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= 000568
(1416 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 = 42.0 bits (97), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 68/270 (25%), Positives = 101/270 (37%), Gaps = 58/270 (21%)
Query: 220 IPIIGMGGLGKTTLAQLVYNDHRVQD-------HFDLKAWTCVSNDFDVIRLTKTILRCI 272
+ I GM G GK+ LA DH + + H W V D L +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVH-----WVSVGKQ-DKSGLLMKLQNLC 203
Query: 273 TKQTIDDSDXXXXXXXXXXXXSRKKFL---------LVLDDVWNENYNDWVDMSRPLEAG 323
T+ D+S R + L L+LDDVW+ WV L+A
Sbjct: 204 TRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----WV-----LKAF 254
Query: 324 APGSKIIVTTRNQEVV-AIMGTAPAY------QLKRLSTDDCLSVFTQHSLDSRDFSSNK 376
+I++TTR++ V ++MG P Y L + + LS+F
Sbjct: 255 DSQCQILLTTRDKSVTDSVMG--PKYVVPVESSLGKEKGLEILSLFVN--------MKKA 304
Query: 377 SLEEIGKKIVIKCNGLPLAAKTLGGLLRGKHGPSDWEDVL----NSNIWDLPE----DRC 428
L E I+ +C G PL +G LLR P+ WE L N + + D
Sbjct: 305 DLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWEYYLKQLQNKQFKRIRKSSSYDYE 362
Query: 429 GILPALRVSYYYLSPPLKQCFAYCSLLPKD 458
+ A+ +S L +K + S+L KD
Sbjct: 363 ALDEAMSISVEMLREDIKDYYTDLSILQKD 392
>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 = 40.8 bits (94), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 74/175 (42%), Gaps = 36/175 (20%)
Query: 299 LLVLDDVWNENYNDWVDMSRPLEAGAPGSKIIVTTRNQEVV-AIMGTAPAY------QLK 351
LL+LDDVW+ WV L+A +I++TTR++ V ++MG P Y L
Sbjct: 245 LLILDDVWDS----WV-----LKAFDSQCQILLTTRDKSVTDSVMG--PKYVVPVESSLG 293
Query: 352 RLSTDDCLSVFTQHSLDSRDFSSNKSLEEIGKKIVIKCNGLPLAAKTLGGLLRGKHGPSD 411
+ + LS+F L E I+ +C G PL +G LLR P+
Sbjct: 294 KEKGLEILSLFVN--------MKKADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNR 343
Query: 412 WEDVL----NSNIWDLPE----DRCGILPALRVSYYYLSPPLKQCFAYCSLLPKD 458
WE L N + + D + A+ +S L +K + S+L KD
Sbjct: 344 WEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKD 398
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 40.0 bits (92), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 58/131 (44%), Gaps = 8/131 (6%)
Query: 547 RNLRHLSYIRGEYDGVKRFAGFYDIKYLRTFLSIMLSNNSRGYLACSILHQLLKLQQLRV 606
+ L +L +R E+ G++ I L+ S+ + N+ L +I H L KL++L +
Sbjct: 180 QGLVNLQSLRLEWTGIRSLPA--SIANLQNLKSLKIRNSPLSALGPAI-HHLPKLEELDL 236
Query: 607 FTVLNLSRTNIRNLPESITKLYNLHTLLLEDCDRLKTLCADIGNLIKLHHLKNSNTISLQ 666
T +RN P L L+L+DC L TL DI L +L L ++L
Sbjct: 237 RGC-----TALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLS 291
Query: 667 EMPLRFGKLTC 677
+P +L
Sbjct: 292 RLPSLIAQLPA 302
Score = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 46/161 (28%), Positives = 69/161 (42%), Gaps = 13/161 (8%)
Query: 1097 LEHLVIGRCPSLTCLFSKNGLPATLESLEVGNLPQSLKFLDVW--ECPKLESIAERLNNN 1154
L L I CP LT LP L S + Q L L E + S+ + N
Sbjct: 152 LRELSIRACPELT------ELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANL 205
Query: 1155 TSLEVIDIGNCENLKILPSGLHNLCQLQRISIWCCGNLVSFSE--GGLPCAKLTRLEISE 1212
+L+ + I N L L +H+L +L+ + + C L ++ GG A L RL + +
Sbjct: 206 QNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGR--APLKRLILKD 262
Query: 1213 CERLEALPRGLRNLTCLQHLTIGDVLSPERDPEDEDRLPTN 1253
C L LP + LT L+ L + ++ R P +LP N
Sbjct: 263 CSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPAN 303
Score = 32.3 bits (72), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 46/148 (31%), Positives = 68/148 (45%), Gaps = 38/148 (25%)
Query: 968 LEYLGLSYCQGLVTLPQSLLNLSSLREIYIRSCSSLVSFPE--------------VALPS 1013
LE L L+ L LP S+ +L+ LRE+ IR+C L PE V L S
Sbjct: 129 LETLTLAR-NPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQS 187
Query: 1014 KLRL---------ITIWDCEALKSL-----PEAWMCETN---SSLEILNIAGCSSL---T 1053
LRL +I + + LKSL P + + LE L++ GC++L
Sbjct: 188 -LRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYP 246
Query: 1054 YITGVQLPPSLKLLLIFDCDSIRTLTVE 1081
I G + P LK L++ DC ++ TL ++
Sbjct: 247 PIFGGRAP--LKRLILKDCSNLLTLPLD 272
