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= psy1995
(211 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FXW|F Chain F, Crystal Structure Of The Recombinant Alpha1ALPHA2
Catalytic Heterodimer Of Bovine Brain
Platelet-Activating Factor Acetylhydrolase Ib.
pdb|1VYH|A Chain A, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|B Chain B, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|E Chain E, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|F Chain F, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|I Chain I, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|J Chain J, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|M Chain M, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|N Chain N, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|Q Chain Q, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|R Chain R, Paf-Ah Holoenzyme: Lis1ALFA2
Length = 229
Score = 189 bits (481), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 93/209 (44%), Positives = 134/209 (64%), Gaps = 3/209 (1%)
Query: 2 ANPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEP 61
+NP +P + GD+RW +QH + K+ EP+++F+GDS++ + Q +IW LF P
Sbjct: 6 SNPAAIPHAAEDIQGDDRWMSQHNRFVLDCKDKEPDVLFVGDSMVQLMQQYEIWRELFSP 65
Query: 62 LHCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLV 121
LH L FGIGGD H LWR+++G L++IKPKVIV+ VGTNN E++AE +A GI +++L+
Sbjct: 66 LHALNFGIGGDTTRHVLWRLKNGELENIKPKVIVVWVGTNNHENTAEEVAGGIEAIVQLI 125
Query: 122 QTKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIIS 181
T+QPQA ++VL LLPRG+ N L KN NQ+L L P V L+ + + S
Sbjct: 126 NTRQPQAKIIVLGLLPRGEKPNPLRQKNAKVNQLLKVSL---PKLANVQLLDTDGGFVHS 182
Query: 182 KDEISQGDFYDYLHLTESGYRKVFTPVYE 210
IS D +D+LHLT GY K+ P++E
Sbjct: 183 DGAISCHDMFDFLHLTGGGYAKICKPLHE 211
>pdb|3DT6|A Chain A, Crystal Structure Of Bovin Brain Platelet Activating
Factor Acetylhydrolase Covalently Inhibited By Paraoxon
pdb|3DT9|A Chain A, Crystal Structure Of Bovin Brain Platelet Activating
Factor Acetylhydrolase Covalently Inhibited By Soman
Length = 232
Score = 180 bits (457), Expect = 5e-46, Method: Compositional matrix adjust.
Identities = 90/202 (44%), Positives = 124/202 (61%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD RW + H + +K+ EPE+VFIGDSL+ + Q++IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQSEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VGTNN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDYLHL+ GY V
Sbjct: 183 GTISHHDMYDYLHLSRLGYTPV 204
>pdb|1FXW|A Chain A, Crystal Structure Of The Recombinant Alpha1ALPHA2
Catalytic Heterodimer Of Bovine Brain
Platelet-Activating Factor Acetylhydrolase Ib.
pdb|1WAB|A Chain A, Platelet-Activating Factor Acetylhydrolase
Length = 232
Score = 179 bits (454), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 90/202 (44%), Positives = 123/202 (60%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD RW + H + +K+ EPE+VFIGDSL+ + Q +IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VGTNN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDYLHL+ GY V
Sbjct: 183 GTISHHDMYDYLHLSRLGYTPV 204
>pdb|3DT8|A Chain A, Crystal Structure Of Bovin Brain Platelet Activating
Factor Acetylhydrolase Covalently Inhibited By Sarin
Length = 232
Score = 178 bits (451), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 123/202 (60%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD RW + H + +K+ EPE+VFIGD L+ + Q++IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDXLVQLMHQSEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VGTNN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDYLHL+ GY V
Sbjct: 183 GTISHHDMYDYLHLSRLGYTPV 204
>pdb|1BWR|A Chain A, Probing The Substrate Specificity Of The Intracellular
Brain Platelet-Activating Factor Acetylhydrolase
Length = 233
Score = 177 bits (450), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 123/202 (60%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD RW + H + +K+ EPE+VFIGDSL+ + Q +IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VG+NN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGSNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDYLHL+ GY V
Sbjct: 183 GTISHHDMYDYLHLSRLGYTPV 204
>pdb|1ES9|A Chain A, X-Ray Crystal Structure Of R22k Mutant Of The Mammalian
Brain Platelet-Activating Factor Acetylhydrolases
(Paf-Ah)
Length = 232
Score = 177 bits (450), Expect = 3e-45, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 123/202 (60%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD +W + H + +K+ EPE+VFIGDSL+ + Q +IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGKWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VGTNN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDYLHL+ GY V
Sbjct: 183 GTISHHDMYDYLHLSRLGYTPV 204
>pdb|1BWQ|A Chain A, Probing The Substrate Specificity Of The Intracellular
Brain Platelet-Activating Factor Acetylhydrolase
Length = 233
Score = 177 bits (449), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 122/202 (60%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD RW + H + +K+ EPE+VFIGDSL+ + Q +IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDSLVQLMHQCEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VGTNN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDY HL+ GY V
Sbjct: 183 GTISHHDMYDYAHLSRLGYTPV 204
>pdb|1BWP|A Chain A, Probing The Substrate Specificity Of The Intracellular
Brain Platelet-Activating Factor Acetylhydrolase
Length = 233
Score = 177 bits (449), Expect = 4e-45, Method: Compositional matrix adjust.
