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= 044755
(1079 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 = 53.9 bits (128), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 64/273 (23%), Positives = 118/273 (43%), Gaps = 48/273 (17%)
Query: 157 FESRLCALKSVQNALTDVN--VSIVGVYGMGGIGKTTLVKEVARQ--------------- 199
F +R + ++Q L +N V +YGM G GK+ L E R
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185
Query: 200 --AREDKLFDLVVFSEVSQTLDIKKIQQEIAEKLGLVLEEETGSRRASRLYERLKKEEKI 257
++DK L+ + LD ++ +++L L +EE R L+K +
Sbjct: 186 SIGKQDKSGLLMKLQNLCMRLD---QEESFSQRLPLNIEEAKDRLRVL----MLRKHPRS 238
Query: 258 LIILDNIWKCVDLEAVGIPFGDDHKGCKLLLTARDRNVLFR-MGSQKNFSIDI-LNEEEA 315
L+ILD++W L+A C++LLT RD++V MG + ++ L E+
Sbjct: 239 LLILDDVWDPWVLKAFD-------NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291
Query: 316 WRLFKLMADDHVENRELQSTATEVAQACKGLPIALTTIARALRNKSVPE-WKSALQEL-- 372
+ L + ++ +L + A + + CKG P+ ++ I LR+ P W L++L
Sbjct: 292 LEILSLFVN--MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRD--FPNRWAYYLRQLQN 347
Query: 373 ------RMPSEVNFEGVPAEAYSTIELSFKNLK 399
R S ++E + ++E+ +++K
Sbjct: 348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 380
>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 = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 62/273 (22%), Positives = 118/273 (43%), Gaps = 48/273 (17%)
Query: 157 FESRLCALKSVQNALTDVN--VSIVGVYGMGGIGKTTLVKEVARQ--------------- 199
F +R + ++Q L+ + V ++GM G GK+ L E R
Sbjct: 126 FVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWV 185
Query: 200 --AREDKLFDLVVFSEVSQTLDIKKIQQEIAEKLGLVLEEETGSRRASRLYERLKKEEKI 257
++DK L+ + LD + +++L L +EE R L +K +
Sbjct: 186 SVGKQDKSGLLMKLQNLCTRLDQ---DESFSQRLPLNIEEAKDRLRILML----RKHPRS 238
Query: 258 LIILDNIWKCVDLEAVGIPFGDDHKGCKLLLTARDRNVLFR-MGSQKNFSIDI-LNEEEA 315
L+ILD++W L+A C++LLT RD++V MG + ++ L +E+
Sbjct: 239 LLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 291
Query: 316 WRLFKLMADDHVENRELQSTATEVAQACKGLPIALTTIARALRNKSVP-EWKSALQEL-- 372
+ L + ++ +L A + + CKG P+ ++ I LR+ P W+ L++L
Sbjct: 292 LEILSLFVN--MKKADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWEYYLKQLQN 347
Query: 373 ------RMPSEVNFEGVPAEAYSTIELSFKNLK 399
R S ++E + ++E+ +++K
Sbjct: 348 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 380
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 63/273 (23%), Positives = 117/273 (42%), Gaps = 48/273 (17%)
Query: 157 FESRLCALKSVQNALTDVN--VSIVGVYGMGGIGKTTLVKEVARQ--------------- 199
F +R + ++Q L +N V +YGM G GK+ L E R
Sbjct: 133 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 192
Query: 200 --AREDKLFDLVVFSEVSQTLDIKKIQQEIAEKLGLVLEEETGSRRASRLYERLKKEEKI 257
++DK L+ + LD ++ +++L L +EE R L+K +
Sbjct: 193 SIGKQDKSGLLMKLQNLCMRLD---QEESFSQRLPLNIEEAKDRLRVL----MLRKHPRS 245
Query: 258 LIILDNIWKCVDLEAVGIPFGDDHKGCKLLLTARDRNVLFR-MGSQKNFSIDI-LNEEEA 315
L+ILD++W L+A C++LLT D++V MG + ++ L E+
Sbjct: 246 LLILDDVWDPWVLKAFD-------NQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKG 298
Query: 316 WRLFKLMADDHVENRELQSTATEVAQACKGLPIALTTIARALRNKSVPE-WKSALQEL-- 372
+ L + ++ +L + A + + CKG P+ ++ I LR+ P W L++L
Sbjct: 299 LEILSLFVN--MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRD--FPNRWAYYLRQLQN 354
Query: 373 ------RMPSEVNFEGVPAEAYSTIELSFKNLK 399
R S ++E + ++E+ +++K
Sbjct: 355 KQFKRIRKSSSYDYEALDEAMSISVEMLREDIK 387
>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 = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 58/249 (23%), Positives = 108/249 (43%), Gaps = 46/249 (18%)
Query: 179 VGVYGMGGIGKTTLVKEVARQ-----------------AREDKLFDLVVFSEVSQTLDIK 221
V ++GM G GK+ L E R ++DK L+ + LD
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQ- 214
Query: 222 KIQQEIAEKLGLVLEEETGSRRASRLYERLKKEEKILIILDNIWKCVDLEAVGIPFGDDH 281
+ +++L L +EE R L +K + L+ILD++W L+A
Sbjct: 215 --DESFSQRLPLNIEEAKDRLRILML----RKHPRSLLILDDVWDSWVLKAFD------- 261
Query: 282 KGCKLLLTARDRNVLFR-MGSQKNFSIDI-LNEEEAWRLFKLMADDHVENRELQSTATEV 339
C++LLT RD++V MG + ++ L +E+ + L + ++ +L A +
Sbjct: 262 SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQAHSI 319
Query: 340 AQACKGLPIALTTIARALRNKSVPE-WKSALQEL--------RMPSEVNFEGVPAEAYST 390
+ CKG P+ ++ I LR+ P W+ L++L R S ++E + +
Sbjct: 320 IKECKGSPLVVSLIGALLRD--FPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 377
Query: 391 IELSFKNLK 399
+E+ +++K
Sbjct: 378 VEMLREDIK 386
>pdb|1UNG|A Chain A, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNG|B Chain B, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|A Chain A, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNH|B Chain B, Structural Mechanism For The Inhibition Of Cdk5-P25 By
Roscovitine, Aloisine And Indirubin.
