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= psy16850
(174 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2BWN|A Chain A, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWN|B Chain B, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWN|D Chain D, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWN|E Chain E, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus
pdb|2BWO|A Chain A, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
Length = 401
Score = 121 bits (304), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 62/129 (48%), Positives = 80/129 (62%), Gaps = 2/129 (1%)
Query: 11 YEDFFHEQIMKKKRDHSYRVFKKVNRLATNFP-AAYEYTDSEKE-VTVYCSNDYLGMSCH 68
Y + I K + YR F + R FP A + D K+ +TV+C NDYLGM H
Sbjct: 3 YNLALDKAIQKLHDEGRYRTFIDIEREKGAFPKAQWNRPDGGKQDITVWCGNDYLGMGQH 62
Query: 69 PKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKEAGLVFTSCYVANDST 128
P V +A+ EALE G G+GGTRNISG + +H +LE ++A LHQKEA LVF+S Y AND+T
Sbjct: 63 PVVLAAMHEALEAVGAGSGGTRNISGTTAYHRRLEAEIAGLHQKEAALVFSSAYNANDAT 122
Query: 129 LFTLGKMIP 137
L TL + P
Sbjct: 123 LSTLRVLFP 131
>pdb|2BWO|B Chain B, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
pdb|2BWO|D Chain D, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
pdb|2BWO|E Chain E, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Succinyl-Coa
pdb|2BWP|A Chain A, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
pdb|2BWP|B Chain B, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
pdb|2BWP|D Chain D, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
pdb|2BWP|E Chain E, 5-Aminolevulinate Synthase From Rhodobacter Capsulatus In
Complex With Glycine
Length = 401
Score = 121 bits (304), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 62/129 (48%), Positives = 80/129 (62%), Gaps = 2/129 (1%)
Query: 11 YEDFFHEQIMKKKRDHSYRVFKKVNRLATNFP-AAYEYTDSEKE-VTVYCSNDYLGMSCH 68
Y + I K + YR F + R FP A + D K+ +TV+C NDYLGM H
Sbjct: 3 YNLALDKAIQKLHDEGRYRTFIDIEREKGAFPKAQWNRPDGGKQDITVWCGNDYLGMGQH 62
Query: 69 PKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKEAGLVFTSCYVANDST 128
P V +A+ EALE G G+GGTRNISG + +H +LE ++A LHQKEA LVF+S Y AND+T
Sbjct: 63 PVVLAAMHEALEAVGAGSGGTRNISGTTAYHRRLEAEIAGLHQKEAALVFSSAYNANDAT 122
Query: 129 LFTLGKMIP 137
L TL + P
Sbjct: 123 LSTLRVLFP 131
>pdb|3TQX|A Chain A, Structure Of The 2-Amino-3-Ketobutyrate Coenzyme A Ligase
(Kbl) From Coxiella Burnetii
pdb|3TQX|B Chain B, Structure Of The 2-Amino-3-Ketobutyrate Coenzyme A Ligase
(Kbl) From Coxiella Burnetii
Length = 399
Score = 63.2 bits (152), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 32/100 (32%), Positives = 55/100 (55%), Gaps = 1/100 (1%)
Query: 33 KVNRLATNFPAAYEYTDSEKEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNI 92
K R+ T+ P E EKEV +C+N+YLG++ HP + + +E++G G R I
Sbjct: 25 KSERIITS-PQNAEIKVGEKEVLNFCANNYLGLADHPALIKTAQTVVEQYGFGXASVRFI 83
Query: 93 SGNSLFHEKLEEDVARLHQKEAGLVFTSCYVANDSTLFTL 132
G H++LE+D++ + ++++SC+ AN TL
Sbjct: 84 CGTQTIHKELEKDISEFLGTDDTILYSSCFDANGGLFETL 123
>pdb|3A2B|A Chain A, Crystal Structure Of Serine Palmitoyltransferase From
Sphingobacterium Multivorum With Substrate L-Serine
Length = 398
Score = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 50/81 (61%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
+ V ++ SN YLG++ ++ A ++ALEK+GTG G+R ++G H +LEE ++
