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= 044393
(513 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 = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 74/251 (29%), Positives = 117/251 (46%), Gaps = 38/251 (15%)
Query: 148 IPRFFSSFETTKSACNQITEALKK--GSTKMVGLHGLGGVGKTTLAKFVGNQLRQEKIFD 205
+P+ F T K N I + L K G V +HG+ G GK+ LA +R + +
Sbjct: 119 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLA---AEAVRDHSLLE 175
Query: 206 EV---GIATVS---QDPD--IINVQSELVKWLGWELKEKDE----------EERADRLRL 247
G+ VS QD ++ +Q+ + ++DE EE DRLR+
Sbjct: 176 GCFPGGVHWVSVGKQDKSGLLMKLQNLCTRL------DQDESFSQRLPLNIEEAKDRLRI 229
Query: 248 MFSESKGRKILIILDDVWKELDLETVGIPANCCKILLTTRLQQVCDR-MGCDTRIKLD-A 305
+ R L+ILDDVW L+ + C+ILLTTR + V D MG + ++ +
Sbjct: 230 LMLRKHPRS-LLILDDVWDSWVLKAFD---SQCQILLTTRDKSVTDSVMGPKYVVPVESS 285
Query: 306 LDQAEGLDLLREHAGIDVADTTLTDVSKRVADECKGLPLAIKVVGSALTGRNADEWNVAL 365
L + +GL++L + AD L + + + ECKG PL + ++G AL + W L
Sbjct: 286 LGKEKGLEILSLFVNMKKAD--LPEQAHSIIKECKGSPLVVSLIG-ALLRDFPNRWEYYL 342
Query: 366 DKLQNAKLDKI 376
+LQN + +I
Sbjct: 343 KQLQNKQFKRI 353
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 74/251 (29%), Positives = 117/251 (46%), Gaps = 38/251 (15%)
Query: 148 IPRFFSSFETTKSACNQITEALKK--GSTKMVGLHGLGGVGKTTLAKFVGNQLRQEKIFD 205
+P+ F T K N I + L K G V +HG+ G GK+ LA +R + +
Sbjct: 125 VPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLA---AEAVRDHSLLE 181
Query: 206 EV---GIATVS---QDPD--IINVQSELVKWLGWELKEKDE----------EERADRLRL 247
G+ VS QD ++ +Q+ + ++DE EE DRLR+
Sbjct: 182 GCFPGGVHWVSVGKQDKSGLLMKLQNLCTRL------DQDESFSQRLPLNIEEAKDRLRI 235
Query: 248 MFSESKGRKILIILDDVWKELDLETVGIPANCCKILLTTRLQQVCDR-MGCDTRIKLD-A 305
+ R L+ILDDVW L+ + C+ILLTTR + V D MG + ++ +
Sbjct: 236 LMLRKHPRS-LLILDDVWDSWVLKAFD---SQCQILLTTRDKSVTDSVMGPKYVVPVESS 291
Query: 306 LDQAEGLDLLREHAGIDVADTTLTDVSKRVADECKGLPLAIKVVGSALTGRNADEWNVAL 365
L + +GL++L + AD L + + + ECKG PL + ++G AL + W L
Sbjct: 292 LGKEKGLEILSLFVNMKKAD--LPEQAHSIIKECKGSPLVVSLIG-ALLRDFPNRWEYYL 348
Query: 366 DKLQNAKLDKI 376
+LQN + +I
Sbjct: 349 KQLQNKQFKRI 359
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 72/249 (28%), Positives = 113/249 (45%), Gaps = 34/249 (13%)
Query: 148 IPRFFSSFETTKSACNQITEALKK--GSTKMVGLHGLGGVGKTTLAKFVGNQLRQEKIFD 205
+P+ F T K + I + L K G V ++G+ G GK+ LA +R + +
Sbjct: 119 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLA---AEAVRDHSLLE 175
Query: 206 EV---GIATVS---QDPDIINVQSELVKWLGWELKEKDEEERADRLRLMFSESKGR---- 255
G+ VS QD + L+K ++ EE + RL L E+K R
Sbjct: 176 GCFSGGVHWVSIGKQDKSGL-----LMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVL 230
Query: 256 ------KILIILDDVWKELDLETVGIPANCCKILLTTRLQQVCDR-MGCDTRIKLDA-LD 307
+ L+ILDDVW L+ N C+ILLTTR + V D MG + +++ L
Sbjct: 231 MLRKHPRSLLILDDVWDPWVLKAFD---NQCQILLTTRDKSVTDSVMGPKHVVPVESGLG 287
Query: 308 QAEGLDLLREHAGIDVADTTLTDVSKRVADECKGLPLAIKVVGSALTGRNADEWNVALDK 367
+ +GL++L + D L + + ECKG PL + ++G AL + W L +
Sbjct: 288 REKGLEILSLFVNMKKED--LPAEAHSIIKECKGSPLVVSLIG-ALLRDFPNRWAYYLRQ 344
Query: 368 LQNAKLDKI 376
LQN + +I
Sbjct: 345 LQNKQFKRI 353
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 71/249 (28%), Positives = 112/249 (44%), Gaps = 34/249 (13%)
Query: 148 IPRFFSSFETTKSACNQITEALKK--GSTKMVGLHGLGGVGKTTLAKFVGNQLRQEKIFD 205
+P+ F T K + I + L K G V ++G+ G GK+ LA +R + +
Sbjct: 126 VPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLA---AEAVRDHSLLE 182
Query: 206 EV---GIATVS---QDPDIINVQSELVKWLGWELKEKDEEERADRLRLMFSESKGR---- 255
G+ VS QD + L+K ++ EE + RL L E+K R
Sbjct: 183 GCFSGGVHWVSIGKQDKSGL-----LMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVL 237
Query: 256 ------KILIILDDVWKELDLETVGIPANCCKILLTTRLQQVCDR-MGCDTRIKLDA-LD 307
+ L+ILDDVW L+ N C+ILLTT + V D MG + +++ L
Sbjct: 238 MLRKHPRSLLILDDVWDPWVLKAFD---NQCQILLTTSDKSVTDSVMGPKHVVPVESGLG 294
