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= 045618
(349 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 = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 52/193 (26%), Positives = 87/193 (45%), Gaps = 33/193 (17%)
Query: 75 VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
++QE+ + LP E ++RLR + L++LDDV + L+ F
Sbjct: 206 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV-------WDPWVLKAFDNQC 258
Query: 126 RIIVTTRDRRVLDN-FGVGNIYKV-NGLKYREALELFCNCAFKENHCPEDLLVHSKRILD 183
+I++TTRD+ V D+ G ++ V +GL + LE+ + N EDL + I+
Sbjct: 259 QILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSIIK 315
Query: 184 YANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKISYNE 232
G+PL V ++G+ LR W L L KRI YD + IS
Sbjct: 316 ECKGSPLVVSLIGALLRDFPN-RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 374
Query: 233 IKAEEKSLFLDIA 245
++ + K + D++
Sbjct: 375 LREDIKDYYTDLS 387
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 86/193 (44%), Gaps = 33/193 (17%)
Query: 75 VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
++QE+ + LP E ++RLR + L++LDDV + L+ F
Sbjct: 213 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV-------WDPWVLKAFDNQC 265
Query: 126 RIIVTTRDRRVLDN-FGVGNIYKV-NGLKYREALELFCNCAFKENHCPEDLLVHSKRILD 183
+I++TT D+ V D+ G ++ V +GL + LE+ + N EDL + I+
Sbjct: 266 QILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSIIK 322
Query: 184 YANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKISYNE 232
G+PL V ++G+ LR W L L KRI YD + IS
Sbjct: 323 ECKGSPLVVSLIGALLRDFPN-RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 381
Query: 233 IKAEEKSLFLDIA 245
++ + K + D++
Sbjct: 382 LREDIKDYYTDLS 394
>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 = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 56/197 (28%), Positives = 87/197 (44%), Gaps = 41/197 (20%)
Query: 75 VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
++Q++ + LP E ++RLR + L++LDDV + L+ F
Sbjct: 212 LDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDV-------WDSWVLKAFDSQC 264
Query: 126 RIIVTTRDRRVLDNFGVGNIYKV------NGLKYREALELFCNCAFKENHCPEDLLVHSK 179
+I++TTRD+ V D+ +G Y V K E L LF N K+ PE HS
Sbjct: 265 QILLTTRDKSVTDSV-MGPKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQ--AHS- 318
Query: 180 RILDYANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKI 228
I+ G+PL V ++G+ LR WE L L KRI YD + I
Sbjct: 319 -IIKECKGSPLVVSLIGALLRDFPN-RWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSI 376
Query: 229 SYNEIKAEEKSLFLDIA 245
S ++ + K + D++
Sbjct: 377 SVEMLREDIKDYYTDLS 393
>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 = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 56/197 (28%), Positives = 87/197 (44%), Gaps = 41/197 (20%)
Query: 75 VEQEQIRTPNLP---EYVRERLR------RTKVLIVLDDVNKVGQLEYLIGGLERFGPGS 125
++Q++ + LP E ++RLR + L++LDDV + L+ F
Sbjct: 206 LDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDV-------WDSWVLKAFDSQC 258
Query: 126 RIIVTTRDRRVLDNFGVGNIYKV------NGLKYREALELFCNCAFKENHCPEDLLVHSK 179
+I++TTRD+ V D+ +G Y V K E L LF N K+ PE HS
Sbjct: 259 QILLTTRDKSVTDSV-MGPKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQ--AHS- 312
Query: 180 RILDYANGNPLAVRVLGSFLRQKSKLDWESALDNL-----KRISDPDIYD------VLKI 228
I+ G+PL V ++G+ LR WE L L KRI YD + I
Sbjct: 313 -IIKECKGSPLVVSLIGALLRDFPN-RWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSI 370
Query: 229 SYNEIKAEEKSLFLDIA 245
S ++ + K + D++
Sbjct: 371 SVEMLREDIKDYYTDLS 387
>pdb|1S4D|A Chain A, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|B Chain B, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|D Chain D, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|E Chain E, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|F Chain F, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|G Chain G, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|H Chain H, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|I Chain I, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|J Chain J, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|K Chain K, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|L Chain L, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
pdb|1S4D|M Chain M, Crystal Structure Analysis Of The S-adenosyl-l-methionine
Dependent Uroporphyrinogen-iii C-methyltransferase Sumt
Length = 280
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 33/72 (45%)