Identities = 89/202 (44%), Positives = 122/202 (60%), Gaps = 3/202 (1%)
Query: 3 NPCIVPQKNQVDLGDNRWYNQHEHQLQLAKESEPELVFIGDSLISFLTQTQIWHNLFEPL 62
NP P Q GD RW + H + +K+ EPE+VFIGDS + + Q +IW LF PL
Sbjct: 6 NPASKPTPVQDVQGDGRWMSLHHRFVADSKDKEPEVVFIGDSAVQLMHQCEIWRELFSPL 65
Query: 63 HCLAFGIGGDKVEHCLWRVQDGILDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQ 122
H L FGIGGD +H LWR+++G L+ I+PK++V+ VGTNN +AE + GI +++LV
Sbjct: 66 HALNFGIGGDSTQHVLWRLENGELEHIRPKIVVVWVGTNNHGHTAEQVTGGIKAIVQLVN 125
Query: 123 TKQPQADVVVLELLPRGKLINKLWTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISK 182
+QPQA VVVL LLPRG+ N L KN N+++ L+ P+ H + + + S
Sbjct: 126 ERQPQARVVVLGLLPRGQHPNPLREKNRRVNELVRAALAGH---PRAHFLDADPGFVHSD 182
Query: 183 DEISQGDFYDYLHLTESGYRKV 204
IS D YDYLHL+ GY V
Sbjct: 183 GTISHHDMYDYLHLSRLGYTPV 204
>pdb|2VPT|A Chain A, Clostridium Thermocellum Family 3 Carbohydrate Esterase
Length = 215
Score = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 59/125 (47%), Gaps = 10/125 (8%)
Query: 86 LDSIKPKVIVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLINKL 145
L++ P V+ + +G N+ + A G+ LI + T +P + V + P + I +
Sbjct: 79 LNTHNPDVVFLWIGGNDLLLNGNLNATGLSNLIDQIFTVKPNVTLFVADYYPWPEAIKQY 138
Query: 146 WTKNLATNQILADKLSPAPLGPKVHLIQHNKDEIISKDEISQGDFYDYLHLTESGYRKVF 205
N I+ K A G KV+ ++ ++ + +IS +D LHL+E GY+K+
Sbjct: 139 ---NAVIPGIVQQK---ANAGKKVYFVKLSEIQFDRNTDIS----WDGLHLSEIGYKKIA 188
Query: 206 TPVYE 210
Y+
Sbjct: 189 NIWYK 193
>pdb|2SFP|A Chain A, Alanine Racemase With Bound Propionate Inhibitor
pdb|2SFP|B Chain B, Alanine Racemase With Bound Propionate Inhibitor
pdb|1L6F|A Chain A, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-L-
Alanine
pdb|1L6F|B Chain B, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-L-
Alanine
pdb|1L6G|A Chain A, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-D-
Alanine
pdb|1L6G|B Chain B, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-D-
Alanine
pdb|1NIU|A Chain A, Alanine Racemase With Bound Inhibitor Derived From L-
Cycloserine
pdb|1NIU|B Chain B, Alanine Racemase With Bound Inhibitor Derived From L-
Cycloserine
Length = 388
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 149 NLATNQILADKLSPAPLGPKVHLIQHNKDEIISKDEISQ 187
+ +Q + P P+G KV LI DE+IS D++++
Sbjct: 309 RICMDQCMIRLPGPLPVGTKVTLIGRQGDEVISIDDVAR 347
>pdb|1EPV|A Chain A, Alanine Racemase With Bound Inhibitor Derived From D-
Cycloserine
pdb|1EPV|B Chain B, Alanine Racemase With Bound Inhibitor Derived From D-
Cycloserine
pdb|1FTX|A Chain A, Crystal Stucture Of Alanine Racemase In Complex With D-
Alanine Phosphonate
pdb|1FTX|B Chain B, Crystal Stucture Of Alanine Racemase In Complex With D-
Alanine Phosphonate
Length = 387
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 149 NLATNQILADKLSPAPLGPKVHLIQHNKDEIISKDEISQ 187
+ +Q + P P+G KV LI DE+IS D++++
Sbjct: 308 RICMDQCMIRLPGPLPVGTKVTLIGRQGDEVISIDDVAR 346
>pdb|1XQK|A Chain A, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
pdb|1XQK|B Chain B, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
pdb|1XQL|A Chain A, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
pdb|1XQL|B Chain B, Effect Of A Y265f Mutant On The Transamination Based
Cycloserine Inactivation Of Alanine Racemase
Length = 388
