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= psy2572
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IUK|A Chain A, Crystal Structure Of Soybean Lipoxygenase-D
pdb|2IUK|B Chain B, Crystal Structure Of Soybean Lipoxygenase-D
Length = 864
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 7/74 (9%)
Query: 105 NAPKWGERFIKTNKIKIVEESICDPKEKTLTTYTRNIGYTSVMSVIEKVEYKVSD----- 159
N P RFI +E + +P++ L T T +SVIE + SD
Sbjct: 732 NRPTLARRFIPAEGTPEYDEMVKNPQKAYLRTITPKFETLIDLSVIEILSRHASDEIYLG 791
Query: 160 --ENENWTLAKRSV 171
E NWT K+++
Sbjct: 792 ERETPNWTTDKKAL 805
>pdb|2C53|A Chain A, A Comparative Study Of Uracil Dna Glycosylases From Human
And Herpes Simplex Virus Type 1
pdb|2C56|A Chain A, A Comparative Study Of Uracil Dna Glycosylases From Human
And Herpes Simplex Virus Type 1
Length = 244
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 25 RYPNPESLVKVKYSTCGVCLLMVKYFENKTVFRFNW 60
++ NP L KV + TC L+ +Y E +++ +W
Sbjct: 207 KFSNPSPLSKVPFGTCQHFLVANRYLETRSISPIDW 242
>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 = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 8/64 (12%)
Query: 38 STCGVCLLMVKYFENK--TVFRFNWEQVAQGY---WRRYPNPESTHVLSEDIVDQRITDN 92
TCG CL+ V + + + + E++AQGY + YP + ++ E D R+T +
Sbjct: 42 GTCGKCLVRVVDGQKRVESYGKLKQEEIAQGYVLACQTYPE---SDLIIEIPFDSRLTQH 98
Query: 93 KLFT 96
++ T
Sbjct: 99 QIVT 102
>pdb|3I0P|A Chain A, Crystal Structure Of Malate Dehydrogenase From Entamoeba
Histolytica
Length = 365
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 48/115 (41%), Gaps = 11/115 (9%)
Query: 135 TTYTRNIGYTSVMSVIEKVEYKVSDENENWTLAKRSVWIDSKMYGF-SLAIQKFG---LE 190
T+ T+N+ ++ + +V KV + EN + R I + + G + IQ+F ++
Sbjct: 3 TSQTKNVSIDTIKEFMYQVLLKVGSDEENARMV-RDTLIAADLRGMDTHGIQRFKTVYID 61
Query: 191 RYKKNILKMTNGFNFILNAMFPNVLQQNANLASTMSSTNQNFAINPDKLKEKAKK 245
R KK ++ T + I VL N + AI EKAKK
Sbjct: 62 RIKKGMINPTAKPSIIRETSTTCVLDGNNGFGHVNGTIGMKMAI------EKAKK 110
>pdb|1ROV|A Chain A, Lipoxygenase-3 Treated With Cumene Hydroperoxide
Length = 857
Score = 28.5 bits (62), Expect = 4.4, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 105 NAPKWGERFIKTNKIKIVEESICDPKEKTLTTYTRNIGYTSVMSVIEKVEYKVSDE---- 160
N P RF+ EE +P++ L T T +SVIE + SDE
Sbjct: 725 NRPTLSRRFMPEKGSAEYEELRKNPQKAYLKTITPKFQTLIDLSVIEILSRHASDEVYLG 784
Query: 161 ---NENWTLAKRSV 171
N NWT R++
Sbjct: 785 ERDNPNWTSDTRAL 798
>pdb|1IK3|A Chain A, Lipoxygenase-3 (Soybean) Complex With 13(S)-Hydroperoxy-
9(Z),11(E)-Octadecadienoic Acid
pdb|1HU9|A Chain A, Lipoxygenase-3 (Soybean) Complex With 4-Hydroperoxy-2-
Methoxy-Phenol
pdb|1JNQ|A Chain A, Lipoxygenase-3 (Soybean) Complex With Epigallocathechin
(Egc)
pdb|1N8Q|A Chain A, Lipoxygenase In Complex With Protocatechuic Acid
pdb|1NO3|A Chain A, Refined Structure Of Soybean Lipoxygenase-3 With
4-nitrocatechol At 2.15 Angstrom Resolution
pdb|1RRH|A Chain A, Soybean Lipoxygenase (Lox-3) At Ambient Temperatures At
2.0 A Resolution
pdb|1RRL|A Chain A, Soybean Lipoxygenase (Lox-3) At 93k At 2.0 A Resolution
pdb|1RRL|B Chain B, Soybean Lipoxygenase (Lox-3) At 93k At 2.0 A Resolution
pdb|1LNH|A Chain A, Lipoxygenase-3(Soybean) Non-Heme Fe(Ii) Metalloprotein
Length = 857
Score = 28.5 bits (62), Expect = 4.4, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 105 NAPKWGERFIKTNKIKIVEESICDPKEKTLTTYTRNIGYTSVMSVIEKVEYKVSDE---- 160
N P RF+ EE +P++ L T T +SVIE + SDE
Sbjct: 725 NRPTLSRRFMPEKGSAEYEELRKNPQKAYLKTITPKFQTLIDLSVIEILSRHASDEVYLG 784
Query: 161 ---NENWTLAKRSV 171
N NWT R++
Sbjct: 785 ERDNPNWTSDTRAL 798
>pdb|1UDI|E Chain E, Nucleotide Mimicry In The Crystal Structure Of The Uracil-
Dna Glycosylase-Uracil Glycosylase Inhibitor Protein
Complex
pdb|1LAU|E Chain E, Uracil-Dna Glycosylase
pdb|1UDG|A Chain A, The Structural Basis Of Specific Base Excision Repair By
Uracil-Dna Glycosylase
pdb|1UDH|A Chain A, The Structural Basis Of Specific Base Excision Repair By
Uracil-Dna Glycosylase
Length = 244
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 25 RYPNPESLVKVKYSTCGVCLLMVKYFENKTVFRFNW 60
++ +P L KV + TC L+ +Y E +++ +W
Sbjct: 207 KFSHPSPLSKVPFGTCQHFLVANRYLETRSISPIDW 242
>pdb|3B7C|A Chain A, Crystal Structure Of A Ntf-2 Like Protein Of Unknown
Function (So_0125) From Shewanella Oneidensis Mr-1 At
1.70 A Resolution
Length = 122
Score = 27.3 bits (59), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 11 FRFNWEQVAQGYWRRYPNPESLVKVKYS 38
FR W++ Y + YP+ ESL ++K++
Sbjct: 44 FRNGWDETLAAYKKNYPDKESLGELKFT 71
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
0.317 0.131 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,969,491
Number of Sequences: 62578
Number of extensions: 311207
Number of successful extensions: 723
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 718
Number of HSP's gapped (non-prelim): 11
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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: 50 (23.9 bits)