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= 024902
(260 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W7E|A Chain A, Nmr Ensemble Of Fasciclin-Like Protein From Rhodobacter
Sphaeroides
pdb|1W7D|A Chain A, Nmr Structure Of Fasciclin-Like Protein From Rhodobacter
Sphaeroides
Length = 137
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/154 (23%), Positives = 67/154 (43%), Gaps = 23/154 (14%)
Query: 44 EHVNLTDLLSVAGPFHTFLNYLESTKVLETFQNQANNTDEGITIFVPKDDAFKSLKKPSL 103
E ++ + + AG F T L E+ +++T + D T+F P D AF +L + ++
Sbjct: 1 ETGDIVETATGAGSFTTLLTAAEAAGLVDTLKG-----DGPFTVFAPTDAAFAALPEGTV 55
Query: 104 ANL----TQDQLKQLCLFHALPHYYSFADFKNLSQMSPVSTYAGGDYKLNFTDVSGAVHI 159
+L +++L ++ +H +P +D L++ T GG V +
Sbjct: 56 EDLLKPENKEKLTEILTYHVVPGEVMSSD---LTEGMTAETVEGGALT---------VTL 103
Query: 160 DSGWSRTKVSSSVHSTDPV--ALYQVDKVLLPEA 191
+ G VS S D ++ +D VL+P A
Sbjct: 104 EGGPKVNGVSISQPDVDASNGVIHVIDGVLMPGA 137
>pdb|1O70|A Chain A, Novel Fold Revealed By The Structure Of A Fas1 Domain Pair
From The Insect Cell Adhesion Molecule Fasciclin I
Length = 324
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 9/49 (18%)
Query: 57 PFHTFLNYLESTKVLET---------FQNQANNTDEGITIFVPKDDAFK 96
P+ T L LES ++ F +Q NNT T FVP+D ++
Sbjct: 157 PYTTVLGKLESDPMMSDTYKMGKFSHFNDQLNNTQRRFTYFVPRDKGWQ 205
>pdb|3IM8|A Chain A, Crystal Structure Of Mcat From Streptococcus Pneumoniae
Length = 307
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 3/100 (3%)
Query: 52 LSVAGPFHTFLNYLESTKVLETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANLTQDQL 111
L V+GPFHT L S K+ ET Q + +D T + + ++K +A L Q+
Sbjct: 192 LKVSGPFHTSLLEPASQKLAETL-AQVSFSD--FTCPLVGNTEAAVMQKEDIAQLLTRQV 248
Query: 112 KQLCLFHALPHYYSFADFKNLSQMSPVSTYAGGDYKLNFT 151
K+ F+ A N ++ P +G K++ T
Sbjct: 249 KEPVRFYESIGVMQEAGISNFIEIGPGKVLSGFVKKIDQT 288
>pdb|1EUG|A Chain A, Crystal Structure Of Escherichia Coli Uracil Dna
Glycosylase And Its Complexes With Uracil And Glycerol:
Structure And Glycosylase Mechanism Revisited
Length = 229
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 21 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 56
>pdb|2EUG|A Chain A, Crystal Structure Of Escherichia Coli Uracil Dna
Glycosylase And Its Complexes With Uracil And Glycerol:
Structure And Glycosylase Mechanism Revisited
pdb|3EUG|A Chain A, Crystal Structure Of Escherichia Coli Uracil Dna
Glycosylase And Its Complexes With Uracil And Glycerol:
Structure And Glycosylase Mechanism Revisited
Length = 229
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 21 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 56
>pdb|1UUG|A Chain A, Escherichia Coli Uracil-Dna Glycosylase:inhibitor Complex
With Wild-Type Udg And Wild-Type Ugi
pdb|1UUG|C Chain C, Escherichia Coli Uracil-Dna Glycosylase:inhibitor Complex
With Wild-Type Udg And Wild-Type Ugi
pdb|1LQG|A Chain A, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
pdb|1LQG|B Chain B, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
pdb|1LQJ|A Chain A, Escherichia Coli Uracil-Dna Glycosylase
pdb|1LQJ|B Chain B, Escherichia Coli Uracil-Dna Glycosylase
pdb|1LQJ|C Chain C, Escherichia Coli Uracil-Dna Glycosylase
pdb|1LQJ|D Chain D, Escherichia Coli Uracil-Dna Glycosylase
pdb|1LQM|A Chain A, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
pdb|1LQM|C Chain C, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
pdb|1LQM|E Chain E, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
pdb|1LQM|G Chain G, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
Length = 229
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 21 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 56
>pdb|4EUG|A Chain A, Crystallographic And Enzymatic Studies Of An Active Site
Variant H187q Of Escherichia Coli Uracil Dna
Glycosylase: Crystal Structures Of Mutant H187q And Its
Uracil Complex
pdb|5EUG|A Chain A, Crystallographic And Enzymatic Studies Of An Active Site
Variant H187q Of Escherichia Coli Uracil Dna
Glycosylase: Crystal Structures Of Mutant H187q And Its
Uracil Complex
Length = 229
Score = 27.7 bits (60), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 21 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 56
>pdb|1FLZ|A Chain A, Uracil Dna Glycosylase With Uaap
Length = 228
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 20 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 55
>pdb|3UF7|A Chain A, Co-Crystal Structure Of Escherichia Coli Uracil-Dna
Glycosylase And A C-Terminal Fragement Of The
Single-Stranded Dna-Binding Protein
Length = 237
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 21 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 56
>pdb|1EUI|A Chain A, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
pdb|1EUI|B Chain B, Escherichia Coli Uracil-Dna Glycosylase Complex With
Uracil- Dna Glycosylase Inhibitor Protein
Length = 228
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 20 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 55
>pdb|2UUG|A Chain A, Escherichia Coli Uracil-Dna Glycosylase:inhibitor Complex
With H187d Mutant Udg And Wild-Type Ugi
pdb|2UUG|B Chain B, Escherichia Coli Uracil-Dna Glycosylase:inhibitor Complex
With H187d Mutant Udg And Wild-Type Ugi
Length = 229
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 71 LETFQNQANNTDEGITIFVPKDDAFKSLKKPSLANL 106
L T Q A+ G+TI+ P+ D F + + L ++
Sbjct: 21 LNTLQTVASERQSGVTIYPPQKDVFNAFRFTELGDV 56
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
0.316 0.131 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,139,980
Number of Sequences: 62578
Number of extensions: 221013
Number of successful extensions: 578
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 570
Number of HSP's gapped (non-prelim): 12
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)