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= 029865
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZYY|X Chain X, Reductive Activator For Corrinoid,Iron-Sulfur Protein
pdb|3ZYY|Y Chain Y, Reductive Activator For Corrinoid,Iron-Sulfur Protein
Length = 631
Score = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 28/49 (57%), Gaps = 11/49 (22%)
Query: 108 CGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPES----WRLACQT 152
CGG G+CG C+V ++DG+ +R + Y K K E + LACQT
Sbjct: 38 CGGAGTCGKCLVRVVDGQ----KRVES---YGKLKQEEIAQGYVLACQT 79
>pdb|1L5P|A Chain A, Crystal Structure Of Trichomonas Vaginalis Ferredoxin
pdb|1L5P|B Chain B, Crystal Structure Of Trichomonas Vaginalis Ferredoxin
pdb|1L5P|C Chain C, Crystal Structure Of Trichomonas Vaginalis Ferredoxin
Length = 93
Score = 33.1 bits (74), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 107 NCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTIVGNKENSG 161
C G +CG CI + + GK E + E +L+ +P + RLAC I + EN G
Sbjct: 37 TCQGNKACGKCICKHVSGKVAAAE--DDEKEFLEDQPANARLAC-AITLSGENDG 88
>pdb|1OQQ|A Chain A, Crystal Structure Of C73sC85S MUTANT OF PUTIDAREDOXIN, A
[2FE-2s] Ferredoxin From Pseudomonas Putida, At 1.47a
Resolution
pdb|1OQQ|B Chain B, Crystal Structure Of C73sC85S MUTANT OF PUTIDAREDOXIN, A
[2FE-2s] Ferredoxin From Pseudomonas Putida, At 1.47a
Resolution
pdb|1XLN|A Chain A, Crystal Structure Of Oxidized C73sC85S PUTIDAREDOXIN, A
[2fe-2s] Ferredoxin From Pseudomonas Putida
pdb|1XLN|B Chain B, Crystal Structure Of Oxidized C73sC85S PUTIDAREDOXIN, A
[2fe-2s] Ferredoxin From Pseudomonas Putida
pdb|1XLO|A Chain A, Structure Of Reduced C73s/c85s Putidaredoxin, A [2fe-2s]
Ferredoxin From Pseudomonas Putida
pdb|1XLO|B Chain B, Structure Of Reduced C73s/c85s Putidaredoxin, A [2fe-2s]
Ferredoxin From Pseudomonas Putida
pdb|3LB8|C Chain C, Crystal Structure Of The Covalent Putidaredoxin Reductase-
Putidaredoxin Complex
pdb|3LB8|D Chain D, Crystal Structure Of The Covalent Putidaredoxin Reductase-
Putidaredoxin Complex
Length = 106
Score = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 102 YGKVMNCGGGGSCGTCIVEI----IDGKDLLNERTNTELRYLKK--KPESWRLACQTIV 154
Y V +CGG SC TC V + D NER L + KP S RL+CQ I+
Sbjct: 33 YDIVGDCGGSASCATCHVYVNEAFTDKVPAANEREIGMLESVTAELKPNS-RLSCQIIM 90
>pdb|1GPX|A Chain A, C85s Gapdx, Nmr, 20 Structures
Length = 106
Score = 29.6 bits (65), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 102 YGKVMNCGGGGSCGTCIVEI----IDGKDLLNERTNTELRYLKK--KPESWRLACQTIV 154
Y V +CGG SC TC V + D NER L + KP S RL+CQ I+
Sbjct: 33 YDIVGDCGGSASCATCHVYVNEAFTDKVPAANEREIGMLECVTAELKPNS-RLSCQIIM 90
>pdb|1OQR|A Chain A, Crystal Structure Of C73s Mutant Of Putidaredoxin, A [2fe-
2s] Ferredoxin From Pseudomonas Putida, At 1.65a
Resolution
pdb|1OQR|B Chain B, Crystal Structure Of C73s Mutant Of Putidaredoxin, A [2fe-
2s] Ferredoxin From Pseudomonas Putida, At 1.65a
Resolution
pdb|1OQR|C Chain C, Crystal Structure Of C73s Mutant Of Putidaredoxin, A [2fe-
2s] Ferredoxin From Pseudomonas Putida, At 1.65a
Resolution
pdb|1XLP|A Chain A, Structure Of Oxidized C73s Putidaredoxin From Pseudomonas
Putida
pdb|1XLP|B Chain B, Structure Of Oxidized C73s Putidaredoxin From Pseudomonas
Putida
pdb|1XLP|C Chain C, Structure Of Oxidized C73s Putidaredoxin From Pseudomonas
Putida
pdb|1XLQ|A Chain A, Crystal Structure Of Reduced C73s Putidaredoxin From
Pseudomonas Putida
pdb|1XLQ|B Chain B, Crystal Structure Of Reduced C73s Putidaredoxin From
Pseudomonas Putida
