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= 038826
(572 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 138 bits (348), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 75/172 (43%), Positives = 108/172 (62%), Gaps = 5/172 (2%)
Query: 6 SSCSPRKYDVFLSFRGEDTRNNFTSHLFAAFCREKIKTFIDE-QLKKGDDIPSALLNAIE 64
SS + KYDVFLSFRG DTR+NF S L+ R I+TF D+ +L+ G L + IE
Sbjct: 2 SSHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIE 61
Query: 65 ESKISVIIFSKGYASSTWCLHELVKILECKKRKGQIVMPVFYNVDPSDVRNQTGSFGDAF 124
S+ +V++ S+ YA+S+WCL ELV I++ +K+ VMP+FY V+P+ VR QTG + F
Sbjct: 62 VSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQF 121
Query: 125 VEHENDFRDTPQKVHKWRAALTQASNLCGWDSMKIRTEAELVDEIVKDILKK 176
+H + R+ P+KV KWR ALT + L G +++LVD+I +I K
Sbjct: 122 KKHAS--REDPEKVLKWRQALTNFAQLSG--DCSGDDDSKLVDKIANEISNK 169
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 137 bits (346), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 77/178 (43%), Positives = 106/178 (59%), Gaps = 4/178 (2%)
Query: 2 ASSSSSCSPRKYDVFLSFRGEDTRNNFTSHLFAAFCREKIKTFIDE-QLKKGDDIPSALL 60
+ S S +Y+VFLSFRG DTR FT L+ + R KI TF D+ +L KG +I LL
Sbjct: 25 TNPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLL 84
Query: 61 NAIEESKISVIIFSKGYASSTWCLHELVKILECKKRKG-QIVMPVFYNVDPSDVRNQTGS 119
AI++SKI V I S GYA S WCL EL +I+ ++ +I++P+FY VDPSDVR+QTG
Sbjct: 85 RAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGC 144
Query: 120 FGDAFVEHENDFRDTPQKVHKWRAALTQASNLCGWDSMKIRTEAELVDEIVKDILKKI 177
+ AF +H N F Q + W+ AL + +L GW K + + D++ DI I
Sbjct: 145 YKKAFRKHANKF--DGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHI 200
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 61/254 (24%), Positives = 103/254 (40%), Gaps = 52/254 (20%)
Query: 311 LSRFGHGSRVIVTTRDKKVLDK-YGVDYVYKVE-GFNYRESLEIFCYYAFRQNHCPGDLL 368
L F + ++++TTRDK V D G +V VE G + LEI + N DL
Sbjct: 251 LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV---NMKKEDLP 307
Query: 369 VLSDNVVDYANGSSLALNVL---------RSSFY------------RKSKQHWENALHNP 407
+ +++ GS L ++++ R ++Y RKS + AL
Sbjct: 308 AEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEA 367
Query: 408 KQISDPDIHDMLKISYDELNYKEKDLFLD--IACFFNGEGRDYVKIILN---NRYLVHYG 462
IS + + +K Y +L+ +KD+ + + C + V+ IL N+ L+
Sbjct: 368 MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCN 427
Query: 463 LNILAGKAI----------ITISNNKLQMRDLLQEMGQRVVCHESYKDPGKCSS----CL 508
N GK+ N+ Q++DL ++M V + Y P S C+
Sbjct: 428 RN---GKSFCYYLHDLQVDFLTEKNRSQLQDLHRKM---VTQFQRYYQPHTLSPDQEDCM 481
Query: 509 -WYHEDVYHVRKKN 521
WY+ YH+ N
Sbjct: 482 YWYNFLAYHMASAN 495
>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 = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 42/96 (43%), Gaps = 6/96 (6%)
Query: 311 LSRFGHGSRVIVTTRDKKVLDK-YGVDYVYKVE-GFNYRESLEIFCYYAFRQNHCPGDLL 368
L F ++++TTRDK V D G YV VE + LEI + N DL
Sbjct: 251 LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV---NMKKADLP 307
Query: 369 VLSDNVVDYANGSSLALNVLRSSFYRKSKQHWENAL 404
+ +++ GS L ++++ + R WE L
Sbjct: 308 EQAHSIIKECKGSPLVVSLI-GALLRDFPNRWEYYL 342