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 149 NLATNQILADKLSPAPLGPKVHLIQHNKDEIISKDEISQ 187
+ +Q + P P+G KV LI DE+IS D++++
Sbjct: 309 RICMDQCMIRLPGPLPVGTKVTLIGRQGDEVISIDDVAR 347
>pdb|1SFT|A Chain A, Alanine Racemase
pdb|1SFT|B Chain B, Alanine Racemase
pdb|1BD0|A Chain A, Alanine Racemase Complexed With Alanine Phosphonate
pdb|1BD0|B Chain B, Alanine Racemase Complexed With Alanine Phosphonate
Length = 388
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 149 NLATNQILADKLSPAPLGPKVHLIQHNKDEIISKDEISQ 187
+ +Q + P P+G KV LI DE+IS D++++
Sbjct: 309 RICMDQCMIRLPGPLPVGTKVTLIGRQGDEVISIDDVAR 347
>pdb|2HSJ|A Chain A, The Structure Of A Putative Platelet Activating Factor
From Streptococcus Pneumonia.
pdb|2HSJ|B Chain B, The Structure Of A Putative Platelet Activating Factor
From Streptococcus Pneumonia.
pdb|2HSJ|C Chain C, The Structure Of A Putative Platelet Activating Factor
From Streptococcus Pneumonia.
pdb|2HSJ|D Chain D, The Structure Of A Putative Platelet Activating Factor
From Streptococcus Pneumonia
Length = 214
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 53/113 (46%), Gaps = 22/113 (19%)
Query: 35 EPELVFIGDSLISFLTQTQIWHNLFEPLHCLAFGIGGDKVEHCLWRVQDG-ILDSIKPKV 93
EP ++FIGDS++ + PL L FG V + Q G +L+++ +
Sbjct: 34 EPNILFIGDSIVEYY-----------PLQEL-FGTSKTIVNRGIRGYQTGLLLENLDAHL 81
Query: 94 -------IVILVGTNNT-EDSAENIADGILE-LIRLVQTKQPQADVVVLELLP 137
I +L+GTN+ +D N A LE +I+ V P ++ +L +LP
Sbjct: 82 YGGAVDKIFLLIGTNDIGKDVPVNEALNNLEAIIQSVARDYPLTEIKLLSILP 134
>pdb|1FVX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57n Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|1FLA|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57d Reduced
pdb|4NLL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57d Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|2FOX|A Chain A, Clostridium Beijerinckii Flavodoxin: Semiquinone
pdb|5NLL|A Chain A, Clostridium Beijerinckii Flavodoxin: Oxidized
pdb|5ULL|A Chain A, Clostridium Beijerinckii Flavodoxin: Reduced
Length = 138
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|1FLD|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Oxidized
pdb|2FLV|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Reduced
(150k)
pdb|2FVX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t Reduced
(277k)
pdb|5NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57t
Semiquinone (150k)
Length = 138
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|3NLL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: G57a Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|2FAX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: N137a Oxidized
(150k)
pdb|2FDX|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant N137a Oxidized
pdb|6NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: N137a Reduced
(150k)
Length = 138
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|1FLN|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: D58p Reduced
pdb|4NUL|A Chain A, Clostridium Beijerinckii Flavodoxin Mutant: D58p Oxidized
Length = 138
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/49 (46%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 94 IVILVGTNNTEDSAENIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
IV GT NTE AE IA GI+E + V T +DV + ELL LI
