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= 000701
(1344 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 = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/242 (23%), Positives = 108/242 (44%), Gaps = 33/242 (13%)
Query: 249 LKEEKKILVVLDNLWKCLNLETVGIPYGDDHKGCKILLTSRDRSVLLKMGSAPPFLIGV- 307
L++ + L++LD++W L+ C+ILLT+RD+SV + P +++ V
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSV-MGPKYVVPVE 283
Query: 308 --LNEEEAWRLFKMTAGDDVEHRELNSTARNVAMACGGLPIALTTIARALRNRSMREWKN 365
L +E+ + + +++ +L A ++ C G P+ ++ I LR+ R W+
Sbjct: 284 SSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNR-WEY 340
Query: 366 ALQQLRAPSSVNFEGISAEAYSAID----LSIKYLRGDKLRKILLLCSLMGN-RIATSDL 420
L+QL+ S+ Y A+D +S++ LR D L L + ++ T L
Sbjct: 341 YLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL 400
Query: 421 FKYCMGWGILKGVNKMADARIKLDALVQELRDSSLLLAGDNNEELS--MHDIVRDVATST 478
C+ W + +++ ++QE + SLL N + +HD+ D T
Sbjct: 401 ---CILWDM---------ETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEK 448
Query: 479 AC 480
C
Sbjct: 449 NC 450
>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 = 50.4 bits (119), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 57/242 (23%), Positives = 108/242 (44%), Gaps = 33/242 (13%)
Query: 249 LKEEKKILVVLDNLWKCLNLETVGIPYGDDHKGCKILLTSRDRSVLLKMGSAPPFLIGV- 307
L++ + L++LD++W L+ C+ILLT+RD+SV + P +++ V
Sbjct: 238 LRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSV-MGPKYVVPVE 289
Query: 308 --LNEEEAWRLFKMTAGDDVEHRELNSTARNVAMACGGLPIALTTIARALRNRSMREWKN 365
L +E+ + + +++ +L A ++ C G P+ ++ I LR+ R W+
Sbjct: 290 SSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNR-WEY 346
Query: 366 ALQQLRAPSSVNFEGISAEAYSAID----LSIKYLRGDKLRKILLLCSLMGN-RIATSDL 420
L+QL+ S+ Y A+D +S++ LR D L L + ++ T L
Sbjct: 347 YLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVL 406
Query: 421 FKYCMGWGILKGVNKMADARIKLDALVQELRDSSLLLAGDNNEELS--MHDIVRDVATST 478
C+ W + +++ ++QE + SLL N + +HD+ D T
Sbjct: 407 ---CILWDM---------ETEEVEDILQEFVNKSLLFCDRNGKSFRYYLHDLQVDFLTEK 454
Query: 479 AC 480
C
Sbjct: 455 NC 456
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 77/162 (47%), Gaps = 26/162 (16%)
Query: 249 LKEEKKILVVLDNLWKCLNLETVGIPYGDDHKGCKILLTSRDRSVLLKMGSAPPFLIGV- 307
L++ + L++LD++W L+ C+ILLT+RD+SV + P ++ V
Sbjct: 232 LRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTRDKSVTDSV-MGPKHVVPVE 283
Query: 308 --LNEEEAWRLFKMTAGDDVEHRELNSTARNVAMACGGLPIALTTIARALRNRSMREWKN 365
L E+ + + +++ +L + A ++ C G P+ ++ I LR+ R W
Sbjct: 284 SGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNR-WAY 340
Query: 366 ALQQL--------RAPSSVNFEGISAEAYSAIDLSIKYLRGD 399
L+QL R SS ++E + A+ +S++ LR D
Sbjct: 341 YLRQLQNKQFKRIRKSSSYDYEALD----EAMSISVEMLRED 378
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 76/162 (46%), Gaps = 26/162 (16%)
Query: 249 LKEEKKILVVLDNLWKCLNLETVGIPYGDDHKGCKILLTSRDRSVLLKMGSAPPFLIGV- 307
L++ + L++LD++W L+ C+ILLT+ D+SV + P ++ V
Sbjct: 239 LRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTSDKSVTDSV-MGPKHVVPVE 290
Query: 308 --LNEEEAWRLFKMTAGDDVEHRELNSTARNVAMACGGLPIALTTIARALRNRSMREWKN 365
L E+ + + +++ +L + A ++ C G P+ ++ I LR+ R W
Sbjct: 291 SGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNR-WAY 347
Query: 366 ALQQL--------RAPSSVNFEGISAEAYSAIDLSIKYLRGD 399
L+QL R SS ++E + A+ +S++ LR D
Sbjct: 348 YLRQLQNKQFKRIRKSSSYDYEALD----EAMSISVEMLRED 385
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 38.1 bits (87), Expect = 0.036, Method: Composition-based stats.
