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= 007817
(588 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 48.5 bits (114), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 87/358 (24%), Positives = 143/358 (39%), Gaps = 81/358 (22%)
Query: 199 IPIVGMAGAGKTMLAREVYNDRAVQNFKFDVKA-WVSVS--DDFDVLRISRALLESITST 255
+ I GMAG GK++LA E D ++ F WVS+ D +L + L +
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 216
Query: 256 NCDFKTL----NEVQVKLRIIVDGK--KFLLVLDDVWNENYNLWEILKAPFMAGARNSKI 309
+ L E + +LR+++ K + LL+LDDVW+ W +LK A +I
Sbjct: 217 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP----W-VLK----AFDNQCQI 267
Query: 310 IVTTCHSNVASMMGSVEHY-----------NLKLLSDEYCWSVFVKHAFERRDAGAHQFS 358
++TT +V + +H L++L S+FV E A AH
Sbjct: 268 LLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL------SLFVNMKKEDLPAEAH--- 318
Query: 359 KLFRKKIVAKCGGLPLAVSTLGGLLRT---------RHTED-AWEEIVSSKMWDLPQQTD 408
I+ +C G PL VS +G LLR R ++ ++ I S +D +
Sbjct: 319 -----SIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDE 373
Query: 409 ILAVLRLSYHYLPSHLKRCFTYCAIFPKNYEFEKNELVFLWMGEGMIQQSRTGKLLEDLG 468
+++ S L +K +T +I K+ + L LW ++ +L++
Sbjct: 374 AMSI---SVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW----DLETEEVEDILQEFV 426
Query: 469 NE--FFCNPLSRSLFQQSSRDVRKFVMHDLVHDLAQLVSGATSFWLEEANKQLRTFER 524
N+ FCN +S + +HDL D F E+ QL+ R
Sbjct: 427 NKSLLFCNRNGKSFC---------YYLHDLQVD----------FLTEKNRSQLQDLHR 465
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 87/358 (24%), Positives = 143/358 (39%), Gaps = 81/358 (22%)
Query: 199 IPIVGMAGAGKTMLAREVYNDRAVQNFKFDVKA-WVSVS--DDFDVLRISRALLESITST 255
+ I GMAG GK++LA E D ++ F WVS+ D +L + L +
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 209
Query: 256 NCDFKTL----NEVQVKLRIIVDGK--KFLLVLDDVWNENYNLWEILKAPFMAGARNSKI 309
+ L E + +LR+++ K + LL+LDDVW+ W +LK A +I
Sbjct: 210 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP----W-VLK----AFDNQCQI 260
Query: 310 IVTTCHSNVASMMGSVEHY-----------NLKLLSDEYCWSVFVKHAFERRDAGAHQFS 358
++TT +V + +H L++L S+FV E A AH
Sbjct: 261 LLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL------SLFVNMKKEDLPAEAH--- 311
Query: 359 KLFRKKIVAKCGGLPLAVSTLGGLLRT---------RHTED-AWEEIVSSKMWDLPQQTD 408
I+ +C G PL VS +G LLR R ++ ++ I S +D +
Sbjct: 312 -----SIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDE 366
Query: 409 ILAVLRLSYHYLPSHLKRCFTYCAIFPKNYEFEKNELVFLWMGEGMIQQSRTGKLLEDLG 468
+++ S L +K +T +I K+ + L LW ++ +L++
Sbjct: 367 AMSI---SVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW----DLETEEVEDILQEFV 419
Query: 469 NE--FFCNPLSRSLFQQSSRDVRKFVMHDLVHDLAQLVSGATSFWLEEANKQLRTFER 524
N+ FCN +S + +HDL D F E+ QL+ R
Sbjct: 420 NKSLLFCNRNGKSFC---------YYLHDLQVD----------FLTEKNRSQLQDLHR 458
>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 = 6e-05, Method: Compositional matrix adjust.
