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= 043083
(468 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 48.5 bits (114), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 54/204 (26%), Positives = 88/204 (43%), Gaps = 40/204 (19%)
Query: 183 ISLVGLGGIGKTILAQLAYNNDEVKRNFENVIWVCVSDTFEEIRVAK----AIIEGLDES 238
+++ G+ G GK++LA A + + C S + + K ++ L
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 239 ASSLSEFQSLMSHIHRSIEGKK-------------FFLVLDDVWDGDYNKWEPFFLYLKN 285
L + +S + +IE K L+LDDVWD P+ L K
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWVL--KA 253
Query: 286 GLHGSKILVTTRNESVA-HMMGSTNIIFIEQ-LAEEECCSLLERLAFFGRSFEDREKLEP 343
+ +IL+TTR++SV +MG +++ +E L E+ LE L+ F +E L
Sbjct: 254 FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG---LEILSLFVNM--KKEDLPA 308
Query: 344 MGRKIAHKCKGLPVAAKVIGNLLR 367
I +CKG P+ +IG LLR
Sbjct: 309 EAHSIIKECKGSPLVVSLIGALLR 332
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 40/204 (19%)
Query: 183 ISLVGLGGIGKTILAQLAYNNDEVKRNFENVIWVCVSDTFEEIRVAK----AIIEGLDES 238
+++ G+ G GK++LA A + + C S + + K ++ L
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 239 ASSLSEFQSLMSHIHRSIEGKK-------------FFLVLDDVWDGDYNKWEPFFLYLKN 285
L + +S + +IE K L+LDDVWD P+ L K
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWVL--KA 260
Query: 286 GLHGSKILVTTRNESVA-HMMGSTNIIFIEQ-LAEEECCSLLERLAFFGRSFEDREKLEP 343
+ +IL+TT ++SV +MG +++ +E L E+ LE L+ F +E L
Sbjct: 261 FDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKG---LEILSLFVNM--KKEDLPA 315
Query: 344 MGRKIAHKCKGLPVAAKVIGNLLR 367
I +CKG P+ +IG LLR
Sbjct: 316 EAHSIIKECKGSPLVVSLIGALLR 339
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 87/204 (42%), Gaps = 40/204 (19%)
Query: 183 ISLVGLGGIGKTILAQLAYNNDEVKRNFENVIWVCVSDTFEEIRVAK----AIIEGLDES 238
+++ G+ G GK++LA A + +++ C + V K ++ L
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRD-------HSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNL 202
Query: 239 ASSLSEFQSLMSHIHRSIEGKK-------------FFLVLDDVWDGDYNKWEPFFLYLKN 285
+ L + +S + +IE K L+LDDVWD W LK
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKA 253
Query: 286 GLHGSKILVTTRNESVA-HMMGSTNIIFIEQ-LAEEECCSLLERLAFFGRSFEDREKLEP 343
+IL+TTR++SV +MG ++ +E L +E+ LE L+ F + L
Sbjct: 254 FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG---LEILSLFVNM--KKADLPE 308
Query: 344 MGRKIAHKCKGLPVAAKVIGNLLR 367
I +CKG P+ +IG LLR
Sbjct: 309 QAHSIIKECKGSPLVVSLIGALLR 332
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 52/203 (25%), Positives = 83/203 (40%), Gaps = 38/203 (18%)
Query: 183 ISLVGLGGIGKTILAQLAYNNDEVKRNFENVIWVCVSDTFEEIRVAK----AIIEGLDES 238
+++ G+ G GK++LA A + + C + V K ++ L
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEG-------CFPGGVHWVSVGKQDKSGLLMKLQNL 208
Query: 239 ASSLSEFQSLMSHIHRSIEGKK-------------FFLVLDDVWDGDYNKWEPFFLYLKN 285
+ L + +S + +IE K L+LDDVWD W LK
Sbjct: 209 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKA 259
Query: 286 GLHGSKILVTTRNESVA-HMMGSTNIIFIEQLAEEECCSLLERLAFFGRSFEDREKLEPM 344
+IL+TTR++SV +MG ++ +E +E LE L+ F + L
Sbjct: 260 FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE--KGLEILSLFVNM--KKADLPEQ 315
Query: 345 GRKIAHKCKGLPVAAKVIGNLLR 367
I +CKG P+ +IG LLR
Sbjct: 316 AHSIIKECKGSPLVVSLIGALLR 338
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 56/100 (56%), Gaps = 12/100 (12%)
Query: 4 AIVSSLLEQLISVAADEVKQQVRLLTGVREEVKKLTSNLQAIRAVL-EDAEQRQMQQDKA 62
A +S+L+ +L + +E K L GV++ ++ L L++ A L + E + Q D
Sbjct: 1 AAISNLIPKLGELLTEEFK----LHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQ 56
Query: 63 VTFWLDQLKDASYDMEDMLEEWTTARLKLQIEGV--DDDN 100
W D++++ SY +ED+++++ +Q++G+ DD+N
Sbjct: 57 DKLWADEVRELSYVIEDVVDKFL-----VQVDGIKSDDNN 91
>pdb|1IZK|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-amylase 1 Mutant
Enzyme W398v
Length = 637
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 235 LDESASSLSEFQSLMSHIHRSIEGKKFFLVLDDVWD--GDYNKW 276
