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= 028245
(211 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 = 30.0 bits (66), Expect = 0.96, 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 = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 49/105 (46%), Gaps = 13/105 (12%)
Query: 105 FCVCVKEFLPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLQAGEERFSIELDDN 164
FC V+ FL + LP Q+V VN +R + +S+ + +L A E S +L+D+
Sbjct: 25 FCSKVRAFLDFHALPYQVVEVNPVLRAEIKFSSYR------KVPILVAQEGESSQQLNDS 78
Query: 165 NQVWYEIVSFSKPADFLSFIGYPYVQLRQKYFAHQSVNAVKKHLT 209
+ V S +L G P ++ Y A ++VN K +T
Sbjct: 79 S------VIISALKTYL-VSGQPLEEIITYYPAMKAVNDQGKEVT 116
>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 = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
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 = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
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 = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 113 LPWVTLPLQIVYVNESIRKKKTAASFGFGSGTLQGHLLQA 152
+PW+ Q + E+ K+TA ++G G TL+G+ Q+
Sbjct: 49 VPWIQQEGQEYWDRETRNVKETAQTYGVGLNTLRGYYNQS 88
>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 = 5.0, 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
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
0.321 0.136 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,771,079
Number of Sequences: 62578
Number of extensions: 288087
Number of successful extensions: 583
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 577
Number of HSP's gapped (non-prelim): 6
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)