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= 009225
(540 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1C93|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, D130nE132Q DOUBLE
Mutant
Length = 265
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|1C92|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, E132a Mutant
Length = 265
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|1C3F|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, D130n Mutant
Length = 265
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|1C90|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, E132q Mutant
pdb|1C90|B Chain B, Endo-Beta-N-Acetylglucosaminidase H, E132q Mutant
Length = 265
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|1C91|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, E132d
Length = 265
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|1C8Y|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, D130a Mutant
Length = 265
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|1EDT|A Chain A, Crystal Structure Of Endo-Beta-N-Acetylglucosaminidase H
At 1.9 Angstroms Resolution: Active Site Geometry And
Substrate Recognition
Length = 271
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 35 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 77
>pdb|1C8X|A Chain A, Endo-Beta-N-Acetylglucosaminidase H, D130e Mutant
Length = 265
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 371 GEGISIVLYFKLNESY---AKELPLHFQESIRRIIDDEVEKVK 410
G + + F N +Y K LHF E+++R++D+ V +++
Sbjct: 30 GNAFDVAVIFAANINYDTGTKTAYLHFNENVQRVLDNAVTQIR 72
>pdb|3HFK|A Chain A, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
(H52a) In Complex With 4-Methylmuconolactone
pdb|3HFK|B Chain B, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
(H52a) In Complex With 4-Methylmuconolactone
pdb|3HFK|C Chain C, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
(H52a) In Complex With 4-Methylmuconolactone
pdb|3HFK|D Chain D, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
(H52a) In Complex With 4-Methylmuconolactone
Length = 116
Score = 29.3 bits (64), Expect = 5.2, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 8/74 (10%)
Query: 383 NESYAKELPLHFQES--IRRIIDDEVEKVKGFPVDTIVPFRERLKILGRVVNVEDLHLSA 440
+E + KE +HFQ S + + EV V G P DT VP+ + +GR+ + + ++
Sbjct: 25 HEQFRKECVVHFQMSAGMPGLHKYEVRLVAGNPTDTAVPYLD----VGRIDAIGECWFAS 80
Query: 441 AERKLLQAYNEKPV 454
E+ Q Y E +
Sbjct: 81 EEQ--YQVYMESDI 92
>pdb|2W27|A Chain A, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain, In Complex With Substrate C-Di-Gmp
And Calcium
pdb|2W27|B Chain B, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain, In Complex With Substrate C-Di-Gmp
And Calcium
Length = 431
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 12/103 (11%)
Query: 399 RRIIDDEVEKVKGFPVDTIVPFRERLKILGRVVNVEDLHLSAAERKLLQAYNEKPVLSRP 458
R + D E++ + F +D +P +L++ R++ A+ LL N+ L
Sbjct: 61 RILADSEIQSLGPFFLDAGIPEEYKLEVDNRIIRQALDRFLEADSDLLIFMNQDANLLML 120
Query: 459 QHEFYLGENYLEI-------DIDMHRFSY-ISRKGFEAFLDRL 493
H GE++LE+ I++HRF I+ FE +++L
Sbjct: 121 DH----GESFLELLKEYEAKGIELHRFVLEITEHNFEGDIEQL 159
>pdb|2BAS|A Chain A, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain.
pdb|2BAS|B Chain B, Crystal Structure Of The Bacillus Subtilis Ykui Protein,
With An Eal Domain
Length = 431
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 12/103 (11%)
Query: 399 RRIIDDEVEKVKGFPVDTIVPFRERLKILGRVVNVEDLHLSAAERKLLQAYNEKPVLSRP 458
R + D E++ + F +D +P +L++ R++ A+ LL N+ L
Sbjct: 61 RILADSEIQSLGPFFLDAGIPEEYKLEVDNRIIRQALDRFLEADSDLLIFXNQDANLLXL 120
Query: 459 QHEFYLGENYLEI-------DIDMHRFSY-ISRKGFEAFLDRL 493
H GE++LE+ I++HRF I+ FE +++L
Sbjct: 121 DH----GESFLELLKEYEAKGIELHRFVLEITEHNFEGDIEQL 159
>pdb|3HDS|A Chain A, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With Mes
pdb|3HDS|B Chain B, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With Mes
pdb|3HDS|C Chain C, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With Mes
pdb|3HDS|D Chain D, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With Mes
pdb|3HF5|A Chain A, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With 3-Methylmuconolactone
pdb|3HF5|B Chain B, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With 3-Methylmuconolactone
pdb|3HF5|C Chain C, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With 3-Methylmuconolactone
pdb|3HF5|D Chain D, Crystal Structure Of 4-Methylmuconolactone Methylisomerase
In Complex With 3-Methylmuconolactone
Length = 116
Score = 28.5 bits (62), Expect = 9.8, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 8/74 (10%)
Query: 383 NESYAKELPLHFQES--IRRIIDDEVEKVKGFPVDTIVPFRERLKILGRVVNVEDLHLSA 440
+E + KE +HFQ S + + EV V G P DT VP+ + +GR+ + + ++
Sbjct: 25 HEQFRKECVVHFQMSAGMPGLHKYEVRLVAGNPTDTHVPYLD----VGRIDAIGECWFAS 80
Query: 441 AERKLLQAYNEKPV 454
E+ Q Y E +
Sbjct: 81 EEQ--YQVYMESDI 92
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 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,155,594
Number of Sequences: 62578
Number of extensions: 600649
Number of successful extensions: 1216
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1216
Number of HSP's gapped (non-prelim): 12
length of query: 540
length of database: 14,973,337
effective HSP length: 104
effective length of query: 436
effective length of database: 8,465,225
effective search space: 3690838100
effective search space used: 3690838100
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)