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= psy5931
(173 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|7MDH|A Chain A, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
pdb|7MDH|B Chain B, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
pdb|7MDH|C Chain C, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
pdb|7MDH|D Chain D, Structural Basis For Light Acitvation Of A Chloroplast
Enzyme. The Structure Of Sorghum Nadp-Malate
Dehydrogenase In Its Oxidized Form
Length = 375
Score = 29.6 bits (65), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 43/87 (49%), Gaps = 8/87 (9%)
Query: 64 EVIEHTNLKYLTKEMTAEFYALKGMLLAQIGRSAEANKAFSAAVQMHDVMVKAWALWGDY 123
EVI+ T K+L +E T G L+ + GRS+ A+ A S A + ++ GD+
Sbjct: 235 EVIKRT--KWLEEEFTITVQKRGGALIQKWGRSSAASTAVSIADAIKSLVTPTPE--GDW 290
Query: 124 MEAQ-FTNPSPPGSAPNMVLGVFAVTC 149
+T +P G A ++ VF++ C
Sbjct: 291 FSTGVYTTGNPYGIAEDI---VFSMPC 314
>pdb|1CIV|A Chain A, Chloroplast Nadp-Dependent Malate Dehydrogenase From
Flaveria Bidentis
Length = 385
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 42/87 (48%), Gaps = 8/87 (9%)
Query: 64 EVIEHTNLKYLTKEMTAEFYALKGMLLAQIGRSAEANKAFSAAVQMHDVMVKAWALWGDY 123
EVI + K+L E T G+L+ + GRS+ A+ A S + ++ GD+
Sbjct: 245 EVIR--DRKWLEDEFTNMVQTRGGVLIKKWGRSSAASTAVSIVDAIRSLVTPTPE--GDW 300
Query: 124 MEAQ-FTNPSPPGSAPNMVLGVFAVTC 149
+TN +P G A ++ VF++ C
Sbjct: 301 FSTGVYTNGNPYGIAEDI---VFSMPC 324
>pdb|3CUR|H Chain H, Structure Of A Double Methionine Mutant Of Ni-Fe
Hydrogenase
pdb|3CUR|I Chain I, Structure Of A Double Methionine Mutant Of Ni-Fe
Hydrogenase
pdb|3CUR|J Chain J, Structure Of A Double Methionine Mutant Of Ni-Fe
Hydrogenase
Length = 549
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 26 YTIPSVPIVDC---FEKIRQQVKCYLQMAALDGKNQLQEGLEVIEHTNLKYLTKEMTAEF 82
Y P V ++ E + QVK MA L GKN + V +N + LTK+ A +
Sbjct: 192 YLPPEVDLIATAHYLEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLANY 251
Query: 83 YAL 85
AL
Sbjct: 252 LAL 254
>pdb|3H3X|Q Chain Q, Structure Of The V74m Large Subunit Mutant Of Ni-Fe
Hydrogenase In An Oxidized State
pdb|3H3X|R Chain R, Structure Of The V74m Large Subunit Mutant Of Ni-Fe
Hydrogenase In An Oxidized State
pdb|3H3X|S Chain S, Structure Of The V74m Large Subunit Mutant Of Ni-Fe
Hydrogenase In An Oxidized State
Length = 549
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 26 YTIPSVPIVDC---FEKIRQQVKCYLQMAALDGKNQLQEGLEVIEHTNLKYLTKEMTAEF 82
Y P V ++ E + QVK MA L GKN + V +N + LTK+ A +
Sbjct: 192 YLPPEVDLIATAHYLEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLANY 251
Query: 83 YAL 85
AL
Sbjct: 252 LAL 254
>pdb|3CUS|Q Chain Q, Structure Of A Double IlePHE MUTANT OF NI-Fe Hydrogenase
Refined At 2.2 Angstrom Resolution
pdb|3CUS|R Chain R, Structure Of A Double IlePHE MUTANT OF NI-Fe Hydrogenase
Refined At 2.2 Angstrom Resolution
pdb|3CUS|S Chain S, Structure Of A Double IlePHE MUTANT OF NI-Fe Hydrogenase
Refined At 2.2 Angstrom Resolution
Length = 549
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 26 YTIPSVPIVDC---FEKIRQQVKCYLQMAALDGKNQLQEGLEVIEHTNLKYLTKEMTAEF 82
Y P V ++ E + QVK MA L GKN + V +N + LTK+ A +
Sbjct: 192 YLPPEVDLIATAHYLEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLANY 251
Query: 83 YAL 85
AL
Sbjct: 252 LAL 254
>pdb|1YRQ|H Chain H, Structure Of The Ready Oxidized Form Of [nife]-Hydrogenase
pdb|1YRQ|I Chain I, Structure Of The Ready Oxidized Form Of [nife]-Hydrogenase
pdb|1YRQ|J Chain J, Structure Of The Ready Oxidized Form Of [nife]-Hydrogenase
pdb|1YRQ|K Chain K, Structure Of The Ready Oxidized Form Of [nife]-Hydrogenase
pdb|1YRQ|M Chain M, Structure Of The Ready Oxidized Form Of [nife]-Hydrogenase
pdb|1YRQ|N Chain N, Structure Of The Ready Oxidized Form Of [nife]-Hydrogenase
Length = 549
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%)
Query: 37 FEKIRQQVKCYLQMAALDGKNQLQEGLEVIEHTNLKYLTKEMTAEFYAL 85
E + QVK MA L GKN + V +N + LTK+ A + AL
Sbjct: 206 LEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLANYLAL 254
>pdb|1YQW|Q Chain Q, Structure Of The Oxidized Unready Form Of Ni-Fe
Hydrogenase
pdb|1YQW|R Chain R, Structure Of The Oxidized Unready Form Of Ni-Fe
Hydrogenase
pdb|1YQW|S Chain S, Structure Of The Oxidized Unready Form Of Ni-Fe
Hydrogenase
Length = 549
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%)
Query: 37 FEKIRQQVKCYLQMAALDGKNQLQEGLEVIEHTNLKYLTKEMTAEFYAL 85
E + QVK MA L GKN + V +N + LTK+ A + AL
Sbjct: 206 LEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLANYLAL 254
>pdb|1FRF|L Chain L, Crystal Structure Of The Ni-Fe Hydrogenase From
Desulfovibrio Fructosovorans
Length = 564
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%)
Query: 37 FEKIRQQVKCYLQMAALDGKNQLQEGLEVIEHTNLKYLTKEMTAEFYAL 85
E + QVK MA L GKN + V +N + LTK+ A + AL
Sbjct: 206 LEALHMQVKAASAMAILGGKNPHTQFTVVGGCSNYQGLTKDPLANYLAL 254
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
0.325 0.134 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,792,664
Number of Sequences: 62578
Number of extensions: 163944
Number of successful extensions: 593
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 587
Number of HSP's gapped (non-prelim): 9
length of query: 173
length of database: 14,973,337
effective HSP length: 92
effective length of query: 81
effective length of database: 9,216,161
effective search space: 746509041
effective search space used: 746509041
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)