Identities = 37/144 (25%), Positives = 64/144 (44%), Gaps = 15/144 (10%)
Query: 575 LVNLQTLSLDQSMLGDIAIIGKLKNLEILSMINSDIVKLPEAFGXXXXXXXXXXXXCFQL 634
L N++ L+L + L DI+ + +L NL L + + + LP QL
Sbjct: 62 LPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL 121
Query: 635 KVIAPNVLSSLIRLEELYMRNCFVQWEVRGVNTERSCAGLDELMHLPRLTSLEIDIGNDD 694
+ + V L L LY+ + +Q +GV D+L +L RL D+ N+
Sbjct: 122 QSLPDGVFDKLTNLTYLYLYHNQLQSLPKGV--------FDKLTNLTRL-----DLDNNQ 168
Query: 695 I--LPEGFFSRRLENFKISVGDAE 716
+ LPEG F + + ++S+ D +
Sbjct: 169 LQSLPEGVFDKLTQLKQLSLNDNQ 192
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 33.1 bits (74), Expect = 0.96, Method: Composition-based stats.
Identities = 41/151 (27%), Positives = 64/151 (42%), Gaps = 26/151 (17%)
Query: 832 LKSLSLGNLPKLSSFCSEVKTPSASS------NRQDLQDELTGI--------TLSNGISL 877
L+ LS+ P+L+ + + AS N Q L+ E TGI L N SL
Sbjct: 152 LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL 211
Query: 878 E---DSLHTSTPFFNEKVVLPNLEALELYKINLEKIWHSQLPAMFPGFQSLTRLIVCRCF 934
+ L P + LP LE L+L + + P +F G L RLI+ C
Sbjct: 212 KIRNSPLSALGPAIHH---LPKLEELDLRGCTALRNY----PPIFGGRAPLKRLILKDCS 264
Query: 935 NLKYIFSASMLRSIEQLQHLEIHDCISLEEI 965
NL + + + QL+ L++ C++L +
Sbjct: 265 NLLTL--PLDIHRLTQLEKLDLRGCVNLSRL 293
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 32.7 bits (73), Expect = 1.3, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 489 RDENVWGWPDDEDALEKYYAISIIDSSIPELPEGLEYPKLEFLFMCSKDPFVEI 542
RD++VW W DE+ ++Y +S+++S ++ + +P E L S D V++
Sbjct: 125 RDKSVWVWEVDEE--DEYECVSVLNSHTQDVKHVVWHPSQELLASASYDDTVKL 176
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 30.8 bits (68), Expect = 5.0, Method: Composition-based stats.
Identities = 41/164 (25%), Positives = 66/164 (40%), Gaps = 14/164 (8%)
Query: 578 LQTLSLDQSMLGDIAIIGK-LKNLEILSMINSDIVKLPEAFGXXXXXXXXXXXXCFQLKV 636
L TL L + L + ++G+ L L +L + + + LP +LK
Sbjct: 80 LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKT 139
Query: 637 IAPNVLSSLIRLEELYMRNCFVQWEVRGVNTERSCAGLDELMHLPRLTSLEIDIGNDDIL 696
+ P +L+ +LE+L + N N AGL L L L +L + + +
Sbjct: 140 LPPGLLTPTPKLEKLSLANN---------NLTELPAGL--LNGLENLDTLLLQENSLYTI 188
Query: 697 PEGFFSRRLENFKISVGDAESVIPSEVLMADDW-ASGTLNIYVW 739
P+GFF L F G+ + E+L W N+YVW
Sbjct: 189 PKGFFGSHLLPFAFLHGNP-WLCNCEILYFRRWLQDNAENVYVW 231
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 30.8 bits (68), Expect = 5.0, Method: Composition-based stats.