Query: 308 QAEGLDLLREHAGIDVADTTLTDVSKRVADECKGLPLAIKVVGSALTGRNADEWNVALDK 367
+ +GL++L + D L + + ECKG PL + ++G AL + W L +
Sbjct: 295 REKGLEILSLFVNMKKED--LPAEAHSIIKECKGSPLVVSLIG-ALLRDFPNRWAYYLRQ 351
Query: 368 LQNAKLDKI 376
LQN + +I
Sbjct: 352 LQNKQFKRI 360
>pdb|1SGW|A Chain A, Putative Abc Transporter (Atp-Binding Protein) From
Pyrococcus Furiosus Pfu-867808-001
Length = 214
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 159 KSACNQITEALKKGSTKMVGLHGLGGVGKTTLAKFVGNQLRQ---EKIFDEVGIATV 212
K +IT ++KG+ +V HG G+GKTTL K + L+ E I++ V I V
Sbjct: 22 KPVLERITMTIEKGN--VVNFHGPNGIGKTTLLKTISTYLKPLKGEIIYNGVPITKV 76
>pdb|1VT4|I Chain I, Structure Of The Drosophila Apoptosome
pdb|1VT4|J Chain J, Structure Of The Drosophila Apoptosome
pdb|1VT4|K Chain K, Structure Of The Drosophila Apoptosome
pdb|1VT4|L Chain L, Structure Of The Drosophila Apoptosome
pdb|1VT4|M Chain M, Structure Of The Drosophila Apoptosome
pdb|1VT4|N Chain N, Structure Of The Drosophila Apoptosome
pdb|1VT4|O Chain O, Structure Of The Drosophila Apoptosome
pdb|1VT4|P Chain P, Structure Of The Drosophila Apoptosome
pdb|3IZ8|A Chain A, Structure Of The Drosophila Apoptosome
pdb|3IZ8|B Chain B, Structure Of The Drosophila Apoptosome
pdb|3IZ8|C Chain C, Structure Of The Drosophila Apoptosome
pdb|3IZ8|D Chain D, Structure Of The Drosophila Apoptosome
pdb|3IZ8|E Chain E, Structure Of The Drosophila Apoptosome
pdb|3IZ8|F Chain F, Structure Of The Drosophila Apoptosome
pdb|3IZ8|G Chain G, Structure Of The Drosophila Apoptosome
pdb|3IZ8|H Chain H, Structure Of The Drosophila Apoptosome
Length = 1221
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 14/70 (20%)
Query: 241 RADRLRLMFSESKGRKILIILD----DVWKELDLETVGIPANCCKILLTTRLQQVCDRM- 295
+A+ RL+ S+ +L++L+ W +L CKILLTTR +QV D +
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS--------CKILLTTRFKQVTDFLS 282
Query: 296 -GCDTRIKLD 304
T I LD
Sbjct: 283 AATTTHISLD 292
>pdb|1P9Q|C Chain C, Structure Of A Hypothetical Protein Af0491 From
Archaeoglobus Fulgidus
Length = 256
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 35/79 (44%), Gaps = 9/79 (11%)
Query: 16 VDATVKQARYLF------CFNSIVKELEDKETNLKEAQDGIHERVEQERQIHRAIDIEKD 69
V T +Q R + N I + D TN I ER +E ++H IDI K
Sbjct: 107 VQITAEQRREMLEAKRKQIINFISRNTIDPRTNAPHPPSRI-ERALEEAKVH--IDIFKS 163
Query: 70 VEKWLADVVKEMADVQTLK 88
VE + D+VK + + LK
Sbjct: 164 VEAQVKDIVKALKPILPLK 182
>pdb|1RZ3|A Chain A, Structure Of A Possible Uridine Kinase From Bacillus
Stearothermophilus
Length = 201
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 168 ALKKGSTKMVGLHGLGGVGKTTLAKFVGNQLRQEKI 203
A+K ++G+ GL GKTTLA + LR++ I
Sbjct: 16 AIKTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGI 51
>pdb|1T95|A Chain A, Crystal Structure Of The Shwachman-Bodian-Diamond Syndrome
Protein Orthologue From Archaeoglobus Fulgidus
Length = 240
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 3/67 (4%)
Query: 22 QARYLFCFNSIVKELEDKETNLKEAQDGIHERVEQERQIHRAIDIEKDVEKWLADVVKEM 81
+A+ N I + D TN I ER +E ++H IDI K VE + D+VK +
Sbjct: 103 EAKRKQIINFISRNTIDPRTNAPHPPSRI-ERALEEAKVH--IDIFKSVEAQVKDIVKAL 159
Query: 82 ADVQTLK 88
+ LK
Sbjct: 160 KPILPLK 166
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
0.318 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,374,139
Number of Sequences: 62578
Number of extensions: 591026
Number of successful extensions: 1865
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1850
Number of HSP's gapped (non-prelim): 22
length of query: 513
length of database: 14,973,337
effective HSP length: 103
effective length of query: 410
effective length of database: 8,527,803
effective search space: 3496399230
effective search space used: 3496399230
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)