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= 039822
(711 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 = 46.6 bits (109), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 36/107 (33%), Positives = 54/107 (50%), Gaps = 14/107 (13%)
Query: 73 LLVLDDVWNEDYCKWEPFYYCLKNCLYGSKILITTRKETVA-CIMGSTDVISVNVLSEME 131
LL+LDDVW+ + LK +IL+TTR ++V +MG V+ V S +
Sbjct: 239 LLILDDVWDS---------WVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE--SSLG 287
Query: 132 CWSVFESLAFFGNSMEERENLEKIGREIIRKCKGLPLAAKTIASLLR 178
E L+ F N ++ +L + II++CKG PL I +LLR
Sbjct: 288 KEKGLEILSLFVNM--KKADLPEQAHSIIKECKGSPLVVSLIGALLR 332
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 59/236 (25%), Positives = 100/236 (42%), Gaps = 40/236 (16%)
Query: 73 LLVLDDVWNEDYCKWEPFYYCLKNCLYGSKILITTRKETVA-CIMGSTDVISVNVLSEME 131
LL+LDDVW+ + LK +IL+TTR ++V +MG V+ V S +
Sbjct: 239 LLILDDVWDP---------WVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVE--SGLG 287
Query: 132 CWSVFESLAFFGNSMEERENLEKIGREIIRKCKGLPLAAKTIASLLRSKNTE-----KEW 186
E L+ F N ++E+L II++CKG PL I +LLR ++
Sbjct: 288 REKGLEILSLFVNM--KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQL 345
Query: 187 KNXX-XXXXXXXXXXXKGLLAPLMLSYYELPSKVKQCFAYCAVFPKDHEILKYDLIELWM 245
+N + L + +S L +K + ++ KD ++ L LW
Sbjct: 346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWD 405
Query: 246 AQGYFSEKGYKEMKDIGEKYFN---ILASRSFFQDFAKSGDGEIVCCKMHDLVHDF 298
+ +E++DI +++ N + +R +G+ C +HDL DF
Sbjct: 406 LET-------EEVEDILQEFVNKSLLFCNR----------NGKSFCYYLHDLQVDF 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 = 45.1 bits (105), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/107 (33%), Positives = 54/107 (50%), Gaps = 14/107 (13%)
Query: 73 LLVLDDVWNEDYCKWEPFYYCLKNCLYGSKILITTRKETVA-CIMGSTDVISVNVLSEME 131
LL+LDDVW+ + LK +IL+TTR ++V +MG V+ V S +
Sbjct: 245 LLILDDVWDS---------WVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE--SSLG 293
Query: 132 CWSVFESLAFFGNSMEERENLEKIGREIIRKCKGLPLAAKTIASLLR 178
E L+ F N ++ +L + II++CKG PL I +LLR
Sbjct: 294 KEKGLEILSLFVNM--KKADLPEQAHSIIKECKGSPLVVSLIGALLR 338
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 58/236 (24%), Positives = 99/236 (41%), Gaps = 40/236 (16%)
Query: 73 LLVLDDVWNEDYCKWEPFYYCLKNCLYGSKILITTRKETVA-CIMGSTDVISVNVLSEME 131
LL+LDDVW+ + LK +IL+TT ++V +MG V+ V S +
Sbjct: 246 LLILDDVWDP---------WVLKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVE--SGLG 294
Query: 132 CWSVFESLAFFGNSMEERENLEKIGREIIRKCKGLPLAAKTIASLLRSKNTE-----KEW 186
E L+ F N ++E+L II++CKG PL I +LLR ++
Sbjct: 295 REKGLEILSLFVNM--KKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQL 352
Query: 187 KNXX-XXXXXXXXXXXKGLLAPLMLSYYELPSKVKQCFAYCAVFPKDHEILKYDLIELWM 245
+N + L + +S L +K + ++ KD ++ L LW
Sbjct: 353 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWD 412
Query: 246 AQGYFSEKGYKEMKDIGEKYFN---ILASRSFFQDFAKSGDGEIVCCKMHDLVHDF 298
+ +E++DI +++ N + +R +G+ C +HDL DF
Sbjct: 413 LET-------EEVEDILQEFVNKSLLFCNR----------NGKSFCYYLHDLQVDF 451
>pdb|1JJU|B Chain B, Structure Of A Quinohemoprotein Amine Dehydrogenase With A
Unique Redox Cofactor And Highly Unusual Crosslinking
pdb|1PBY|B Chain B, Structure Of The Phenylhydrazine Adduct Of The
Quinohemoprotein Amine Dehydrogenase From Paracoccus
Denitrificans At 1.7 A Resolution
Length = 337
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 586 LEDLEVCRMESVKRVG--HEFLGVESDTDGSSVIAFPKLKHLKFYDMEELEE 635
LE ++ + S+KRV H + V TDGS+V L L YD E LE+
Sbjct: 262 LESFDLEKNASIKRVPLPHSYYSVNVSTDGSTVWLGGALGDLAAYDAETLEK 313
>pdb|1GME|A Chain A, Crystal Structure And Assembly Of An Eukaryotic Small
Heat Shock Protein
pdb|1GME|B Chain B, Crystal Structure And Assembly Of An Eukaryotic Small
Heat Shock Protein
pdb|1GME|C Chain C, Crystal Structure And Assembly Of An Eukaryotic Small
Heat Shock Protein
pdb|1GME|D Chain D, Crystal Structure And Assembly Of An Eukaryotic Small
Heat Shock Protein
Length = 151
Score = 29.3 bits (64), Expect = 8.2, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 30 SDPFDEFRIARSIIEALTGSAPDVAEFQSLMQHIQEFVEGEKF 72
+DPFD FR SI+ A++G + A F + +E E F
Sbjct: 18 ADPFDTFR---SIVPAISGGGSETAAFANARMDWKETPEAHVF 57
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 0.140 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,433,560
Number of Sequences: 62578
Number of extensions: 811684
Number of successful extensions: 1629
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1616
Number of HSP's gapped (non-prelim): 13
length of query: 711
length of database: 14,973,337
effective HSP length: 106
effective length of query: 605
effective length of database: 8,340,069
effective search space: 5045741745
effective search space used: 5045741745
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: 55 (25.8 bits)