Sbjct: 3 IVYWSGTGNTEKMAELIAKGIIESGKDVNTINV-SDVNIDELLNEDILI 50
>pdb|2QQD|C Chain C, N47a Mutant Of Pyruvoyl-Dependent Arginine Decarboxylase
From Methanococcus Jannashii
pdb|2QQD|F Chain F, N47a Mutant Of Pyruvoyl-Dependent Arginine Decarboxylase
From Methanococcus Jannashii
pdb|2QQD|G Chain G, N47a Mutant Of Pyruvoyl-Dependent Arginine Decarboxylase
From Methanococcus Jannashii
pdb|2QQD|H Chain H, N47a Mutant Of Pyruvoyl-Dependent Arginine Decarboxylase
From Methanococcus Jannashii
Length = 166
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 7/59 (11%)
Query: 91 PKVIVILVGTNNTE------DSAE-NIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
P + ++ G++ E D A N G + LIR+ P+A++V L LP G L+
Sbjct: 16 PNTVSLVAGSSEGETPLNAFDGALLNAGIGNVALIRISSIMPPEAEIVPLPKLPMGALV 74
>pdb|1ZP4|A Chain A, Glu28gln Mutant Of E. Coli Methylenetetrahydrofolate
Reductase (Oxidized) Complex With Methyltetrahydrofolate
pdb|1ZP4|B Chain B, Glu28gln Mutant Of E. Coli Methylenetetrahydrofolate
Reductase (Oxidized) Complex With Methyltetrahydrofolate
pdb|1ZP4|C Chain C, Glu28gln Mutant Of E. Coli Methylenetetrahydrofolate
Reductase (Oxidized) Complex With Methyltetrahydrofolate
Length = 304
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 73 KVEHCLWRVQDGILDSIKPKVIVILVGTNNTE-DSAENIADGI 114
++E LW D L S+KPK + + G N+ E D +I GI
Sbjct: 36 EMEQTLWNSIDR-LSSLKPKFVSVTYGANSGERDRTHSIIKGI 77
>pdb|1ZP3|A Chain A, E. Coli Methylenetetrahydrofolate Reductase (Oxidized)
pdb|1ZP3|B Chain B, E. Coli Methylenetetrahydrofolate Reductase (Oxidized)
pdb|1ZP3|C Chain C, E. Coli Methylenetetrahydrofolate Reductase (Oxidized)
pdb|1ZPT|A Chain A, Escherichia Coli Methylenetetrahydrofolate Reductase
(reduced) Complexed With Nadh, Ph 7.25
pdb|1ZPT|B Chain B, Escherichia Coli Methylenetetrahydrofolate Reductase
(reduced) Complexed With Nadh, Ph 7.25
pdb|1ZPT|C Chain C, Escherichia Coli Methylenetetrahydrofolate Reductase
(reduced) Complexed With Nadh, Ph 7.25
pdb|1ZRQ|A Chain A, Escherichia Coli Methylenetetrahydrofolate Reductase
(reduced) Complexed With Nadh, Ph 6.0
pdb|1ZRQ|B Chain B, Escherichia Coli Methylenetetrahydrofolate Reductase
(reduced) Complexed With Nadh, Ph 6.0
pdb|1ZRQ|C Chain C, Escherichia Coli Methylenetetrahydrofolate Reductase
(reduced) Complexed With Nadh, Ph 6.0
Length = 304
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 73 KVEHCLWRVQDGILDSIKPKVIVILVGTNNTE-DSAENIADGI 114
++E LW D L S+KPK + + G N+ E D +I GI
Sbjct: 36 EMEQTLWNSIDR-LSSLKPKFVSVTYGANSGERDRTHSIIKGI 77
>pdb|3FSU|A Chain A, Crystal Structure Of Escherichia Coli
Methylenetetrahydrofolate Reductase Double Mutant
Phe223leuglu28gln Complexed With Methyltetrahydrofolate
pdb|3FSU|C Chain C, Crystal Structure Of Escherichia Coli
Methylenetetrahydrofolate Reductase Double Mutant
Phe223leuglu28gln Complexed With Methyltetrahydrofolate
pdb|3FSU|E Chain E, Crystal Structure Of Escherichia Coli
Methylenetetrahydrofolate Reductase Double Mutant
Phe223leuglu28gln Complexed With Methyltetrahydrofolate
Length = 304
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 73 KVEHCLWRVQDGILDSIKPKVIVILVGTNNTE-DSAENIADGI 114
++E LW D L S+KPK + + G N+ E D +I GI
Sbjct: 36 EMEQTLWNSIDR-LSSLKPKFVSVTYGANSGERDRTHSIIKGI 77
>pdb|3UW6|A Chain A, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or120
