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= 025619
(250 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XQ6|A Chain A, X-ray Structure Of Gene Product From Arabidopsis Thaliana
At5g02240
pdb|1XQ6|B Chain B, X-ray Structure Of Gene Product From Arabidopsis Thaliana
At5g02240
pdb|1YBM|A Chain A, X-Ray Structure Of Selenomethionyl Gene Product From
Arabidopsis Thaliana At5g02240 In Space Group P21212
pdb|1YBM|B Chain B, X-Ray Structure Of Selenomethionyl Gene Product From
Arabidopsis Thaliana At5g02240 In Space Group P21212
pdb|2Q46|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g02240
pdb|2Q46|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g02240
pdb|2Q4B|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Selenomethionyl Gene Product From Arabidopsis Thaliana
At5g02240 In Space Group P21212
pdb|2Q4B|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Selenomethionyl Gene Product From Arabidopsis Thaliana
At5g02240 In Space Group P21212
Length = 253
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 72/149 (48%), Gaps = 24/149 (16%)
Query: 109 SRLLLRDPEKATTLFGKQDEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGTTAFPSRR 168
++ L+R + + G+ D V GD + ++PA F+G+ ++ T +A P +
Sbjct: 33 AKGLVRSAQGKEKIGGEAD-----VFIGDITDADSINPA-FQGIDALVILT--SAVPKMK 84
Query: 169 --------------WDGDNTPEKVDWEGVRNLVSALP-SSLKRIVLVSSVGVTKFNELPW 213
++ PE+VDW G +N + A + +K IV+V S+G T + P
Sbjct: 85 PGFDPTKGGRPEFIFEDGQYPEQVDWIGQKNQIDAAKVAGVKHIVVVGSMGGTNPDH-PL 143
Query: 214 SIMNLFGVLKYKKMGEDFVQKSGLPFTII 242
+ + +L +K+ E ++ SG P+TII
Sbjct: 144 NKLGNGNILVWKRKAEQYLADSGTPYTII 172
>pdb|3E8X|A Chain A, Putative Nad-Dependent EpimeraseDEHYDRATASE FROM BACILLUS
HALODURANS
Length = 236
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 180 WEGVRNLVSALPSSLKRIVLVSSVGVTKFNELPWSIMNLFGVLKYKKMGEDFVQKSGLPF 239
W ++ + A +KR + VSSVG ++ P N L K++ +D +++S L +
Sbjct: 109 WGAIKTIQEAEKRGIKRFIXVSSVGTVDPDQGP---XNXRHYLVAKRLADDELKRSSLDY 165
Query: 240 TII 242
TI+
Sbjct: 166 TIV 168
>pdb|3O6Y|X Chain X, Robust Computational Design, Optimization, And Structural
Characterization Of Retroaldol Enzymes
pdb|3UD6|A Chain A, Structural Analyses Of Covalent Enzyme-Substrate Analogue
Complexes Reveal Strengths And Limitations Of De Novo
Enzyme Design
Length = 258
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 14/72 (19%)
Query: 140 NPKDLDPAIFEGVTHVICCTGTTAFPSRRWDGDNTPEKVDWEGVRNLVSALPSSLKRIVL 199
+ DLD A+ G + C SR W+ T E ++ E R L+S +PS+ +V
Sbjct: 162 DENDLDIALRIGARFIGIC-------SRDWE---TLE-INKENQRKLISMIPSN---VVK 207
Query: 200 VSSVGVTKFNEL 211
V+S G+++ NE+
Sbjct: 208 VASTGISERNEI 219
>pdb|3NXF|A Chain A, Robust Computational Design, Optimization, And Structural
Characterization Of Retroaldol Enzymes
Length = 258
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 38/72 (52%), Gaps = 14/72 (19%)
Query: 140 NPKDLDPAIFEGVTHVICCTGTTAFPSRRWDGDNTPEKVDWEGVRNLVSALPSSLKRIVL 199
+ DLD A+ G + C SR W+ T E ++ E R L+S +PS+ +V
Sbjct: 162 DENDLDIALRIGARFIGIC-------SRDWE---TLE-INKENQRKLISMIPSN---VVK 207
Query: 200 VSSVGVTKFNEL 211
V+S G+++ NE+
Sbjct: 208 VASTGISERNEI 219
>pdb|4IJB|A Chain A, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or288
Length = 256
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 3/43 (6%)
Query: 169 WDGDNTPEKVDWEGVRNLVSALPSSLKRIVLVSSVGVTKFNEL 211
W DN +++ E R L+S +PS+ +V V+ G+++ NE+
Sbjct: 180 WSQDNETLEINKENQRKLISXIPSN---VVKVAGGGISERNEI 219
>pdb|1UX5|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Flexibly Tethered Dimer Architecture
Length = 411
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 174 TPEKVDWEGVRNLVSALP 191
P DWEGVRNL A P
Sbjct: 133 APYSTDWEGVRNLEDAKP 150
>pdb|1Y64|B Chain B, Bni1p Formin Homology 2 Domain Complexed With Atp-actin
Length = 443
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 174 TPEKVDWEGVRNLVSALP 191
P DWEGVRNL A P
Sbjct: 156 APYSTDWEGVRNLEDAKP 173
>pdb|1UX4|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
pdb|1UX4|B Chain B, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
Length = 410
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 174 TPEKVDWEGVRNLVSALP 191
P DWEGVRNL A P
Sbjct: 127 APYSTDWEGVRNLEDAKP 144
>pdb|2RH8|A Chain A, Structure Of Apo Anthocyanidin Reductase From Vitis
Vinifera
pdb|3HFS|A Chain A, Structure Of Apo Anthocyanidin Reductase From Vitis
Vinifera
pdb|3HFS|B Chain B, Structure Of Apo Anthocyanidin Reductase From Vitis
Vinifera
Length = 338
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 45/104 (43%), Gaps = 8/104 (7%)
Query: 113 LRDPE---KATTLFGKQDEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGTTAFPSRRW 169
+RDP+ K + L Q+ L++ + D + + I G V F S
Sbjct: 40 VRDPDNQKKVSHLLELQELGDLKIFRADLTDELSFEAPI-AGCDFVFHVATPVHFASE-- 96
Query: 170 DGDNTPEKVDWEGVRNLVSAL--PSSLKRIVLVSSVGVTKFNEL 211
D +N K +GV N++ A S+KR++L SS N+L
Sbjct: 97 DPENDMIKPAIQGVVNVMKACTRAKSVKRVILTSSAAAVTINQL 140
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
0.319 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,392,163
Number of Sequences: 62578
Number of extensions: 226292
Number of successful extensions: 386
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 382
Number of HSP's gapped (non-prelim): 9
length of query: 250
length of database: 14,973,337
effective HSP length: 96
effective length of query: 154
effective length of database: 8,965,849
effective search space: 1380740746
effective search space used: 1380740746
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)