Sbjct: 43 RRVLMFGSNSYLGLTTDTRIIKAAQDALEKYGTGCAGSRFLNGTLDIHVELEEKLSAYVG 102
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
KEA ++F++ + +N L L
Sbjct: 103 KEAAILFSTGFQSNLGPLSCL 123
>pdb|2JG2|A Chain A, High Resolution Structure Of Spt With Plp Internal
Aldimine
Length = 422
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 65 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTNGSRMLNGTFHDHMEVEQALRDFYG 124
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 125 TTGAIVFSTGYMANLGIISTL 145
>pdb|2W8J|A Chain A, Spt With Plp-Ser
pdb|2XBN|A Chain A, Inhibition Of The Plp-Dependent Enzyme Serine
Palmitoyltransferase By Cycloserine: Evidence For A
Novel Decarboxylative Mechanism Of Inactivation
Length = 427
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 64 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTNGSRMLNGTFHDHMEVEQALRDFYG 123
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 124 TTGAIVFSTGYMANLGIISTL 144
>pdb|2JGT|A Chain A, Low Resolution Structure Of Spt
pdb|2JGT|B Chain B, Low Resolution Structure Of Spt
Length = 422
Score = 54.3 bits (129), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 65 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTNGSRMLNGTFHDHMEVEQALRDFYG 124
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 125 TTGAIVFSTGYMANLGIISTL 145
>pdb|2W8V|A Chain A, Spt With Plp, N100w
Length = 427
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 64 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTWGSRMLNGTFHDHMEVEQALRDFYG 123
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 124 TTGAIVFSTGYMANLGIISTL 144
>pdb|2W8T|A Chain A, Spt With Plp, N100c
Length = 427
Score = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 64 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTCGSRMLNGTFHDHMEVEQALRDFYG 123
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 124 TTGAIVFSTGYMANLGIISTL 144
>pdb|1FC4|A Chain A, 2-Amino-3-Ketobutyrate Coa Ligase
pdb|1FC4|B Chain B, 2-Amino-3-Ketobutyrate Coa Ligase
Length = 401
Score = 52.8 bits (125), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 43/79 (54%)
Query: 54 VTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKE 113
V +C+N+YLG++ HP + +A + + G G R I G H++LE+ +A E
Sbjct: 47 VINFCANNYLGLANHPDLIAAAKAGXDSHGFGXASVRFICGTQDSHKELEQKLAAFLGXE 106
Query: 114 AGLVFTSCYVANDSTLFTL 132
++++SC+ AN TL
Sbjct: 107 DAILYSSCFDANGGLFETL 125
>pdb|2W8W|A Chain A, N100y Spt With Plp-Ser
Length = 427
Score = 52.8 bits (125), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 64 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTYGSRMLNGTFHDHMEVEQALRDFYG 123
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 124 TTGAIVFSTGYMANLGIISTL 144
>pdb|2W8U|A Chain A, Spt With Plp, N100y
Length = 427
Score = 52.8 bits (125), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 49/81 (60%)
Query: 52 KEVTVYCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQ 111
K+ + + +Y+GM+ P V +A +EALEKFG+G G+R ++G H ++E+ + +
Sbjct: 64 KDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTYGSRMLNGTFHDHMEVEQALRDFYG 123
Query: 112 KEAGLVFTSCYVANDSTLFTL 132
+VF++ Y+AN + TL
Sbjct: 124 TTGAIVFSTGYMANLGIISTL 144
>pdb|2X8U|A Chain A, Sphingomonas Wittichii Serine Palmitoyltransferase
pdb|2X8U|B Chain B, Sphingomonas Wittichii Serine Palmitoyltransferase
Length = 412