+D + S Q+L++ IH + G K +L+LD V++ GD + W
Sbjct: 231 VDPAFGDNSTLQTLINDIHSTANGPKGYLILDGVFNHTGDSHPW 274
>pdb|1UH2|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-AmylaseMALTO-Hexaose
Complex
pdb|1UH4|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-Amylase 1MALTO-
Tridecaose Complex
pdb|2D0G|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 1 (Tvai) Mutant D356nE396Q COMPLEXED WITH
P5, A Pullulan Model Oligosaccharide
pdb|2D0H|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 1 (Tvai) Mutant D356nE396Q COMPLEXED WITH
P2, A Pullulan Model Oligosaccharide
Length = 637
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 235 LDESASSLSEFQSLMSHIHRSIEGKKFFLVLDDVWD--GDYNKW 276
+D + S Q+L++ IH + G K +L+LD V++ GD + W
Sbjct: 231 VDPAFGDNSTLQTLINDIHSTANGPKGYLILDGVFNHTGDSHPW 274
>pdb|1IZJ|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-Amylase 1 Mutant
Enzyme F313a
Length = 637
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 235 LDESASSLSEFQSLMSHIHRSIEGKKFFLVLDDVWD--GDYNKW 276
+D + S Q+L++ IH + G K +L+LD V++ GD + W
Sbjct: 231 VDPAFGDNSTLQTLINDIHSTANGPKGYLILDGVFNHTGDSHPW 274
>pdb|2D0F|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 1 (Tvai) Mutant D356n Complexed With P2,
A Pullulan Model Oligosaccharide
Length = 637
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 235 LDESASSLSEFQSLMSHIHRSIEGKKFFLVLDDVWD--GDYNKW 276
+D + S Q+L++ IH + G K +L+LD V++ GD + W
Sbjct: 231 VDPAFGDNSTLQTLINDIHSTANGPKGYLILDGVFNHTGDSHPW 274
>pdb|1JI1|A Chain A, Crystal Structure Analysis Of Thermoactinomyces Vulgaris
R- 47 Alpha-amylase 1
pdb|1JI1|B Chain B, Crystal Structure Analysis Of Thermoactinomyces Vulgaris
R- 47 Alpha-amylase 1
pdb|1UH3|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-AmylaseACARBOSE
Complex
Length = 637
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 235 LDESASSLSEFQSLMSHIHRSIEGKKFFLVLDDVWD--GDYNKW 276
+D + S Q+L++ IH + G K +L+LD V++ GD + W
Sbjct: 231 VDPAFGDNSTLQTLINDIHSTANGPKGYLILDGVFNHTGDSHPW 274
>pdb|2D3E|A Chain A, Crystal Structure Of The C-Terminal Fragment Of Rabbit
Skeletal Alpha-Tropomyosin
pdb|2D3E|B Chain B, Crystal Structure Of The C-Terminal Fragment Of Rabbit
Skeletal Alpha-Tropomyosin
pdb|2D3E|C Chain C, Crystal Structure Of The C-Terminal Fragment Of Rabbit
Skeletal Alpha-Tropomyosin
pdb|2D3E|D Chain D, Crystal Structure Of The C-Terminal Fragment Of Rabbit
Skeletal Alpha-Tropomyosin
Length = 134
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 49/89 (55%), Gaps = 6/89 (6%)
Query: 31 VREEVKKLTSNLQAIRAVLEDAEQRQMQQDKAVTFWLDQLKDASYDMEDMLEEWTTARLK 90
+ EE+K +T+NL+++ A E Q++ + ++ + D+LK+A E E + +L+
Sbjct: 43 LEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAE--FAERSVTKLE 100
Query: 91 LQIEGVDDDNALALAPHKKKIREINGKLD 119
I+ ++D+ L K K + I+ +LD
Sbjct: 101 KSIDDLEDE----LYAQKLKYKAISEELD 125
>pdb|1XOC|A Chain A, The Structure Of The Oligopeptide-Binding Protein, Appa,
From Bacillus Subtilis In Complex With A Nonapeptide
Length = 520
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 30/56 (53%)
Query: 188 LGGIGKTILAQLAYNNDEVKRNFENVIWVCVSDTFEEIRVAKAIIEGLDESASSLS 243
+G IG+ L Y+ D+ + EN+++ ++ T E++ V ++ E + E L+
Sbjct: 26 VGSIGEPTLFNSLYSTDDASTDIENMLYSFLTKTDEKLNVKLSLAESIKELDGGLA 81
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
0.319 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,453,257
Number of Sequences: 62578
Number of extensions: 479707
Number of successful extensions: 1476
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1451
Number of HSP's gapped (non-prelim): 26
length of query: 468
length of database: 14,973,337
effective HSP length: 102
effective length of query: 366
effective length of database: 8,590,381
effective search space: 3144079446
effective search space used: 3144079446
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)