pdb|3UW6|B Chain B, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or120
pdb|3UW6|C Chain C, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or120
Length = 390
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 161 SPAPLGPKVHLIQHNKDEIISKDEISQ 187
P P+G KV LI D++IS D++++
Sbjct: 321 GPLPVGTKVTLIGRQGDKVISIDDVAR 347
>pdb|3FST|A Chain A, Crystal Structure Of Escherichia Coli
Methylenetetrahydrofolate Reductase Mutant Phe223leu At
Ph 7.4
pdb|3FST|C Chain C, Crystal Structure Of Escherichia Coli
Methylenetetrahydrofolate Reductase Mutant Phe223leu At
Ph 7.4
pdb|3FST|E Chain E, Crystal Structure Of Escherichia Coli
Methylenetetrahydrofolate Reductase Mutant Phe223leu At
Ph 7.4
Length = 304
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 73 KVEHCLWRVQDGILDSIKPKVIVILVGTNNTE-DSAENIADGI 114
++E LW D L S+KPK + + G N+ E D +I GI
Sbjct: 36 EMEQTLWNSIDR-LSSLKPKFVSVTYGANSGERDRTHSIIKGI 77
>pdb|2FMN|A Chain A, Ala177val Mutant Of E. Coli Methylenetetrahydrofolate
Reductase Complex With Ly309887
pdb|2FMN|B Chain B, Ala177val Mutant Of E. Coli Methylenetetrahydrofolate
Reductase Complex With Ly309887
pdb|2FMN|C Chain C, Ala177val Mutant Of E. Coli Methylenetetrahydrofolate
Reductase Complex With Ly309887
pdb|2FMO|A Chain A, Ala177val Mutant Of E. Coli Methylenetetrahydrofolate
Reductase
pdb|2FMO|B Chain B, Ala177val Mutant Of E. Coli Methylenetetrahydrofolate
Reductase
pdb|2FMO|C Chain C, Ala177val Mutant Of E. Coli Methylenetetrahydrofolate
Reductase
Length = 304
Score = 26.9 bits (58), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 73 KVEHCLWRVQDGILDSIKPKVIVILVGTNNTE-DSAENIADGI 114
++E LW D L S+KPK + + G N+ E D +I GI
Sbjct: 36 EMEQTLWNSIDR-LSSLKPKFVSVTYGANSGERDRTHSIIKGI 77
>pdb|1B5T|A Chain A, Escherichia Coli Methylenetetrahydrofolate Reductase
pdb|1B5T|B Chain B, Escherichia Coli Methylenetetrahydrofolate Reductase
pdb|1B5T|C Chain C, Escherichia Coli Methylenetetrahydrofolate Reductase
Length = 275
Score = 26.9 bits (58), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 2/43 (4%)
Query: 73 KVEHCLWRVQDGILDSIKPKVIVILVGTNNTE-DSAENIADGI 114
++E LW D L S+KPK + + G N+ E D +I GI
Sbjct: 16 EMEQTLWNSIDR-LSSLKPKFVSVTYGANSGERDRTHSIIKGI 57
>pdb|1N2M|A Chain A, The S53a Proenzyme Structure Of Methanococcus Jannaschii.
pdb|1N2M|B Chain B, The S53a Proenzyme Structure Of Methanococcus Jannaschii.
pdb|1N2M|C Chain C, The S53a Proenzyme Structure Of Methanococcus Jannaschii.
pdb|1N2M|D Chain D, The S53a Proenzyme Structure Of Methanococcus Jannaschii.
pdb|1N2M|E Chain E, The S53a Proenzyme Structure Of Methanococcus Jannaschii.
pdb|1N2M|F Chain F, The S53a Proenzyme Structure Of Methanococcus Jannaschii
Length = 165
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 109 NIADGILELIRLVQTKQPQADVVVLELLPRGKLI 142
N G + LIR+ P+A++V L LP G L+
Sbjct: 40 NAGIGNVNLIRISAIMPPEAEIVPLPKLPMGALV 73
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
0.319 0.138 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,718,107
Number of Sequences: 62578
Number of extensions: 278242
Number of successful extensions: 1052
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1020
Number of HSP's gapped (non-prelim): 45
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)