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= 024872
(261 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FO2|A Chain A, Crystal Structure Of Human Class I Alpha1,2-Mannosidase In
Complex With 1-Deoxymannojirimycin
pdb|1FO3|A Chain A, Crystal Structure Of Human Class I Alpha1,2-Mannosidase In
Complex With Kifunensine
Length = 460
Score = 30.4 bits (67), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 31 GEARLKNLAAFVDHILCILPNEEAICRLNGLAATFV--GHPVVEDCLELN 78
GE +A +DH++C LP A+ +GL A+ + ++E C ++N
Sbjct: 272 GELAHGRFSAKMDHLVCFLPGTLALGVYHGLPASHMELAQELMETCYQMN 321
>pdb|1FMI|A Chain A, Crystal Structure Of Human Class I Alpha1,2-Mannosidase
Length = 458
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 31 GEARLKNLAAFVDHILCILPNEEAICRLNGLAATFV--GHPVVEDCLELN 78
GE +A +DH++C LP A+ +GL A+ + ++E C ++N
Sbjct: 272 GELAHGRFSAKMDHLVCFLPGTLALGVYHGLPASHMELAQELMETCYQMN 321
>pdb|1X9D|A Chain A, Crystal Structure Of Human Class I Alpha-1,2-Mannosidase
In Complex With Thio-Disaccharide Substrate Analogue
Length = 538
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 31 GEARLKNLAAFVDHILCILPNEEAICRLNGLAATFV--GHPVVEDCLELN 78
GE +A +DH++C LP A+ +GL A+ + ++E C ++N
Sbjct: 350 GELAHGRFSAKMDHLVCFLPGTLALGVYHGLPASHMELAQELMETCYQMN 399
>pdb|4FNQ|A Chain A, Crystal Structure Of Gh36 Alpha-galactosidase Agab From
Geobacillus Stearothermophilus
Length = 729
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 57 RLNGLAATFVGHPVVEDCLELNLGKGPEPCELKMEGNSEDFKNKYSVPSGATVISLLPGS 116
RLNGL AT+V H + LE+ LG E+ ++ + + K++V + A G
Sbjct: 115 RLNGLPATYVEHEQEAETLEIVLGDALIGLEVTLQYTAYE---KWNVITRAARFENKGGE 171
Query: 117 RLQ 119
RL+
Sbjct: 172 RLK 174
>pdb|6LDH|A Chain A, Refined Crystal Structure Of Dogfish M4 Apo-Lactate
Dehydrogenase
pdb|8LDH|A Chain A, Refined Crystal Structure Of Dogfish M4 Apo-Lactate
Dehydrogenase
Length = 330
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 101 YSVPSGATVISLLPGSRLQEVARMLPIFAKTVELLKDSFPELI 143
YSV +G+ ++ + G+R QE L + + V + K P ++
Sbjct: 84 YSVSAGSKLVVITAGARQQEGESRLNLVQRNVNIFKFIIPNIV 126
>pdb|1LDM|A Chain A, Refined Crystal Structure Of Dogfish M4 Apo-Lactate
Dehydrogenase
Length = 329
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 101 YSVPSGATVISLLPGSRLQEVARMLPIFAKTVELLKDSFPELI 143
YSV +G+ ++ + G+R QE L + + V + K P ++
Sbjct: 83 YSVSAGSKLVVITAGARQQEGESRLNLVQRNVNIFKFIIPNIV 125
>pdb|3LDH|A Chain A, A Comparison Of The Structures Of Apo Dogfish M4 Lactate
Dehydrogenase And Its Ternary Complexes
Length = 330
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 101 YSVPSGATVISLLPGSRLQEVARMLPIFAKTVELLKDSFPELI 143
YSV +G+ ++ + G+R QE L + + V + K P ++
Sbjct: 84 YSVSAGSKLVVITAGARQQEGESRLNLVQRNVNIFKFIIPNIV 126
>pdb|4FNR|A Chain A, Crystal Structure Of Gh36 Alpha-galactosidase Agaa From
Geobacillus Stearothermophilus
pdb|4FNR|B Chain B, Crystal Structure Of Gh36 Alpha-galactosidase Agaa From
Geobacillus Stearothermophilus
pdb|4FNR|C Chain C, Crystal Structure Of Gh36 Alpha-galactosidase Agaa From
Geobacillus Stearothermophilus
pdb|4FNR|D Chain D, Crystal Structure Of Gh36 Alpha-galactosidase Agaa From
Geobacillus Stearothermophilus
Length = 729
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 57 RLNGLAATFVGHPVVEDCLELNLGKGPEPCELKMEGNSEDFKNKYSVPSGATVISLLPGS 116
RLNGL AT+V H + LE+ LG E+ ++ + + K++V + + G
