaminidase
Length = 405
Score = 58.9 bits (141), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 39/65 (60%), Gaps = 5/65 (7%)
Query: 1 MYEDYGNYTCAGYPGI-LGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRGKTTSYPNYQ 59
+Y D G TC GYPG L +E+DA +FAEW VD +K+DGCYS + +G YP
Sbjct: 102 IYGDLGRLTCGGYPGTTLDRVEQDAQTFAEWGVDMLKLDGCYSSGKEQAQG----YPQMA 157
Query: 60 ISLTA 64
+L A
Sbjct: 158 RALNA 162
>pdb|3LX9|A Chain A, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LX9|B Chain B, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LXA|A Chain A, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LXA|B Chain B, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LXB|A Chain A, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LXB|B Chain B, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LXC|A Chain A, Interconversion Of Human Lysosomal Enzyme Specificities
pdb|3LXC|B Chain B, Interconversion Of Human Lysosomal Enzyme Specificities
Length = 404
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 24/41 (58%), Positives = 30/41 (73%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCY 41
+Y D GN TCAG+PG GY + DA +FA+W VD +K DGCY
Sbjct: 102 IYADVGNKTCAGFPGSFGYYDIDAQTFADWGVDLLKFDGCY 142
>pdb|1R46|A Chain A, Structure Of Human Alpha-galactosidase
pdb|1R46|B Chain B, Structure Of Human Alpha-galactosidase
pdb|1R47|A Chain A, Structure Of Human Alpha-Galactosidase
pdb|1R47|B Chain B, Structure Of Human Alpha-Galactosidase
pdb|3GXN|A Chain A, Crystal Structure Of Apo Alpha-Galactosidase A At Ph 4.5
pdb|3GXN|B Chain B, Crystal Structure Of Apo Alpha-Galactosidase A At Ph 4.5
pdb|3GXP|A Chain A, Crystal Structure Of Acid-alpha-galactosidase A Complexed
With Galactose At Ph 4.5
pdb|3GXP|B Chain B, Crystal Structure Of Acid-alpha-galactosidase A Complexed
With Galactose At Ph 4.5
pdb|3GXT|A Chain A, Crystal Structure Of Alpha-Galactosidase A At Ph 4.5
Complexed With 1- Deoxygalactonijirimycin
pdb|3GXT|B Chain B, Crystal Structure Of Alpha-Galactosidase A At Ph 4.5
Complexed With 1- Deoxygalactonijirimycin
pdb|3HG2|A Chain A, Human Alpha-Galactosidase Catalytic Mechanism 1. Empty
Active Site
pdb|3HG2|B Chain B, Human Alpha-Galactosidase Catalytic Mechanism 1. Empty
Active Site
pdb|3HG4|A Chain A, Human Alpha-Galactosidase Catalytic Mechanism 3. Covalent
Intermediate
pdb|3HG4|B Chain B, Human Alpha-Galactosidase Catalytic Mechanism 3. Covalent
Intermediate
pdb|3HG5|A Chain A, Human Alpha-Galactosidase Catalytic Mechanism 4. Product
Bound
pdb|3HG5|B Chain B, Human Alpha-Galactosidase Catalytic Mechanism 4. Product
Bound
pdb|3S5Y|A Chain A, Pharmacological Chaperoning In Human Alpha-Galactosidase
pdb|3S5Y|B Chain B, Pharmacological Chaperoning In Human Alpha-Galactosidase
pdb|3S5Z|A Chain A, Pharmacological Chaperoning In Human Alpha-Galactosidase
pdb|3S5Z|B Chain B, Pharmacological Chaperoning In Human Alpha-Galactosidase
Length = 398
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 24/41 (58%), Positives = 30/41 (73%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCY 41
+Y D GN TCAG+PG GY + DA +FA+W VD +K DGCY
Sbjct: 102 IYADVGNKTCAGFPGSFGYYDIDAQTFADWGVDLLKFDGCY 142
>pdb|3HG3|A Chain A, Human Alpha-Galactosidase Catalytic Mechanism 2. Substrate
Bound
pdb|3HG3|B Chain B, Human Alpha-Galactosidase Catalytic Mechanism 2. Substrate
Bound
pdb|3TV8|A Chain A, Pharmacological Chaperoning In Human Alpha-Galactosidase
pdb|3TV8|B Chain B, Pharmacological Chaperoning In Human Alpha-Galactosidase
Length = 404
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 23/41 (56%), Positives = 29/41 (70%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCY 41
+Y D GN TCAG+PG GY + DA +FA+W VD +K GCY
Sbjct: 102 IYADVGNKTCAGFPGSFGYYDIDAQTFADWGVDLLKFAGCY 142
>pdb|3LRK|A Chain A, Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces
Cerevisiae
pdb|3LRL|A Chain A, Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces
Cerevisiae With Melibiose
Length = 479
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
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
>pdb|1SZN|A Chain A, The Structure Of Alpha-Galactosidase
pdb|1T0O|A Chain A, The Structure Of Alpha-Galactosidase From Trichoderma
