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= 039077
(149 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B0H|A Chain A, Assimilatory Nitrite Reductase (Nii4) From Tobbaco Root
pdb|3B0H|B Chain B, Assimilatory Nitrite Reductase (Nii4) From Tobbaco Root
Length = 588
Score = 28.1 bits (61), Expect = 2.0, Method: Composition-based stats.
Identities = 21/85 (24%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 37 QKIGCFSSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQI 96
QK+ S+ L Q +WE GV ++ G F+ + +PV D D ++
Sbjct: 359 QKLDRESTEDLVQKQWERREYLGVHPQK----QEGYSFV-GLHIPVGRVQADDMDELARL 413
Query: 97 AESYGFRQIGEPLPENVTMKDVIDS 121
A+ YG ++ + +N+ + +V +S
Sbjct: 414 ADEYGSGELRLTVEQNIIIPNVKNS 438
>pdb|1UC8|A Chain A, Crystal Structure Of A Lysine Biosynthesis Enzyme, Lysx,
From Thermus Thermophilus Hb8
pdb|1UC8|B Chain B, Crystal Structure Of A Lysine Biosynthesis Enzyme, Lysx,
From Thermus Thermophilus Hb8
Length = 280
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 60 VKHKRCSIPSRG---TRFIQAVAVPVAPPSEDSADCRKQIAESYGFRQIGEPLPENVTMK 116
V +RC SRG R++ A+ +PV E C + A S + G P P+
Sbjct: 51 VALERCVSQSRGLAAARYLTALGIPVVNRPEVIEACGDKWATSVALAKAGLPQPKTALAT 110
Query: 117 DVIDSL 122
D ++L
Sbjct: 111 DREEAL 116
>pdb|1UC9|A Chain A, Crystal Structure Of A Lysine Biosynthesis Enzyme, Lysx,
From Thermus Thermophilus Hb8
pdb|1UC9|B Chain B, Crystal Structure Of A Lysine Biosynthesis Enzyme, Lysx,
From Thermus Thermophilus Hb8
Length = 280
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 60 VKHKRCSIPSRG---TRFIQAVAVPVAPPSEDSADCRKQIAESYGFRQIGEPLPENVTMK 116
V +RC SRG R++ A+ +PV E C + A S + G P P+
Sbjct: 51 VALERCVSQSRGLAAARYLTALGIPVVNRPEVIEACGDKWATSVALAKAGLPQPKTALAT 110
Query: 117 DVIDSL 122
D ++L
Sbjct: 111 DREEAL 116
>pdb|3B0J|A Chain A, M175e Mutant Of Assimilatory Nitrite Reductase (Nii3) From
Tobbaco Leaf
Length = 584
Score = 26.9 bits (58), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 37 QKIGCFSSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQI 96
Q++ S L Q +WE GV ++ G FI + +PV D D ++
Sbjct: 362 QQLERASPEDLVQKQWERRDYLGVHPQK----QEGYSFI-GLHIPVGRVQADDMDELARL 416
Query: 97 AESYGFRQIGEPLPENVTMKDV 118
A+ YG +I + +N+ + ++
Sbjct: 417 ADEYGSGEIRLTVEQNIIIPNI 438
>pdb|3B0L|A Chain A, M175g Mutant Of Assimilatory Nitrite Reductase (Nii3) From
Tobbaco Leaf
Length = 584
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 37 QKIGCFSSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQI 96
Q++ S L Q +WE GV ++ G FI + +PV D D ++
Sbjct: 362 QQLERASPEDLVQKQWERRDYLGVHPQK----QEGYSFI-GLHIPVGRVQADDMDELARL 416
Query: 97 AESYGFRQIGEPLPENVTMKDV 118
A+ YG +I + +N+ + ++
Sbjct: 417 ADEYGSGEIRLTVEQNIIIPNI 438
>pdb|3B0N|A Chain A, Q448k Mutant Of Assimilatory Nitrite Reductase (Nii3) From
Tobbaco Leaf
Length = 584
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 37 QKIGCFSSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQI 96
Q++ S L Q +WE GV ++ G FI + +PV D D ++
Sbjct: 362 QQLERASPEDLVQKQWERRDYLGVHPQK----QEGYSFI-GLHIPVGRVQADDMDELARL 416
Query: 97 AESYGFRQIGEPLPENVTMKDV 118
A+ YG +I + +N+ + ++
Sbjct: 417 ADEYGSGEIRLTVEQNIIIPNI 438
>pdb|3B0M|A Chain A, M175k Mutant Of Assimilatory Nitrite Reductase (Nii3) From
Tobbaco Leaf
Length = 584
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 37 QKIGCFSSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQI 96
Q++ S L Q +WE GV ++ G FI + +PV D D ++
Sbjct: 362 QQLERASPEDLVQKQWERRDYLGVHPQK----QEGYSFI-GLHIPVGRVQADDMDELARL 416
Query: 97 AESYGFRQIGEPLPENVTMKDV 118
A+ YG +I + +N+ + ++
Sbjct: 417 ADEYGSGEIRLTVEQNIIIPNI 438
>pdb|3VLX|A Chain A, Assimilatory Nitrite Reductase (Nii3) - N226k Mutant -
