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= 006955
(624 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WQH|A Chain A, Crystal Structure Of Ctpr3y3
Length = 125
Score = 34.3 bits (77), Expect = 0.23, Method: Composition-based stats.
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 209 SWKQLINGLVNSRRIDAAISYFKQM----PETCEKTWNSIISVLIRNGLVKEAHSY---- 260
+W L N D AI Y+++ P E W ++ + + G EA Y
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELYPNNAE-AWYNLGNAYYKQGDYDEAIEYYQKA 69
Query: 261 LEKYPYSNIASWTNVIVGYFEMGEVGSAIKVFE 293
LE YP +N +W N+ Y++ G+ AI+ ++
Sbjct: 70 LELYP-NNAEAWYNLGNAYYKQGDYDEAIEYYQ 101
>pdb|1JDA|A Chain A, Maltotetraose-Forming Exo-Amylase
pdb|1JDC|A Chain A, Mutant (E219q) Maltotetraose-Forming Exo-Amylase
Cocrystallized With Maltotetraose (Crystal Type 1)
pdb|1JDD|A Chain A, Mutant (E219q) Maltotetraose-Forming Exo-Amylase
Cocrystallized With Maltotetraose (Crystal Type 2)
Length = 429
Score = 32.3 bits (72), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 28/150 (18%), Positives = 62/150 (41%), Gaps = 7/150 (4%)
Query: 129 RMDLAESYFKEMGARDVASW-TIMVNGLVREGRIVEARKLFDKMPAKDVQAWNLMIAGYL 187
R D Y E V SW T + G++ + + ++ +W +I +
Sbjct: 191 RFDFVRGYAPER----VNSWMTDSADNSFCVGQLWKGPSEYPNWDWRNTASWQQIIKDWS 246
Query: 188 DNGCVGVAE-DLFQKMHDRDLTSWKQLINGLVNSRRIDAAISYFKQMPETCEKTWNS-II 245
D V + L ++M + + WK +NG + R + A+++ N
Sbjct: 247 DRAKCPVFDFALKERMQNGSIADWKHGLNGNPDPRWREVAVTFVDNHDTGYSPGQNGGQH 306
Query: 246 SVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+++GL+++A++Y+ P + + W ++
Sbjct: 307 HWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|1WRU|A Chain A, Structure Of Central Hub Elucidated By X-Ray Analysis Of
Gene Product 44; Baseplate Component Of Bacteriophage Mu
Length = 379
Score = 32.3 bits (72), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 26/112 (23%), Positives = 47/112 (41%)
Query: 503 IEVSPTVWGALLGACRIHNNIKVGEIAGERVMELEPNNSGVYLILTEMYLSCGRREDAKR 562
++ S TV+ AL+ A R + AGE V + + L+L E L+ ED +
Sbjct: 143 LDHSETVYEALVRASRARGVLMTSNAAGELVFSRAASTATDELVLGENLLTLDFEEDFRD 202
Query: 563 IFAQMKENGVKKEPGCSWIQINDGGHVFLSGDSSHPKFHRLRYLLNLLHTEI 614
F++ G + G I+ V G ++ R R ++ + ++I
Sbjct: 203 RFSEYTVKGYARANGAEGDDIDAKSIVSRKGTATDSDVTRYRPMIIIADSKI 254
>pdb|4F4F|A Chain A, X-Ray Crystal Structure Of Plp Bound Threonine Synthase
From Brucella Melitensis
pdb|4F4F|B Chain B, X-Ray Crystal Structure Of Plp Bound Threonine Synthase
From Brucella Melitensis
Length = 468
Score = 32.0 bits (71), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 36/73 (49%), Gaps = 7/73 (9%)
Query: 196 EDLFQKMHDRDLTSWKQLINGL-------VNSRRIDAAISYFKQMPETCEKTWNSIISVL 248
E L + H RD + + L+ GL ++ + + A S F T ++T +I SVL
Sbjct: 322 ERLLFEAHGRDAAAVRGLMQGLKQSGGFTISEKPLSAIRSEFSAGRSTVDETAATIESVL 381
Query: 249 IRNGLVKEAHSYL 261
++G + + HS +
Sbjct: 382 SKDGYLLDPHSAI 394
>pdb|2AMG|A Chain A, Structure Of Hydrolase (Glycosidase)
Length = 418
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/150 (18%), Positives = 61/150 (40%), Gaps = 7/150 (4%)
Query: 129 RMDLAESYFKEMGARDVASW-TIMVNGLVREGRIVEARKLFDKMPAKDVQAWNLMIAGYL 187
R D Y E V SW T + G + + + ++ +W +I +
Sbjct: 191 RFDFVRGYAPER----VNSWMTDSADNSFCVGELWKGPSEYPNWDWRNTASWQQIIKDWS 246
