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= 031248
(163 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3K46|A Chain A, Crystal Structure Of Full-Length E. Coli
Beta-Glucuronidase
pdb|3K46|B Chain B, Crystal Structure Of Full-Length E. Coli
Beta-Glucuronidase
pdb|3K4D|A Chain A, Crystal Structure Of E. Coli Beta-Glucuronidase With The
Glucaro-D- Lactam Inhibitor Bound
pdb|3K4D|B Chain B, Crystal Structure Of E. Coli Beta-Glucuronidase With The
Glucaro-D- Lactam Inhibitor Bound
Length = 605
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 23/44 (52%)
Query: 91 AFVDPKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKT 134
A V P V+ VCV L W T+P +V +E+ +KK++
Sbjct: 118 ADVTPYVIAGKSVRITVCVNNELNWQTIPPGMVITDENGKKKQS 161
>pdb|1Z9H|A Chain A, Microsomal Prostaglandin E Synthase Type-2
pdb|1Z9H|B Chain B, Microsomal Prostaglandin E Synthase Type-2
pdb|1Z9H|C Chain C, Microsomal Prostaglandin E Synthase Type-2
pdb|1Z9H|D Chain D, Microsomal Prostaglandin E Synthase Type-2
pdb|2PBJ|A Chain A, Gsh-Heme Bound Microsomal Prostaglandin E Synthase
pdb|2PBJ|B Chain B, Gsh-Heme Bound Microsomal Prostaglandin E Synthase
pdb|2PBJ|C Chain C, Gsh-Heme Bound Microsomal Prostaglandin E Synthase
pdb|2PBJ|D Chain D, Gsh-Heme Bound Microsomal Prostaglandin E Synthase
Length = 290
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 105 FCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASF 138
FC V+ FL + LP Q+V VN +R + +S+
Sbjct: 25 FCSKVRAFLDFHALPYQVVEVNPVLRAEIKFSSY 58
>pdb|3LPF|A Chain A, Structure Of E. Coli Beta-Glucuronidase Bound With A
Novel, Potent Inhibitor
1-((6,7-Dimethyl-2-Oxo-1,
2-Dihydroquinolin-3-Yl)methyl)-1-
(2-Hydroxyethyl)-3-(3-Methoxyphenyl)thiourea
pdb|3LPF|B Chain B, Structure Of E. Coli Beta-Glucuronidase Bound With A
Novel, Potent Inhibitor
1-((6,7-Dimethyl-2-Oxo-1,
2-Dihydroquinolin-3-Yl)methyl)-1-
(2-Hydroxyethyl)-3-(3-Methoxyphenyl)thiourea
pdb|3LPG|A Chain A, Structure Of E. Coli Beta-Glucuronidase Bound With A
Novel, Potent Inhibitor
3-(2-Fluorophenyl)-1-(2-Hydroxyethyl)-1-((6-Methyl-2-
Oxo-1, 2-Dihydroquinolin-3-Yl)methyl)urea
pdb|3LPG|B Chain B, Structure Of E. Coli Beta-Glucuronidase Bound With A
Novel, Potent Inhibitor
3-(2-Fluorophenyl)-1-(2-Hydroxyethyl)-1-((6-Methyl-2-
Oxo-1, 2-Dihydroquinolin-3-Yl)methyl)urea
Length = 605
Score = 28.1 bits (61), Expect = 2.1, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 91 AFVDPKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKT 134
A V P V+ VCV L W T+P V +E+ +KK++
Sbjct: 118 ADVTPYVIAGKSVRITVCVNNELNWQTIPPGXVITDENGKKKQS 161
>pdb|3K4A|A Chain A, Crystal Structure Of Selenomethionine Substituted E. Coli
Beta- Glucuronidase
pdb|3K4A|B Chain B, Crystal Structure Of Selenomethionine Substituted E. Coli
Beta- Glucuronidase
Length = 605
Score = 28.1 bits (61), Expect = 2.1, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 91 AFVDPKTPIQNGVKFCVCVKEFLPWVTLPLQIVYVNESIRKKKT 134
A V P V+ VCV L W T+P V +E+ +KK++
Sbjct: 118 ADVTPYVIAGKSVRITVCVNNELNWQTIPPGXVITDENGKKKQS 161
>pdb|3QQ3|A Chain A, Crystal Structure Of Swine Major Histocompatibility
Complex Class I Sla-1 0401 And Identification Of 2009
Pandemic Swine-Origin Influenza A H1n1 Virus Cytotoxic T
Lymphocyte Epitope Peptides
