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= psy1847
(86 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3R7P|A Chain A, Tapping Natural Reserviors Of Homology Endonucleases For
Targeted Gene Modification
Length = 315
Score = 29.3 bits (64), Expect = 0.58, Method: Composition-based stats.
Identities = 17/70 (24%), Positives = 37/70 (52%), Gaps = 2/70 (2%)
Query: 1 MEDESLFTEHFDKHPIIILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAAASIQLKG 60
+++ + HFDK+P+I K + + Y+ + + +++++ L L AS+ L G
Sbjct: 89 LKELEVVINHFDKYPLITQKRADYLLFKKAF-YLIKNKEHLTEEGLNQILTLKASLNL-G 146
Query: 61 LTQNVKAETP 70
L++ +K P
Sbjct: 147 LSEELKEAFP 156
>pdb|4EFJ|A Chain A, Crystal Structure Of I-Gzemii Laglidadg Homing
Endonuclease In Complex With Dna Target Site
pdb|4EFJ|B Chain B, Crystal Structure Of I-Gzemii Laglidadg Homing
Endonuclease In Complex With Dna Target Site
Length = 300
Score = 27.3 bits (59), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 41/92 (44%), Gaps = 13/92 (14%)
Query: 1 MEDESLFTEHFDKHPIIILKDIKFTELQSMIDYMYEGE---VNISQDQLPSFLKAAASIQ 57
++D S+ HFDK+ +I K F + +I+ + E + L + AS+
Sbjct: 78 LKDISIIISHFDKYNLITQKKADFELFKKIINKLNSQEHLSYEVGATVLQEIISIRASMN 137
Query: 58 LKGLTQNVKAETP---------LENAAKPLPQ 80
L GL+ +VK + P +EN P P+
Sbjct: 138 L-GLSSSVKEDFPHIIPSNRPLIENMNIPHPE 168
>pdb|3Q0B|X Chain X, Crystal Structure Of Suvh5 Sra- Fully Methylated Cg Dna
Complex In Space Group P42212
Length = 167
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 20/28 (71%), Gaps = 3/28 (10%)
Query: 13 KHPIIILKDIKFTELQSMI---DYMYEG 37
K+P+ +++ IK T LQS + +Y+Y+G
Sbjct: 102 KNPVRVIRGIKNTTLQSSVVAKNYVYDG 129
>pdb|3Q0C|X Chain X, Crystal Structure Of Suvh5 Sra-Fully Methylated Cg Dna
Complex In Space Group P6122
pdb|3Q0C|A Chain A, Crystal Structure Of Suvh5 Sra-Fully Methylated Cg Dna
Complex In Space Group P6122
pdb|3Q0F|X Chain X, Crystal Structure Of Suvh5 Sra- Methylated Chh Dna Complex
pdb|3Q0F|A Chain A, Crystal Structure Of Suvh5 Sra- Methylated Chh Dna Complex
pdb|3Q0D|X Chain X, Crystal Structure Of Suvh5 Sra- Hemi Methylated Cg Dna
Complex
pdb|3Q0D|A Chain A, Crystal Structure Of Suvh5 Sra- Hemi Methylated Cg Dna
Complex
Length = 167
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 20/28 (71%), Gaps = 3/28 (10%)
Query: 13 KHPIIILKDIKFTELQSMI---DYMYEG 37
K+P+ +++ IK T LQS + +Y+Y+G
Sbjct: 102 KNPVRVIRGIKNTTLQSSVVAKNYVYDG 129
>pdb|3LE2|A Chain A, Structure Of Arabidopsis Atserpin1. Native Stressed
Conforma
Length = 393
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 12/57 (21%), Positives = 29/57 (50%)
Query: 30 MIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKAETPLENAAKPLPQVNSEKG 86
++ + G ++DQ+ SFLK +++ QL + + + + +A P+++ G
Sbjct: 43 VLSIIAAGSAGATKDQILSFLKFSSTDQLNSFSSEIVSAVLADGSANGGPKLSVANG 99
>pdb|2PPI|A Chain A, Structure Of The Btb (Tramtrack And Bric A Brac) Domain Of
Human Gigaxonin
Length = 144
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 9/37 (24%), Positives = 24/37 (64%)
Query: 17 IILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAA 53
I L+ I ++ ++DY++ G++ +++D + ++AA
Sbjct: 91 IELEGISVMVMREILDYIFSGQIRLNEDTIQDVVQAA 127
>pdb|3DBV|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|3DBV|P Chain P, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|3DBV|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|3DBV|R Chain R, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|4DBV|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
pdb|4DBV|P Chain P, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
pdb|4DBV|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
pdb|4DBV|R Chain R, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Leu
33 Replaced By Thr, Thr 34 Replaced By Gly, Asp 36
Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
Length = 334
Score = 25.8 bits (55), Expect = 6.1, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 29 SMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKAETPL 71
S++D + E E ++ +++ + LKAAA +LKG+ +E PL
Sbjct: 239 SVVDLVAELEKEVTVEEVNAALKAAAEGELKGIL--AYSEEPL 279
>pdb|1DBV|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|1DBV|P Chain P, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|1DBV|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|1DBV|R Chain R, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nad+
pdb|2DBV|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
pdb|2DBV|P Chain P, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
pdb|2DBV|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
pdb|2DBV|R Chain R, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Asp
32 Replaced By Gly, Leu 187 Replaced By Ala, And Pro 188
Replaced By Ser Complexed With Nadp+
Length = 334
Score = 25.8 bits (55), Expect = 6.2, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 29 SMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKAETPL 71
S++D + E E ++ +++ + LKAAA +LKG+ +E PL
Sbjct: 239 SVVDLVAELEKEVTVEEVNAALKAAAEGELKGIL--AYSEEPL 279