Reesei Complexed With Beta-D-Galactose
Length = 417
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/58 (44%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRGKTTSYPNY 58
+Y G TCAGYP LGY + DA FA+W VDY+K D C + PSD P++
Sbjct: 95 IYSTAGTATCAGYPASLGYEDVDAADFADWGVDYLKYDNC-NVPSDWQDEYVACNPDF 151
>pdb|3LRM|A Chain A, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|B Chain B, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|C Chain C, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
pdb|3LRM|D Chain D, Structure Of Alfa-Galactosidase From Saccharomyces
Cerevisiae With Raffinose
Length = 479
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 26/43 (60%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSH 43
MY G YTCAGYPG LG E DA FA VDY+K CY+
Sbjct: 112 MYSSAGEYTCAGYPGSLGREEEDAQFFANNRVDYLKYANCYNK 154
>pdb|3A5V|A Chain A, Crystal Structure Of Alpha-Galactosidase I From
Mortierella Vinacea
Length = 397
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 27/43 (62%)
Query: 1 MYEDYGNYTCAGYPGILGYLERDAYSFAEWNVDYIKIDGCYSH 43
+Y G TC G+ LGY + DA ++A+W +DY+K D CY+
Sbjct: 92 IYSSAGTLTCGGHIASLGYEDIDAKTWAKWGIDYLKYDNCYNQ 134
>pdb|1UAS|A Chain A, Crystal Structure Of Rice Alpha-Galactosidase
Length = 362
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 1/41 (2%)
Query: 1 MYEDYGNYTCAG-YPGILGYLERDAYSFAEWNVDYIKIDGC 40
+Y D G+ TC+ PG L + E+D +FA W VDY+K D C
Sbjct: 92 IYSDAGSQTCSNKMPGSLDHEEQDVKTFASWGVDYLKYDNC 132
>pdb|2G17|A Chain A, The Structure Of N-Acetyl-Gamma-Glutamyl-Phosphate
Reductase From Salmonella Typhimurium
Length = 337
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 19/46 (41%), Positives = 23/46 (50%), Gaps = 10/46 (21%)
Query: 2 YEDYGNYTCAGYPGILGYLERDAYSFAEWNVD------YIKIDGCY 41
YE Y +T YP +L E+ Y AEWNVD I + GCY
Sbjct: 117 YEKYYGFT-HQYPELL---EQAVYGLAEWNVDKLNTANLIAVPGCY 158
>pdb|3A21|A Chain A, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A21|B Chain B, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A22|A Chain A, Crystal Structure Of Beta-L-Arabinopyranosidase Complexed
With L- Arabinose
pdb|3A22|B Chain B, Crystal Structure Of Beta-L-Arabinopyranosidase Complexed
With L- Arabinose
pdb|3A23|A Chain A, Crystal Structure Of Beta-l-arabinopyranosidase Complexed
With D- Galactose
pdb|3A23|B Chain B, Crystal Structure Of Beta-l-arabinopyranosidase Complexed
With D- Galactose
Length = 614
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 10/62 (16%)
Query: 1 MYEDYGNYTCA-----GYP-----GILGYLERDAYSFAEWNVDYIKIDGCYSHPSDMDRG 50
+Y D G C G P G G+ ++D F+ W D++K+D C +D
Sbjct: 95 IYTDAGKDGCGYYYPTGRPAAPGSGSEGHYDQDMLQFSTWGFDFVKVDWCGGDAEGLDAA 154
Query: 51 KT 52
T
Sbjct: 155 TT 156
>pdb|1G1Q|A Chain A, Crystal Structure Of P-Selectin LectinEGF DOMAINS
pdb|1G1Q|B Chain B, Crystal Structure Of P-Selectin LectinEGF DOMAINS
pdb|1G1Q|C Chain C, Crystal Structure Of P-Selectin LectinEGF DOMAINS
pdb|1G1Q|D Chain D, Crystal Structure Of P-Selectin LectinEGF DOMAINS
pdb|1G1R|A Chain A, Crystal Structure Of P-Selectin LectinEGF DOMAINS
Complexed With Slex
pdb|1G1R|B Chain B, Crystal Structure Of P-Selectin LectinEGF DOMAINS
Complexed With Slex
pdb|1G1R|C Chain C, Crystal Structure Of P-Selectin LectinEGF DOMAINS
Complexed With Slex
pdb|1G1R|D Chain D, Crystal Structure Of P-Selectin LectinEGF DOMAINS
Complexed With Slex
pdb|1G1S|A Chain A, P-selectin Lectin/egf Domains Complexed With Psgl-1
Peptide
pdb|1G1S|B Chain B, P-selectin Lectin/egf Domains Complexed With Psgl-1
Peptide
Length = 162
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 3 EDYGNYTCAGYPGILG 18
E GNYTC+ YPG G
Sbjct: 135 ETIGNYTCSCYPGFYG 150
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.137 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,674,786
Number of Sequences: 62578
Number of extensions: 100731
Number of successful extensions: 218
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 203
Number of HSP's gapped (non-prelim): 20
length of query: 76
length of database: 14,973,337
effective HSP length: 45
effective length of query: 31
effective length of database: 12,157,327
effective search space: 376877137
effective search space used: 376877137
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)