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= psy9775
(133 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4IOY|X Chain X, Structure Of The Spt16 Middle Domain Reveals Functional
Features Of The Histone Chaperone Fact
Length = 285
Score = 105 bits (263), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 50/103 (48%), Positives = 67/103 (65%)
Query: 7 ASMVEHVTKQEIEFDTPFRELGFPGAPYRSTVLLQPTSGCLVNLTEWPPFVISLEDVELV 66
A + + + + FR+LGF G P RS V PT+ CLV L E P VI+LE+VE+
Sbjct: 139 ADAIAEASNGLLTVENTFRDLGFQGVPNRSAVFCMPTTDCLVQLIEPPFLVINLEEVEIC 198
Query: 67 HFERVQFQLKNFDMVFVFKDYHRKVVMINAIPMNMLDHVKEWL 109
ERVQF LKNFDMVFV+KD+++ V IN +P+ LD +K+WL
Sbjct: 199 ILERVQFGLKNFDMVFVYKDFNKPVTHINTVPIESLDFLKQWL 241
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 31.6 bits (70), Expect = 0.14, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 58 ISLEDVELVHFERVQFQLKNFDMVFVFKDYHRK-----VVMINAIPMNMLDHVKE 107
ISLEDV L+ F+ + N+ VF+ ++Y R+ V+ + A P + + + E
Sbjct: 121 ISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIME 175
>pdb|1DMU|A Chain A, Crystal Structure Of The Restriction Endonuclease Bgli
(E.C.3.1.21.4) Bound To Its Dna Recognition Sequence
Length = 299
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 4 ATGASMVEHVTKQEIEFDTPFRELGFPGAPYRSTVLLQPTSGCLVN 49
A G+ + V+++E D RE+G P P +L PT L N
Sbjct: 89 AVGSKLTRLVSQRE---DITVREIGLPTGPDERYLLTSPTIYSLTN 131
>pdb|2PUK|C Chain C, Crystal Srtucture Of The Binary Complex Between
Ferredoxin: Thioredoxin Reductase And Thioredoxin M
pdb|2PUK|G Chain G, Crystal Srtucture Of The Binary Complex Between
Ferredoxin: Thioredoxin Reductase And Thioredoxin M
Length = 106
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 72 QFQLKNFDMVFVFKDYHRKVVMINAIPMNML-DHVKEWL 109
Q+ +++ V FK+ RK +I A+P + L D ++++L
Sbjct: 67 QYNIRSIPTVLFFKNGERKESIIGAVPKSTLTDSIEKYL 105
>pdb|1FB0|A Chain A, Crystal Structure Of Thioredoxin M From Spinach
Chloroplast (Reduced Form)
pdb|1FB0|B Chain B, Crystal Structure Of Thioredoxin M From Spinach
Chloroplast (Reduced Form)
pdb|1FB6|A Chain A, Crystal Structure Of Thioredoxin M From Spinach
Chloroplast (Oxidized Form)
pdb|1FB6|B Chain B, Crystal Structure Of Thioredoxin M From Spinach
Chloroplast (Oxidized Form)
Length = 105
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 72 QFQLKNFDMVFVFKDYHRKVVMINAIPMNML-DHVKEWL 109
Q+ +++ V FK+ RK +I A+P + L D ++++L
Sbjct: 67 QYNIRSIPTVLFFKNGERKESIIGAVPKSTLTDSIEKYL 105
>pdb|1GL8|A Chain A, Solution Structure Of Thioredoxin M From Spinach, Oxidized
Form
Length = 104
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 72 QFQLKNFDMVFVFKDYHRKVVMINAIPMNML-DHVKEWL 109
Q+ +++ V FK+ RK +I A+P + L D ++++L
Sbjct: 66 QYNIRSIPTVLFFKNGERKESIIGAVPKSTLTDSIEKYL 104
>pdb|2PBP|A Chain A, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) From Geobacillus Kaustophilus Hta426
pdb|2QQ3|A Chain A, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|B Chain B, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|C Chain C, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|D Chain D, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|E Chain E, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|F Chain F, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|G Chain G, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|H Chain H, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|I Chain I, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|J Chain J, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|K Chain K, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
pdb|2QQ3|L Chain L, Crystal Structure Of Enoyl-Coa Hydrates Subunit I
(Gk_2039) Other Form From Geobacillus Kaustophilus
Hta426
Length = 258
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 6/55 (10%)
Query: 38 VLLQPTSGCLVNLTEWPPFVISL------EDVELVHFERVQFQLKNFDMVFVFKD 86
+L++ T L E PP + L + V+ +E +QF+ KNF ++F +D
Sbjct: 185 LLMEETMRLAGRLAEQPPLALRLIKEAVQKAVDYPLYEGMQFERKNFYLLFASED 239
>pdb|3CLH|A Chain A, Crystal Structure Of 3-Dehydroquinate Synthase (Dhqs)from
Helicobacter Pylori
pdb|3CLH|B Chain B, Crystal Structure Of 3-Dehydroquinate Synthase (Dhqs)from
Helicobacter Pylori
Length = 343