Query: 188 DNGCVGVAE-DLFQKMHDRDLTSWKQLINGLVNSRRIDAAISYFKQMPETCEKTWNS-II 245
D V + L ++M + + WK +NG + R + A+++ N
Sbjct: 247 DRAKCPVFDFALKERMQNGSIADWKHGLNGNPDPRWREVAVTFVDNHDTGYSPGQNGGQH 306
Query: 246 SVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+++GL+++A++Y+ P + + W ++
Sbjct: 307 HWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|3K3W|B Chain B, Thermostable Penicillin G Acylase From Alcaligenes
Faecalis In Orthorhombic Form
pdb|3ML0|B Chain B, Thermostable Penicillin G Acylase From Alcaligenes
Faecalis In Tetragonal Form
Length = 551
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 49 ERDMFTYNTVIAGLMQSDNVQGA----KEVFDGMEVRDVVTWNSMISGYVCNGLIDEALR 104
+R+M + TV +MQ D QGA K +DG EV+ ++ W ++ +D+A +
Sbjct: 113 DREMTIWRTVHGPVMQFDYDQGAAYSKKRSWDGYEVQSLLAWLNVAKARNWTEFLDQASK 172
Query: 105 V 105
+
Sbjct: 173 M 173
>pdb|1QI5|A Chain A, Mutant (D294n) Maltotetraose-Forming Exo-Amylase In
Complex With Maltotetraose
Length = 429
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/150 (18%), Positives = 61/150 (40%), Gaps = 7/150 (4%)
Query: 129 RMDLAESYFKEMGARDVASW-TIMVNGLVREGRIVEARKLFDKMPAKDVQAWNLMIAGYL 187
R D Y E V SW T + G + + + ++ +W +I +
Sbjct: 191 RFDFVRGYAPER----VNSWMTDSADNSFCVGELWKGPSEYPNWDWRNTASWQQIIKDWS 246
Query: 188 DNGCVGVAE-DLFQKMHDRDLTSWKQLINGLVNSRRIDAAISYFKQMPETCEKTWNS-II 245
D V + L ++M + + WK +NG + R + A+++ N
Sbjct: 247 DRAKCPVFDFALKERMQNGSIADWKHGLNGNPDPRWREVAVTFVDNHNTGYSPGQNGGQH 306
Query: 246 SVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+++GL+++A++Y+ P + + W ++
Sbjct: 307 HWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|1GCY|A Chain A, High Resolution Crystal Structure Of Maltotetraose-Forming
Exo-Amylase
Length = 527
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 28/150 (18%), Positives = 61/150 (40%), Gaps = 7/150 (4%)
Query: 129 RMDLAESYFKEMGARDVASW-TIMVNGLVREGRIVEARKLFDKMPAKDVQAWNLMIAGYL 187
R D Y E V SW T + G + + + ++ +W +I +
Sbjct: 191 RFDFVRGYAPER----VNSWMTDSADNSFCVGELWKGPSEYPNWDWRNTASWQQIIKDWS 246
Query: 188 DNGCVGVAE-DLFQKMHDRDLTSWKQLINGLVNSRRIDAAISYFKQMPETCEKTWNS-II 245
D V + L ++M + + WK +NG + R + A+++ N
Sbjct: 247 DRAKCPVFDFALKERMQNGSIADWKHGLNGNPDPRWREVAVTFVDNHDTGYSPGQNGGQH 306
Query: 246 SVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+++GL+++A++Y+ P + + W ++
Sbjct: 307 HWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|1QI4|A Chain A, Mutant (e219g) Maltotetraose-forming Exo-amylase In
Complex With Maltotetraose
Length = 429
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/150 (18%), Positives = 61/150 (40%), Gaps = 7/150 (4%)
Query: 129 RMDLAESYFKEMGARDVASW-TIMVNGLVREGRIVEARKLFDKMPAKDVQAWNLMIAGYL 187
R D Y E V SW T + G + + + ++ +W +I +
Sbjct: 191 RFDFVRGYAPER----VNSWMTDSADNSFCVGGLWKGPSEYPNWDWRNTASWQQIIKDWS 246
Query: 188 DNGCVGVAE-DLFQKMHDRDLTSWKQLINGLVNSRRIDAAISYFKQMPETCEKTWNS-II 245
D V + L ++M + + WK +NG + R + A+++ N
Sbjct: 247 DRAKCPVFDFALKERMQNGSIADWKHGLNGNPDPRWREVAVTFVDNHDTGYSPGQNGGQH 306
Query: 246 SVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+++GL+++A++Y+ P + + W ++
Sbjct: 307 HWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|4EQF|A Chain A, Trip8b-1a#206-567 Interacting With The Carboxy-Terminal
Seven Residues Of Hcn2
Length = 365
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 38/81 (46%), Gaps = 5/81 (6%)