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 44/72 (61%)
Query: 61 DYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKEAGLVFTS 120
+Y+GM+ P V +A ++AL++FG+G G+R ++G H+ E+ + + E +VF++
Sbjct: 53 NYMGMTFDPDVIAAGKQALDEFGSGTTGSRVLNGTYQGHKACEDALKEFYGTEHAIVFST 112
Query: 121 CYVANDSTLFTL 132
Y AN + TL
Sbjct: 113 GYQANLGMISTL 124
>pdb|1BS0|A Chain A, Plp-dependent Acyl-coa Synthase
pdb|2G6W|A Chain A, Suicide Inhibition Of A-Oxamine Synthase: Structures Of
The Covalent Adducts Of 8-Amino-7-Oxonanoate Synthase
With Trifluoroalanine
Length = 384
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 49/76 (64%)
Query: 57 YCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKEAGL 116
+ SNDYLG+S HP++ A ++ E+FG G+GG+ ++SG S+ H+ LEE++A L
Sbjct: 44 FSSNDYLGLSHHPQIIRAWQQGAEQFGIGSGGSGHVSGYSVVHQALEEELAEWLGYSRAL 103
Query: 117 VFTSCYVANDSTLFTL 132
+F S + AN + + +
Sbjct: 104 LFISGFAANQAVIAAM 119
>pdb|1DJ9|A Chain A, Crystal Structure Of 8-Amino-7-Oxonanoate Synthase (Or
7-Keto- 8aminipelargonate Or Kapa Synthase) Complexed
With Plp And The Product 8(S)-Amino-7-Oxonanonoate (Or
Kapa). The Enzyme Of Biotin Biosynthetic Pathway.
pdb|1DJE|A Chain A, Crystal Structure Of The Plp-Bound Form Of
8-Amino-7-Oxonanoate Synthase
Length = 384
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 49/76 (64%)
Query: 57 YCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKEAGL 116
+ SNDYLG+S HP++ A ++ E+FG G+GG+ ++SG S+ H+ LEE++A L
Sbjct: 44 FSSNDYLGLSHHPQIIRAWQQGAEQFGIGSGGSGHVSGYSVVHQALEEELAEWLGYSRAL 103
Query: 117 VFTSCYVANDSTLFTL 132
+F S + AN + + +
Sbjct: 104 LFISGFAANQAVIAAM 119
>pdb|4IW7|A Chain A, Crystal Structure Of 8-amino-7-oxononanoate Synthase
(biof) From Francisella Tularensis
Length = 399
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 57 YCSNDYLGMSCHPKVKSAVREALEKFGTGAGGTRNISGNSLFHEKLEEDVARLHQKEAGL 116
+ ++DYL +S +K A+ +K+G G+ G+ + G + ++ E + A+ +
Sbjct: 56 FTTSDYLNLSSAHNLKHAIVNGFDKYGFGSKGSNIVCGYTDETQQFEHEFAKFINYPRAI 115
Query: 117 VFTSCYVAND---STLFT 131
F+S ++AN STLF+
Sbjct: 116 FFSSGFMANLAIYSTLFS 133
>pdb|1LI5|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase
pdb|1LI5|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase
pdb|1LI7|A Chain A, Crystal Structure Of Cysteinyl-Trna Synthetase With
Cysteine Substrate Bound
pdb|1LI7|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase With
Cysteine Substrate Bound
pdb|1U0B|B Chain B, Crystal Structure Of Cysteinyl-Trna Synthetase Binary
Complex With Trnacys
Length = 461
Score = 26.2 bits (56), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 34/78 (43%), Gaps = 8/78 (10%)
Query: 95 NSLFHEKLEEDVARLHQKEAGL------VFTSCYVANDSTLFTLGKMIPYFTELIYFYRF 148
N+L +K E+ +H E G+ V+ C++ + T + Y L Y ++
Sbjct: 6 NTLTRQK--EEFKPIHAGEVGMYVCGITVYDLCHIGHGRTFVAFDVVARYLRFLGYKLKY 63
Query: 149 LANTTDIIKEASKELQED 166
+ N TDI + K E+
Sbjct: 64 VRNITDIDDKIIKRANEN 81
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 0.134 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,234,660
Number of Sequences: 62578
Number of extensions: 206334
Number of successful extensions: 653
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 636
Number of HSP's gapped (non-prelim): 30
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
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: 48 (23.1 bits)