Sbjct: 115 RLNGLPATYVEHEQEAETLEIVLGDALIGLEVTLQYTAYE---KWNVITRSARFENKGGE 171
Query: 117 RLQ 119
RL+
Sbjct: 172 RLK 174
>pdb|4FNU|A Chain A, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D478a From Geobacillus Stearothermophilus In Complex
With Stachyose
pdb|4FNU|B Chain B, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D478a From Geobacillus Stearothermophilus In Complex
With Stachyose
pdb|4FNU|C Chain C, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D478a From Geobacillus Stearothermophilus In Complex
With Stachyose
pdb|4FNU|D Chain D, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D478a From Geobacillus Stearothermophilus In Complex
With Stachyose
Length = 729
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 57 RLNGLAATFVGHPVVEDCLELNLGKGPEPCELKMEGNSEDFKNKYSVPSGATVISLLPGS 116
RLNGL AT+V H + LE+ LG E+ ++ + + K++V + + G
Sbjct: 115 RLNGLPATYVEHEQEAETLEIVLGDALIGLEVTLQYTAYE---KWNVITRSARFENKGGE 171
Query: 117 RLQ 119
RL+
Sbjct: 172 RLK 174
>pdb|4FNP|A Chain A, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus
pdb|4FNP|B Chain B, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus
pdb|4FNP|C Chain C, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus
pdb|4FNP|D Chain D, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus
pdb|4FNS|A Chain A, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus In Complex With 1-
Deoxygalactonojirimycin
pdb|4FNS|B Chain B, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus In Complex With 1-
Deoxygalactonojirimycin
pdb|4FNS|C Chain C, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus In Complex With 1-
Deoxygalactonojirimycin
pdb|4FNS|D Chain D, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
From Geobacillus Stearothermophilus In Complex With 1-
Deoxygalactonojirimycin
Length = 729
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 57 RLNGLAATFVGHPVVEDCLELNLG 80
RLNGL AT+V H + LE+ LG
Sbjct: 115 RLNGLPATYVEHEQEAETLEIVLG 138
>pdb|4FNT|A Chain A, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D548n From Geobacillus Stearothermophilus In Complex
With Raffinose
pdb|4FNT|B Chain B, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D548n From Geobacillus Stearothermophilus In Complex
With Raffinose
pdb|4FNT|C Chain C, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D548n From Geobacillus Stearothermophilus In Complex
With Raffinose
pdb|4FNT|D Chain D, Crystal Structure Of Gh36 Alpha-galactosidase Agaa A355e
D548n From Geobacillus Stearothermophilus In Complex
With Raffinose
Length = 729
Score = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 57 RLNGLAATFVGHPVVEDCLELNLGKGPEPCELKMEGNSEDFKNKYSVPSGATVISLLPGS 116
RLNGL AT+V H + LE+ LG E+ ++ + + K++V + + G
Sbjct: 115 RLNGLPATYVEHEQEAETLEIVLGDALIGLEVTLQYTAYE---KWNVITRSARFENKGGE 171
Query: 117 RLQ 119
RL+
Sbjct: 172 RLK 174
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
0.323 0.138 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,248,667
Number of Sequences: 62578
Number of extensions: 333241
Number of successful extensions: 965
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 957
Number of HSP's gapped (non-prelim): 14
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
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: 50 (23.9 bits)