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= psy17906
(174 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1QH3|A Chain A, Human Glyoxalase Ii With Cacodylate And Acetate Ions
Present In The Active Site
pdb|1QH3|B Chain B, Human Glyoxalase Ii With Cacodylate And Acetate Ions
Present In The Active Site
pdb|1QH5|A Chain A, Human Glyoxalase Ii With
S-(N-Hydroxy-N-Bromophenylcarbamoyl) Glutathione
pdb|1QH5|B Chain B, Human Glyoxalase Ii With
S-(N-Hydroxy-N-Bromophenylcarbamoyl) Glutathione
Length = 260
Score = 89.0 bits (219), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 42/78 (53%), Positives = 53/78 (67%), Gaps = 3/78 (3%)
Query: 93 VDLIPALKDNYMYLVVDKASKHAAAIDPVEPHKILDAVNSHSAQLKHIWTTHHHQDHAGG 152
V+++PAL DNYMYLV+D +K AA +DPV+P K++DA H +L + TTHHH DHAGG
Sbjct: 3 VEVLPALTDNYMYLVIDDETKEAAIVDPVQPQKVVDAARKHGVKLTTVLTTHHHWDHAGG 62
Query: 153 NYDLVSRYPHLKEHPVYG 170
N LV LK VYG
Sbjct: 63 NEKLVKLESGLK---VYG 77
>pdb|1XM8|A Chain A, X-Ray Structure Of Glyoxalase Ii From Arabidopsis Thaliana
Gene At2g31350
pdb|1XM8|B Chain B, X-Ray Structure Of Glyoxalase Ii From Arabidopsis Thaliana
Gene At2g31350
pdb|2Q42|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Glyoxalase Ii From Arabidopsis Thaliana Gene At2g31350
pdb|2Q42|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Glyoxalase Ii From Arabidopsis Thaliana Gene At2g31350
Length = 254
Score = 66.2 bits (160), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 41/68 (60%)
Query: 93 VDLIPALKDNYMYLVVDKASKHAAAIDPVEPHKILDAVNSHSAQLKHIWTTHHHQDHAGG 152
++L+P LKDNY Y++ D+ + +DP E I+D++ L +I THHH DH GG
Sbjct: 3 IELVPCLKDNYAYILHDEDTGTVGVVDPSEAEPIIDSLKRSGRNLTYILNTHHHYDHTGG 62
Query: 153 NYDLVSRY 160
N +L RY
Sbjct: 63 NLELKDRY 70
>pdb|2QED|A Chain A, Crystal Structure Of Salmonella Thyphimurium Lt2
Glyoxalase Ii
Length = 258
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 4/84 (4%)
Query: 87 DFGKYTVDLIPALKDNYMYLVVDKASKHAAAIDPVEPHKILDAVNSHSAQLKHIWTTHHH 146
D G ++ IPA +DNY++++ + + +DP E +L A+ H + I+ THHH
Sbjct: 4 DIGSMNLNSIPAFQDNYIWVLTNDEGR-CVIVDPGEAAPVLKAIAEHKWMPEAIFLTHHH 62
Query: 147 QDHAGGNYDLVSRYPHLKEHPVYG 170
DH GG +L+ +P + VYG
Sbjct: 63 HDHVGGVKELLQHFPQMT---VYG 83
>pdb|2P18|A Chain A, Crystal Structure Of The Leishmania Infantum Glyoxalase Ii
pdb|2P1E|A Chain A, Crystal Structure Of The Leishmania Infantum Glyoxalase Ii
With D- Lactate At The Active Site
Length = 311
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 42/84 (50%), Gaps = 11/84 (13%)
Query: 84 VTHDFGK-YTVDLIPALKDNYMYLVVDKASKHAAAIDPVEPHK-ILDAVNSHSAQ----- 136
T FG ++V ++P LKDN+ YL+ D + AA+D +K IL + H Q
Sbjct: 21 CTKTFGSAFSVTVVPTLKDNFSYLINDHTTHTLAAVDVNADYKPILTYIEEHLKQQGNAD 80
Query: 137 ----LKHIWTTHHHQDHAGGNYDL 156
I +TH H DH+GGN L
Sbjct: 81 VTYTFSTILSTHKHWDHSGGNAKL 104
>pdb|2XF4|A Chain A, Crystal Structure Of Salmonella Enterica Serovar
Typhimurium Ycbl
Length = 210
Score = 31.6 bits (70), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 106 LVVDKASKHAAAIDPV-EPHKILDAVNSHSAQLKHIWTTHHHQDHAGGNYDLVSRY 160
L+ + ++ AA +DP + KI V++ L I TH H DH G +L Y
Sbjct: 17 LIWCEQTRLAALVDPGGDAEKIKQEVDASGVTLMQILLTHGHLDHVGAASELAQHY 72
>pdb|2P4Z|A Chain A, A Ferredoxin-Like Metallo-Beta-Lactamase Superfamily
Protein From Thermoanaerobacter Tengcongensis
pdb|2P4Z|B Chain B, A Ferredoxin-Like Metallo-Beta-Lactamase Superfamily
Protein From Thermoanaerobacter Tengcongensis
Length = 284
Score = 30.0 bits (66), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 135 AQLKHIWTTHHHQDHAGGNYDLVSRYPHLK 164
++K + TH H DH GG L+ R P +K
Sbjct: 67 GRIKKVVLTHGHYDHIGGLKGLLERNPEVK 96
>pdb|2GCU|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At1g53580
pdb|2GCU|B Chain B, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At1g53580
pdb|2GCU|C Chain C, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At1g53580
pdb|2GCU|D Chain D, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At1g53580
Length = 245
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 4/67 (5%)
Query: 102 NYMYLVVDKA--SKHAAAIDPVEP--HKILDAVNSHSAQLKHIWTTHHHQDHAGGNYDLV 157
+ YL+ D + K A IDPV+ + L ++ +L + TH H DH G L
Sbjct: 15 TFTYLLADVSHPDKPALLIDPVDKTVDRDLKLIDELGLKLIYAMNTHVHADHVTGTGLLK 74
Query: 158 SRYPHLK 164
++ P +K
Sbjct: 75 TKLPGVK 81
>pdb|3ZYS|B Chain B, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
pdb|3ZYS|E Chain E, Human Dynamin 1 Deltaprd Polymer Stabilized With Gmppcp
Length = 662
Score = 28.5 bits (62), Expect = 2.2, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 71 PAVTHEFDNGEKRVTHDFGKYTVDLIPALKDNYMYLVVDKAS 112