pdb|3QQ3|D Chain D, Crystal Structure Of Swine Major Histocompatibility
Complex Class I Sla-1 0401 And Identification Of 2009
Pandemic Swine-Origin Influenza A H1n1 Virus Cytotoxic T
Lymphocyte Epitope Peptides
pdb|3QQ4|A Chain A, Crystal Structure Of Swine Major Histocompatibility
Complex Class I Sla-1 0401 And Identification Of 2009
Pandemic Swine-Origin Influenza A H1n1 Virus Cytotoxic T
Lymphocyte Epitope Peptides
Length = 275
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 113 LPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGH 148
+PW+ Q + E+ K+TA ++G G TL+G+
Sbjct: 49 VPWIQQEGQEYWDRETRNVKETAQTYGVGLNTLRGY 84
>pdb|3CSQ|A Chain A, Crystal And Cryoem Structural Studies Of A Cell Wall
Degrading Enzyme In The Bacteriophage Phi29 Tail
pdb|3CSQ|B Chain B, Crystal And Cryoem Structural Studies Of A Cell Wall
Degrading Enzyme In The Bacteriophage Phi29 Tail
pdb|3CSQ|C Chain C, Crystal And Cryoem Structural Studies Of A Cell Wall
Degrading Enzyme In The Bacteriophage Phi29 Tail
pdb|3CSQ|D Chain D, Crystal And Cryoem Structural Studies Of A Cell Wall
Degrading Enzyme In The Bacteriophage Phi29 Tail
Length = 334
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 34 KYKGATAKPVACLKEDQGLSKDGFLLNHARVLVGSGLE 71
+Y+G T KP +CL + D F +N+ ++ G+G +
Sbjct: 288 EYQGWTKKPDSCLAGTELHIYDVFAVNNVEIINGNGYD 325
>pdb|2HQJ|A Chain A, Cyclophilin From Leishmania Major
Length = 183
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 4/79 (5%)
Query: 81 KTWRHFGLNWAFVDPKTPIQNGVKFCVCVKEFLPWVTLPLQIVY--VNESIRKKKTAASF 138
K RH GL + P NG +F +C PW+ +V+ V + + K
Sbjct: 102 KAGRHTGLGCLSMANAGPNTNGSQFFICTAA-TPWLD-GKHVVFGRVIDGLDVVKKVERL 159
Query: 139 GFGSGTLQGHLLVSTCLHI 157
G SG + ++VS C +
Sbjct: 160 GSSSGKTRSRIVVSDCGEV 178
>pdb|1GYT|A Chain A, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|B Chain B, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|C Chain C, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|D Chain D, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|E Chain E, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|F Chain F, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|G Chain G, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|H Chain H, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|I Chain I, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|J Chain J, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|K Chain K, E. Coli Aminopeptidase A (Pepa)
pdb|1GYT|L Chain L, E. Coli Aminopeptidase A (Pepa)
Length = 503
Score = 26.2 bits (56), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 29/60 (48%), Gaps = 10/60 (16%)
Query: 3 LTGMVFLSWGRPTPQEQKACIDKSGVFNYDTKYKGATAKPVACLKEDQGLSKDGFLLNHA 62
+T FLS R T + A +D +G K KGAT +PVA L + FLLN A
Sbjct: 448 ITAGCFLS--RFTRKYNWAHLDIAGTAWRSGKAKGATGRPVALLAQ--------FLLNRA 497
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 0.138 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,170,573
Number of Sequences: 62578
Number of extensions: 214347
Number of successful extensions: 466
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 460
Number of HSP's gapped (non-prelim): 9
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
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: 47 (22.7 bits)