pdb|1XLQ|C Chain C, Crystal Structure Of Reduced C73s Putidaredoxin From
Pseudomonas Putida
Length = 106
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 102 YGKVMNCGGGGSCGTCIVEI----IDGKDLLNERTNTELRYLKK--KPESWRLACQTIV 154
Y V +CGG SC TC V + D NER L + KP S RL CQ I+
Sbjct: 33 YDIVGDCGGSASCATCHVYVNEAFTDKVPAANEREIGMLESVTAELKPNS-RLCCQIIM 90
>pdb|1PUT|A Chain A, An Nmr-Derived Model For The Solution Structure Of
Oxidized Putidaredoxin, A 2fe, 2-S Ferredoxin From
Pseudomonas
Length = 106
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 102 YGKVMNCGGGGSCGTCIVEI----IDGKDLLNERTNTELRYLKK--KPESWRLACQTIV 154
Y V +CGG SC TC V + D NER L + KP S RL CQ I+
Sbjct: 33 YDIVGDCGGSASCATCHVYVNEAFTDKVPAANEREIGMLECVTAELKPNS-RLCCQIIM 90
>pdb|1PDX|A Chain A, Putidaredoxin
pdb|1YJI|A Chain A, Rdc-Refined Solution Nmr Structure Of Reduced
Putidaredoxin
pdb|1YJJ|A Chain A, Rdc-Refined Solution Nmr Structure Of Oxidized
Putidaredoxin
Length = 106
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 102 YGKVMNCGGGGSCGTCIVEI----IDGKDLLNERTNTELRYLKK--KPESWRLACQTIV 154
Y V +CGG SC TC V + D NER L + KP S RL CQ I+
Sbjct: 33 YDIVGDCGGSASCATCHVYVNEAFTDKVPAANEREIGMLECVTAELKPNS-RLCCQIIM 90
>pdb|1R7S|A Chain A, Putidaredoxin (Fe2s2 Ferredoxin), C73g Mutant
pdb|1R7S|B Chain B, Putidaredoxin (Fe2s2 Ferredoxin), C73g Mutant
pdb|1R7S|C Chain C, Putidaredoxin (Fe2s2 Ferredoxin), C73g Mutant
Length = 106
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 27/59 (45%), Gaps = 7/59 (11%)
Query: 102 YGKVMNCGGGGSCGTCIVEI----IDGKDLLNERTNTELRYLKK--KPESWRLACQTIV 154
Y V +CGG SC TC V + D NER L + KP S RL CQ I+
Sbjct: 33 YDIVGDCGGSASCATCHVYVNEAFTDKVPAANEREIGMLEGVTAELKPNS-RLCCQIIM 90
>pdb|1B9R|A Chain A, Terpredoxin From Pseudomonas Sp
Length = 105
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 5/57 (8%)
Query: 103 GKVMNCGGGGSCGTCIVEIIDG-KDLLNERTNTELRYLKKKPESW----RLACQTIV 154
G V CGG C TC +EI D +++ E E L+ E RL+CQ +
Sbjct: 34 GIVAECGGSCVCATCRIEIEDAWVEIVGEANPDENDLLQSTGEPMTAGTRLSCQVFI 90
>pdb|3FTJ|A Chain A, Crystal Structure Of The Periplasmic Region Of Macb From
Actinobacillus Actinomycetemcomitans
Length = 226
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 94 NKIELYATYGKVMN-CGGGGSCGTCIVEIIDG-KDLLNERTNTE-LRYLKKKPESWRLAC 150
N + LY+ Y V+N GG G+ V+I D + E++ TE L+ L K + + +
Sbjct: 152 NSLNLYSPYSTVLNKITGGSRIGSITVKISDDVNSTVAEKSLTELLKSLHGKKDFFIMNS 211
Query: 151 QTIVGNKENS 160
TI EN+
Sbjct: 212 DTIKQTIENT 221
>pdb|2FUG|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|2FUG|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus
pdb|3I9V|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3I9V|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 2 MolASU
pdb|3IAM|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAM|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Reduced, 2 MolASU,
WITH BOUND NADH
pdb|3IAS|3 Chain 3, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|C Chain C, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|L Chain L, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3IAS|U Chain U, Crystal Structure Of The Hydrophilic Domain Of Respiratory
Complex I From Thermus Thermophilus, Oxidized, 4 MolASU,
RE-Refined To 3.15 Angstrom Resolution
pdb|3M9S|3 Chain 3, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|3M9S|C Chain C, Crystal Structure Of Respiratory Complex I From Thermus
Thermophilus
pdb|2YBB|3 Chain 3, Fitted Model For Bovine Mitochondrial Supercomplex
I1iii2iv1 By Single Particle Cryo-Em (Emd-1876)
