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= 042791
(761 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 49/185 (26%), Positives = 82/185 (44%), Gaps = 19/185 (10%)
Query: 429 LRALVISQF-----YISGSHH---EANRIKEIPENVGKLIHLKYLNLSELGIERLPETLC 480
LR++ + QF +S H +A + E+P+ + L+ L L+ + LP ++
Sbjct: 88 LRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIA 147
Query: 481 ELYNLQKLDIRRCRNLRELPAGIGK---------LMNMRTLLNGETYALKYMPIGISKLT 531
L L++L IR C L ELP + L+N+++ L E ++ +P I+ L
Sbjct: 148 SLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQS-LRLEWTGIRSLPASIANLQ 206
Query: 532 NLRTLDRFVVGGGVDGSNTCRLESLKNLQLRGKCSIEGLSNV-SHVDEAERLQLYNKKNL 590
NL++L G L L+ L LRG ++ + +RL L + NL
Sbjct: 207 NLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNL 266
Query: 591 LRLHL 595
L L L
Sbjct: 267 LTLPL 271
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 59/206 (28%), Positives = 84/206 (40%), Gaps = 36/206 (17%)
Query: 372 SGVKVRHLGLNFQRGASFPMSFFEFDRLRSLLIYDRSYSNGSLNGSILQELFSKLACLRA 431
+G++ L N R + P S +RLR L I R+ L EL LA A
Sbjct: 127 AGLETLTLARNPLR--ALPASIASLNRLRELSI--RACPE-------LTELPEPLASTDA 175
Query: 432 LVISQFYISGSHH----------EANRIKEIPENVGKLIHLKYLNLSELGIERLPETLCE 481
SG H E I+ +P ++ L +LK L + + L +
Sbjct: 176 --------SGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHH 227
Query: 482 LYNLQKLDIRRCRNLRELPAGIGKLMNMRTLLNGETYALKYMPIGISKLTNLRTLDRFVV 541
L L++LD+R C LR P G ++ L+ + L +P+ I +LT L LD +
Sbjct: 228 LPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD---L 284
Query: 542 GGGVDGSNTCRLESLKNLQLRGKCSI 567
G V N RL SL QL C I
Sbjct: 285 RGCV---NLSRLPSLIA-QLPANCII 306
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 67/285 (23%), Positives = 115/285 (40%), Gaps = 62/285 (21%)
Query: 41 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSNTFDQIRIAKAIIEGLGESASGL 100
+++ G+ G GK+ LA A + + C S + I K GL L
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 101 ----NEFQSLMSRIQSSI-------------KGKKNFLVLDDVWDGDYNKWQPFFRCLKN 143
++ +S R+ +I K ++ L+LDDVWD P+ LK
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 253
Query: 144 GLHGSKILVTTRNESVA-RMMGSTDSISIKQ-LAEE---ECWSLFKQLAFFGCSFEDCEK 198
+ +IL+TTR++SV +MG + ++ L E E SLF + E
Sbjct: 254 FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK--------ED 305
Query: 199 LEPIGRKIACKCKGLPLAAKVIGNLLRS----------KSTVKEWQRILESEMWKVQEIG 248
L I +CKG PL +IG LLR + K+++RI +S + + +
Sbjct: 306 LPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALD 365
Query: 249 QDLLAPLLLSYNDLPSNSMVKQCFSYCTVFPKDCIMNKEKLIDLW 293
+ + + + D +K ++ ++ KD + + L LW
Sbjct: 366 EAMSISVEMLRED------IKDYYTDLSILQKDVKVPTKVLCVLW 404
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 65/283 (22%), Positives = 115/283 (40%), Gaps = 58/283 (20%)
Query: 41 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEK--VIWVCVSNTFDQIRIAKAIIEGLGESAS 98
+++ G+ G GK+ LA A + + V WV V + ++ L +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK-----QDKSGLLMKLQNLCT 204
Query: 99 GLNEFQSLMSRIQSSI-------------KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL 145
L++ +S R+ +I K ++ L+LDDVWD W LK
Sbjct: 205 RLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKAFD 255
Query: 146 HGSKILVTTRNESVA-RMMGSTDSISIKQ-LAEE---ECWSLFKQLAFFGCSFEDCEKLE 200
