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= 041159
(356 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FJ0|A Chain A, Crystal Structure Of Juvenile Hormone Esterase From
Manduca Sexta, With Otfp Covalently Attached
Length = 551
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 138 LKYHGFLSLNSTDIPGGYSMVDFKRFLR 165
L +GFLSLNST +PG + D L+
Sbjct: 155 LNVYGFLSLNSTSVPGNAGLRDMVTLLK 182
>pdb|2H5E|A Chain A, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3
pdb|2H5E|B Chain B, Crystal Structure Of E.Coli Polypeptide Release Factor Rf3
pdb|2O0F|A Chain A, Docking Of The Modified Rf3 X-Ray Structure Into Cryo-Em
Map Of E.Coli 70s Ribosome Bound With Rf3
pdb|3ZVO|Y Chain Y, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3SFS|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
Length = 529
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 46/118 (38%), Gaps = 22/118 (18%)
Query: 129 HCFPAAVIGLKYHGFLSLNSTDIPGGYSMVDFK----------RFLREAYSLK----IKN 174
+P ++GL HG + + T G M+ F R +R LK +K
Sbjct: 358 EAYPGDILGLHNHGTIQIGDTFTQG--EMMKFTGIPNFAPELFRRIRLKDPLKQKQLLKG 415
Query: 175 VSEIQREKPVLIFISRGNSRKFLNEDEMVVMIEELGFQVVVTRPNRMSNLNKFTEVVN 232
+ ++ E V +F R N D +V + L F VVV R N+ E VN
Sbjct: 416 LVQLSEEGAVQVF------RPISNNDLIVGAVGVLQFDVVVARLKSEYNVEAVYESVN 467
>pdb|3UOQ|W Chain W, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
Length = 534
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 46/118 (38%), Gaps = 22/118 (18%)
Query: 129 HCFPAAVIGLKYHGFLSLNSTDIPGGYSMVDFK----------RFLREAYSLK----IKN 174
+P ++GL HG + + T G M+ F R +R LK +K
Sbjct: 358 EAYPGDILGLHNHGTIQIGDTFTQG--EMMKFTGIPNFAPELFRRIRLKDPLKQKQLLKG 415
Query: 175 VSEIQREKPVLIFISRGNSRKFLNEDEMVVMIEELGFQVVVTRPNRMSNLNKFTEVVN 232
+ ++ E V +F R N D +V + L F VVV R N+ E VN
Sbjct: 416 LVQLSEEGAVQVF------RPISNNDLIVGAVGVLQFDVVVARLKSEYNVEAVYESVN 467
>pdb|1E4I|A Chain A, 2-Deoxy-2-Fluoro-Beta-D-GlucosylENZYME INTERMEDIATE
Complex Of The Beta-Glucosidase From Bacillus Polymyxa
Length = 447
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 27 SKLALDYVTPVQIVNGDADHLPACHFIH-DVPAVVFSTGGFAGNQ----FHEFNELIIPL 81
++ LDY V + D P C H D+P + GG+ + F +F E +
Sbjct: 93 NQKGLDYYHRVVDLLNDNGIEPFCTLYHWDLPQALQDAGGWGNRRTIQAFVQFAETMF-- 150
Query: 82 FITSRHFRSQVKFVIIDYKPWWVSKYSNILSL 113
R F +++ + +PW ++ SN+L +
Sbjct: 151 ----REFHGKIQHWLTFNEPWCIAFLSNMLGV 178
>pdb|1TR1|A Chain A, Crystal Structure Of E96k Mutated Beta-glucosidase A From
Bacillus Polymyxa, An Enzyme With Increased
Thermoresistance
pdb|1TR1|B Chain B, Crystal Structure Of E96k Mutated Beta-glucosidase A From
Bacillus Polymyxa, An Enzyme With Increased
Thermoresistance
pdb|1TR1|C Chain C, Crystal Structure Of E96k Mutated Beta-glucosidase A From
Bacillus Polymyxa, An Enzyme With Increased
Thermoresistance
pdb|1TR1|D Chain D, Crystal Structure Of E96k Mutated Beta-glucosidase A From
Bacillus Polymyxa, An Enzyme With Increased
Thermoresistance
Length = 447
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 27 SKLALDYVTPVQIVNGDADHLPACHFIH-DVPAVVFSTGGFAGNQ----FHEFNELIIPL 81
++ LDY V + D P C H D+P + GG+ + F +F E +