>pdb|1GD1|O Chain O, Structure Of Holo-Glyceraldehyde-3-Phosphate Dehydrogenase
From Bacillus Stearothermophilus At 1.8 Angstroms
Resolution
pdb|1GD1|P Chain P, Structure Of Holo-Glyceraldehyde-3-Phosphate Dehydrogenase
From Bacillus Stearothermophilus At 1.8 Angstroms
Resolution
pdb|1GD1|Q Chain Q, Structure Of Holo-Glyceraldehyde-3-Phosphate Dehydrogenase
From Bacillus Stearothermophilus At 1.8 Angstroms
Resolution
pdb|1GD1|R Chain R, Structure Of Holo-Glyceraldehyde-3-Phosphate Dehydrogenase
From Bacillus Stearothermophilus At 1.8 Angstroms
Resolution
pdb|2GD1|O Chain O, Coenzyme-Induced Conformational Changes In
Glyceraldehyde-3- Phosphate Dehydrogenase From Bacillus
Stearothermophillus
pdb|2GD1|P Chain P, Coenzyme-Induced Conformational Changes In
Glyceraldehyde-3- Phosphate Dehydrogenase From Bacillus
Stearothermophillus
pdb|2GD1|Q Chain Q, Coenzyme-Induced Conformational Changes In
Glyceraldehyde-3- Phosphate Dehydrogenase From Bacillus
Stearothermophillus
pdb|2GD1|R Chain R, Coenzyme-Induced Conformational Changes In
Glyceraldehyde-3- Phosphate Dehydrogenase From Bacillus
Stearothermophillus
pdb|3CMC|O Chain O, Thioacylenzyme Intermediate Of Bacillus Stearothermophilus
Phosphorylating Gapdh
pdb|3CMC|P Chain P, Thioacylenzyme Intermediate Of Bacillus Stearothermophilus
Phosphorylating Gapdh
pdb|3CMC|Q Chain Q, Thioacylenzyme Intermediate Of Bacillus Stearothermophilus
Phosphorylating Gapdh
pdb|3CMC|R Chain R, Thioacylenzyme Intermediate Of Bacillus Stearothermophilus
Phosphorylating Gapdh
Length = 334
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 29 SMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKAETPL 71
S++D + E E ++ +++ + LKAAA +LKG+ +E PL
Sbjct: 239 SVVDLVAELEKEVTVEEVNAALKAAAEGELKGIL--AYSEEPL 279
>pdb|1NQ5|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+
pdb|1NQ5|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+
pdb|1NQ5|A Chain A, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+
pdb|1NQ5|C Chain C, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+
pdb|1NQO|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+ And
D-Glyceraldehyde-3-Phosphate
pdb|1NQO|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+ And
D-Glyceraldehyde-3-Phosphate
pdb|1NQO|A Chain A, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+ And
D-Glyceraldehyde-3-Phosphate
pdb|1NQO|C Chain C, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ser Complexed With Nad+ And
D-Glyceraldehyde-3-Phosphate
Length = 334
Score = 25.8 bits (55), Expect = 7.2, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 29 SMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKAETPL 71
S++D + E E ++ +++ + LKAAA +LKG+ +E PL
Sbjct: 239 SVVDLVAELEKEVTVEEVNAALKAAAEGELKGIL--AYSEEPL 279
>pdb|1NPT|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+
pdb|1NPT|P Chain P, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+
pdb|1NPT|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+
pdb|1NPT|R Chain R, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+
pdb|1NQA|O Chain O, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+ And D-
Glyceraldehyde-3-Phosphate
pdb|1NQA|P Chain P, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+ And D-
Glyceraldehyde-3-Phosphate
pdb|1NQA|Q Chain Q, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+ And D-
Glyceraldehyde-3-Phosphate
pdb|1NQA|R Chain R, Glyceraldehyde-3-Phosphate Dehydrogenase Mutant With Cys
149 Replaced By Ala Complexed With Nad+ And D-
Glyceraldehyde-3-Phosphate
Length = 334
Score = 25.4 bits (54), Expect = 7.3, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 27/43 (62%), Gaps = 2/43 (4%)
Query: 29 SMIDYMYEGEVNISQDQLPSFLKAAASIQLKGLTQNVKAETPL 71
S++D + E E ++ +++ + LKAAA +LKG+ +E PL
Sbjct: 239 SVVDLVAELEKEVTVEEVNAALKAAAEGELKGIL--AYSEEPL 279
>pdb|3HVE|B Chain B, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Gigaxoninbtb3-Box
Length = 256
Score = 25.0 bits (53), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 9/37 (24%), Positives = 23/37 (62%)
Query: 17 IILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAA 53
I L+ I + ++DY++ G++ +++D + ++AA
Sbjct: 75 IELEGISVXVXREILDYIFSGQIRLNEDTIQDVVQAA 111
>pdb|3HVE|A Chain A, Structures Of Spop-Substrate Complexes: Insights Into
Molecular Architectures Of Btb-Cul3 Ubiquitin Ligases:
Gigaxoninbtb3-Box
Length = 256
Score = 25.0 bits (53), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 9/37 (24%), Positives = 23/37 (62%)
Query: 17 IILKDIKFTELQSMIDYMYEGEVNISQDQLPSFLKAA 53
I L+ I + ++DY++ G++ +++D + ++AA
Sbjct: 75 IELEGISVXVXREILDYIFSGQIRLNEDTIQDVVQAA 111
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
0.312 0.130 0.353
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,269,070
Number of Sequences: 62578
Number of extensions: 70775
Number of successful extensions: 161
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 151
Number of HSP's gapped (non-prelim): 15
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)