pdb|4HEA|3 Chain 3, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
pdb|4HEA|D Chain D, Crystal Structure Of The Entire Respiratory Complex I From
Thermus Thermophilus
Length = 783
Score = 27.7 bits (60), Expect = 3.5, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 10/51 (19%)
Query: 112 GSCGTCIVEI------IDGKDLLNERTNTELRYLKKKPESWRLACQTIVGN 156
G+C C+V I DGK LLNE+ E+++ K S C T V +
Sbjct: 43 GACRMCLVRIGLPKKGPDGKPLLNEKGEPEIQWQPKLAAS----CVTAVAD 89
>pdb|4A8X|A Chain A, Structure Of The Core Asap Complex
Length = 88
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 17/21 (80%)
Query: 85 KLLRNIMLDNKIELYATYGKV 105
+L RN+ D+ +E+++TYGK+
Sbjct: 11 RLTRNVTKDHIMEIFSTYGKI 31
>pdb|1T2X|A Chain A, Glactose Oxidase C383s Mutant Identified By Directed
Evolution
Length = 639
Score = 27.3 bits (59), Expect = 5.6, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 496 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSV 554
>pdb|1K3I|A Chain A, Crystal Structure Of The Precursor Of Galactose Oxidase
Length = 656
Score = 27.3 bits (59), Expect = 5.6, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 513 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSV 571
>pdb|2EIE|A Chain A, Crystal Structure Of Galactose Oxidase Complexed With
Azide
pdb|1GOF|A Chain A, Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal
Structure Of Galactose Oxidase
pdb|1GOG|A Chain A, Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal
Structure Of Galactose Oxidase
pdb|1GOH|A Chain A, Novel Thioether Bond Revealed By A 1.7 Angstroms Crystal
Structure Of Galactose Oxidase
pdb|2JKX|A Chain A, Galactose Oxidase. Matgo. Copper Free, Expressed In Pichia
Pastoris.
pdb|2VZ1|A Chain A, Premat-Galactose Oxidase
pdb|2VZ3|A Chain A, Bleached Galactose Oxidase
Length = 639
Score = 27.3 bits (59), Expect = 5.7, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 496 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSV 554
>pdb|2EID|A Chain A, Galactose Oxidase W290g Mutant
Length = 639
Score = 26.9 bits (58), Expect = 5.8, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 496 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSV 554
>pdb|2EIB|A Chain A, Crystal Structure Of Galactose Oxidase, W290h Mutant
Length = 639
Score = 26.9 bits (58), Expect = 5.8, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 496 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSV 554
>pdb|2EIC|A Chain A, Crystal Structure Of Galactose Oxidase Mutant W290f
Length = 639
Score = 26.9 bits (58), Expect = 5.8, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 496 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYNSNGNLATRPKITRTSTQSV 554
>pdb|2WQ8|A Chain A, Glycan Labelling Using Engineered Variants Of Galactose
Oxidase Obtained By Directed Evolution
Length = 661
Score = 26.9 bits (58), Expect = 7.5, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 94 NKIELYATYGKVMNCGGGGSCGTCIVEIIDGKDLLNERTNTELRYLKKKPESWRLACQTI 153
+ I L G+V N GGGG CG C D + L +P+ R + Q++
Sbjct: 518 HSISLLLPDGRVFN-GGGGLCGDCTTNHFDAQIFTPNYLYDSNGNLATRPKITRTSTQSV 576
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
0.318 0.136 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,710,063
Number of Sequences: 62578
Number of extensions: 175442
Number of successful extensions: 299
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 294
Number of HSP's gapped (non-prelim): 23
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)