Score = 30.8 bits (68), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 63/166 (37%), Gaps = 25/166 (15%)
Query: 860 RGSSQEIEGFPKLRELHISRCSKLRGTLPERLPALE-------MFVIQSCEELVVSVMSL 912
R I +LREL I C +L LPE L + + + +QS + SL
Sbjct: 140 RALPASIASLNRLRELSIRACPEL-TELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSL 198
Query: 913 PA-------LCKFKIDGCKKVVWRSTTKHLGLI--LHIGGCPNLQSLVAXXXXXXXXLCD 963
PA L KI HL + L + GC L++ +
Sbjct: 199 PASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP--------IFG 250
Query: 964 LSCKLEYLGLSYCQGLVTLPQSLLNLSSLREIYIRSCSSLVSFPEV 1009
L+ L L C L+TLP + L+ L ++ +R C +L P +
Sbjct: 251 GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein From
Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich Effector
Protein From Yersinia Pestis
Length = 454
Score = 38.5 bits (88), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 59/209 (28%), Positives = 85/209 (40%), Gaps = 50/209 (23%)
Query: 978 GLVTLPQSLLNLSSLREIYIRSCSSLVSFPEVALPSKLRLITIWDCEALKSLPE--AWMC 1035
GL +LP+ +L SL + SC+SL PE+ K L+ + +AL LP ++
Sbjct: 82 GLSSLPELPPHLESL----VASCNSLTELPELPQSLKSLLVDNNNLKALSDLPPLLEYLG 137
Query: 1036 ETNSSLEILNIAGCSSLTYITGVQ---------LPPSLKLLL--------IFDCDSIRTL 1078
+N+ LE L SS I V LPPSL+ + + + ++ L
Sbjct: 138 VSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFL 197
Query: 1079 TVEEGIQXXXXXXXXXXL-LEHLVIGR-----------CPSLTCLFSKNGL-------PA 1119
T L LE +V G P LT +++ N L P
Sbjct: 198 TAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPP 257
Query: 1120 TLESLEVGN--------LPQSLKFLDVWE 1140
+LE+L V + LPQSL FLDV E
Sbjct: 258 SLEALNVRDNYLTDLPELPQSLTFLDVSE 286
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 34.7 bits (78), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 53/119 (44%), Gaps = 24/119 (20%)
Query: 299 LLVLDDVWNENYNDWVDMSRPLEAGAPGSKIIVTTRNQEVV-AIMG---TAPAYQ-LKRL 353
LL+LDDVW+ WV L+A +I++TTR++ V ++MG P L R
Sbjct: 239 LLILDDVWDP----WV-----LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289
Query: 354 STDDCLSVFTQHSLDSRDFSSNKSLEEIGKKIVIKCNGLPLAAKTLGGLLRGKHGPSDW 412
+ LS+F + L I+ +C G PL +G LLR P+ W
Sbjct: 290 KGLEILSLFVN--------MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRD--FPNRW 338
>pdb|2D1T|A Chain A, Crystal Structure Of The Thermostable Japanese Firefly
Luciferase Red-Color Emission S286n Mutant Complexed With
High-Energy Intermediate Analogue
Length = 548
Score = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 45/95 (47%), Gaps = 6/95 (6%)
Query: 1150 RLNNNTSLEVIDIGNCENLKILPSGLHNLCQLQRISIWCCGNLVSFSEGGLPCAKLTRLE 1209
+ + T L+ + C N+ ++P+ L + + ++ + NLV + GG P +K E
Sbjct: 269 KFDEETFLKTLQDYKCTNVILVPTLFAILNKSELLNKYDLSNLVEIASGGAPLSK----E 324
Query: 1210 ISEC-ERLEALPRGLRNLTCLQHLTIGDVLSPERD 1243
+ E R LP G+R L T +++PE D
Sbjct: 325 VGEAVARRFNLP-GVRQGYGLTETTSAIIITPEGD 358
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 32.3 bits (72), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 52/119 (43%), Gaps = 24/119 (20%)
Query: 299 LLVLDDVWNENYNDWVDMSRPLEAGAPGSKIIVTTRNQEVV-AIMG---TAPAYQ-LKRL 353
LL+LDDVW+ WV L+A +I++TT ++ V ++MG P L R
Sbjct: 246 LLILDDVWDP----WV-----LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGRE 296
Query: 354 STDDCLSVFTQHSLDSRDFSSNKSLEEIGKKIVIKCNGLPLAAKTLGGLLRGKHGPSDW 412
+ LS+F + L I+ +C G PL +G LLR P+ W
Sbjct: 297 KGLEILSLFVN--------MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRD--FPNRW 345
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 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,643,253
Number of Sequences: 62578
Number of extensions: 1587135
Number of successful extensions: 3575
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 3552
Number of HSP's gapped (non-prelim): 26
length of query: 1416
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1305
effective length of database: 8,027,179
effective search space: 10475468595
effective search space used: 10475468595
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.9 bits)