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= 042645
(427 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 68/154 (44%), Gaps = 23/154 (14%)
Query: 244 IFKTMRNRKIVLLLDDIWELFDLAQVGLPVPSRASASKVVFTTREFEVC-GLMDAHKSFK 302
I ++ + +L+LDD+W+ + L S +++ TTR+ V +M
Sbjct: 229 ILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMGPKYVVP 281
Query: 303 VEC-LGYEDAWRLFEEKVGRDILDSHPDIPELAETVARECGGLPLALITVGRAMASKKAP 361
VE LG E + V D+PE A ++ +EC G PL + +G + + P
Sbjct: 282 VESSLGKEKGLEILSLFVNM----KKADLPEQAHSIIKECKGSPLVVSLIGALL--RDFP 335
Query: 362 REWAHAIEVLRSSASKFSGMEKKALSRLKFSYDF 395
W + ++ L++ +F + K + SYD+
Sbjct: 336 NRWEYYLKQLQN--KQFKRIRKSS------SYDY 361
>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 = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 73/162 (45%), Gaps = 26/162 (16%)
Query: 239 EKAQEIFKTMRNRK---IVLLLDDIWELFDLAQVGLPVPSRASASKVVFTTREFEVC-GL 294
E+A++ + + RK +L+LDD+W+ + L S +++ TTR+ V +
Sbjct: 227 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSV 279
Query: 295 MDAHKSFKVEC-LGYEDAWRLFEEKVGRDILDSHPDIPELAETVARECGGLPLALITVGR 353
M VE LG E + V D+PE A ++ +EC G PL + +G
Sbjct: 280 MGPKYVVPVESSLGKEKGLEILSLFVNM----KKADLPEQAHSIIKECKGSPLVVSLIGA 335
Query: 354 AMASKKAPREWAHAIEVLRSSASKFSGMEKKALSRLKFSYDF 395
+ + P W + ++ L++ +F + K + SYD+
Sbjct: 336 LL--RDFPNRWEYYLKQLQN--KQFKRIRKSS------SYDY 367
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 39/162 (24%), Positives = 72/162 (44%), Gaps = 26/162 (16%)
Query: 239 EKAQEIFKTMRNRK---IVLLLDDIWELFDLAQVGLPVPSRASASKVVFTTREFEVC-GL 294
E+A++ + + RK +L+LDD+W+ + L + +++ TTR+ V +
Sbjct: 221 EEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTRDKSVTDSV 273
Query: 295 MDAHKSFKVEC-LGYEDAWRLFEEKVGRDILDSHPDIPELAETVARECGGLPLALITVGR 353
M VE LG E + V D+P A ++ +EC G PL + +G
Sbjct: 274 MGPKHVVPVESGLGREKGLEILSLFVNM----KKEDLPAEAHSIIKECKGSPLVVSLIGA 329
Query: 354 AMASKKAPREWAHAIEVLRSSASKFSGMEKKALSRLKFSYDF 395
+ + P WA+ + L++ +F + K + SYD+
Sbjct: 330 LL--RDFPNRWAYYLRQLQN--KQFKRIRKSS------SYDY 361
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 71/162 (43%), Gaps = 26/162 (16%)
Query: 239 EKAQEIFKTMRNRK---IVLLLDDIWELFDLAQVGLPVPSRASASKVVFTTREFEVC-GL 294
E+A++ + + RK +L+LDD+W+ + L + +++ TT + V +
Sbjct: 228 EEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTSDKSVTDSV 280
Query: 295 MDAHKSFKVEC-LGYEDAWRLFEEKVGRDILDSHPDIPELAETVARECGGLPLALITVGR 353
M VE LG E + V D+P A ++ +EC G PL + +G
Sbjct: 281 MGPKHVVPVESGLGREKGLEILSLFVNM----KKEDLPAEAHSIIKECKGSPLVVSLIGA 336
Query: 354 AMASKKAPREWAHAIEVLRSSASKFSGMEKKALSRLKFSYDF 395
+ + P WA+ + L++ +F + K + SYD+
Sbjct: 337 LL--RDFPNRWAYYLRQLQN--KQFKRIRKSS------SYDY 368
>pdb|1L2T|A Chain A, Dimeric Structure Of Mj0796, A Bacterial Abc Transporter
Cassette
pdb|1L2T|B Chain B, Dimeric Structure Of Mj0796, A Bacterial Abc Transporter
Cassette
Length = 235
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 98 LRYRSSIKSYKYGKRVVKSLKNVQGLRKEGDF 129
++ ++ K+YK G+ ++ +LKNV KEG+F
Sbjct: 2 IKLKNVTKTYKMGEEIIYALKNVNLNIKEGEF 33
>pdb|3TIF|A Chain A, Dimeric Structure Of A Post-Hydrolysis State Of The
Atp-Binding Cassette Mj0796 Bound To Adp And Pi
pdb|3TIF|B Chain B, Dimeric Structure Of A Post-Hydrolysis State Of The
Atp-Binding Cassette Mj0796 Bound To Adp And Pi
Length = 235
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 98 LRYRSSIKSYKYGKRVVKSLKNVQGLRKEGDF 129
++ ++ K+YK G+ ++ +LKNV KEG+F
Sbjct: 2 VKLKNVTKTYKMGEEIIYALKNVNLNIKEGEF 33
>pdb|1F3O|A Chain A, Crystal Structure Of Mj0796 Atp-Binding Cassette
Length = 235
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 22/32 (68%)
Query: 98 LRYRSSIKSYKYGKRVVKSLKNVQGLRKEGDF 129
++ ++ K+YK G+ ++ +LKNV KEG+F
Sbjct: 2 IKLKNVTKTYKXGEEIIYALKNVNLNIKEGEF 33
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
0.321 0.136 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,288,474
Number of Sequences: 62578
Number of extensions: 415699
Number of successful extensions: 1003
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 996
Number of HSP's gapped (non-prelim): 9
length of query: 427
length of database: 14,973,337
effective HSP length: 102
effective length of query: 325
effective length of database: 8,590,381
effective search space: 2791873825
effective search space used: 2791873825
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)