>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 = 32.3 bits (72), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 6/93 (6%)
Query: 311 LSRFGHGSRVIVTTRDKKVLDK-YGVDYVYKVE-GFNYRESLEIFCYYAFRQNHCPGDLL 368
L F ++++TTRDK V D G YV VE + LEI + N DL
Sbjct: 257 LKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV---NMKKADLP 313
Query: 369 VLSDNVVDYANGSSLALNVLRSSFYRKSKQHWE 401
+ +++ GS L ++++ + R WE
Sbjct: 314 EQAHSIIKECKGSPLVVSLI-GALLRDFPNRWE 345
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 60/254 (23%), Positives = 102/254 (40%), Gaps = 52/254 (20%)
Query: 311 LSRFGHGSRVIVTTRDKKVLDK-YGVDYVYKVE-GFNYRESLEIFCYYAFRQNHCPGDLL 368
L F + ++++TT DK V D G +V VE G + LEI + N DL
Sbjct: 258 LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV---NMKKEDLP 314
Query: 369 VLSDNVVDYANGSSLALNVL---------RSSFY------------RKSKQHWENALHNP 407
+ +++ GS L ++++ R ++Y RKS + AL
Sbjct: 315 AEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEA 374
Query: 408 KQISDPDIHDMLKISYDELNYKEKDLFLD--IACFFNGEGRDYVKIILN---NRYLVHYG 462
IS + + +K Y +L+ +KD+ + + C + V+ IL N+ L+
Sbjct: 375 MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCN 434
Query: 463 LNILAGKAI----------ITISNNKLQMRDLLQEMGQRVVCHESYKDPGKCSS----CL 508
N GK+ N+ Q++DL ++M V + Y P S C+
Sbjct: 435 RN---GKSFCYYLHDLQVDFLTEKNRSQLQDLHRKM---VTQFQRYYQPHTLSPDQEDCM 488
Query: 509 -WYHEDVYHVRKKN 521
WY+ YH+ N
Sbjct: 489 YWYNFLAYHMASAN 502
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 2/77 (2%)
Query: 12 KYDVFLSFRGEDTRNNFTSHLFAAFCREKIKTFIDEQ-LKKGDDIPSALLNAIEESKISV 70
++ F+S+ G D+ + L +E + + E+ G I ++ IE+S S+
Sbjct: 12 QFHAFISYSGHDSFW-VKNELLPNLEKEGXQICLHERNFVPGKSIVENIITCIEKSYKSI 70
Query: 71 IIFSKGYASSTWCLHEL 87
+ S + S WC +EL
Sbjct: 71 FVLSPNFVQSEWCHYEL 87
>pdb|1WDT|A Chain A, Crystal Structure Of Ttk003000868 From Thermus
Thermophilus Hb8
pdb|2DY1|A Chain A, Crystal Structure Of Ef-G-2 From Thermus Thermophilus
Length = 665
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 27/112 (24%), Positives = 52/112 (46%), Gaps = 11/112 (9%)
Query: 240 GWCFMANVREESKRVELVHLRDQIVSQIL-GESTVETSILPQCIKKRLQQMNVCIILDKV 298
G + ES+ V L D V L + + + L + ++K L++ + + L++
Sbjct: 359 GMVLWQGEKPESEEVPFARLPDPNVPVALHPKGRTDEARLGEALRKLLEE-DPSLKLERQ 417
Query: 299 DKFGHSEYLTGGLSRFGHGSRVIVTTRDKKVLDKYGVDYVYKVEGFNYRESL 350
++ TG L +GHG + T +++ L YGV+ + V YRE++
Sbjct: 418 EE-------TGELLLWGHGELHLATAKER--LQDYGVEVEFSVPKVPYRETI 460
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 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,153,187
Number of Sequences: 62578
Number of extensions: 722843
Number of successful extensions: 1572
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1560
Number of HSP's gapped (non-prelim): 16
length of query: 572
length of database: 14,973,337
effective HSP length: 104
effective length of query: 468
effective length of database: 8,465,225
effective search space: 3961725300
effective search space used: 3961725300
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)