+IL+TTR++SV +MG + ++ L +E E SLF + L
Sbjct: 256 SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK--------KADLP 307
Query: 201 PIGRKIACKCKGLPLAAKVIGNLLRS----------KSTVKEWQRILESEMWKVQEIGQD 250
I +CKG PL +IG LLR + K+++RI +S + + + +
Sbjct: 308 EQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEA 367
Query: 251 LLAPLLLSYNDLPSNSMVKQCFSYCTVFPKDCIMNKEKLIDLW 293
+ + + D +K ++ ++ KD + + L LW
Sbjct: 368 MSISVEMLRED------IKDYYTDLSILQKDVKVPTKVLCILW 404
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 66/285 (23%), Positives = 114/285 (40%), Gaps = 62/285 (21%)
Query: 41 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSNTFDQIRIAKAIIEGLGESASGL 100
+++ G+ G GK+ LA A + + C S + I K GL L
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 101 ----NEFQSLMSRIQSSI-------------KGKKNFLVLDDVWDGDYNKWQPFFRCLKN 143
++ +S R+ +I K ++ L+LDDVWD P+ LK
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 260
Query: 144 GLHGSKILVTTRNESVA-RMMGSTDSISIKQ-LAEE---ECWSLFKQLAFFGCSFEDCEK 198
+ +IL+TT ++SV +MG + ++ L E E SLF + E
Sbjct: 261 FDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK--------ED 312
Query: 199 LEPIGRKIACKCKGLPLAAKVIGNLLRS----------KSTVKEWQRILESEMWKVQEIG 248
L I +CKG PL +IG LLR + K+++RI +S + + +
Sbjct: 313 LPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALD 372
Query: 249 QDLLAPLLLSYNDLPSNSMVKQCFSYCTVFPKDCIMNKEKLIDLW 293
+ + + + D +K ++ ++ KD + + L LW
Sbjct: 373 EAMSISVEMLRED------IKDYYTDLSILQKDVKVPTKVLCVLW 411
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 42/132 (31%), Positives = 71/132 (53%), Gaps = 26/132 (19%)
Query: 414 LNGSILQEL----FSKLACLRALVISQFYISGSHHEANRIKEIPENV-GKLIHLKYLNLS 468
L G+ LQ L F KL L+ LV+ + N+++ +P+ V KL +L YLNL+
Sbjct: 92 LTGNQLQSLPNGVFDKLTNLKELVLVE----------NQLQSLPDGVFDKLTNLTYLNLA 141
Query: 469 ELGIERLPETLCE-LYNLQKLDIRRCRNLRELPAGI----GKLMNMRTLLNGETYALKYM 523
++ LP+ + + L NL +LD+ + L+ LP G+ +L ++R N LK +
Sbjct: 142 HNQLQSLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQN----QLKSV 196
Query: 524 PIGI-SKLTNLR 534
P G+ +LT+L+
Sbjct: 197 PDGVFDRLTSLQ 208
>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 = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 85/205 (41%), Gaps = 42/205 (20%)
Query: 41 ISLVGLGGIGKTTLAQLAYNNDEVKRNF--EKVIWVCVSNTFDQIRIAKAIIEGLGESAS 98
+++ G+ G GK+ LA A + + V WV V + ++ L +
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK-----QDKSGLLMKLQNLCT 210
Query: 99 GLNEFQSLMSRIQSSI-------------KGKKNFLVLDDVWDGDYNKWQPFFRCLKNGL 145
L++ +S R+ +I K ++ L+LDDVWD W LK
Sbjct: 211 RLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKAFD 261
Query: 146 HGSKILVTTRNESVA-RMMGSTDSISIKQ-LAEE---ECWSLFKQLAFFGCSFEDCEKLE 200
+IL+TTR++SV +MG + ++ L +E E SLF + L
Sbjct: 262 SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKK--------ADLP 313
Query: 201 PIGRKIACKCKGLPLAAKVIGNLLR 225
I +CKG PL +IG LLR
Sbjct: 314 EQAHSIIKECKGSPLVVSLIGALLR 338
>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 = 34.7 bits (78), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 57/108 (52%), Gaps = 17/108 (15%)
Query: 434 ISQFYISGSHHEANRIKEIPENV-GKLIHLKYLNLSELGIERLPETLCE-LYNLQKLDIR 491
++Q Y+ G N+++ +P V KL L YLNLS ++ LP + + L L++L +
Sbjct: 54 LTQLYLGG-----NKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALN 108