Sbjct: 93 NQKGLDYYHRVVDLLNDNGIEPFCTLYHWDLPQALQDAGGWGNRRTIQAFVQFAETMF-- 150
Query: 82 FITSRHFRSQVKFVIIDYKPWWVSKYSNILSL 113
R F +++ + +PW ++ SN+L +
Sbjct: 151 ----REFHGKIQHWLTFNEPWCIAFLSNMLGV 178
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 43/108 (39%), Gaps = 2/108 (1%)
Query: 43 DADHLPACHFIHDVPAVVFSTGGFAG--NQFHEFNELIIPLFITSRHFRSQVKFVIIDYK 100
DA + PA D V + G N F N + T+R R+ V I+
Sbjct: 219 DAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQPRTLVTNSYIEGD 278
Query: 101 PWWVSKYSNILSLLTRYEVINPAADGNVHCFPAAVIGLKYHGFLSLNS 148
VS ++ T + V+N + F A + Y+GFL++NS
Sbjct: 279 VDIVSGRGAVVFDNTEFRVVNSRTQQEAYVFAPATLSNIYYGFLAVNS 326
>pdb|1BGG|A Chain A, Glucosidase A From Bacillus Polymyxa Complexed With
Gluconate
pdb|1BGG|B Chain B, Glucosidase A From Bacillus Polymyxa Complexed With
Gluconate
pdb|1BGG|C Chain C, Glucosidase A From Bacillus Polymyxa Complexed With
Gluconate
pdb|1BGG|D Chain D, Glucosidase A From Bacillus Polymyxa Complexed With
Gluconate
Length = 448
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 27 SKLALDYVTPVQIVNGDADHLPACHFIH-DVPAVVFSTGGFAGNQ----FHEFNELIIPL 81
++ LDY V + D P C H D+P + GG+ + F +F E +
Sbjct: 94 NQEGLDYYHRVVDLLNDNGIEPFCTLYHWDLPQALQDAGGWGNRRTIQAFVQFAETMF-- 151
Query: 82 FITSRHFRSQVKFVIIDYKPWWVSKYSNILSL 113
R F +++ + +PW ++ SN+L +
Sbjct: 152 ----REFHGKIQHWLTFNEPWCIAFLSNMLGV 179
>pdb|1BGA|A Chain A, Beta-Glucosidase A From Bacillus Polymyxa
pdb|1BGA|B Chain B, Beta-Glucosidase A From Bacillus Polymyxa
pdb|1BGA|C Chain C, Beta-Glucosidase A From Bacillus Polymyxa
pdb|1BGA|D Chain D, Beta-Glucosidase A From Bacillus Polymyxa
Length = 447
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 27 SKLALDYVTPVQIVNGDADHLPACHFIH-DVPAVVFSTGGFAGNQ----FHEFNELIIPL 81
++ LDY V + D P C H D+P + GG+ + F +F E +
Sbjct: 93 NQEGLDYYHRVVDLLNDNGIEPFCTLYHWDLPQALQDAGGWGNRRTIQAFVQFAETMF-- 150
Query: 82 FITSRHFRSQVKFVIIDYKPWWVSKYSNILSL 113
R F +++ + +PW ++ SN+L +
Sbjct: 151 ----REFHGKIQHWLTFNEPWCIAFLSNMLGV 178
>pdb|1UYQ|A Chain A, Mutated B-Glucosidase A From Paenibacillus Polymyxa
Showing Increased Stability
Length = 447
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 11/92 (11%)
Query: 27 SKLALDYVTPVQIVNGDADHLPACHFIH-DVPAVVFSTGGFAGNQ----FHEFNELIIPL 81
++ LDY V + D P C H D+P + GG+ + F +F E +
Sbjct: 93 NQEGLDYYHRVVDLLNDNGIEPFCTLYHWDLPQALQDAGGWGNRRTIQAFVQFAETMF-- 150
Query: 82 FITSRHFRSQVKFVIIDYKPWWVSKYSNILSL 113
R F +++ + +PW ++ SN+L +
Sbjct: 151 ----REFHGKIQHWLTFNEPWCIAFLSNMLGV 178
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 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,317,769
Number of Sequences: 62578
Number of extensions: 439091
Number of successful extensions: 876
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 872
Number of HSP's gapped (non-prelim): 10
length of query: 356
length of database: 14,973,337
effective HSP length: 100
effective length of query: 256
effective length of database: 8,715,537
effective search space: 2231177472
effective search space used: 2231177472
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: 52 (24.6 bits)