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= 005737
(680 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding
Domain Of Aterf1 And Gcc-Box Dna, Minimized Average
Structure
Length = 63
Score = 44.7 bits (104), Expect = 2e-04, Method: Composition-based stats.
Identities = 25/68 (36%), Positives = 37/68 (54%), Gaps = 8/68 (11%)
Query: 329 QYRGVTRHRWTGRYEAHLWDNSCKKEGQSRKGRQVYLGGYDMEEKAARAYDLAALKYWGP 388
YRGV + W G++ A + D ++ G +V+LG ++ E AA AYD AA + G
Sbjct: 2 HYRGVRQRPW-GKFAAEIRD-------PAKNGARVWLGTFETAEDAALAYDRAAFRMRGS 53
Query: 389 STHINFPL 396
+NFPL
Sbjct: 54 RALLNFPL 61
Score = 37.0 bits (84), Expect = 0.038, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 432 YRGVTRHHQHGRWQARIGRVAGN-KDLYLGTFSTQXXXXXXYDIAAIKFRGVTAVTNFDI 490
YRGV R G++ A I A N ++LGTF T YD AA + RG A+ NF +
Sbjct: 3 YRGV-RQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 61
>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr,
Minimized Mean Structure
pdb|3GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, 46
Structures
Length = 70
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 8/71 (11%)
Query: 326 RTSQYRGVTRHRWTGRYEAHLWDNSCKKEGQSRKGRQVYLGGYDMEEKAARAYDLAALKY 385
+ YRGV + W G++ A + D ++ G +V+LG ++ E AA AYD AA +
Sbjct: 2 KGKHYRGVRQRPW-GKFAAEIRD-------PAKNGARVWLGTFETAEDAALAYDRAAFRM 53
Query: 386 WGPSTHINFPL 396
G +NFPL
Sbjct: 54 RGSRALLNFPL 64
Score = 36.2 bits (82), Expect = 0.055, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 432 YRGVTRHHQHGRWQARIGRVAGN-KDLYLGTFSTQXXXXXXYDIAAIKFRGVTAVTNFDI 490
YRGV R G++ A I A N ++LGTF T YD AA + RG A+ NF +
Sbjct: 6 YRGV-RQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPL 64
>pdb|2AFB|A Chain A, Crystal Structure Of 2-Dehydro-3- Deoxygluconokinase (Ec
2.7.1.45) (Tm0067) From Thermotoga Maritima At 2.05 A
Resolution
pdb|2AFB|B Chain B, Crystal Structure Of 2-Dehydro-3- Deoxygluconokinase (Ec
2.7.1.45) (Tm0067) From Thermotoga Maritima At 2.05 A
Resolution
Length = 351
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 338 WTGRYEAHLWDNSCKKEGQSRKGRQVY--LGGYDMEEKAARAYDLAALKYWGPSTHINFP 395
++ RYE H+ D G S G +Y L G+D ++KA A + LK+ P +
Sbjct: 276 FSNRYEIHIVDRVGA--GDSFAGALIYGSLXGFDSQKKAEFAAAASCLKHTIPGDFVVLS 333
Query: 396 LENYQK 401
+E +K
Sbjct: 334 IEEIEK 339
>pdb|2XLC|A Chain A, Acetyl Xylan Esterase From Bacillus Pumilus Cect5072 Bound
To Paraoxon
pdb|2XLC|B Chain B, Acetyl Xylan Esterase From Bacillus Pumilus Cect5072 Bound
To Paraoxon
pdb|2XLC|C Chain C, Acetyl Xylan Esterase From Bacillus Pumilus Cect5072 Bound
To Paraoxon
pdb|2XLC|D Chain D, Acetyl Xylan Esterase From Bacillus Pumilus Cect5072 Bound
To Paraoxon
pdb|2XLC|E Chain E, Acetyl Xylan Esterase From Bacillus Pumilus Cect5072 Bound
To Paraoxon
pdb|2XLC|F Chain F, Acetyl Xylan Esterase From Bacillus Pumilus Cect5072 Bound
To Paraoxon
Length = 320
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 218 AMADDGMHGMKNWVSRNYATEQAMQQKLLGCMSHNGGESGDISAMPYG 265
A DDG+H + NW YAT G + G S D S P G
Sbjct: 93 ASYDDGIHDIVNWALHGYAT--------FGXLVRGQGGSEDTSVTPGG 132
>pdb|2XLB|A Chain A, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|B Chain B, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|C Chain C, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|D Chain D, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|E Chain E, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|F Chain F, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|G Chain G, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|H Chain H, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|I Chain I, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|J Chain J, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|K Chain K, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
pdb|2XLB|L Chain L, Acetyl Xylan Esterase From Bacillus Pumilus Without
Ligands
Length = 320
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 218 AMADDGMHGMKNWVSRNYATEQAMQQKLLGCMSHNGGESGDISAMPYG 265
A DDG+H + NW YAT G + G S D S P G
Sbjct: 93 ASYDDGIHDIVNWALHGYAT--------FGMLVRGQGGSEDTSVTPGG 132
>pdb|2FEK|A Chain A, Structure Of A Protein Tyrosine Phosphatase
Length = 167
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 347 WDNSCKKEGQSRKGRQVYLGGYDMEEKAARAY 378
WDN C+ RK R+ + Y + E++AR +
Sbjct: 127 WDNECEIPDPYRKSRETFAAVYTLLERSARQW 158
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
0.315 0.130 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,965,373
Number of Sequences: 62578
Number of extensions: 664734
Number of successful extensions: 1343
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1338
Number of HSP's gapped (non-prelim): 10
length of query: 680
length of database: 14,973,337
effective HSP length: 105
effective length of query: 575
effective length of database: 8,402,647
effective search space: 4831522025
effective search space used: 4831522025
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: 55 (25.8 bits)