Ligand Free Form From Tobacco Leaf
pdb|3VLY|A Chain A, Assimilatory Nitrite Reductase (Nii3) - N226k Mutant - So3
Partial Complex From Tobacco Leaf
pdb|3VLZ|A Chain A, Assimilatory Nitrite Reductase (Nii3) - N226k Mutant - So3
Full Complex From Tobacco Leaf
pdb|3VM0|A Chain A, Assimilatory Nitrite Reductase (Nii3) - N226k Mutant - No2
Complex From Tobacco Leaf
pdb|3VM1|A Chain A, Assimilatory Nitrite Reductase (Nii3) - N226k Mutant -
Hco3 Complex From Tobacco Leaf
Length = 584
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 37/82 (45%), Gaps = 5/82 (6%)
Query: 37 QKIGCFSSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQI 96
Q++ S L Q +WE GV ++ G FI + +PV D D ++
Sbjct: 362 QQLERASPEDLVQKQWERRDYLGVHPQK----QEGYSFI-GLHIPVGRVQADDMDELARL 416
Query: 97 AESYGFRQIGEPLPENVTMKDV 118
A+ YG +I + +N+ + ++
Sbjct: 417 ADEYGSGEIRLTVEQNIIIPNI 438
>pdb|3VPD|A Chain A, Lysx From Thermus Thermophilus Complexed With Amp-pnp
pdb|3VPD|B Chain B, Lysx From Thermus Thermophilus Complexed With Amp-pnp
Length = 281
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 60 VKHKRCSIPSRG---TRFIQAVAVPVAPPSEDSADCRKQIAESYGFRQIGEPLPENVTMK 116
V +RC SRG R++ A+ +PV E C + A S + G P P+
Sbjct: 51 VALERCVSQSRGLAAARYLTALGIPVVNRPEVIEACGDKWATSVALAKAGLPQPKTALAT 110
Query: 117 DVIDSL 122
D ++L
Sbjct: 111 DREEAL 116
>pdb|2GPW|A Chain A, Crystal Structure Of The Biotin Carboxylase Subunit, F363a
Mutant, Of Acetyl-Coa Carboxylase From Escherichia Coli.
pdb|2GPW|B Chain B, Crystal Structure Of The Biotin Carboxylase Subunit, F363a
Mutant, Of Acetyl-Coa Carboxylase From Escherichia Coli.
pdb|2GPW|C Chain C, Crystal Structure Of The Biotin Carboxylase Subunit, F363a
Mutant, Of Acetyl-Coa Carboxylase From Escherichia Coli.
pdb|2GPW|D Chain D, Crystal Structure Of The Biotin Carboxylase Subunit, F363a
Mutant, Of Acetyl-Coa Carboxylase From Escherichia Coli
Length = 469
Score = 26.6 bits (57), Expect = 5.7, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 5/63 (7%)
Query: 1 MKIASEQMASV----AHVMPSATSCCTVRKQGPHQRPTGSQKIGCFSSPGLCQLKWESLL 56
++IA+ Q S+ HV A C + + P+ KI F +PG ++WES +
Sbjct: 333 LRIAAGQPLSIKQEEVHVRGHAVEC-RINAEDPNTFLPSPGKITRFHAPGGAGVRWESHI 391
Query: 57 VKG 59
G
Sbjct: 392 YAG 394
>pdb|2AKJ|A Chain A, Structure Of Spinach Nitrite Reductase
Length = 608
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 43 SSPGLCQLKWESLLVKGVKHKRCSIPSRGTRFIQAVAVPVAPPSEDSADCRKQIAESYGF 102
SS L Q WE GV ++ +G F+ + +PV D + +IA+ YG
Sbjct: 385 SSEELVQKDWERREYLGVHPQK----QQGLSFV-GLHIPVGRLQADEMEELARIADVYGS 439
Query: 103 RQIGEPLPENVTMKDV----IDSL 122
++ + +N+ + +V IDSL
Sbjct: 440 GELRLTVEQNIIIPNVENSKIDSL 463
>pdb|2E5O|A Chain A, 'solution Structure Of The Trip_4c Domain Of Target Of
Activating Signal Cointegrator 1
Length = 154
Score = 26.2 bits (56), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 40 GCFSSPGLC---QLKWESLLVKGVKH---KRCSIPSRGTRFIQAVAVPVAP 84
G S G C W SLLV+G+K + P RG +I A A +P
Sbjct: 1 GSSGSSGWCLSVHQPWASLLVRGIKRVEGRSWYTPHRGRLWIAATAKKPSP 51
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 0.132 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,154,280
Number of Sequences: 62578
Number of extensions: 153612
Number of successful extensions: 398
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 398
Number of HSP's gapped (non-prelim): 13
length of query: 149
length of database: 14,973,337
effective HSP length: 90
effective length of query: 59
effective length of database: 9,341,317
effective search space: 551137703
effective search space used: 551137703
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 47 (22.7 bits)