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= 040739
(594 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B8X|A Chain A, Glutathione S-transferase Fused With The Nuclear Matrix
Targeting Signal Of The Transcription Factor Aml-1
Length = 280
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 51/205 (24%), Positives = 84/205 (40%), Gaps = 28/205 (13%)
Query: 91 LGQLPKGQQATTLLE--LMTIRAFHSKILRCYSLGTAIGFRIKRGVLTDIPAIL-VFVSR 147
LG PK + ++LE ++ IR S+I T +K L+ +P +L +F R
Sbjct: 81 LGGCPKERAEISMLEGAVLDIRYGVSRIAYSKDFET-----LKVDFLSKLPEMLKMFEDR 135
Query: 148 KVHKQWLSPIQCLPTALEGPGGVWCD-VDVVEFSYFGAPEPTPKEQLYTQIVDDLRGGDP 206
HK +L+ + P + D +DVV + + PK + + ++ + D
Sbjct: 136 LCHKTYLNG-----DHVTHPDFMLYDALDVVLYMDPMCLDAFPKLVCFKKRIEAIPQIDK 190
Query: 207 SIGSGSQVAS-----QETYGTLGAIVKSQT---GSRQVGFLTNRHVAVDLDYPNQKMFHP 258
+ S +A Q T+G KS GSR+ + H YP + P
Sbjct: 191 YLKSSKYIAWPLQGWQATFGGGDHPPKSDLVPRGSRRASVGSRMH------YPGAFTYSP 244
Query: 259 LPPTLGPGVYLGAVERATSFHHRRP 283
P T G G+ + A+ AT +H P
Sbjct: 245 TPVTSGIGIGMSAMGSATRYHTYLP 269
>pdb|3DDY|A Chain A, Structure Of Lumazine Protein, An Optical Transponder Of
Luminescent Bacteria
Length = 186
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 38/83 (45%), Gaps = 9/83 (10%)
Query: 285 TFVRADGAFIPFADDFDMSTVTTSVKGLGEIGDVKIVDLQSPISSLIGKQVVKVGRSSGL 344
T VR G + F D D + TT+ GL E GD +++ ++G+ G +G
Sbjct: 50 TVVRILGDMVYF--DIDQALGTTTFDGLKE-GDQVNLEIHPKFGEVVGR-----GGLTGN 101
Query: 345 TTGTVLAYALEYNDEKGICFLTD 367
GT L A+E ND G L D
Sbjct: 102 IKGTALVAAIEEND-AGFSVLID 123
>pdb|1XL7|A Chain A, Crystal Structure Of Mouse Carnitine Octanoyltransferase
pdb|1XL7|B Chain B, Crystal Structure Of Mouse Carnitine Octanoyltransferase
pdb|1XL8|A Chain A, Crystal Structure Of Mouse Carnitine Octanoyltransferase
In Complex With Octanoylcarnitine
pdb|1XL8|B Chain B, Crystal Structure Of Mouse Carnitine Octanoyltransferase
In Complex With Octanoylcarnitine
Length = 612
Score = 29.6 bits (65), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 2/30 (6%)
Query: 184 APEPTPKEQLYTQIVDDLRGGDPSIGSGSQ 213
+P TP+E Y+Q+ + L GGDPS+ G +
Sbjct: 282 SPHATPEE--YSQVFEXLLGGDPSVRWGDK 309
>pdb|3PL2|A Chain A, Crystal Structure Of A 5-Keto-2-Deoxygluconokinase
(Ncgl0155, Cgl0158) From Corynebacterium Glutamicum Atcc
13032 Kitasato At 1.89 A Resolution
pdb|3PL2|B Chain B, Crystal Structure Of A 5-Keto-2-Deoxygluconokinase
(Ncgl0155, Cgl0158) From Corynebacterium Glutamicum Atcc
13032 Kitasato At 1.89 A Resolution
pdb|3PL2|C Chain C, Crystal Structure Of A 5-Keto-2-Deoxygluconokinase
(Ncgl0155, Cgl0158) From Corynebacterium Glutamicum Atcc
13032 Kitasato At 1.89 A Resolution
pdb|3PL2|D Chain D, Crystal Structure Of A 5-Keto-2-Deoxygluconokinase
(Ncgl0155, Cgl0158) From Corynebacterium Glutamicum Atcc
13032 Kitasato At 1.89 A Resolution
Length = 319
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 74 ERANYFANLQKGVLPETLGQLPKGQQATTLLELMTIRAFHSKILRCYSLGTAIGFRIKRG 133
ERA A L++GV + Q PKG A T E + + F ++ G A G + G
Sbjct: 216 ERAGR-ALLERGVELAIVKQGPKGVXAXTKDETVEVPPFFVDVINGLGAGDAFGGALCHG 274
Query: 134 VLTDIP 139
+L++ P
Sbjct: 275 LLSEWP 280
>pdb|1QO8|A Chain A, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
pdb|1QO8|D Chain D, The Structure Of The Open Conformation Of A
Flavocytochrome C3 Fumarate Reductase
Length = 566
Score = 28.9 bits (63), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 206 PSIGSGSQVASQETYGTLGAIVKSQTGSRQVGFLTNRHVAVD--LDYPNQ 253
P++G S++ ET +GA++ ++ G+R + LT R A D L P Q
Sbjct: 361 PTVGKDSRILISETVRGVGAVMVNKDGNRFISELTTRDKASDAILKQPGQ 410
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 0.134 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,088,417
Number of Sequences: 62578
Number of extensions: 783721
Number of successful extensions: 1508
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1506
Number of HSP's gapped (non-prelim): 12
length of query: 594
length of database: 14,973,337
effective HSP length: 104
effective length of query: 490
effective length of database: 8,465,225
effective search space: 4147960250
effective search space used: 4147960250
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: 54 (25.4 bits)