Query: 149 NGLKYREALELFCNCAFKENHCPEDLLVHSKRILDYANGNPLAVRVLGSFLRQKSKLDWE 208
G E + CN A + E L ++ + A P A+ V+G +R ++ LDW
Sbjct: 199 GGRSPDEPVAFVCNAATPQQAVLETTLARAEADVAAAGLEPPAIVVVGEVVRLRAALDWI 258
Query: 209 SALDNLKRISDP 220
ALD K +DP
Sbjct: 259 GALDGRKLAADP 270
>pdb|4HF5|H Chain H, Crystal Structure Of Fab 8f8 In Complex A H2n2 Influenza
Virus Hemagglutinin
Length = 233
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 31/59 (52%), Gaps = 6/59 (10%)
Query: 224 DVLKISYNEIKAEEKSLFLDIACFFNGQDKDSVLKMIGDSSFAHYGLNVLVDKSLVTVS 282
+ L + N ++AE D A ++ + +DS S ++HYG++V ++VTVS
Sbjct: 77 NALYLQMNRLRAE------DTAVYYCARQQDSGYSGPEVSYYSHYGMDVWGQGTMVTVS 129
>pdb|3HTS|B Chain B, Heat Shock Transcription FactorDNA COMPLEX
Length = 102
Score = 28.5 bits (62), Expect = 5.3, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 43 ALWKPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERL 93
++ +P+++N + S++N + + KF+ W E I PN +V+E L
Sbjct: 9 SMARPAFVN-----KLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVL 54
>pdb|1FBQ|A Chain A, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237k Mutation
pdb|1FBQ|B Chain B, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237k Mutation
Length = 90
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 60 SIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRR 95
S++N + + KF+ W E I PN +V+E L++
Sbjct: 9 SMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLKK 44
>pdb|1FBS|A Chain A, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237a Mutation
pdb|1FBS|B Chain B, Heat Shock Transcription Factor Dna Binding Domain
Containing The P237a Mutation
Length = 90
Score = 28.5 bits (62), Expect = 6.5, Method: Composition-based stats.
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 60 SIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERLRR 95
S++N + + KF+ W E I PN +V+E L +
Sbjct: 9 SMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVLAK 44
>pdb|1FYM|A Chain A, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna In A Tail-To-Tail Orientation
pdb|1FYM|B Chain B, Serendipitous Crystal Structure Containing The Heat
Shock Transcription Factor's Dna Binding Domain And
Cognate Dna In A Tail-To-Tail Orientation
pdb|2HTS|A Chain A, Crystal Structure Of The Dna Binding Domain Of The Heat
Shock Transcription Factor
pdb|3HSF|A Chain A, Heat Shock Transcription Factor (Hsf)
Length = 92
Score = 28.1 bits (61), Expect = 6.8, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 5/48 (10%)
Query: 46 KPSYLNSRAIRESRSIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERL 93
+P+++N + S++N + + KF+ W E I PN +V+E L
Sbjct: 2 RPAFVN-----KLWSMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVL 44
>pdb|1FBU|A Chain A, Heat Shock Transcription Factor Dna Binding Domain
pdb|1FBU|B Chain B, Heat Shock Transcription Factor Dna Binding Domain
Length = 90
Score = 28.1 bits (61), Expect = 7.1, Method: Composition-based stats.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 60 SIMNQRVSNKFLGWLVEQEQIRTPNLPEYVRERL 93
S++N + + KF+ W E I PN +V+E L
Sbjct: 9 SMVNDKSNEKFIHWSTSGESIVVPNRERFVQEVL 42
>pdb|1IOK|A Chain A, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|B Chain B, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|C Chain C, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|D Chain D, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|E Chain E, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|F Chain F, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
pdb|1IOK|G Chain G, Crystal Structure Of Chaperonin-60 From Paracoccus
Denitrificans
Length = 545
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 35/69 (50%), Gaps = 13/69 (18%)
Query: 248 FNGQDKDSVLK---MIGDS---SFAHYGLNVLVDKSLVT-------VSRGNQLQMHDLLQ 294
FN +D +LK ++ D+ + G NV++DKS VS ++++ D +
Sbjct: 8 FNSDARDRMLKGVNILADAVKVTLGPKGRNVVIDKSFGAPRITKDGVSVAKEIELSDKFE 67
Query: 295 EMGREIVRQ 303
MG ++VR+
Sbjct: 68 NMGAQMVRE 76
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 0.138 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,813,868
Number of Sequences: 62578
Number of extensions: 393303
Number of successful extensions: 857
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 850
Number of HSP's gapped (non-prelim): 16
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
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: 52 (24.6 bits)