pdb|1UNL|A Chain A, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|1UNL|B Chain B, Structural Mechanism For The Inhibition Of Cd5-P25 From
The Roscovitine, Aloisine And Indirubin.
pdb|3O0G|A Chain A, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
pdb|3O0G|B Chain B, Crystal Structure Of Cdk5:p25 In Complex With An Atp
Analogue
Length = 292
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 46/182 (25%), Positives = 70/182 (38%), Gaps = 46/182 (25%)
Query: 368 ALQELRMPSEVNFEGVPAEAYSTI----ELSFKNLK-------------------GEQLK 404
AL+ +R+ + + EGVP+ A I EL KN+ + LK
Sbjct: 31 ALKRVRL--DDDDEGVPSSALREICLLKELKHKNIVRLHDVLHSDKKLTLVFEFCDQDLK 88
Query: 405 KFFMLCSL-LGNSICTSYLFQCCMGLGILQKANKLEDARNKLYALVHELRDSCLLLEGDS 463
K+F C+ L I S+LFQ GLG N L +L+ LL+ +
Sbjct: 89 KYFDSCNGDLDPEIVKSFLFQLLKGLGFCHSRNVLH----------RDLKPQNLLINRNG 138
Query: 464 NQQLSMHDVIRDVAISIACRDQHAVLVRNEDVWEWPDDIAL-KECYAISL----RGCSIH 518
+L+ + R I + C V +W P D+ + Y+ S+ GC
Sbjct: 139 ELKLANFGLARAFGIPVRCYSAEVVT-----LWYRPPDVLFGAKLYSTSIDMWSAGCIFA 193
Query: 519 EL 520
EL
Sbjct: 194 EL 195
>pdb|1H4L|A Chain A, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
pdb|1H4L|B Chain B, Structure And Regulation Of The Cdk5-P25(Nck5a) Complex
Length = 292
Score = 33.9 bits (76), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 46/182 (25%), Positives = 70/182 (38%), Gaps = 46/182 (25%)
Query: 368 ALQELRMPSEVNFEGVPAEAYSTI----ELSFKNLK-------------------GEQLK 404
AL+ +R+ + + EGVP+ A I EL KN+ + LK
Sbjct: 31 ALKRVRL--DDDDEGVPSSALREICLLKELKHKNIVRLHDVLHSDKKLTLVFEFCDQDLK 88
Query: 405 KFFMLCSL-LGNSICTSYLFQCCMGLGILQKANKLEDARNKLYALVHELRDSCLLLEGDS 463
K+F C+ L I S+LFQ GLG N L +L+ LL+ +
Sbjct: 89 KYFDSCNGDLDPEIVKSFLFQLLKGLGFCHSRNVLH----------RDLKPQNLLINRNG 138
Query: 464 NQQLSMHDVIRDVAISIACRDQHAVLVRNEDVWEWPDDIAL-KECYAISL----RGCSIH 518
+L+ + R I + C V +W P D+ + Y+ S+ GC
Sbjct: 139 ELKLADFGLARAFGIPVRCYSAEVVT-----LWYRPPDVLFGAKLYSTSIDMWSAGCIFA 193
Query: 519 EL 520
EL
Sbjct: 194 EL 195
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 32.7 bits (73), Expect = 1.1, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 593 AIIGKLKNLEILSFWGSVIVMLPEELGHLTKLRQLDLSNCFKLKVIAPNVISRLVRLEEL 652
A I L+NL+ L S + L + HL KL +LDL C L+ P + L+ L
Sbjct: 200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP-IFGGRAPLKRL 258
Query: 653 YMSNC 657
+ +C
Sbjct: 259 ILKDC 263
>pdb|3R8F|A Chain A, Protein-Dna Complex
pdb|3R8F|B Chain B, Protein-Dna Complex
pdb|3R8F|C Chain C, Protein-Dna Complex
pdb|3R8F|D Chain D, Protein-Dna Complex
Length = 324
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 761 VDSKERVPLDDAFPILESLNLYNLIKLERICQDRLSVQSFNELKTIRVELCDQLSNIFLL 820
++ KER D I+E + Y +K+E I D+ + ++ +E + I + LC ++ + L+
Sbjct: 219 LERKERKERDKLMQIVEFVANYYAVKVEDILSDKRNKRT-SEARKIAMYLCRKVCSASLI 277
Query: 821 SAAKCLPRLERIAVINC-RNIQE 842
A+ R + VI+ R+++E
Sbjct: 278 EIARAFKRKDHTTVIHAIRSVEE 300
