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= 047321
(807 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 = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 85/204 (41%), Gaps = 40/204 (19%)
Query: 134 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSNTFEEISVAKAIIEGLGVS---- 189
+++ G+ G GK+ LA A + + C S +S+ K GL +
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 190 AFGLSEFESLMKQIQEYITGKK-------------IFLVLDDVWDGDYKKWDPFFSCLKN 236
L + ES +++ I K L+LDDVWD P+ LK
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 253
Query: 237 GHHESKILITTHDRSVALQ-LGSIDIIPVKE-LGEGECWLLFKQIAFLRRSFEDCEKLEP 294
++ +IL+TT D+SV +G ++PV+ LG + + +++ E L
Sbjct: 254 FDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 308
Query: 295 IGRKIASKCKGLPLAAKVIGNLLR 318
I +CKG PL +IG LLR
Sbjct: 309 EAHSIIKECKGSPLVVSLIGALLR 332
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 85/204 (41%), Gaps = 40/204 (19%)
Query: 134 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSNTFEEISVAKAIIEGLGVS---- 189
+++ G+ G GK+ LA A + + C S +S+ K GL +
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 190 AFGLSEFESLMKQIQEYITGKK-------------IFLVLDDVWDGDYKKWDPFFSCLKN 236
L + ES +++ I K L+LDDVWD P+ LK
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWD-------PWV--LKA 260
Query: 237 GHHESKILITTHDRSVALQ-LGSIDIIPVKE-LGEGECWLLFKQIAFLRRSFEDCEKLEP 294
++ +IL+TT D+SV +G ++PV+ LG + + +++ E L
Sbjct: 261 FDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 315
Query: 295 IGRKIASKCKGLPLAAKVIGNLLR 318
I +CKG PL +IG LLR
Sbjct: 316 EAHSIIKECKGSPLVVSLIGALLR 339
>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 = 43.5 bits (101), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 53/214 (24%), Positives = 87/214 (40%), Gaps = 40/214 (18%)
Query: 134 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSNTFEEISVAKAIIEGLGVS---- 189
+++ G+ G GK+ LA A + + C +SV K GL +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEG-------CFPGGVHWVSVGKQDKSGLLMKLQNL 202
Query: 190 AFGLSEFESLMKQIQEYITGKK-------------IFLVLDDVWDGDYKKWDPFFSCLKN 236
L + ES +++ I K L+LDDVWD W LK
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKA 253
Query: 237 GHHESKILITTHDRSVALQ-LGSIDIIPVKE-LGEGECWLLFKQIAFLRRSFEDCEKLEP 294
+ +IL+TT D+SV +G ++PV+ LG+ + + ++++ L
Sbjct: 254 FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA-----DLPE 308
Query: 295 IGRKIASKCKGLPLAAKVIGNLLRSKNTAKEWHI 328
I +CKG PL +IG LLR E+++
Sbjct: 309 QAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYL 342
>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 = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 52/204 (25%), Positives = 83/204 (40%), Gaps = 40/204 (19%)
Query: 134 ISLVGLGGIGKTTLAQLAYNNDEVKRNFEKVIWVCVSNTFEEISVAKAIIEGLGVS---- 189
+++ G+ G GK+ LA A + + C +SV K GL +
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEG-------CFPGGVHWVSVGKQDKSGLLMKLQNL 208
Query: 190 AFGLSEFESLMKQIQEYITGKK-------------IFLVLDDVWDGDYKKWDPFFSCLKN 236
L + ES +++ I K L+LDDVWD W LK
Sbjct: 209 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS----W-----VLKA 259
Query: 237 GHHESKILITTHDRSVALQ-LGSIDIIPVKE-LGEGECWLLFKQIAFLRRSFEDCEKLEP 294
+ +IL+TT D+SV +G ++PV+ LG+ + + ++++ L
Sbjct: 260 FDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA-----DLPE 314
Query: 295 IGRKIASKCKGLPLAAKVIGNLLR 318
I +CKG PL +IG LLR
Sbjct: 315 QAHSIIKECKGSPLVVSLIGALLR 338
>pdb|3U0A|A Chain A, Crystal Structure Of An Acyl-Coa Thioesterase Ii Tesb2
From Mycobacterium Marinum
pdb|3U0A|B Chain B, Crystal Structure Of An Acyl-Coa Thioesterase Ii Tesb2
From Mycobacterium Marinum
Length = 285
Score = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 41/84 (48%), Gaps = 2/84 (2%)
Query: 686 GMKELEEWNYRITRKENISIMPRLSSLQIMNCRKLKALP-DYLLQTIALQKLSIYSCDLL 744
G ++ EEW+ RI ++ ++ +P +S Q + R LP D +L AL +S +
Sbjct: 145 GFRQFEEWDVRIVPRDLLAPLPGKASQQQVWFRHRDPLPDDPVLHICALAYMSDLTLLGS 204
Query: 745 EELPILEDRRTTDIPRLSSLAIWY 768
++ L +R + L A+W+
Sbjct: 205 AQVTHLAEREHLQVASLDH-AMWF 227
>pdb|1PZN|A Chain A, Rad51 (Rada)
pdb|1PZN|B Chain B, Rad51 (Rada)
pdb|1PZN|C Chain C, Rad51 (Rada)
pdb|1PZN|D Chain D, Rad51 (Rada)
pdb|1PZN|E Chain E, Rad51 (Rada)
pdb|1PZN|F Chain F, Rad51 (Rada)
pdb|1PZN|G Chain G, Rad51 (Rada)
Length = 349
Score = 29.3 bits (64), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 47/119 (39%), Gaps = 14/119 (11%)
Query: 60 VKIREINGKLDDIASQKDTFKFVENVSNNVKKAERVRTTSLIDEGGVCGRVDEKNELLSK 119
++++E+ G S+ K ++ R + + GR+ ++ L K
Sbjct: 68 IELKEVAG-----ISEGTALKIIQAARKAANLGTFXRADEYLKKRATIGRISTGSKSLDK 122
Query: 120 LLCGSSEQQKGLDVISLVGLGGIGKTTLAQ-----LAYNNDEVKRNFEKVIWVCVSNTF 173
LL G E Q + + G G GKT LA + +E N VIW+ NTF
Sbjct: 123 LLGGGIETQA---ITEVFGEFGSGKTQLAHTLAVXVQLPPEEGGLNG-SVIWIDTENTF 177
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,685,232
Number of Sequences: 62578
Number of extensions: 791992
Number of successful extensions: 1939
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1933
Number of HSP's gapped (non-prelim): 13
length of query: 807
length of database: 14,973,337
effective HSP length: 107
effective length of query: 700
effective length of database: 8,277,491
effective search space: 5794243700
effective search space used: 5794243700
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)