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= 044935
(683 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 = 52.8 bits (125), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 56/226 (24%), Positives = 98/226 (43%), Gaps = 45/226 (19%)
Query: 44 LLVLDDLWNKDYYKWEPFYNCLKNGLHGSKILITTRNETTAHNMGSTNIIQLMFSFLGKS 103
LL+LDD+W+ W LK +IL+TTR+++ ++ + + S LGK
Sbjct: 239 LLILDDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289
Query: 104 M----------EGRENLEKIGREIVGKCKGLPLAVKTIGSLLRSKNNE----------EE 143
+ +L + I+ +CKG PL V IG+LLR N ++
Sbjct: 290 KGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQ 349
Query: 144 WKNILESEIWEHEVVKKGLLAPLLLSYNELPSKVKHYFSYCAVFPKDREIWKYELIKLW- 202
+K I +S +++E + + + +S L +K Y++ ++ KD ++ L LW
Sbjct: 350 FKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWD 405
Query: 203 ----MAQGYLNEYFNILASSSFFQEFNADGDGEVYMCKMHDLVHDL 244
+ L E+ N S F D +G+ + +HDL D
Sbjct: 406 METEEVEDILQEFVN---KSLLF----CDRNGKSFRYYLHDLQVDF 444
>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 = 50.1 bits (118), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 56/226 (24%), Positives = 98/226 (43%), Gaps = 45/226 (19%)
Query: 44 LLVLDDLWNKDYYKWEPFYNCLKNGLHGSKILITTRNETTAHNMGSTNIIQLMFSFLGKS 103
LL+LDD+W+ W LK +IL+TTR+++ ++ + + S LGK
Sbjct: 245 LLILDDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 295
Query: 104 ME----------GRENLEKIGREIVGKCKGLPLAVKTIGSLLRSKNN----------EEE 143
+ +L + I+ +CKG PL V IG+LLR N ++
Sbjct: 296 KGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQ 355
Query: 144 WKNILESEIWEHEVVKKGLLAPLLLSYNELPSKVKHYFSYCAVFPKDREIWKYELIKLW- 202
+K I +S +++E + + + +S L +K Y++ ++ KD ++ L LW
Sbjct: 356 FKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWD 411
Query: 203 ----MAQGYLNEYFNILASSSFFQEFNADGDGEVYMCKMHDLVHDL 244
+ L E+ N S F D +G+ + +HDL D
Sbjct: 412 METEEVEDILQEFVN---KSLLF----CDRNGKSFRYYLHDLQVDF 450
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 88/180 (48%), Gaps = 35/180 (19%)
Query: 44 LLVLDDLWNKDYYKWEPFYNCLKNGLHGSKILITTRNETTAHN-MGSTNIIQLMFSFLG- 101
LL+LDD+W +P+ LK + +IL+TTR+++ + MG +++ + S LG
Sbjct: 239 LLILDDVW-------DPWV--LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVE-SGLGR 288
Query: 102 -KSME--------GRENLEKIGREIVGKCKGLPLAVKTIGSLLRSKNN----------EE 142
K +E +E+L I+ +CKG PL V IG+LLR N +
Sbjct: 289 EKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNK 348
Query: 143 EWKNILESEIWEHEVVKKGLLAPLLLSYNELPSKVKHYFSYCAVFPKDREIWKYELIKLW 202
++K I +S +++E + + + +S L +K Y++ ++ KD ++ L LW
Sbjct: 349 QFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW 404
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 48/180 (26%), Positives = 87/180 (48%), Gaps = 35/180 (19%)
Query: 44 LLVLDDLWNKDYYKWEPFYNCLKNGLHGSKILITTRNETTAHN-MGSTNIIQLMFSFLG- 101
LL+LDD+W +P+ LK + +IL+TT +++ + MG +++ + S LG