Identities = 35/146 (23%), Positives = 62/146 (42%), Gaps = 13/146 (8%)
Query: 575 LVNLQTLSLDQSMLGDIAIIGKLKNLEILSMINSDIVKLPEAFGXXXXXXXXXXXXCFQL 634
L N++ L+L + L DI+ + +L NL L + + + LP QL
Sbjct: 62 LPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL 121
Query: 635 KVIAPNVLSSLIRLEELYMRNCFVQWEVRGVNTERSCAGLDELMHLPRLTSLEIDIGNDD 694
+ + V L L L + + +Q +GV D+L + LT L++
Sbjct: 122 QSLPDGVFDKLTNLTYLNLAHNQLQSLPKGV--------FDKLTN---LTELDLSYNQLQ 170
Query: 695 ILPEGFFSR--RLENFKISVGDAESV 718
LPEG F + +L++ ++ +SV
Sbjct: 171 SLPEGVFDKLTQLKDLRLYQNQLKSV 196
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 30.8 bits (68), Expect = 5.1, Method: Composition-based stats.
Identities = 41/164 (25%), Positives = 66/164 (40%), Gaps = 14/164 (8%)
Query: 578 LQTLSLDQSMLGDIAIIGK-LKNLEILSMINSDIVKLPEAFGXXXXXXXXXXXXCFQLKV 636
L TL L + L + ++G+ L L +L + + + LP +LK
Sbjct: 79 LGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKT 138
Query: 637 IAPNVLSSLIRLEELYMRNCFVQWEVRGVNTERSCAGLDELMHLPRLTSLEIDIGNDDIL 696
+ P +L+ +LE+L + N N AGL L L L +L + + +
Sbjct: 139 LPPGLLTPTPKLEKLSLANN---------NLTELPAGL--LNGLENLDTLLLQENSLYTI 187
Query: 697 PEGFFSRRLENFKISVGDAESVIPSEVLMADDW-ASGTLNIYVW 739
P+GFF L F G+ + E+L W N+YVW
Sbjct: 188 PKGFFGSHLLPFAFLHGNP-WLCNCEILYFRRWLQDNAENVYVW 230
>pdb|2HES|X Chain X, Cytosolic Iron-sulphur Assembly Protein- 1
Length = 330
Score = 30.0 bits (66), Expect = 8.4, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 489 RDENVWGWPDDEDALEKYYAISIIDSSIPELPEGLEYPKLEFLFMCSKDPFVEI 542
RD++VW W DE E+Y IS++ ++ + +P L S D V I
Sbjct: 127 RDKSVWIWETDESG-EEYECISVLQEHSQDVKHVIWHPSEALLASSSYDDTVRI 179
>pdb|1SJJ|A Chain A, Cryo-Em Structure Of Chicken Gizzard Smooth Muscle Alpha-
Actinin
pdb|1SJJ|B Chain B, Cryo-Em Structure Of Chicken Gizzard Smooth Muscle Alpha-
Actinin
Length = 863
Score = 30.0 bits (66), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 2 VESIVTVVIEVAKCLAPPTEHQFNYFRNYKSNFKNLKEELENLKGDRDSMQ 52
+E I + IE+ L E Q N+ R Y+ + N K +++ L+GD +Q
Sbjct: 626 MEEIGRISIEMHGTL----EDQLNHLRQYEKSIVNYKPKIDQLEGDHQQIQ 672
>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
Length = 251
Score = 30.0 bits (66), Expect = 9.6, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 549 FKEMRMLRVVGFSKMQLSSLPS-SMDLLVNLQTLSLDQSML-----GDIAIIGKLKNLEI 602
F + L+ + + QL S+P+ + D L NLQTLSL + L G +GKL+ + +
Sbjct: 127 FDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITL 186
Query: 603 L 603
Sbjct: 187 F 187
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 30.0 bits (66), Expect = 9.6, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 549 FKEMRMLRVVGFSKMQLSSLPS-SMDLLVNLQTLSLDQSML-----GDIAIIGKLKNLEI 602
F + L+ + + QL S+P+ + D L NLQTLSL + L G +GKL+ + +
Sbjct: 127 FDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITL 186
Query: 603 L 603
Sbjct: 187 F 187
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
0.320 0.135 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,431,631
Number of Sequences: 62578
Number of extensions: 1382027
Number of successful extensions: 3127
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 3110
Number of HSP's gapped (non-prelim): 42
length of query: 1344
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1233
effective length of database: 8,027,179
effective search space: 9897511707
effective search space used: 9897511707
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)