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= psy396
(239 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|R Chain R, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 429
Score = 126 bits (316), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 75/231 (32%), Positives = 119/231 (51%), Gaps = 18/231 (7%)
Query: 5 GGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFESYELAEFGTIIRYTVLACMIA 64
GGDW RN+ K Y G++CLA+R + AA+L VD + TF S EL + +I Y + +
Sbjct: 201 GGDWERRNRYKTYYGIHCLAVRNFKEAAKLLVDSLATFTSIELTSYESIATYASVTGLFT 260
Query: 65 LPRYNLRKKLMHHGVMAQALHSQ--YRDLREYFVSLYDGHYFEFLKCLAAVEQDMKRD-P 121
L R +L+ K++ + + + + + +SLY Y + L ++
Sbjct: 261 LERTDLKSKVIDSPELLSLISTTAALQSISSLTISLYASDYASYFPYLLETYANVLIPCK 320
Query: 122 LLNPHYRHYVQEMRLRAYKQILQAYRSLSLKYMAQCFGVSVEFIEKEVARFAAAGRLQCK 181
LN H +V+EMR + Y Q+L++Y++LSLK MA FGVSV F++ ++ +F +L C
Sbjct: 321 YLNRHADFFVREMRRKVYAQLLESYKTLSLKSMASAFGVSVAFLDNDLGKFIPNKQLNCV 380
Query: 182 IDSVAGNVVTTSHISEKGDCRSEAPEASLDRGILYQTTVKRGDIFLNRLKK 232
ID V G V T P+ ++ Y VK+GD L +L+K
Sbjct: 381 IDRVNGIVETNR------------PD---NKNAQYHLLVKQGDGLLTKLQK 416
>pdb|3BSM|A Chain A, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens
pdb|3BSM|B Chain B, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens
pdb|3BSM|C Chain C, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens
pdb|3BSM|D Chain D, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens
Length = 413
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 155 AQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGI 214
A C G ++E EVAR G ++ S + TT +++ R E ++SL
Sbjct: 123 AHCTGQTIEDCLGEVARHVELGYRAVRVQSGVPGIETTYGVAKTPGERYEPADSSLPAEH 182
Query: 215 LYQTTVKRGDIFLNRLKKL 233
++ T + +LN KL
Sbjct: 183 VWST-----EKYLNHAPKL 196
>pdb|3OW1|A Chain A, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|B Chain B, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|C Chain C, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|D Chain D, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|E Chain E, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|F Chain F, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|G Chain G, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3OW1|H Chain H, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg
pdb|3P93|A Chain A, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|B Chain B, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|C Chain C, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|D Chain D, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|E Chain E, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|F Chain F, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|G Chain G, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3P93|H Chain H, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
Mg,D-Mannonate And 2-Keto-3-Deoxy-D- Gluconate
pdb|3PK7|A Chain A, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|B Chain B, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|C Chain C, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|D Chain D, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|E Chain E, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|F Chain F, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|G Chain G, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3PK7|H Chain H, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens With Mg And Glycerol Bound
In The Active Site
pdb|3QKE|A Chain A, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|B Chain B, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|C Chain C, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|D Chain D, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|E Chain E, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|F Chain F, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|G Chain G, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3QKE|H Chain H, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With Mg And
D-Gluconate
pdb|3RGT|A Chain A, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
D-Arabinohydroxamate
pdb|3RGT|B Chain B, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
D-Arabinohydroxamate
pdb|3RGT|C Chain C, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
D-Arabinohydroxamate
pdb|3RGT|D Chain D, Crystal Structure Of D-Mannonate Dehydratase From
Chromohalobacter Salexigens Complexed With
D-Arabinohydroxamate
Length = 405
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 155 AQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGI 214
A C G ++E EVAR G ++ S + TT +++ R E ++SL
Sbjct: 123 AHCTGQTIEDCLGEVARHVELGYRAVRVQSGVPGIETTYGVAKTPGERYEPADSSLPAEH 182
Query: 215 LYQTTVKRGDIFLNRLKKL 233
++ T + +LN KL
Sbjct: 183 VWST-----EKYLNHAPKL 196
>pdb|3QKF|A Chain A, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|B Chain B, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|C Chain C, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|D Chain D, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|E Chain E, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|F Chain F, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|G Chain G, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
pdb|3QKF|H Chain H, Crystal Structure Of The Mutant P317a Of D-Mannonate
Dehydratase From Chromohalobacter Salexigens Complexed
With Mg And D-Gluconate
Length = 405
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 155 AQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGI 214
A C G ++E EVAR G ++ S + TT +++ R E ++SL
Sbjct: 123 AHCTGQTIEDCLGEVARHVELGYRAVRVQSGVPGIETTYGVAKTPGERYEPADSSLPAEH 182
Query: 215 LYQTTVKRGDIFLNRLKKL 233
++ T + +LN KL
Sbjct: 183 VWST-----EKYLNHAPKL 196
>pdb|4F4R|A Chain A, Crystal Structure Of D-Mannonate Dehydratase Homolog From
Chromohalobacter Salexigens (Target Efi-502114), With
Bound Na, Ordered Loop
Length = 426
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 5/79 (6%)
Query: 155 AQCFGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRSEAPEASLDRGI 214
A C G ++E EVAR G ++ S + TT +++ R E ++SL
Sbjct: 144 AHCTGQTIEDCLGEVARHVELGYRAVRVQSGVPGIETTYGVAKTPGERYEPADSSLPAEH 203
Query: 215 LYQTTVKRGDIFLNRLKKL 233
++ T + +LN KL
Sbjct: 204 VWST-----EKYLNHAPKL 217
>pdb|2V4V|A Chain A, Crystal Structure Of A Family 6 Carbohydrate-Binding
Module From Clostridium Cellulolyticum In Complex With
Xylose
Length = 129
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 24/46 (52%)
Query: 158 FGVSVEFIEKEVARFAAAGRLQCKIDSVAGNVVTTSHISEKGDCRS 203
FG V + VA + G ++ ++DS G ++ T ++ GD ++
Sbjct: 46 FGDGVGGFQARVASATSGGNIEIRLDSSTGTLIGTCPVAGTGDWQT 91
>pdb|1FZV|A Chain A, The Crystal Structure Of Human Placenta Growth Factor-1
(Plgf-1), An Angiogenic Protein At 2.0a Resolution
pdb|1FZV|B Chain B, The Crystal Structure Of Human Placenta Growth Factor-1
(Plgf-1), An Angiogenic Protein At 2.0a Resolution
Length = 132
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 2 SISGGDWSARNKLKAYEGVYCLAIRQYCRAAELFVDVVPTFES 44
++S G+ S+ ++ ++ V+ R YCRA E VDVV + S
Sbjct: 11 ALSAGNGSSEVEVVPFQEVW---GRSYCRALERLVDVVSEYPS 50
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
0.326 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,758,012
Number of Sequences: 62578
Number of extensions: 254690
Number of successful extensions: 602
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 597
Number of HSP's gapped (non-prelim): 10
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 50 (23.9 bits)