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= psy1878
         (98 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>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 = 82.8 bits (203), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 41/72 (56%), Positives = 51/72 (70%), Gaps = 7/72 (9%)

Query: 25  IGYTC-----QAYLIP--NFTSIIEHCNLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPN 77
           I Y+C     Q  L P  N+T + E CNLWRN+DDIQDSW S+ SI+D++  NQD + P 
Sbjct: 167 IVYSCSWPAYQGGLPPKVNYTLLGEICNLWRNYDDIQDSWDSVLSIVDWFFTNQDVLQPF 226

Query: 78  AGPGHWNDPDMV 89
           AGPGHWNDPDM+
Sbjct: 227 AGPGHWNDPDML 238


>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 = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/71 (50%), Positives = 49/71 (69%), Gaps = 6/71 (8%)

Query: 25  IGYTCQ------AYLIPNFTSIIEHCNLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNA 78
           I Y+C+       +  PN+T I ++CN WRNF DI DSW+S++SI+D+   NQ+ IV  A
Sbjct: 167 IVYSCEWPLYMWPFQKPNYTEIRQYCNHWRNFADIDDSWKSIKSILDWTSFNQERIVDVA 226

Query: 79  GPGHWNDPDMV 89
           GPG WNDPDM+
Sbjct: 227 GPGGWNDPDML 237


>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 = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/71 (50%), Positives = 49/71 (69%), Gaps = 6/71 (8%)

Query: 25  IGYTCQ------AYLIPNFTSIIEHCNLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNA 78
           I Y+C+       +  PN+T I ++CN WRNF DI DSW+S++SI+D+   NQ+ IV  A
Sbjct: 167 IVYSCEWPLYMWPFQKPNYTEIRQYCNHWRNFADIDDSWKSIKSILDWTSFNQERIVDVA 226

Query: 79  GPGHWNDPDMV 89
           GPG WNDPDM+
Sbjct: 227 GPGGWNDPDML 237


>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 = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 33/55 (60%), Positives = 43/55 (78%)

Query: 35  PNFTSIIEHCNLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDMV 89
           PN+T I ++CN WRNF DI DSW+S++SI+D+   NQ+ IV  AGPG WNDPDM+
Sbjct: 183 PNYTEIRQYCNHWRNFADIDDSWKSIKSILDWTSFNQERIVDVAGPGGWNDPDML 237


>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 = 73.2 bits (178), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 30/53 (56%), Positives = 43/53 (81%)

Query: 37  FTSIIEHCNLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDMV 89
           ++ + + CNLWRN+DDIQDSW S+ SI++++  +QD + P AGPGHWNDPDM+
Sbjct: 185 YSLLADICNLWRNYDDIQDSWWSVLSILNWFVEHQDILQPVAGPGHWNDPDML 237


>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 = 21/46 (45%), Positives = 25/46 (54%), Gaps = 4/46 (8%)

Query: 45  NLWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAGPGHWNDPDMVK 90
           N WR   DI D+W S+ S  D      D     AGPG WNDPDM++
Sbjct: 178 NSWRTTGDIADNWGSMTSRAD----ENDQWAAYAGPGGWNDPDMLE 219


>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 = 26.2 bits (56), Expect = 5.2,   Method: Composition-based stats.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 2/50 (4%)

Query: 46  LWRNFDDIQDSWQSLESIIDYYGNNQDTIVPNAG-PGHWNDPDMVKSYLD 94
           LWR   DI   + +  S+     N   T+ P A   G++NDPDM+   +D
Sbjct: 197 LWRTSTDII-YYGNQPSMTSLLSNFDQTLHPTAQHTGYYNDPDMLMVGMD 245


  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
   0.322    0.140    0.460 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,651,291
Number of Sequences: 62578
Number of extensions: 151762
Number of successful extensions: 343
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 334
Number of HSP's gapped (non-prelim): 11
length of query: 98
length of database: 14,973,337
effective HSP length: 64
effective length of query: 34
effective length of database: 10,968,345
effective search space: 372923730
effective search space used: 372923730
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)