Sbjct: 246 LLILDDVW-------DPWV--LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVE-SGLGR 295
Query: 102 -KSME--------GRENLEKIGREIVGKCKGLPLAVKTIGSLLRSKNN----------EE 142
K +E +E+L I+ +CKG PL V IG+LLR N +
Sbjct: 296 EKGLEILSLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNK 355
Query: 143 EWKNILESEIWEHEVVKKGLLAPLLLSYNELPSKVKHYFSYCAVFPKDREIWKYELIKLW 202
++K I +S +++E + + + +S L +K Y++ ++ KD ++ L LW
Sbjct: 356 QFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW 411
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 55/114 (48%), Gaps = 7/114 (6%)
Query: 331 ITLETYGWDYNPIKEIPTNIKNLLHLKYLSLFGESEIKRLPEVLCELYNLERLDVRFCVN 390
+ L++ ++ I+ +P +I NL +LK L + S + L + L LE LD+R C
Sbjct: 183 VNLQSLRLEWTGIRSLPASIANLQNLKSLKIRN-SPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 391 LRE---LLQGIGKLRKLMYLDNEGTNSLRFLPVGIGELISLRNLGSLKKLNLLR 441
LR + G L++L+ D ++L LP+ I L L L +NL R
Sbjct: 242 LRNYPPIFGGRAPLKRLILKD---CSNLLTLPLDIHRLTQLEKLDLRGCVNLSR 292
Score = 33.9 bits (76), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 10/84 (11%)
Query: 333 LETYGWDYNPIKEIPTNIKNLLHLKYLSLFGESEIKRLPEVLCE---------LYNLERL 383
LET NP++ +P +I +L L+ LS+ E+ LPE L L NL+ L
Sbjct: 129 LETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSL 188
Query: 384 DVRFCVNLRELLQGIGKLRKLMYL 407
+ + +R L I L+ L L
Sbjct: 189 RLEW-TGIRSLPASIANLQNLKSL 211
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 42/147 (28%), Positives = 66/147 (44%), Gaps = 24/147 (16%)
Query: 529 IMSLTNLRDLYLSYCRNCEHLP-PLGKL-PSLEDLHILGMESVKRVGNKFLGVESDTDGS 586
I SL LR+L + C LP PL S E ++ ++S++ ++ G+ S +
Sbjct: 146 IASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL---EWTGIRSLP--A 200
Query: 587 SVIAFPKLKRL------------AFHTMEELEEWDFR--TAIKGEIIIM---PRLSSLSI 629
S+ LK L A H + +LEE D R TA++ I L L +
Sbjct: 201 SIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLIL 260
Query: 630 DDCPKLKALPDRLLQKTTLQRLEIYGC 656
DC L LP + + T L++L++ GC
Sbjct: 261 KDCSNLLTLPLDIHRLTQLEKLDLRGC 287
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 25/46 (54%)
Query: 356 LKYLSLFGESEIKRLPEVLCELYNLERLDVRFCVNLRELLQGIGKL 401
LK L L S + LP + L LE+LD+R CVNL L I +L
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>pdb|3EJW|A Chain A, Crystal Structure Of The Sinorhizobium Meliloti Ai-2
Receptor, Smlsrb
pdb|3EJW|B Chain B, Crystal Structure Of The Sinorhizobium Meliloti Ai-2
Receptor, Smlsrb
Length = 315
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 546 CEHLPPLGKLPSLEDLHILGMESVKRVGNKFLGVESDTDGSSVIAFPKLKRLAFHTMEEL 605
+H+ G + E L I G+ +V+ NK G + + DG+ +I P +R F T E +
Sbjct: 254 ADHVLKNGPMKVGEKLEIPGVGTVEVSANKVQGYDYEADGNGIILLP--ERTVF-TKENI 310
Query: 606 EEWDF 610
+DF
Sbjct: 311 GNFDF 315
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 504 GPPPNLKELRIHEYRGRRNVVPINWIMSLTNLRDLYLSYCRNCEHLPPLGKL 555
P NL +L + Y G + I+ + +LTNLR+LYL+ N + PL L
Sbjct: 82 SPLSNLVKLT-NLYIGTNKITDISALQNLTNLRELYLNE-DNISDISPLANL 131
