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= 003300
(832 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 55/204 (26%), Positives = 87/204 (42%), Gaps = 40/204 (19%)
Query: 210 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEGIRVAKAIIEGLGVSASGL 269
+++ G+ G GK+ LA A + + C S + + K GL + L
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 270 --------SEFESLMKQIQE------YIMGKKF---FLVLDDVWDGDYKKWDPFFSCLKN 312
S + L I+E +M +K L+LDDVWD P+ LK
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 253
Query: 313 GHHESKILITTRDRSVALQ-LGSIDIIPVKE-LGEGECCLLFKQIAFLRRSFEDREKLEP 370
++ +IL+TTRD+SV +G ++PV+ LG + + +++ E L
Sbjct: 254 FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 308
Query: 371 MGRKIAHKCKGLPLAAKVIGNLLR 394
I +CKG PL +IG LLR
Sbjct: 309 EAHSIIKECKGSPLVVSLIGALLR 332
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 67/144 (46%), Gaps = 26/144 (18%)
Query: 289 FLVLDDVWDGDYKKWDPFFSCLKNGHHESKILITTRDRSVALQ-LGSIDIIPVKE-LGEG 346
L+LDDVWD W LK + +IL+TTRD+SV +G ++PV+ LG+
Sbjct: 239 LLILDDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289
Query: 347 ECCLLFKQIAFLRRSFEDREKLEPMGRKIAHKCKGLPLAAKVIGNLLRS----------K 396
+ + ++++ L I +CKG PL +IG LLR +
Sbjct: 290 KGLEILSLFVNMKKA-----DLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQ 344
Query: 397 STVKEWQRILESEMWKVEEIGQVI 420
K+++RI +S + E + + +
Sbjct: 345 LQNKQFKRIRKSSSYDYEALDEAM 368
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 54/204 (26%), Positives = 86/204 (42%), Gaps = 40/204 (19%)
Query: 210 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSDTFEGIRVAKAIIEGLGVSASGL 269
+++ G+ G GK+ LA A + + C S + + K GL + L
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 270 --------SEFESLMKQIQE------YIMGKKF---FLVLDDVWDGDYKKWDPFFSCLKN 312
S + L I+E +M +K L+LDDVWD P+ LK
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 260
Query: 313 GHHESKILITTRDRSVALQ-LGSIDIIPVKE-LGEGECCLLFKQIAFLRRSFEDREKLEP 370
++ +IL+TT D+SV +G ++PV+ LG + + +++ E L
Sbjct: 261 FDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 315
Query: 371 MGRKIAHKCKGLPLAAKVIGNLLR 394
I +CKG PL +IG LLR
Sbjct: 316 EAHSIIKECKGSPLVVSLIGALLR 339
>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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 53/108 (49%), Gaps = 16/108 (14%)
Query: 289 FLVLDDVWDGDYKKWDPFFSCLKNGHHESKILITTRDRSVALQ-LGSIDIIPVKE-LGEG 346
L+LDDVWD W LK + +IL+TTRD+SV +G ++PV+ LG+
Sbjct: 245 LLILDDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKE 295
Query: 347 ECCLLFKQIAFLRRSFEDREKLEPMGRKIAHKCKGLPLAAKVIGNLLR 394
+ + ++++ L I +CKG PL +IG LLR
Sbjct: 296 KGLEILSLFVNMKKA-----DLPEQAHSIIKECKGSPLVVSLIGALLR 338
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 47/96 (48%)
Query: 465 FRLHSNLIREIPKNVGKLIHLRYLNLSELGIERLPKTLCELYNLQKLDIRRCRNLKELPA 524
RL IR +P ++ L +L+ L + + L + L L++LD+R C L+ P
Sbjct: 188 LRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP 247
Query: 525 GIGKLKNMRSLLNGETYSLKYMPVGISKLTSLRTLD 560
G ++ L+ + +L +P+ I +LT L LD
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD 283
Score = 37.4 bits (85), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 46/97 (47%), Gaps = 10/97 (10%)
Query: 472 IREIPKNVGKLIHLRYLNLSELGIERLPKTLCELYNLQKLDIRRCRNLKELPAGIGK--- 528
+ E+P + L L L+ + LP ++ L L++L IR C L ELP +
Sbjct: 116 LXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDA 175
Query: 529 ------LKNMRSLLNGETYSLKYMPVGISKLTSLRTL 559
L N++S L E ++ +P I+ L +L++L
Sbjct: 176 SGEHQGLVNLQS-LRLEWTGIRSLPASIANLQNLKSL 211
