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= 042869
(707 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 = 56.2 bits (134), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 44/128 (34%), Positives = 64/128 (50%), Gaps = 17/128 (13%)
Query: 69 LKKEPKILIILDDIWGSLDLEAIGIPFADNNSGCKVLLTARSQDVLSCKMDCQQNFFVD- 127
L+K P+ L+ILDD+W S L+A +S C++LLT R + V M + V+
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVMGPKYVVPVES 284
Query: 128 -VLNEK--EAWSLFKKMTGDCRENGELKSVAAEIVKECAGLPIAIVPIAKALKNKSPYEW 184
+ EK E SLF M + +L A I+KEC G P+ +V + AL P W
Sbjct: 285 SLGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKGSPL-VVSLIGALLRDFPNRW 338
Query: 185 RNALRQLE 192
L+QL+
Sbjct: 339 EYYLKQLQ 346
>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 = 55.8 bits (133), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 44/128 (34%), Positives = 64/128 (50%), Gaps = 17/128 (13%)
Query: 69 LKKEPKILIILDDIWGSLDLEAIGIPFADNNSGCKVLLTARSQDVLSCKMDCQQNFFVD- 127
L+K P+ L+ILDD+W S L+A +S C++LLT R + V M + V+
Sbjct: 238 LRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDKSVTDSVMGPKYVVPVES 290
Query: 128 -VLNEK--EAWSLFKKMTGDCRENGELKSVAAEIVKECAGLPIAIVPIAKALKNKSPYEW 184
+ EK E SLF M + +L A I+KEC G P+ +V + AL P W
Sbjct: 291 SLGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKGSPL-VVSLIGALLRDFPNRW 344
Query: 185 RNALRQLE 192
L+QL+
Sbjct: 345 EYYLKQLQ 352
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 55.5 bits (132), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 61/208 (29%), Positives = 93/208 (44%), Gaps = 32/208 (15%)
Query: 1 MGGIGKTTLVKEVGRQVKENNLFEKVISSRVSQTPQIKNIQGEIAEKIG---LELAEQSH 57
M G GK+ L E V++++L E S V K + + K+ + L ++
Sbjct: 155 MAGCGKSVLAAEA---VRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEES 211
Query: 58 ETVRAGRLLER---------LKKEPKILIILDDIWGSLDLEAIGIPFADNNSGCKVLLTA 108
+ R +E L+K P+ L+ILDD+W L+A DN C++LLT
Sbjct: 212 FSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-----DNQ--CQILLTT 264
Query: 109 RSQDVLSCKMDCQQNFFVD--VLNEK--EAWSLFKKMTGDCRENGELKSVAAEIVKECAG 164
R + V M + V+ + EK E SLF M + +L + A I+KEC G
Sbjct: 265 RDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE-----DLPAEAHSIIKECKG 319
Query: 165 LPIAIVPIAKALKNKSPYEWRNALRQLE 192
P+ +V + AL P W LRQL+
Sbjct: 320 SPL-VVSLIGALLRDFPNRWAYYLRQLQ 346
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 52.8 bits (125), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 60/208 (28%), Positives = 92/208 (44%), Gaps = 32/208 (15%)
Query: 1 MGGIGKTTLVKEVGRQVKENNLFEKVISSRVSQTPQIKNIQGEIAEKIG---LELAEQSH 57
M G GK+ L E V++++L E S V K + + K+ + L ++
Sbjct: 162 MAGCGKSVLAAEA---VRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEES 218
Query: 58 ETVRAGRLLER---------LKKEPKILIILDDIWGSLDLEAIGIPFADNNSGCKVLLTA 108
+ R +E L+K P+ L+ILDD+W L+A DN C++LLT
Sbjct: 219 FSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-----DNQ--CQILLTT 271
Query: 109 RSQDVLSCKMDCQQNFFVD--VLNEK--EAWSLFKKMTGDCRENGELKSVAAEIVKECAG 164
+ V M + V+ + EK E SLF M + +L + A I+KEC G
Sbjct: 272 SDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE-----DLPAEAHSIIKECKG 326
Query: 165 LPIAIVPIAKALKNKSPYEWRNALRQLE 192
P+ +V + AL P W LRQL+
Sbjct: 327 SPL-VVSLIGALLRDFPNRWAYYLRQLQ 353
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 36.2 bits (82), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 52/222 (23%), Positives = 96/222 (43%), Gaps = 42/222 (18%)
Query: 406 IIGDLKKLEILTLRGSNMQKLVEEIGRLTQLRLLDLSNCSKLKVIPAYVISSLSRLEELY 465