Query: 492 RCRNLRELPAGI----GKLMNMRTLLNGETYALKYMPIGI-SKLTNLR 534
L+ LP G+ +L ++R N LK +P G+ +LT+L+
Sbjct: 109 T-NQLQSLPDGVFDKLTQLKDLRLYQN----QLKSVPDGVFDRLTSLQ 151
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 475 LPETLCELYNLQKLDIRRCRNLRELPAGIGKLMNMRTLLNGETYALKYMPIGI-SKLTNL 533
LP+ EL NL LD+ +C+ + P L +++ +LN + LK +P GI +LT+L
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ-VLNMASNQLKSVPDGIFDRLTSL 520
Query: 534 RTL 536
+ +
Sbjct: 521 QKI 523
>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 = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 36/77 (46%), Gaps = 7/77 (9%)
Query: 414 LNGSILQELFSKLACLRALVISQFYISGSHHEANRIKEIPENVGKLIHLKYLNLSELGIE 473
LNG+ L EL +++ L L + + SH NR+ +P +G LKY + +
Sbjct: 254 LNGNSLTELPAEIKNLSNLRV----LDLSH---NRLTSLPAELGSCFQLKYFYFFDNMVT 306
Query: 474 RLPETLCELYNLQKLDI 490
LP L NLQ L +
Sbjct: 307 TLPWEFGNLCNLQFLGV 323
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 50/93 (53%), Gaps = 7/93 (7%)
Query: 448 RIKEIPENVGKLIHLKYLNLSEL--GIERLPETLCE-LYNLQKLDIRRCRNLRELPAGIG 504
R+ IP N+ L ++ L+ EL IE +P L + L NL+ ++ + LR++P GI
Sbjct: 134 RLTHIPANL--LTDMRNLSHLELRANIEEMPSHLFDDLENLESIEFGSNK-LRQMPRGIF 190
Query: 505 KLMNMRTLLNGETYALKYMPIGI-SKLTNLRTL 536
M LN + LK +P GI +LT+L+ +
Sbjct: 191 GKMPKLKQLNLASNQLKSVPDGIFDRLTSLQKI 223
>pdb|2D7U|A Chain A, Crystal Structure Of Hypothetical Adenylosuccinate
Synthetase, Ph0438 From Pyrococcus Horikoshii Ot3
Length = 339
Score = 30.0 bits (66), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 8/71 (11%)
Query: 501 AGIGKLMNMRTLLNGETYALKYMPIGISKLTNLRTLDRFVVGGGVDGSNTC---RLESLK 557
G+G ++NG+ YA++ +P G ++T R ++G GV LE LK
Sbjct: 35 GGVGTNAGHSVVINGKKYAVRQIPTGF-----MQTKARLLIGAGVLVDPEVFFHELEQLK 89
Query: 558 NLQLRGKCSIE 568
+ ++ + I+
Sbjct: 90 DFNVKDRVGID 100
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 706 YLKIWATEELEETTDIPRLSSLTIWYCPKLKVLPDYLLQTTALQELRI 753
Y K + EEL +++ L+ + ++ CP LPD+L LQ L I
Sbjct: 476 YAKQYENEELS-WSNLKDLTDVELYNCPNXTQLPDFLYDLPELQSLNI 522
>pdb|2RAD|A Chain A, Crystal Structure Of The Succinoglycan Biosynthesis
Protein. Northeast Structural Genomics Consortium Target
Bcr135
pdb|2RAD|B Chain B, Crystal Structure Of The Succinoglycan Biosynthesis
Protein. Northeast Structural Genomics Consortium Target
Bcr135
pdb|3B55|A Chain A, Crystal Structure Of The Q81bn2_baccr Protein From
Bacillus Cereus. Nesg Target Bcr135
Length = 451
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 85 IAKAIIEGLGESASGLNEFQSLMSRIQSSIKGKKNF--LVLDDVWD 128
+ A I GLGE+ G +E + RI + +K F LVL++ WD
Sbjct: 72 VGSASIVGLGEATHGAHEVFTXKHRIVKYLVSEKGFTNLVLEEGWD 117
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 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,350,219
Number of Sequences: 62578
Number of extensions: 771946
Number of successful extensions: 1887
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1872
Number of HSP's gapped (non-prelim): 29
length of query: 761
length of database: 14,973,337
effective HSP length: 106
effective length of query: 655
effective length of database: 8,340,069
effective search space: 5462745195
effective search space used: 5462745195
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)