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= 020037
(332 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 = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 62/221 (28%), Positives = 105/221 (47%), Gaps = 42/221 (19%)
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 SIMNLFGVLKYKKMGEDFVQKSGLPFTIIRAGRLTDGPYTSYDLNTLLKATAGERRAVLM 273
+ + +L +K+ E ++ SG P+TIIRAG L D G R +L+
Sbjct: 144 NKLGNGNILVWKRKAEQYLADSGTPYTIIRAGGLLD--------------KEGGVRELLV 189
Query: 274 GQGDKLI----GEVSRIVVAEACIQALDIEFTEGEIYEINS 310
G+ D+L+ V R VAE CIQAL E + + +++ S
Sbjct: 190 GKDDELLQTDTKTVPRADVAEVCIQALLFEEAKNKAFDLGS 230
>pdb|3QVO|A Chain A, Structure Of A Rossmann-Fold Nad(P)-Binding Family Protein
From Shigella Flexneri
Length = 236
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 60/123 (48%), Gaps = 16/123 (13%)
Query: 174 TPEKVDWEGVRNLVSALPSSLKRIVLVSSVGVTKFNELP-----WSIMNLFGVLKYKKMG 228
T E +D + + + +KR++ V S+G+ ++E+P W+ + LK +
Sbjct: 97 TGEDLDIQANSVIAAXKACDVKRLIFVLSLGI--YDEVPGKFVEWNNAVIGEPLKPFRRA 154
Query: 229 EDFVQKSGLPFTIIRAGRLTDGPYTSYDL---NTLLKATAGERRAV------LMGQGDKL 279
D ++ SGL +TI+R LTD Y+L N K T R++V ++ + +K
Sbjct: 155 ADAIEASGLEYTILRPAWLTDEDIIDYELTSRNEPFKGTIVSRKSVAALITDIIDKPEKH 214
Query: 280 IGE 282
IGE
Sbjct: 215 IGE 217
>pdb|3E8X|A Chain A, Putative Nad-Dependent EpimeraseDEHYDRATASE FROM BACILLUS
HALODURANS
Length = 236
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 38/70 (54%), Gaps = 3/70 (4%)
Query: 180 WEGVRNLVSALPSSLKRIVLVSSVGVTKFNELPWSIMNLFGVLKYKKMGEDFVQKSGLPF 239
W ++ + A +KR + VSSVG ++ P N L K++ +D +++S L +
Sbjct: 109 WGAIKTIQEAEKRGIKRFIXVSSVGTVDPDQGP---XNXRHYLVAKRLADDELKRSSLDY 165
Query: 240 TIIRAGRLTD 249
TI+R G L++
Sbjct: 166 TIVRPGPLSN 175
>pdb|4HNG|A Chain A, The Crystal Structure Of A Short-Chain
DehydrogenasesREDUCTASE (WIDE Type) From Veillonella
Parvula Dsm 2008
pdb|4HNH|A Chain A, The Crystal Structure Of A Short-Chain
DehydrogenasesREDUCTASE (WIDE Type) From Veillonella
Parvula Dsm 2008 In Complex With Nadp
pdb|4HNH|B Chain B, The Crystal Structure Of A Short-Chain
DehydrogenasesREDUCTASE (WIDE Type) From Veillonella
Parvula Dsm 2008 In Complex With Nadp
Length = 221
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 70/164 (42%), Gaps = 38/164 (23%)
Query: 112 LLRDPEKATTLFGKQ----------DEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGT 161
LL + TL+G+Q D E + V +G +NP L+ A+
Sbjct: 25 LLTYTDMHITLYGRQLKTRIPPEIIDHERVTVIEGSFQNPGKLEQAV---------TNAE 75
Query: 162 TAFPSRRWDGDNTPEKVDWEGVRNLVSALP-SSLKRIVLVSSVGVTKFNELP-----WSI 215
F G + + ++V AL +++R++ VS G++ E P W+
Sbjct: 76 VVFVGAMESGSD---------MASIVKALSRKNIRRVIGVSMAGLS--GEFPVALEKWTF 124
Query: 216 MNL-FGVLKYKKMGEDFVQKSGLPFTIIRAGRLTDGP-YTSYDL 257
NL ++ ++ + +++S L +TI+R L + P T Y+L
Sbjct: 125 DNLPISYVQGERQARNVLRESNLNYTILRLTWLYNDPEKTDYEL 168
>pdb|3R6D|A Chain A, Crystal Structure Of Nad-Dependent EpimeraseDEHYDRATASE
FROM Veillonella Parvula Dsm 2008 With Cz-Methylated
Lysine
Length = 221
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 66/155 (42%), Gaps = 38/155 (24%)
Query: 121 TLFGKQ----------DEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGTTAFPSRRWD 170
TL+G+Q D E + V +G +NP L+ A+ F
Sbjct: 34 TLYGRQLKTRIPPEIIDHERVTVIEGSFQNPGXLEQAV---------TNAEVVFVGAXES 84
Query: 171 GDNTPEKVDWEGVRNLVSALP-SSLKRIVLVSSVGVTKFNELP-----WSIMNL-FGVLK 223
G + ++V AL +++R++ VS G++ E P W+ NL ++
Sbjct: 85 GSDXA---------SIVKALSRXNIRRVIGVSXAGLS--GEFPVALEKWTFDNLPISYVQ 133
Query: 224 YKKMGEDFVQKSGLPFTIIRAGRLTDGP-YTSYDL 257
++ + +++S L +TI+R L + P T Y+L
Sbjct: 134 GERQARNVLRESNLNYTILRLTWLYNDPEXTDYEL 168
>pdb|4IPT|A Chain A, The Crystal Structure Of A Short-chain
Dehydrogenases/reductase (ethylated) From Veillonella
Parvula Dsm 2008
Length = 221
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 66/155 (42%), Gaps = 38/155 (24%)
Query: 121 TLFGKQ----------DEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGTTAFPSRRWD 170
TL+G+Q D E + V +G +NP L+ A+ F
Sbjct: 34 TLYGRQLXTRIPPEIIDHERVTVIEGSFQNPGKLEQAV---------TNAEVVFVGAXES 84
Query: 171 GDNTPEKVDWEGVRNLVSALP-SSLKRIVLVSSVGVTKFNELP-----WSIMNL-FGVLK 223
G + ++V AL +++R++ VS G++ E P W+ NL ++
Sbjct: 85 GSDXA---------SIVKALSRKNIRRVIGVSXAGLS--GEFPVALEKWTFDNLPISYVQ 133
Query: 224 YKKMGEDFVQKSGLPFTIIRAGRLTDGP-YTSYDL 257
++ + +++S L +TI+R L + P T Y+L
Sbjct: 134 GERQARNVLRESNLNYTILRLTWLYNDPEKTDYEL 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 = 29.3 bits (64), Expect = 3.2, 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 = 29.3 bits (64), Expect = 3.3, 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 = 28.9 bits (63), Expect = 4.3, 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|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 = 28.1 bits (61), Expect = 7.8, 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
0.316 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,837,569
Number of Sequences: 62578
Number of extensions: 330946
Number of successful extensions: 647
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 11
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)