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= 040483
(231 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A8R|A Chain A, The Structure Of The N-Terminal Regulatory Domain Of A
Plant Nadph Oxidase
pdb|3A8R|B Chain B, The Structure Of The N-Terminal Regulatory Domain Of A
Plant Nadph Oxidase
Length = 179
Score = 93.6 bits (231), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 51/110 (46%), Positives = 69/110 (62%), Gaps = 4/110 (3%)
Query: 93 TRSGAKRALNGLRFISKAAGASDAEELRRLVESTFESLSEDGLLAREDFGECIGMVDSKE 152
T+S A AL GL+F++ G + VE F L DG+L R FG+CIGM S E
Sbjct: 4 TKSSAAVALKGLQFVTAKVG----NDGWAAVEKRFNQLQVDGVLLRSRFGKCIGMDGSDE 59
Query: 153 FAVGIFDALARRRGQKIGKITKEELGEFWLQISDQSFDARLQIFFDMYNH 202
FAV +FD+LAR+RG +TK+EL +F+ Q++DQ FD RL+ FFDM +
Sbjct: 60 FAVQMFDSLARKRGIVKQVLTKDELKDFYEQLTDQGFDNRLRTFFDMVDK 109
>pdb|3LD2|A Chain A, The Crystal Structure Of Smu.2055 From Streptococcus
Mutans Ua159
pdb|3LD2|B Chain B, The Crystal Structure Of Smu.2055 From Streptococcus
Mutans Ua159
pdb|3LD2|C Chain C, The Crystal Structure Of Smu.2055 From Streptococcus
Mutans Ua159
pdb|3LD2|D Chain D, The Crystal Structure Of Smu.2055 From Streptococcus
Mutans Ua159
Length = 197
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%), Gaps = 5/46 (10%)
Query: 19 GVGRAMLPIFLNDLSRNSQQEQAQDLVELTIELEDDAVVFRQKFGW 64
G+GRA++ IFLN++ + Q+ ++ + +AV+F +K G+
Sbjct: 125 GIGRALVQIFLNEVKSDYQK-----VLIHVLSSNQEAVLFYKKLGF 165
>pdb|2JBR|A Chain A, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBR|B Chain B, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBR|C Chain C, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBR|D Chain D, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumanni
pdb|2JBS|A Chain A, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBS|B Chain B, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBS|C Chain C, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBS|D Chain D, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|A Chain A, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|B Chain B, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|C Chain C, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
pdb|2JBT|D Chain D, Structure Of The Monooxygenase Component Of P-
Hydroxyphenylacetate Hydroxylase From Acinetobacter
Baumannii
Length = 422
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 38/100 (38%), Gaps = 13/100 (13%)
Query: 110 AAGASDAEELRRLVESTFESLSEDGL-------------LAREDFGECIGMVDSKEFAVG 156
A A AE+LRR+ + + L E GL ++ DF CI +
Sbjct: 52 AKNAESAEQLRRVPDENIKLLKEIGLHRAFQPKVYGGLEMSLPDFANCIVTLAGACAGTA 111
Query: 157 IFDALARRRGQKIGKITKEELGEFWLQISDQSFDARLQIF 196
+L +I +K+ E WL+ D + + + F
Sbjct: 112 WAFSLLCTHSHQIAMFSKQLQDEIWLKDPDATASSSIAPF 151
>pdb|2VSQ|A Chain A, Structure Of Surfactin A Synthetase C (Srfa-C), A
Nonribosomal Peptide Synthetase Termination Module
Length = 1304
Score = 27.3 bits (59), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 181 WLQISDQSFDARLQIFFDMYNHLLQVIRLIPPDFNPLLSRE 221
+L +S+ +FDA FD Y +L RLI D + LL E
Sbjct: 650 FLSVSNYAFDA---FTFDFYASMLNAARLIIADEHTLLDTE 687
>pdb|2ZME|B Chain B, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 238
Score = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 122 LVESTFESLSEDGLLAREDFGECIGM 147
+V S E++SE G L E+F + +GM
Sbjct: 175 MVASALETVSEKGSLTSEEFAKLVGM 200
>pdb|3CUQ|B Chain B, Integrated Structural And Functional Model Of The Human
Escrt-Ii Complex
Length = 218
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 122 LVESTFESLSEDGLLAREDFGECIGM 147
+V S E++SE G L E+F + +GM
Sbjct: 155 MVASALETVSEKGSLTSEEFAKLVGM 180
>pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|M Chain M, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|D Chain D, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1YNJ|D Chain D, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNJ|J Chain J, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|D Chain D, Taq Rna Polymerase-rifampicin Complex
pdb|1YNN|J Chain J, Taq Rna Polymerase-rifampicin Complex
Length = 1524
Score = 26.9 bits (58), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 54/127 (42%), Gaps = 16/127 (12%)
Query: 84 RRIKAKLQRTRSGAKRALNGLRFISKAAGASDAEELRRLVESTFESLSEDGLLAREDFGE 143
R ++A +R G +L + F+ KAA A + E+ V S + G+ +
Sbjct: 1151 REVEALGRRLEEGRYLSLEDVHFLIKAAEAGEVREVP--VRSPLTCQTRYGVCQK----- 1203
Query: 144 CIGMVDSKEFAVGIFDALARRRGQKIGKITKEELGEFWLQISDQSFD-ARLQIFFDMYNH 202
C G S V I G+ +G + E +GE Q++ ++F + + D+
Sbjct: 1204 CYGYDLSMARPVSI--------GEAVGVVAAESIGEPGTQLTMRTFHTGGVAVGTDITQG 1255
Query: 203 LLQVIRL 209
L +VI L
Sbjct: 1256 LPRVIEL 1262
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
0.320 0.137 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,848,048
Number of Sequences: 62578
Number of extensions: 221642
Number of successful extensions: 520
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 506
Number of HSP's gapped (non-prelim): 32
length of query: 231
length of database: 14,973,337
effective HSP length: 96
effective length of query: 135
effective length of database: 8,965,849
effective search space: 1210389615
effective search space used: 1210389615
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: 50 (23.9 bits)