Score = 25.4 bits (54), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 56 FVISLEDVELVHFERVQFQLKNFDMVFVFK 85
+SL + L +ER++ LK FD++F +K
Sbjct: 262 LALSLGMLTLKEYERIENLLKKFDLIFHYK 291
>pdb|1GOZ|A Chain A, Structural Basis For The Altered T-Cell Receptor Binding
Specificty In A Superantigenic Staphylococcus Aureus
Enterotoxin-B Mutant
pdb|1GOZ|B Chain B, Structural Basis For The Altered T-Cell Receptor Binding
Specificty In A Superantigenic Staphylococcus Aureus
Enterotoxin-B Mutant
Length = 239
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 29 FPGAPYRSTVLLQPTSGCLVNLTEWPPF-----VISLEDVELVHFERVQFQLKNFDMVFV 83
F G VL +N+ F + S++D +L +++ V+ + KN D+
Sbjct: 17 FTGLMENMKVLYDDNHVSAINVKSIDQFLYFDLIYSIKDTKLGNYDNVRVEFKNKDLADK 76
Query: 84 FKDYHRKVVMIN 95
+KD + V N
Sbjct: 77 YKDKYVDVFGAN 88
>pdb|1SEB|D Chain D, Complex Of The Human Mhc Class Ii Glycoprotein Hla-Dr1
And The Bacterial Superantigen Seb
pdb|1SEB|H Chain H, Complex Of The Human Mhc Class Ii Glycoprotein Hla-Dr1
And The Bacterial Superantigen Seb
Length = 234
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 29 FPGAPYRSTVLLQPTSGCLVNLTEWPPF-----VISLEDVELVHFERVQFQLKNFDMVFV 83
F G VL +N+ F + S++D +L +++ V+ + KN D+
Sbjct: 16 FTGLMENMKVLYDDNHVSAINVKSIDQFLYFDLIYSIKDTKLGNYDNVRVEFKNKDLADK 75
Query: 84 FKDYHRKVVMIN 95
+KD + V N
Sbjct: 76 YKDKYVDVFGAN 87
>pdb|2SEB|D Chain D, X-Ray Crystal Structure Of Hla-Dr4 Complexed With A
Peptide From Human Collagen Ii
pdb|1SBB|B Chain B, T-Cell Receptor Beta Chain Complexed With Superantigen
Seb
pdb|1SBB|D Chain D, T-Cell Receptor Beta Chain Complexed With Superantigen
Seb
pdb|1D5M|C Chain C, X-Ray Crystal Structure Of Hla-Dr4 Complexed With
Peptide And Seb
pdb|1D5X|C Chain C, X-ray Crystal Structure Of Hla-dr4 Complexed With
Dipeptide Mimetic And Seb
pdb|1D5Z|C Chain C, X-Ray Crystal Structure Of Hla-Dr4 Complexed With
Peptidomimetic And Seb
pdb|1D6E|C Chain C, Crystal Structure Of Hla-Dr4 Complex With Peptidomimetic
And Seb
pdb|1SE3|A Chain A, Staphylococcal Enterotoxin B Complexed With Gm3
Trisaccharide
pdb|1SE4|A Chain A, Staphylococcal Enterotoxin B Complexed With Lactose
pdb|3R8B|A Chain A, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|C Chain C, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|E Chain E, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|G Chain G, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|I Chain I, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|K Chain K, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|M Chain M, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
pdb|3R8B|O Chain O, Crystal Structure Of Staphylococcal Enterotoxin B In
Complex With An Affinity Matured Mouse Tcr Vbeta8.2
Protein, G5-8
Length = 239
Score = 25.4 bits (54), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 29 FPGAPYRSTVLLQPTSGCLVNLTEWPPF-----VISLEDVELVHFERVQFQLKNFDMVFV 83
F G VL +N+ F + S++D +L +++ V+ + KN D+
Sbjct: 17 FTGLMENMKVLYDDNHVSAINVKSIDQFLYFDLIYSIKDTKLGNYDNVRVEFKNKDLADK 76
Query: 84 FKDYHRKVVMIN 95
+KD + V N
Sbjct: 77 YKDKYVDVFGAN 88
>pdb|3SEB|A Chain A, Staphylococcal Enterotoxin B
Length = 238
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 29 FPGAPYRSTVLLQPTSGCLVNLTEWPPF-----VISLEDVELVHFERVQFQLKNFDMVFV 83
F G VL +N+ F + S++D +L +++ V+ + KN D+
Sbjct: 17 FTGLMENMKVLYDDNHVSAINVKSIDQFLYFDLIYSIKDTKLGNYDNVRVEFKNKDLADK 76
Query: 84 FKDYHRKVVMIN 95
+KD + V N
Sbjct: 77 YKDKYVDVFGAN 88
>pdb|3GP7|A Chain A, Staphylococcal Enterotoxin B Mutant N23yk97sk98s
pdb|3GP7|B Chain B, Staphylococcal Enterotoxin B Mutant N23yk97sk98s
Length = 239
Score = 25.4 bits (54), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 23/39 (58%)
Query: 57 VISLEDVELVHFERVQFQLKNFDMVFVFKDYHRKVVMIN 95
+ S++D +L +++ V+ + KN D+ +KD + V N
Sbjct: 50 IYSIKDTKLGNYDNVRVEFKNKDLADKYKDKYVDVFGAN 88
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
0.325 0.139 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,618,413
Number of Sequences: 62578
Number of extensions: 125743
Number of successful extensions: 496
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 15
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 46 (22.3 bits)