>pdb|2AL6|A Chain A, Ferm Domain Of Focal Adhesion Kinase
pdb|2AL6|B Chain B, Ferm Domain Of Focal Adhesion Kinase
Length = 375
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 57/116 (49%), Gaps = 13/116 (11%)
Query: 192 EIWKYELIKLWMAQGYLNEYFNILASSSFF-QEFNADGDGEVYMCKMHDLVHDLAQFIWR 250
E WKYEL ++ +G+LN++ + +FF Q+ D YM ++ D V + +
Sbjct: 88 EEWKYELRIRYLPKGFLNQFTEDKPTLNFFYQQVKND-----YMLEIADQVDQ--EIALK 140
Query: 251 NECLTVKIPGGEESIMSSFEQKKVLHLMLTIDEGTS--VPISIWNNVKRMRRLRSL 304
CL ++ GE + + +KK + +L D G P S+ ++VK + LR L
Sbjct: 141 LGCLEIRRSYGE--MRGNALEKKSNYEVLEKDVGLRRFFPKSLLDSVK-AKTLRKL 193
>pdb|2J0M|A Chain A, Crystal Structure A Two-Chain Complex Between The Ferm And
Kinase Domains Of Focal Adhesion Kinase
Length = 371
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 57/116 (49%), Gaps = 13/116 (11%)
Query: 192 EIWKYELIKLWMAQGYLNEYFNILASSSFF-QEFNADGDGEVYMCKMHDLVHDLAQFIWR 250
E WKYEL ++ +G+LN++ + +FF Q+ D YM ++ D V + +
Sbjct: 90 EEWKYELRIRYLPKGFLNQFTEDKPTLNFFYQQVKND-----YMLEIADQVDQ--EIALK 142
Query: 251 NECLTVKIPGGEESIMSSFEQKKVLHLMLTIDEGTS--VPISIWNNVKRMRRLRSL 304
CL ++ GE + + +KK + +L D G P S+ ++VK + LR L
Sbjct: 143 LGCLEIRRSYGE--MRGNALEKKSNYEVLEKDVGLRRFFPKSLLDSVK-AKTLRKL 195
>pdb|2AEH|A Chain A, Focal Adhesion Kinase 1
pdb|2AEH|B Chain B, Focal Adhesion Kinase 1
Length = 369
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 57/116 (49%), Gaps = 13/116 (11%)
Query: 192 EIWKYELIKLWMAQGYLNEYFNILASSSFF-QEFNADGDGEVYMCKMHDLVHDLAQFIWR 250
E WKYEL ++ +G+LN++ + +FF Q+ D YM ++ D V + +
Sbjct: 88 EEWKYELRIRYLPKGFLNQFTEDKPTLNFFYQQVKND-----YMLEIADQVDQ--EIALK 140
Query: 251 NECLTVKIPGGEESIMSSFEQKKVLHLMLTIDEGTS--VPISIWNNVKRMRRLRSL 304
CL ++ GE + + +KK + +L D G P S+ ++VK + LR L
Sbjct: 141 LGCLEIRRSYGE--MRGNALEKKSNYEVLEKDVGLRRFFPKSLLDSVK-AKTLRKL 193
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 28.9 bits (63), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 6/78 (7%)
Query: 370 LPEVLCELYNLERLDVRFCVNLRELLQGIGKLRKLMYLDNEGTNSLRFLPVGIGELISLR 429
LP++ EL NL LD+ C + L L L N +N L+ +P GI +
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVL-NMASNQLKSVPDGIFD----- 515
Query: 430 NLGSLKKLNLLRECWICG 447
L SL+K+ L W C
Sbjct: 516 RLTSLQKIWLHTNPWDCS 533
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 0.139 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,976,012
Number of Sequences: 62578
Number of extensions: 891354
Number of successful extensions: 1995
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1985
Number of HSP's gapped (non-prelim): 21
length of query: 683
length of database: 14,973,337
effective HSP length: 105
effective length of query: 578
effective length of database: 8,402,647
effective search space: 4856729966
effective search space used: 4856729966
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: 55 (25.8 bits)