Query: 513 LLGACRIHN-NIKVGEIAGERVMELEPNNSGVYLILTEMYLSCGRREDAKRIFAQMKENG 571
LG + N N + +A +R +EL+PNN + L Y + ++DA + +N
Sbjct: 104 FLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDA----CEALKNW 159
Query: 572 VKKEPGCSWIQINDGGHVFLS 592
+K+ P ++ N G L+
Sbjct: 160 IKQNPKYKYLVKNKKGSPGLT 180
>pdb|1NA0|A Chain A, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
pdb|1NA0|B Chain B, Design Of Stable Alpha-Helical Arrays From An Idealized
Tpr Motif
Length = 125
Score = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 22/92 (23%), Positives = 40/92 (43%), Gaps = 8/92 (8%)
Query: 209 SWKQLINGLVNSRRIDAAISYFKQM----PETCEKTWNSIISVLIRNGLVKEAHSYLEK- 263
+W L N D AI Y+++ P E W ++ + + G EA Y +K
Sbjct: 11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAE-AWYNLGNAYYKQGDYDEAIEYYQKA 69
Query: 264 --YPYSNIASWTNVIVGYFEMGEVGSAIKVFE 293
+N +W N+ Y++ G+ AI+ ++
Sbjct: 70 LELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQ 101
>pdb|1QPK|A Chain A, Mutant (D193g) Maltotetraose-Forming Exo-Amylase In
Complex With Maltotetraose
Length = 418
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/119 (16%), Positives = 52/119 (43%), Gaps = 2/119 (1%)
Query: 159 GRIVEARKLFDKMPAKDVQAWNLMIAGYLDNGCVGVAE-DLFQKMHDRDLTSWKQLINGL 217
G + + + ++ +W +I + D V + L ++M + + WK +NG
Sbjct: 218 GELWKGPSEYPNWDWRNTASWQQIIKDWSDRAKCPVFDFALKERMQNGSIADWKHGLNGN 277
Query: 218 VNSRRIDAAISYFKQMPETCEKTWNS-IISVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+ R + A+++ N +++GL+++A++Y+ P + + W ++
Sbjct: 278 PDPRWREVAVTFVDNHDTGYSPGQNGGQHHWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|1QI3|A Chain A, Mutant (D193n) Maltotetraose-Forming Exo-Amylase In
Complex With Maltotetraose
Length = 429
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/119 (16%), Positives = 52/119 (43%), Gaps = 2/119 (1%)
Query: 159 GRIVEARKLFDKMPAKDVQAWNLMIAGYLDNGCVGVAE-DLFQKMHDRDLTSWKQLINGL 217
G + + + ++ +W +I + D V + L ++M + + WK +NG
Sbjct: 218 GELWKGPSEYPNWDWRNTASWQQIIKDWSDRAKCPVFDFALKERMQNGSIADWKHGLNGN 277
Query: 218 VNSRRIDAAISYFKQMPETCEKTWNS-IISVLIRNGLVKEAHSYLEKYPYSNIASWTNV 275
+ R + A+++ N +++GL+++A++Y+ P + + W ++
Sbjct: 278 PDPRWREVAVTFVDNHDTGYSPGQNGGQHHWALQDGLIRQAYAYILTSPGTPVVYWDHM 336
>pdb|1DDG|A Chain A, Crystal Structure Of Sir-Fp60
pdb|1DDG|B Chain B, Crystal Structure Of Sir-Fp60
pdb|1DDI|A Chain A, Crystal Structure Of Sir-Fp60
Length = 374
Score = 28.9 bits (63), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 546 ILTEMYLSCGRREDAKRIFAQMKENGVKKEPGCSWIQINDGGHVFLSGDSS 596
+LT + L+ R + ++++ Q K ++++ W INDG H+++ GD++
Sbjct: 285 VLTRIDLAWSR-DQKEKVYVQDK---LREQGAELWRWINDGAHIYVCGDAN 331
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 0.138 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,655,374
Number of Sequences: 62578
Number of extensions: 771101
Number of successful extensions: 1519
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1505
Number of HSP's gapped (non-prelim): 23
length of query: 624
length of database: 14,973,337
effective HSP length: 105
effective length of query: 519
effective length of database: 8,402,647
effective search space: 4360973793
effective search space used: 4360973793
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)