I D KKL++ + + S++ + RLT+LRLL L N +KL+ +PA + L LE L+
Sbjct: 35 IPADTKKLDLQSNKLSSLPS--KAFHRLTKLRLLYL-NDNKLQTLPAGIFKELKNLETLW 91
Query: 466 IGESPIEWGKVGGVD------------GERRNASLDELNNLSKLTSLEILIQDEKALPR- 512
+ ++ ++ +G D + ++ ++L+KLT L + + ++LP+
Sbjct: 92 VTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKG 151
Query: 513 ---DLSFFKMLQRY-----RILIGYWWSV------------------GPSDGISRMFRLK 546
L+ K L+ Y R+ G + + G D + ++ L+
Sbjct: 152 VFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQ 211
Query: 547 LTNGANICLNEGHIMQLKGIEDLTLDGLPDIKNILCELGREA 588
L C G I K ++ +GL + CE G +A
Sbjct: 212 LQENPWDCTCNGIIYMAKWLKKKADEGLGGVDTAGCEKGGKA 253
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 35.8 bits (81), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 72/161 (44%), Gaps = 19/161 (11%)
Query: 400 KLGDMAIIGDLKKLEILTLRGSNMQKLVEEIGRLTQLRLLDLSNCSKLKVIPAYVISSLS 459
++ D+A + +L K+ L L G N K V I L ++ LDL++ V P ++ LS
Sbjct: 74 QITDLAPLKNLTKITELELSG-NPLKNVSAIAGLQSIKTLDLTSTQITDVTP---LAGLS 129
Query: 460 RLEELYIGESPI-EWGKVGGVD-------GERRNASLDELNNLSKLTSLEILIQDEKALP 511
L+ LY+ + I + G+ G + + L L NLSKLT+L+ D+ +
Sbjct: 130 NLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLK---ADDNKI- 185
Query: 512 RDLSFFKMLQR---YRILIGYWWSVGPSDGISRMFRLKLTN 549
D+S L + V P S +F + LTN
Sbjct: 186 SDISPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTN 226
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 409 DLKKLEILTL-RGSNMQKLVEEIGRLTQLRLLDLSNCSKLKVIPAYVISSLSRLEELYIG 467
L LE+L L R S Q V L L L+L + + L VIP+ LS+L EL++
Sbjct: 97 HLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFD-NWLTVIPSGAFEYLSKLRELWLR 155
Query: 468 ESPIE 472
+PIE
Sbjct: 156 NNPIE 160
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 2/64 (3%)
Query: 410 LKKLEILTLRGSNMQKL-VEEIGRLTQLRLLDLSNCSKLKVIPAYVISSLSRLEELYIGE 468
L+ LEIL L + ++K+ V L L L+L + ++L +P LS+L EL++
Sbjct: 58 LRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFD-NRLTTVPTQAFEYLSKLRELWLRN 116
Query: 469 SPIE 472
+PIE
Sbjct: 117 NPIE 120
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 2/65 (3%)
Query: 409 DLKKLEILTLRGSNMQKL-VEEIGRLTQLRLLDLSNCSKLKVIPAYVISSLSRLEELYIG 467
L+ LEIL L + ++K+ V L L L+L + ++L +P LS+L EL++
Sbjct: 57 HLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFD-NRLTTVPTQAFEYLSKLRELWLR 115
Query: 468 ESPIE 472
+PIE
Sbjct: 116 NNPIE 120
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 39/66 (59%), Gaps = 6/66 (9%)
Query: 410 LKKLEILTLRGSNMQKLVEEIGR---LTQLRLLDLSNCSKLKVIPAYVISSLSRLEELYI 466
L+ LEIL L ++++ + EIG L L L+L + ++L IP LS+L+EL++
Sbjct: 87 LRHLEILQLSRNHIRTI--EIGAFNGLANLNTLELFD-NRLTTIPNGAFVYLSKLKELWL 143
Query: 467 GESPIE 472
+PIE
Sbjct: 144 RNNPIE 149
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 406 IIGDLKKLEILTLRG-SNMQKLVEEIGRLTQLRLLDLSNCSKLKVIPAYV 454
I G L+ L L+ SN+ L +I RLTQL LDL C L +P+ +
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLI 297
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 0.137 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,982,037
Number of Sequences: 62578
Number of extensions: 750786
Number of successful extensions: 1892
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1884
Number of HSP's gapped (non-prelim): 17
length of query: 707
length of database: 14,973,337
effective HSP length: 106
effective length of query: 601
effective length of database: 8,340,069
effective search space: 5012381469
effective search space used: 5012381469
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)