P + ++ +R+T + KY VD IP ++ M+ ++DK +
Sbjct: 340 PLLENQIKETHQRITEELQKYGVD-IPEDENEKMFFLIDKVN 380
>pdb|3SZR|A Chain A, Crystal Structure Of Modified Nucleotide-Free Human Mxa
Length = 608
Score = 28.1 bits (61), Expect = 2.3, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 71 PAVTHEFDNGEKRVTHDFGKYTVDLIPALKDNYMYLVVDKAS 112
P + ++ +R+T + KY VD IP ++ M+ ++DK +
Sbjct: 315 PLLENQIKETHQRITEELQKYGVD-IPEDENEKMFFLIDKVN 355
>pdb|2BIB|A Chain A, Crystal Structure Of The Complete Modular Teichioic Acid
Phosphorylcholine Esterase Pce (Cbpe) From Streptococcus
Pneumoniae
Length = 547
Score = 28.1 bits (61), Expect = 2.8, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 136 QLKHIWTTHHHQDHAGGNYDLVSRYP 161
+L I TH H DH G +L+S YP
Sbjct: 77 KLDFILVTHTHSDHIGNVDELLSTYP 102
>pdb|3ZQ4|A Chain A, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|C Chain C, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|D Chain D, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
pdb|3ZQ4|E Chain E, Unusual, Dual Endo- And Exo-Nuclease Activity In The
Degradosome Explained By Crystal Structure Analysis Of
Rnase J1
Length = 555
Score = 27.7 bits (60), Expect = 3.1, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 10/41 (24%)
Query: 136 QLKHIWTTHHHQDHAGGNYDLVSRYPHLKEH---PVYGLKM 173
++K ++ TH H+DH GG P+L PVYG K+
Sbjct: 66 KIKGLFITHGHEDHIGG-------IPYLLRQVNIPVYGGKL 99
>pdb|3VPE|A Chain A, Crystal Structure Of Metallo-beta-lactamase Smb-1
pdb|3VQZ|A Chain A, Crystal Structure Of Metallo-beta-lactamase, Smb-1, In A
Complex With Mercaptoacetic Acid
Length = 262
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 137 LKHIWTTHHHQDHAGG 152
+K+I +TH H+DHAGG
Sbjct: 65 VKYILSTHSHEDHAGG 80
>pdb|3OAA|D Chain D, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|E Chain E, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|F Chain F, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|L Chain L, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|M Chain M, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|N Chain N, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|T Chain T, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|U Chain U, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|V Chain V, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|BB Chain b, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|CC Chain c, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|DD Chain d, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
Length = 459
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 127 LDAVNSHSAQLKHIWTTHHHQDHAGGNYDLVSRYPHLKE 165
+D ++S S QL + H D A G ++ RY LK+
Sbjct: 334 VDPLDSTSRQLDPLVVGQEHYDTARGVQSILQRYQELKD 372
>pdb|2BR6|A Chain A, Crystal Structure Of Quorum-Quenching N-Acyl Homoserine
Lactone Lactonase
pdb|2BTN|A Chain A, Crystal Structure And Catalytic Mechanism Of The Quorum-
Quenching N-Acyl Homoserine Lactone Hydrolase
Length = 252
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 126 ILDAVNSHSAQLKHIWTTHHHQDHAGGN 153
IL V L +I ++H H DHAGGN
Sbjct: 88 ILKRVGYEPDDLLYIISSHLHFDHAGGN 115
>pdb|2A7M|A Chain A, 1.6 Angstrom Resolution Structure Of The Quorum-Quenching
N-Acyl Homoserine Lactone Hydrolase Of Bacillus
Thuringiensis
Length = 250
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 126 ILDAVNSHSAQLKHIWTTHHHQDHAGGN 153
IL V L +I ++H H DHAGGN
Sbjct: 86 ILKRVGYEPDDLLYIISSHLHFDHAGGN 113
>pdb|3DHA|A Chain A, An Ultral High Resolution Structure Of N-Acyl Homoserine
Lactone Hydrolase With The Product
N-Hexanoyl-L-Homoserine Bound At An Alternative Site
pdb|3DHB|A Chain A, 1.4 Angstrom Structure Of N-Acyl Homoserine Lactone
Hydrolase With The Product N-Hexanoyl-L-Homoserine Bound
At The Catalytic Metal Center
pdb|3DHC|A Chain A, 1.3 Angstrom Structure Of N-Acyl Homoserine Lactone
Hydrolase With The Product N-Hexanoyl-L-Homocysteine
Bound To The Catalytic Metal Center
Length = 254
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 126 ILDAVNSHSAQLKHIWTTHHHQDHAGGN 153
IL V L +I ++H H DHAGGN
Sbjct: 90 ILKRVGYEPDDLLYIISSHLHFDHAGGN 117
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
0.323 0.137 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,944,260
Number of Sequences: 62578
Number of extensions: 246073
Number of successful extensions: 799
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 777
Number of HSP's gapped (non-prelim): 38
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)