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= psy14701
(136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FVT|A Chain A, Nmr Structure Of The Rpa2829 Protein From Rhodopseudomonas
Palustris: Northeast Structural Genomics Target Rpr43
Length = 135
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 7/96 (7%)
Query: 13 GPLAVFNKCVFSWNILDDSDINMESLSLFLHLEPKLDVLIIGLG-DFKFNHTKLIPVINE 71
G L V+ W++ I+ SL +D LI+G G D +L E
Sbjct: 33 GSLLFLPDAVWGWDVTKPEQIDRYSLQRVFDNANAIDTLIVGTGADVWIAPRQL----RE 88
Query: 72 VRKHCNV--EVLPTERAIATFNFMVSEGRVAGAALV 105
+ NV + + T AI T+N M+ E R AAL+
Sbjct: 89 ALRGVNVVLDTMQTGPAIRTYNIMIGERRRVAAALI 124
>pdb|2K2E|A Chain A, Solution Nmr Structure Of Bordetella Pertussis Protein
Bp2786, A Mth938-Like Domain. Northeast Structural
Genomics Consortium Target Ber31
Length = 158
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 42/106 (39%), Gaps = 21/106 (19%)
Query: 22 VFSWNILDDSDINMESLSLFLHL-----EPK--LDVLIIGLGDFKFNHTKLIPVINEVRK 74
V SW + +DI L L +P LD G G N +++ V R+
Sbjct: 41 VASWPVQRPADITASLLQQAAGLAEVVRDPLAFLDEPEAGAGARPANAPEVLLVGTGRRQ 100
Query: 75 H--------------CNVEVLPTERAIATFNFMVSEGRVAGAALVP 106
H VE + T+ A T+N +++EGR AL+P
Sbjct: 101 HLLGPEQVRPLLAMGVGVEAMDTQAAARTYNILMAEGRRVVVALLP 146
>pdb|1YKG|A Chain A, Solution Structure Of The Flavodoxin-Like Domain From
The Escherichia Coli Sulfite Reductase
Length = 167
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 7/56 (12%)
Query: 44 LEPKLDVLIIGLGDFKFNH---TKLIPVINEVRKHCNVEVLPTERAIATFNFMVSE 96
L KL+V ++ GD+KF KL+ V+ + P E A+A F+ S+
Sbjct: 35 LAAKLNVKLVNAGDYKFKQIASEKLLIVVTSTQGEGE----PPEEAVALHKFLFSK 86
>pdb|1AD3|A Chain A, Class 3 Aldehyde Dehydrogenase Complex With Nicotinamide-
Adenine-Dinucleotide
pdb|1AD3|B Chain B, Class 3 Aldehyde Dehydrogenase Complex With Nicotinamide-
Adenine-Dinucleotide
Length = 452
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVEVLPTE 84
L++H EP VL+IG ++ FN T + P++ V V + P+E
Sbjct: 97 LYIHSEPLGVVLVIGAWNYPFNLT-IQPMVGAVAAGNAVILKPSE 140
>pdb|3SZA|A Chain A, Crystal Structure Of Human Aldh3a1 - Apo Form
pdb|3SZA|B Chain B, Crystal Structure Of Human Aldh3a1 - Apo Form
pdb|3SZB|A Chain A, Crystal Structure Of Human Aldh3a1 Modified With The
Beta-Elimination Product Of Aldi-1; 1-Phenyl-
2-Propen-1-One
pdb|3SZB|B Chain B, Crystal Structure Of Human Aldh3a1 Modified With The
Beta-Elimination Product Of Aldi-1; 1-Phenyl-
2-Propen-1-One
Length = 469
Score = 27.3 bits (59), Expect = 3.0, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 1/45 (2%)
Query: 40 LFLHLEPKLDVLIIGLGDFKFNHTKLIPVINEVRKHCNVEVLPTE 84
L++H EP VL+IG ++ FN T + P++ + V + P+E
Sbjct: 114 LYIHSEPLGVVLVIGTWNYPFNLT-IQPMVGAIAAGNAVVLKPSE 157
>pdb|3CPK|A Chain A, Crystal Structure Of The Q7w7n7_borpa Protein From
Bordetella Parapertussis. Northeast Structural Genomics
Consortium Target Ber31
Length = 150
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 40/106 (37%), Gaps = 21/106 (19%)
Query: 22 VFSWNILDDSDINMESLSLFLHL-----EPK--LDVLIIGLGDFKFNHTKLIPVINEVRK 74
V SW + +DI L L +P LD G G N +++ V R+
Sbjct: 41 VASWPVQRPADITASLLQQAAGLAEVVRDPLAFLDEPEAGAGARPANAPEVLLVGTGRRQ 100
Query: 75 H--------------CNVEVLPTERAIATFNFMVSEGRVAGAALVP 106
H VE T+ A T+N + +EGR AL+P
Sbjct: 101 HLLGPEQVRPLLAXGVGVEAXDTQAAARTYNILXAEGRRVVVALLP 146
>pdb|2D1G|A Chain A, Structure Of Francisella Tularensis Acid Phosphatase A
(Acpa) Bound To Orthovanadate
pdb|2D1G|B Chain B, Structure Of Francisella Tularensis Acid Phosphatase A
(Acpa) Bound To Orthovanadate
Length = 498
Score = 26.2 bits (56), Expect = 5.9, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 12 VGPLAVFNKCVFSWNILDDSDINMESLSLFLHLEPKLDVLIIGLGDFKFNH 62
+G ++ ++ +S NIL+ D N E +L L L+PK GL K NH
Sbjct: 449 IGSVSKYSNDKYSNNILNMFDFNKEQKTLKLILDPK-----TGLVMDKLNH 494
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
0.324 0.141 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,759,978
Number of Sequences: 62578
Number of extensions: 135354
Number of successful extensions: 256
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 252
Number of HSP's gapped (non-prelim): 7
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)