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= 002654
(896 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 41/146 (28%), Positives = 58/146 (39%), Gaps = 28/146 (19%)
Query: 498 VCAGAGLTEDPGVRGW-ENVSRLSLMQNRIKNLS--EIPKCPHLLTLFLNSNELKIITND 554
+C G+ + + G E V L L NRI +S ++ +C +L L L SN + I D
Sbjct: 35 ICKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEED 94
Query: 555 FFQFMPSLKVXXXXXXXXXXXXXXGISKLVSLQHLDLSLTNIEKLSGE-LKALVNLKCLN 613
F S L SL+HLDLS + LS K L +L LN
Sbjct: 95 SF------------------------SSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLN 130
Query: 614 LEYTWSLVTIPQQLIASFLRLHVLRM 639
L L + +L +LR+
Sbjct: 131 LLGNPYKTLGETSLFSHLTKLQILRV 156
>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 = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 63/141 (44%), Gaps = 19/141 (13%)
Query: 245 EKSLDIFKILGEKKF---VLLLDDLWQRVDLTKVGVPLPSPQSSASKVVFTTRSEEIC-G 300
E++ D +IL +K +L+LDD+W L S +++ TTR + +
Sbjct: 221 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF--------DSQCQILLTTRDKSVTDS 272
Query: 301 LMEAQKKFKV-ACLSDKDAWELFCHKVGEETLNNHPDIPELAQTVAKECGGMPLALITIG 359
+M + V + L + E+ V + D+PE A ++ KEC G PL + IG
Sbjct: 273 VMGPKYVVPVESSLGKEKGLEILSLFVNMKK----ADLPEQAHSIIKECKGSPLVVSLIG 328
Query: 360 RAMSCKRTPQEWRHAIQVLRT 380
+ + P W + ++ L+
Sbjct: 329 ALL--RDFPNRWEYYLKQLQN 347
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 44/160 (27%), Positives = 64/160 (40%), Gaps = 29/160 (18%)
Query: 498 VCAGAGLTEDPGVRGW-ENVSRLSLMQNRIKNLS--EIPKCPHLLTLFLNSNELKIITND 554
+C G+ + + G E V L L NRI +S ++ +C +L L L SN + I D
Sbjct: 9 ICKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEED 68
Query: 555 FFQFMPSLKVXXXXXXXXXXXXXXGISKLVSLQHLDLSLTNIEKLSGE-LKALVNLKCLN 613
F S L SL+HLDLS + LS K L +L LN
Sbjct: 69 SF------------------------SSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLN 104
Query: 614 LEYTWSLVTIPQQLIASFLRLHVLRMFGVGDDAFEVASED 653
L L + +L +LR+ G D ++ +D
Sbjct: 105 LLGNPYKTLGETSLFSHLTKLQILRV-GNMDTFTKIQRKD 143
>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 = 34.3 bits (77), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 336 DIPELAQTVAKECGGMPLALITIGRAMSCKRTPQEWRHAIQVLRT 380
D+PE A ++ KEC G PL + IG + + P W + ++ L+
Sbjct: 311 DLPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYYLKQLQN 353
>pdb|4AW4|A Chain A, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich Repeat
Inserted
pdb|4AW4|B Chain B, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich Repeat
Inserted
pdb|4AW4|C Chain C, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich Repeat
Inserted
Length = 311
Score = 32.7 bits (73), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 27/43 (62%)
Query: 509 GVRGWENVSRLSLMQNRIKNLSEIPKCPHLLTLFLNSNELKII 551
G++ N++ L+L N+I ++S I P++ LFLN N+L I
Sbjct: 61 GIQYLPNLTSLNLSNNQITDISPIQYLPNVTKLFLNGNKLTDI 103
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 336 DIPELAQTVAKECGGMPLALITIGRAMSCKRTPQEWRHAIQVLRT 380
D+P A ++ KEC G PL + IG + + P W + ++ L+
Sbjct: 305 DLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQN 347
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 336 DIPELAQTVAKECGGMPLALITIGRAMSCKRTPQEWRHAIQVLRT 380
D+P A ++ KEC G PL + IG + + P W + ++ L+
Sbjct: 312 DLPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYYLRQLQN 354
>pdb|3IBV|A Chain A, Karyopherin Cytosolic State
pdb|3IBV|B Chain B, Karyopherin Cytosolic State
pdb|3ICQ|T Chain T, Karyopherin Nuclear State
pdb|3ICQ|U Chain U, Karyopherin Nuclear State
Length = 980
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 13/71 (18%)
Query: 484 WIACDSEKKGKKFLVCAGAGLTEDPGVRGWENVSRLSLMQNRIKNL---SEIPKCPHLLT 540
W+A ++ + FL+ G ED +RG + RI N+ +PK P L++
Sbjct: 693 WLASFNKASDEIFLILDRMGFNED--IRG-----AVRFTSGRIINVVGPDMLPKVPQLIS 745
Query: 541 LFLNS---NEL 548
+ LNS NEL
Sbjct: 746 ILLNSIDMNEL 756
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 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,011,506
Number of Sequences: 62578
Number of extensions: 936692
Number of successful extensions: 2324
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 2303
Number of HSP's gapped (non-prelim): 43
length of query: 896
length of database: 14,973,337
effective HSP length: 108
effective length of query: 788
effective length of database: 8,214,913
effective search space: 6473351444
effective search space used: 6473351444
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)