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= 001401
(1084 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QDS|A Chain A, Superstable E65q Mutant Of Leishmania Mexicana
Triosephosphate Isomerase (Tim)
pdb|1IF2|A Chain A, X-Ray Structure Of Leishmania Mexicana Triosephosphate
Isomerase Complexed With Ipp
pdb|1N55|A Chain A, 0.83a Resolution Structure Of The E65q Mutant Of
Leishmania Mexicana Triosephosphate Isomerase Complexed
With 2-Phosphoglycolate
pdb|2VXN|A Chain A, E65q-Tim Complexed With Phosphoglycolohydroxamate At 0.82
A Resolution
pdb|2Y61|A Chain A, Crystal Structure Of Leishmanial E65q-Tim Complexed With
S-Glycidol Phosphate
pdb|2Y62|A Chain A, Crystal Structure Of Leishmanial E65q-Tim Complexed With
R-Glycidol Phosphate
pdb|2Y63|A Chain A, Crystal Structure Of Leishmanial E65q-Tim Complexed With
Bromohydroxyacetone Phosphate
Length = 251
Score = 33.5 bits (75), Expect = 0.64, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 553 TFFHVDL-QTKLEAPKPVVIGYAALPLSTHAQLRSEISLPIIKELVPHYLQETGKERLDY 611
TF H+ L Q KL PK V+ A+ S E+S+PI+K++ H++ ER Y
Sbjct: 45 TFVHIPLVQAKLRNPKYVISAQNAIAKS--GAFTGEVSMPILKDIGVHWVILGHSERRTY 102
>pdb|1AMK|A Chain A, Leishmania Mexicana Triose Phosphate Isomerase
Length = 251
Score = 33.1 bits (74), Expect = 0.76, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 553 TFFHVDL-QTKLEAPKPVVIGYAALPLSTHAQLRSEISLPIIKELVPHYLQETGKERLDY 611
TF H+ L Q KL PK V+ A+ S E+S+PI+K++ H++ ER Y
Sbjct: 45 TFVHIPLVQAKLRNPKYVISAENAIAKS--GAFTGEVSMPILKDIGVHWVILGHSERRTY 102
>pdb|2Z2R|A Chain A, Nucleosome Assembly Proteins I (Nap-1, 74-365)
pdb|2Z2R|B Chain B, Nucleosome Assembly Proteins I (Nap-1, 74-365)
Length = 292
Score = 30.4 bits (67), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 597 VPHYLQETGKERLDYLEDGKNAFKLRLRLCSSLYPI 632
V YLQ+ G L+YL DG+ FKL R SS P
Sbjct: 137 VLEYLQDIG---LEYLTDGRPGFKLLFRFDSSANPF 169
>pdb|2AYU|A Chain A, The Structure Of Nucleosome Assembly Protein Suggests A
Mechanism For Histone Binding And Shuttling
Length = 417
Score = 30.4 bits (67), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 20/36 (55%), Gaps = 3/36 (8%)
Query: 597 VPHYLQETGKERLDYLEDGKNAFKLRLRLCSSLYPI 632
V YLQ+ G L+YL DG+ FKL R SS P
Sbjct: 210 VLEYLQDIG---LEYLTDGRPGFKLLFRFDSSANPF 242
>pdb|4BAA|A Chain A, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
pdb|4BAA|B Chain B, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
pdb|4BAA|C Chain C, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
pdb|4BAA|D Chain D, Redesign Of A Phenylalanine Aminomutase Into A Beta-
Phenylalanine Ammonia Lyase
Length = 705
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 21/85 (24%)
Query: 585 RSEISLPIIKELVPHYLQETGKERLDYLEDGKNAFKLRLRLCSSLYPINERIRDFFL--- 641
R E + P+I ++ PH Q E L++L L SS P E R+++
Sbjct: 286 REEFAHPLIHKVKPHPGQIESAELLEWL------------LRSS--PFQELSREYYSIDK 331
Query: 642 ----EYDRHTLRTSPPWGSELLEAI 662
+ DR+ LR+SP W + L++ I
Sbjct: 332 LKKPKQDRYALRSSPQWLAPLVQTI 356
>pdb|2YII|A Chain A, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|2YII|B Chain B, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|2YII|C Chain C, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|2YII|D Chain D, Manipulating The Regioselectivity Of Phenylalanine
Aminomutase: New Insights Into The Reaction Mechanism Of
Mio-dependent Enzymes From Structure-guided Directed
Evolution
pdb|4BAB|A Chain A, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
pdb|4BAB|B Chain B, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
pdb|4BAB|C Chain C, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
pdb|4BAB|D Chain D, Redesign Of A Phenylalanine Aminomutase Into A
Beta-phenylalanine Ammonia Lyase
Length = 705
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 21/85 (24%)
Query: 585 RSEISLPIIKELVPHYLQETGKERLDYLEDGKNAFKLRLRLCSSLYPINERIRDFFL--- 641
R E + P+I ++ PH Q E L++L L SS P E R+++
Sbjct: 286 REEFAHPLIHKVKPHPGQIESAELLEWL------------LRSS--PFQELSREYYSIDK 331
Query: 642 ----EYDRHTLRTSPPWGSELLEAI 662
+ DR+ LR+SP W + L++ I
Sbjct: 332 LKKPKQDRYALRSSPQWLAPLVQTI 356
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
0.320 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,355,000
Number of Sequences: 62578
Number of extensions: 1295183
Number of successful extensions: 2574
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2570
Number of HSP's gapped (non-prelim): 10
length of query: 1084
length of database: 14,973,337
effective HSP length: 109
effective length of query: 975
effective length of database: 8,152,335
effective search space: 7948526625
effective search space used: 7948526625
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)