Score = 36.6 bits (83), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 61/143 (42%), Gaps = 11/143 (7%)
Query: 465 FRLHSNLIREIPKNVGKLIHLRYLNLSELGIERLPKTLCELYNLQKLDIRRCRNLKELPA 524
L S + + P +L HL++ + G+ LP T + L+ L + R L+ LPA
Sbjct: 86 LELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPA 144
Query: 525 GIGKLKNMRSLLNGETYSLKYMPVGISK---------LTSLRTLDKFVVGGGIDGSNTCR 575
I L +R L L +P ++ L +L++L G ++
Sbjct: 145 SIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIAN 204
Query: 576 LESLKNLQLLRECGIEGLGNVSH 598
L++LK+L+ +R + LG H
Sbjct: 205 LQNLKSLK-IRNSPLSALGPAIH 226
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 498 LPKTLCELYNLQKLDIRRCRNLKELPAGIGKLK 530
LP + L L+KLD+R C NL LP+ I +L
Sbjct: 269 LPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLP 301
>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 = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 40/125 (32%), Positives = 64/125 (51%), Gaps = 27/125 (21%)
Query: 440 LFSKLACLRALVIRQSLVIRLSSSPFRLHSNLIREIPKNV-GKLIHLRYLNLSELGIERL 498
+F KL L+ LV+ + N ++ +P V KL +L YLNL+ ++ L
Sbjct: 104 VFDKLTNLKELVLVE---------------NQLQSLPDGVFDKLTNLTYLNLAHNQLQSL 148
Query: 499 PKTLCE-LYNLQKLDIRRCRNLKELPAGI----GKLKNMRSLLNGETYSLKYMPVGI-SK 552
PK + + L NL +LD+ L+ LP G+ +LK++R N LK +P G+ +
Sbjct: 149 PKGVFDKLTNLTELDLSY-NQLQSLPEGVFDKLTQLKDLRLYQN----QLKSVPDGVFDR 203
Query: 553 LTSLR 557
LTSL+
Sbjct: 204 LTSLQ 208
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 35.8 bits (81), Expect = 0.11, Method: Composition-based stats.
Identities = 34/104 (32%), Positives = 54/104 (51%), Gaps = 12/104 (11%)
Query: 461 SSSPFRLHSNLIREIPKNV-GKLIHLRYLNLSELGIERLPKTLCE-LYNLQKLDIRRCRN 518
S + L N ++ +P V KL L YLNLS ++ LP + + L L++L +
Sbjct: 53 SLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELAL-NTNQ 111
Query: 519 LKELPAGI----GKLKNMRSLLNGETYSLKYMPVGI-SKLTSLR 557
L+ LP G+ +LK++R N LK +P G+ +LTSL+
Sbjct: 112 LQSLPDGVFDKLTQLKDLRLYQN----QLKSVPDGVFDRLTSLQ 151
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 53/97 (54%), Gaps = 10/97 (10%)
Query: 4 AIVSSLLEQLISVAADEVKQQVRLVTGVRQEVKKLTSNLQAIRAVL-EDAEKRQMQHDKA 62
A +S+L+ +L + +E K L GV++ ++ L L++ A L + E + Q D
Sbjct: 1 AAISNLIPKLGELLTEEFK----LHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQ 56
Query: 63 VTFWLDQLKDASYDMEDVLEEWTTARLKLQIEGVDDD 99
W D++++ SY +EDV++++ +Q++G+ D
Sbjct: 57 DKLWADEVRELSYVIEDVVDKFL-----VQVDGIKSD 88
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.1 bits (74), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 2/61 (3%)
Query: 498 LPKTLCELYNLQKLDIRRCRNLKELPAGIGKLKNMRSLLNGETYSLKYMPVGI-SKLTSL 556
LP EL NL LD+ +C+ + P L +++ +LN + LK +P GI +LTSL
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ-VLNMASNQLKSVPDGIFDRLTSL 520
Query: 557 R 557
+
Sbjct: 521 Q 521
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 1/65 (1%)
Query: 469 SNLIREIPKNVGKLIHLRYLNLSELGIE-RLPKTLCELYNLQKLDIRRCRNLKELPAGIG 527
+NL+ IP + KL L YL ++ + +P L ++ L LD LP I
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 528 KLKNM 532
L N+
Sbjct: 147 SLPNL 151
>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy
Length = 503
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 36/79 (45%), Gaps = 21/79 (26%)
Query: 180 GEVCGRVDEKNELLSKLLCESGEQQQGLYVISLVGLGGIGK-TTLAQLAYNNDEVKRNFE 238
GE+ +VDE + K +VI +VG+ G+GK TT+ +LA R FE
Sbjct: 276 GEILAKVDEPLNVEGK----------APFVILMVGVNGVGKTTTIGKLA-------RQFE 318
Query: 239 ---KVIWVCVSDTFEGIRV 254
K + + DTF V
Sbjct: 319 QQGKSVMLAAGDTFRAAAV 337
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 302
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 11/72 (15%)
