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= 042210
(230 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M7I|A Chain A, Crystal Structure Of Transketolase In Complex With
Thiamine Diphosphate, Ribose-5-Phosphate(Pyranose Form)
And Magnesium Ion
pdb|3M34|A Chain A, Crystal Structure Of Transketolase In Complex With Thiamin
D And Calcium Ion
pdb|3M6L|A Chain A, Crystal Structure Of Transketolase In Complex With
Thiamine Diphosphate, Ribose-5-Phosphate And Calcium Ion
Length = 635
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 124 YCLCGEVDMARGIFYMSCEDDDGLHEL 150
YCLCG+ D+ GI Y +C GLH+L
Sbjct: 150 YCLCGDGDLQEGISYEAC-SLAGLHKL 175
>pdb|3L84|A Chain A, High Resolution Crystal Structure Of Transketolase From
Campylobacter Jejuni Subsp. Jejuni Nctc 11168
Length = 632
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 124 YCLCGEVDMARGIFYMSCEDDDGLHEL 150
YCLCG+ D+ GI Y +C GLH+L
Sbjct: 147 YCLCGDGDLQEGISYEAC-SLAGLHKL 172
>pdb|3GYU|A Chain A, Nuclear Receptor Daf-12 From Parasitic Nematode
Strongyloides Stercoralis In Complex With Its
Physiological Ligand Dafachronic Acid Delta 7
Length = 244
Score = 30.4 bits (67), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 13/47 (27%)
Query: 54 LWNTMIKGYSRI-------------DSHKNGVLMYLDLLKSDVRRDN 87
+W T + G+S+I D+ K G L + +LL SDVR+++
Sbjct: 101 VWQTPVDGHSQISFNXFDKLRPDIKDTQKKGFLHFFNLLHSDVRKND 147
>pdb|3GYT|A Chain A, Nuclear Receptor Daf-12 From Parasitic Nematode
Strongyloides Stercoralis In Complex With Its
Physiological Ligand Dafachronic Acid Delta 4
Length = 244
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 13/47 (27%)
Query: 54 LWNTMIKGYSRI-------------DSHKNGVLMYLDLLKSDVRRDN 87
+W T + G+S+I D+ K G L + +LL SDVR+++
Sbjct: 101 VWQTPVDGHSQISFNMFDKLRPDIKDTQKKGFLHFFNLLHSDVRKND 147
>pdb|3VMV|A Chain A, Crystal Structure Of Pectate Lyase Bsp165pela From
Bacillus Sp. N165
pdb|3VMW|A Chain A, Crystal Structure Of Pectate Lyase Bsp165pela From
Bacillus Sp. N165 In Complex With Trigalacturonate
Length = 326
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 13/89 (14%)
Query: 55 WNTMIKGYS--------RIDSHKNGVLMYLDLLKSDVRRDNYTFPFLFKGFTRDIAGSLE 106
W TM+ G++ +I H N Y + L S V Y +F + +DI +
Sbjct: 176 WKTMLVGHTDNASLAPDKITYHHN----YFNNLNSRVPLIRYADVHMFNNYFKDINDTAI 231
Query: 107 KSCIVMRVFVQNALISTYCLCGEVDMARG 135
S + RVFV+N G+ D G
Sbjct: 232 NSRVGARVFVENNYFDN-VGSGQADPTTG 259
>pdb|3H4P|AA Chain a, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|BB Chain b, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|CC Chain c, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|DD Chain d, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|EE Chain e, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|FF Chain f, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|GG Chain g, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|HH Chain h, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|II Chain i, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|JJ Chain j, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|KK Chain k, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|LL Chain l, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|MM Chain m, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
pdb|3H4P|NN Chain n, Proteasome 20s Core Particle From Methanocaldococcus
Jannaschii
Length = 219
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%)
Query: 40 ECKVFRKITQPSVFLWNTMIKGYSRIDSHKNGVLMYLDLLKSDVRRDNYT 89
E K F S + + GY R S + G+ + L+ LKS + RD ++
Sbjct: 124 EEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFS 173
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
0.322 0.140 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,078,008
Number of Sequences: 62578
Number of extensions: 295642
Number of successful extensions: 451
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 448
Number of HSP's gapped (non-prelim): 7
length of query: 230
length of database: 14,973,337
effective HSP length: 96
effective length of query: 134
effective length of database: 8,965,849
effective search space: 1201423766
effective search space used: 1201423766
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)