Identities = 85/332 (25%), Positives = 134/332 (40%), Gaps = 67/332 (20%)
Query: 199 IPIVGMAGAGKTMLAREVYNDRAVQNFKFDVKA-WVSVS-DDFDVLRISRALLESITSTN 256
+ I GMAG GK++LA E D ++ F WVSV D L + L + +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQD 209
Query: 257 CDFK-----TLNEVQVKLRIIVDGK--KFLLVLDDVWNENYNLWEILKAPFMAGARNSKI 309
F + E + +LRI++ K + LL+LDDVW+ W +LKA +I
Sbjct: 210 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-VLKA----FDSQCQI 260
Query: 310 IVTTCHSNVA-SMMGSV----------EHYNLKLLSDEYCWSVFVKHAFERRDAGAHQFS 358
++TT +V S+MG + L++LS +FV AH
Sbjct: 261 LLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILS------LFVNMKKADLPEQAH--- 311
Query: 359 KLFRKKIVAKCGGLPLAVSTLGGLLR----------TRHTEDAWEEIVSSKMWDLPQQTD 408
I+ +C G PL VS +G LLR + ++ I S +D +
Sbjct: 312 -----SIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDE 366
Query: 409 ILAVLRLSYHYLPSHLKRCFTYCAIFPKNYEFEKNELVFLWMGEGMIQQSRTGKLLEDLG 468
+++ S L +K +T +I K+ + L LW E + +ED+
Sbjct: 367 AMSI---SVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME--------TEEVEDIL 415
Query: 469 NEFFCNPLSRSLFQQSSRDVRKFVMHDLVHDL 500
EF L LF + ++ +HDL D
Sbjct: 416 QEFVNKSL---LFCDRNGKSFRYYLHDLQVDF 444
>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 = 87/334 (26%), Positives = 134/334 (40%), Gaps = 71/334 (21%)
Query: 199 IPIVGMAGAGKTMLAREVYNDRAVQNFKFDVKA-WVSVS-DDFDVLRISRALLESITSTN 256
+ I GMAG GK++LA E D ++ F WVSV D L + L + +
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQD 215
Query: 257 CDFK-----TLNEVQVKLRIIVDGK--KFLLVLDDVWNENYNLWEILKAPFMAGARNSKI 309
F + E + +LRI++ K + LL+LDDVW+ W +LKA +I
Sbjct: 216 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-VLKA----FDSQCQI 266
Query: 310 IVTTCHSNVA-SMMGSV----------EHYNLKLLSDEYCWSVFVKHAFERRDAGAHQFS 358
++TT +V S+MG + L++LS +FV AH
Sbjct: 267 LLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILS------LFVNMKKADLPEQAH--- 317
Query: 359 KLFRKKIVAKCGGLPLAVSTLGGLLRTRHTEDAWE------------EIVSSKMWDLPQQ 406
I+ +C G PL VS +G LLR + WE I S +D
Sbjct: 318 -----SIIKECKGSPLVVSLIGALLRD--FPNRWEYYLKQLQNKQFKRIRKSSSYDYEAL 370
Query: 407 TDILAVLRLSYHYLPSHLKRCFTYCAIFPKNYEFEKNELVFLWMGEGMIQQSRTGKLLED 466
+ +++ S L +K +T +I K+ + L LW E + +ED
Sbjct: 371 DEAMSI---SVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDME--------TEEVED 419
Query: 467 LGNEFFCNPLSRSLFQQSSRDVRKFVMHDLVHDL 500
+ EF L LF + ++ +HDL D
Sbjct: 420 ILQEFVNKSL---LFCDRNGKSFRYYLHDLQVDF 450
>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 = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 19/56 (33%), Positives = 32/56 (57%), Gaps = 5/56 (8%)
Query: 35 LDSELKKWENTLIMIQAVLCDAEEKQLTNKAVKIWLDDLRDLAYDAEDILDEFATE 90
L EL+ LI I V +QL ++ K+W D++R+L+Y ED++D+F +
Sbjct: 31 LGKELESXNAALIKIGEV----PREQLDSQD-KLWADEVRELSYVIEDVVDKFLVQ 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
0.322 0.136 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,484,248
Number of Sequences: 62578
Number of extensions: 663124
Number of successful extensions: 1562
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1553
Number of HSP's gapped (non-prelim): 5
length of query: 588
length of database: 14,973,337
effective HSP length: 104
effective length of query: 484
effective length of database: 8,465,225
effective search space: 4097168900
effective search space used: 4097168900
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: 54 (25.4 bits)