Query: 187 DEKNELLSKLLCESGEQQQGLYVISLVGLGGIGK-TTLAQLAYNNDEVKRNFE---KVIW 242
+E E+L+K+ + + +VI +VG+ G+GK TT+ +LA R FE K +
Sbjct: 78 EEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLA-------RQFEQQGKSVM 130
Query: 243 VCVSDTFEGIRV 254
+ DTF V
Sbjct: 131 LAAGDTFRAAAV 142
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 11/72 (15%)
Query: 187 DEKNELLSKLLCESGEQQQGLYVISLVGLGGIGK-TTLAQLAYNNDEVKRNFE---KVIW 242
+E E+L+K+ + + +VI +VG+ G+GK TT+ +LA R FE K +
Sbjct: 79 EEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLA-------RQFEQQGKSVM 131
Query: 243 VCVSDTFEGIRV 254
+ DTF V
Sbjct: 132 LAAGDTFRAAAV 143
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 11/72 (15%)
Query: 187 DEKNELLSKLLCESGEQQQGLYVISLVGLGGIGK-TTLAQLAYNNDEVKRNFE---KVIW 242
+E E+L+K+ + + +VI +VG+ G+GK TT+ +LA R FE K +
Sbjct: 73 EEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTTTIGKLA-------RQFEQQGKSVM 125
Query: 243 VCVSDTFEGIRV 254
+ DTF V
Sbjct: 126 LAAGDTFRAAAV 137
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 467 LHSNLIREIPKNVGKLIHLRYLNLSELGIERLPKTLCE-LYNLQKL 511
LHSN I+ IPK V KL L+ LN++ ++ +P + + L +LQK+
Sbjct: 428 LHSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKI 473
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 24/32 (75%), Gaps = 1/32 (3%)
Query: 195 KLLCESGEQQQGLYVISLVGLGGIGKTTLAQL 226
+L+ ++GE ++G +I ++G GIGKTT A++
Sbjct: 283 QLVVDNGEAKEG-EIIGILGPNGIGKTTFARI 313
>pdb|2F6R|A Chain A, Crystal Structure Of Bifunctional Coenzyme A Synthase (coa
Synthase): (18044849) From Mus Musculus At 1.70 A
Resolution
Length = 281
Score = 29.6 bits (65), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 38/74 (51%), Gaps = 15/74 (20%)
Query: 155 FKFVENVSNNVKKPERVRTTSLIDEGEVCGRVDEKNELLSKLLCESGEQQQ---GLYVIS 211
+ +++ S+N + ++V ++S + +L LL E+ + GLYV+
Sbjct: 32 IQLLKDQSHNENEEDKVSSSSF------------RQRILGNLLQPPNERPELPSGLYVLG 79
Query: 212 LVGLGGIGKTTLAQ 225
L G+ G GK+++AQ
Sbjct: 80 LTGISGSGKSSVAQ 93
>pdb|1ZCB|A Chain A, Crystal Structure Of G Alpha 13 In Complex With Gdp
pdb|3AB3|A Chain A, Crystal Structure Of P115rhogef Rgs Domain In Complex With
G Alpha 13
pdb|3AB3|C Chain C, Crystal Structure Of P115rhogef Rgs Domain In Complex With
G Alpha 13
Length = 362
Score = 29.6 bits (65), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 37/70 (52%), Gaps = 3/70 (4%)
Query: 188 EKNELLSKLLCESGEQQQGLYVISLVGLGGIGKTTL---AQLAYNNDEVKRNFEKVIWVC 244
E+++++ + L E GE+ L I L+G G GK+T ++ + D +R E+
Sbjct: 14 ERSKMIDRNLREDGERSARLVKILLLGAGESGKSTFLKQMRIIHGQDFDQRAREEFRPTI 73
Query: 245 VSDTFEGIRV 254
S+ +G+RV
Sbjct: 74 YSNVIKGMRV 83
>pdb|3BK7|A Chain A, Structure Of The Complete Abce1RNAASE-L Inhibitor Protein
From Pyrococcus Abysii
Length = 607
Score = 29.3 bits (64), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 1/32 (3%)
Query: 195 KLLCESGEQQQGLYVISLVGLGGIGKTTLAQL 226
KL E GE ++G VI +VG GIGKTT ++
Sbjct: 371 KLEVEPGEIRKG-EVIGIVGPNGIGKTTFVKM 401
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 0.138 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,005,087
Number of Sequences: 62578
Number of extensions: 847161
Number of successful extensions: 2468
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 2437
Number of HSP's gapped (non-prelim): 60
length of query: 832
length of database: 14,973,337
effective HSP length: 107
effective length of query: 725
effective length of database: 8,277,491
effective search space: 6001180975
effective search space used: 6001180975
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)