>pdb|2HCB|A Chain A, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|B Chain B, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|C Chain C, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|D Chain D, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
Length = 323
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 761 VDSKERVPLDDAFPILESLNLYNLIKLERICQDRLSVQSFNELKTIRVELCDQLSNIFLL 820
++ KER D I+E + Y +K+E I D+ + ++ +E + I + LC ++ + L+
Sbjct: 218 LERKERKERDKLMQIVEFVANYYAVKVEDILSDKRNKRT-SEARKIAMYLCRKVCSASLI 276
Query: 821 SAAKCLPRLERIAVINC-RNIQE 842
A+ R + VI+ R+++E
Sbjct: 277 EIARAFKRKDHTTVIHAIRSVEE 299
>pdb|1L8Q|A Chain A, Crystal Structure Of Dna Replication Initiation Factor
Length = 324
Score = 30.8 bits (68), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 44/83 (53%), Gaps = 2/83 (2%)
Query: 761 VDSKERVPLDDAFPILESLNLYNLIKLERICQDRLSVQSFNELKTIRVELCDQLSNIFLL 820
++ KER D I+E + Y +K+E I D+ + ++ +E + I LC ++ + L+
Sbjct: 219 LERKERKERDKLXQIVEFVANYYAVKVEDILSDKRNKRT-SEARKIAXYLCRKVCSASLI 277
Query: 821 SAAKCLPRLERIAVINC-RNIQE 842
A+ R + VI+ R+++E
Sbjct: 278 EIARAFKRKDHTTVIHAIRSVEE 300
>pdb|3KB6|A Chain A, Crystal Structure Of D-lactate Dehydrogenase From Aquifex
Aeolicus Complexed With Nad And Lactic Acid
pdb|3KB6|B Chain B, Crystal Structure Of D-lactate Dehydrogenase From Aquifex
Aeolicus Complexed With Nad And Lactic Acid
pdb|3KB6|C Chain C, Crystal Structure Of D-lactate Dehydrogenase From Aquifex
Aeolicus Complexed With Nad And Lactic Acid
pdb|3KB6|D Chain D, Crystal Structure Of D-lactate Dehydrogenase From Aquifex
Aeolicus Complexed With Nad And Lactic Acid
Length = 334
Score = 30.4 bits (67), Expect = 5.3, Method: Composition-based stats.
Identities = 21/67 (31%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 924 LEMNKVNIEKIWHNQLPVAMFL---CFQNLTRLILSKCPKLKYIFSASMLGSFEHLQHLE 980
L++ ++ K+ N+L A + + LT +LSK P+LK I + S+ F+H+ L+
Sbjct: 25 LKIYTTDVSKVPENELKKAELISVFVYDKLTEELLSKXPRLKLIHTRSV--GFDHID-LD 81
Query: 981 ICHCKGL 987
C KG+
Sbjct: 82 YCKKKGI 88
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein (Adpnp-Adp
Complexes)
Length = 412
Score = 30.4 bits (67), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 142 IPEEIWLKSRKGYEAFESRLCALKSVQNA-LTDVNVSIVGVYGMGGIGKTTLVKEVARQA 200
IP E L+ R+G +R+ + + A L+DVN+ I G G GIGKTTL K ++
Sbjct: 20 IPPE--LRVRRGEAEALARIYLNRLLSGAGLSDVNM-IYGSIGRVGIGKTTLAKFTVKRV 76
Query: 201 RE 202
E
Sbjct: 77 SE 78
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 0.137 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 29,462,039
Number of Sequences: 62578
Number of extensions: 1189355
Number of successful extensions: 3168
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 3144
Number of HSP's gapped (non-prelim): 34
length of query: 1079
length of database: 14,973,337
effective HSP length: 109
effective length of query: 970
effective length of database: 8,152,335
effective search space: 7907764950
effective search space used: 7907764950
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: 57 (26.6 bits)