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= 002704
(890 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 33.1 bits (74), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 558 LQSMPSLKVLNLSRYMGLLELPSGISKLVSLEHLDLSTS-LISEIPEELKALVNLKCLNL 616
+ SMP L +LNL +P + L L LDLS++ L IP+ + AL L ++L
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL 708
Query: 617 ENTGLLLKIP 626
N L IP
Sbjct: 709 SNNNLSGPIP 718
Score = 32.7 bits (73), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 577 ELPSGISKLVSLEHLDLSTS-LISEIPEELKALVNLKCLNLENTGLLLKIPLQL 629
E+PSG+S +L + LS + L EIP+ + L NL L L N IP +L
Sbjct: 478 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAEL 531
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 35/70 (50%), Gaps = 1/70 (1%)
Query: 558 LQSMPSLKVLNLSRYMGLLELPSGISKLVSLEHLDLSTS-LISEIPEELKALVNLKCLNL 616
+ SMP L +LNL +P + L L LDLS++ L IP+ + AL L ++L
Sbjct: 652 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL 711
Query: 617 ENTGLLLKIP 626
N L IP
Sbjct: 712 SNNNLSGPIP 721
Score = 32.7 bits (73), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 577 ELPSGISKLVSLEHLDLSTS-LISEIPEELKALVNLKCLNLENTGLLLKIPLQL 629
E+PSG+S +L + LS + L EIP+ + L NL L L N IP +L
Sbjct: 481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAEL 534
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 581 GISKLVSLEHLDLSTSLISEIPEE-LKALVNLKCLNLENTGLLLKIPLQLISHFSRLHVL 639
S L SLEHLDLS + +S + K L +L LNL L SH ++L +L
Sbjct: 95 SFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQIL 154
Query: 640 RMFGN 644
R+ GN
Sbjct: 155 RV-GN 158
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 581 GISKLVSLEHLDLSTSLISEIPEE-LKALVNLKCLNLENTGLLLKIPLQLISHFSRLHVL 639
S L SLEHLDLS + +S + K L +L LNL L SH ++L +L
Sbjct: 69 SFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQIL 128
Query: 640 RMFGNGYFS 648
R+ F+
Sbjct: 129 RVGNMDTFT 137
>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 = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 61/141 (43%), Gaps = 19/141 (13%)
Query: 246 QKALDIFRILRGKKF---VVLLDDIWQRVDLTKVGVPLPSSQTSASKVVFTTRSEEVC-G 301
++A D RIL +K +++LDD+W L S +++ TTR + V
Sbjct: 221 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD--------SQCQILLTTRDKSVTDS 272
Query: 302 LMEAHKKFKVQCLSGND-AWELFRQKVGEETLNCHPYILELAQTVTKECGGLPLALITIG 360
+M V+ G + E+ V + + + E A ++ KEC G PL + IG
Sbjct: 273 VMGPKYVVPVESSLGKEKGLEILSLFVNMKKAD----LPEQAHSIIKECKGSPLVVSLIG 328
Query: 361 RAMACKKTPEEWSYAIQVLRT 381
+ + P W Y ++ L+
Sbjct: 329 ALL--RDFPNRWEYYLKQLQN 347
>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 = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 63/149 (42%), Gaps = 40/149 (26%)
Query: 474 KMHDVIRDMALWLACDAEKEKEN--YLVYAGAGFREAPDVI--EWEKLRRLSLMENQIEN 529
K+HD+ A KE N YL+ G + P+ + + L+ L L+ENQ+++
Sbjct: 74 KLHDI----------SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQS 123
Query: 530 LSEVPTCPHXXXXXXXXXXXXRIINSDFLQSMPSLKVLNLSRYMGLLELPSGI-SKLVSL 588
L + + +L LNL+ + L LP G+ KL +L
Sbjct: 124 LPD-----------------------GVFDKLTNLTYLNLA-HNQLQSLPKGVFDKLTNL 159
Query: 589 EHLDLSTSLISEIPEEL-KALVNLKCLNL 616
LDLS + + +PE + L LK L L
Sbjct: 160 TELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
>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 = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 35/140 (25%), Positives = 61/140 (43%), Gaps = 19/140 (13%)
Query: 246 QKALDIFRILRGKKF---VVLLDDIWQRVDLTKVGVPLPSSQTSASKVVFTTRSEEVC-G 301
++A D RIL +K +++LDD+W L S +++ TTR + V
Sbjct: 227 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD--------SQCQILLTTRDKSVTDS 278
Query: 302 LMEAHKKFKVQCLSGND-AWELFRQKVGEETLNCHPYILELAQTVTKECGGLPLALITIG 360
+M V+ G + E+ V + + + E A ++ KEC G PL + IG
Sbjct: 279 VMGPKYVVPVESSLGKEKGLEILSLFVNMKKAD----LPEQAHSIIKECKGSPLVVSLIG 334
Query: 361 RAMACKKTPEEWSYAIQVLR 380
+ + P W Y ++ L+
Sbjct: 335 ALL--RDFPNRWEYYLKQLQ 352
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 50/96 (52%), Gaps = 12/96 (12%)
Query: 561 MPSLKVLNLSRYMGLLEL---PSGISKLVSLEHLDLSTSLISEIPEE-LKALVNLKCLNL 616
+PSL+ L L R + L + PS L +L LDLS + I+ I E+ L+ L NL+ L+
Sbjct: 453 VPSLQRLMLRR-VALKNVDISPSPFRPLRNLTILDLSNNNIANINEDLLEGLENLEILDF 511
Query: 617 ENTGL--LLKI-----PLQLISHFSRLHVLRMFGNG 645
++ L L K P+ + S LH+L + NG
Sbjct: 512 QHNNLARLWKRANPGGPVNFLKGLSHLHILNLESNG 547
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 3/79 (3%)
Query: 566 VLNLSRYMGLLELPSGISKLVSLEHLDLSTSLISEIPEELKALVNLKCLNLENTGLLLKI 625
L+LS + + + + I K L L L+ + ++E+P E+K L NL+ L+L + L +
Sbjct: 228 ALDLSN-LQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSL 285
Query: 626 PLQLISHFSRLHVLRMFGN 644
P +L S F +L F N
Sbjct: 286 PAELGSCF-QLKYFYFFDN 303
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 342 AQTVTKECGGLPLALITIGRAMACKKTPEEWSYAIQVLR 380
A ++ KEC G PL + IG + + P W+Y ++ L+
Sbjct: 310 AHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQ 346
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 37/76 (48%), Gaps = 11/76 (14%)
Query: 556 DFLQSMPSLKVLNLSRYMGLLELPSGISKLVSLEHLDLST-SLISEIPEEL--------- 605
D Q L+ L L+R L LP+ I+ L L L + ++E+PE L
Sbjct: 121 DTXQQFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEH 179
Query: 606 KALVNLKCLNLENTGL 621
+ LVNL+ L LE TG+
Sbjct: 180 QGLVNLQSLRLEWTGI 195
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 0.137 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,969,784
Number of Sequences: 62578
Number of extensions: 937401
Number of successful extensions: 2017
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 1980
Number of HSP's gapped (non-prelim): 65
length of query: 890
length of database: 14,973,337
effective HSP length: 107
effective length of query: 783
effective length of database: 8,277,491
effective search space: 6481275453
effective search space used: 6481275453
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: 56 (26.2 bits)