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= 043805
(555 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 135 bits (341), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 71/166 (42%), Positives = 106/166 (63%), Gaps = 4/166 (2%)
Query: 16 SKYEVFLSFRGEDTRNGFTSHLAAALHRKQIQFFIDDEELKKGDEISPTILKAIETSDIS 75
+KY+VFLSFRG DTR+ F S L L R+ I+ F DD+EL+ G SP + IE S +
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 76 IIIFSKDYAASKWCLNELVKILDCKKINGQIVIPVFYQVDPSNVRKQSGSFGEAFDEY-E 134
+++ S++YAAS WCL+ELV I+D +K V+P+FY V+P++VR Q+G E F ++
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS 126
Query: 135 KNFPNMVQKWRDALTQASNISGYHESRTFRNEAELVENIVEDISEK 180
+ P V KWR ALT + +SG + ++++LV+ I +IS K
Sbjct: 127 REDPEKVLKWRQALTNFAQLSG---DCSGDDDSKLVDKIANEISNK 169
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 135 bits (339), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 70/163 (42%), Positives = 104/163 (63%), Gaps = 3/163 (1%)
Query: 17 KYEVFLSFRGEDTRNGFTSHLAAALHRKQIQFFIDDEELKKGDEISPTILKAIETSDISI 76
+YEVFLSFRG DTR FT L +L R +I F DD+EL KG EI P +L+AI+ S I +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 77 IIFSKDYAASKWCLNELVKILDCKKING-QIVIPVFYQVDPSNVRKQSGSFGEAFDEYEK 135
I S YA SKWCL EL +I+ ++ + +I++P+FY VDPS+VR Q+G + +AF ++
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 136 NFPNM-VQKWRDALTQASNISGYHESRTFRNEAELVENIVEDI 177
F +Q W+DAL + ++ G+H + + A + + + DI
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGWHIGKNDKQGA-IADKVSADI 196
>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 = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 132/309 (42%), Gaps = 51/309 (16%)
Query: 217 VGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREES----NKMGVIHVRDEVISRVL 272
V I GM G GK+ +A+ S +G CF V S +K G++ + +R+
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSL-LEG-CFPGGVHWVSVGKQDKSGLLMKLQNLCTRL- 206
Query: 273 GENLKIGTPTIPQNIRKRLQRIKVL---------IVLDDVHDGFTQLENLVGGSDKFSPG 323
+ + + +P NI + R+++L ++LDDV D + F
Sbjct: 207 -DQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWV--------LKAFDSQ 257
Query: 324 SRIIITTRDKRVLDKC-GVDNIFEVK-GLQHSKALELFCRKAFRQNNRSHDLLELSQEVV 381
+I++TTRDK V D G + V+ L K LE+ + N + DL E + ++
Sbjct: 258 CQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEIL---SLFVNMKKADLPEQAHSII 314
Query: 382 CYADGNPLALEVLGSSLHQKSKQQWEDKLHNL-----KLISEPSIY------KVLKISYD 430
G+PL + ++G+ L + +WE L L K I + S Y + + IS +
Sbjct: 315 KECKGSPLVVSLIGALL-RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVE 373
Query: 431 ELNSEEKEIFLDIACFFNGEYIDFVTRI-----QDDPMSIRDRLNILIDKSLITISSYGN 485
L + K+ + D++ + T++ + + D L ++KSL+ G
Sbjct: 374 MLREDIKDYYTDLSILQKD--VKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNGK 431
Query: 486 RLR--MHDL 492
R +HDL
Sbjct: 432 SFRYYLHDL 440
>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 = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 75/309 (24%), Positives = 133/309 (43%), Gaps = 51/309 (16%)
Query: 217 VGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREES----NKMGVIHVRDEVISRVL 272
V I GM G GK+ +A+ S +G CF V S +K G++ + +R+
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSL-LEG-CFPGGVHWVSVGKQDKSGLLMKLQNLCTRL- 212
Query: 273 GENLKIGTPTIPQNIRKRLQRIKVL---------IVLDDVHDGFTQLENLVGGSDKFSPG 323
+ + + +P NI + R+++L ++LDDV D + F
Sbjct: 213 -DQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVL--------KAFDSQ 263
Query: 324 SRIIITTRDKRVLDKC-GVDNIFEVK-GLQHSKALELFCRKAFRQNNRSHDLLELSQEVV 381
+I++TTRDK V D G + V+ L K LE+ + N + DL E + ++
Sbjct: 264 CQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEIL---SLFVNMKKADLPEQAHSII 320
Query: 382 CYADGNPLALEVLGSSLHQKSKQQWEDKLHNL-----KLISEPSIY------KVLKISYD 430
G+PL + ++G+ L + +WE L L K I + S Y + + IS +
Sbjct: 321 KECKGSPLVVSLIGALL-RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVE 379
Query: 431 ELNSEEKEIFLDIACFFNGEYIDFVTRI-----QDDPMSIRDRLNILIDKSLITISSYGN 485
L + K+ + D++ + + T++ + + D L ++KSL+ G
Sbjct: 380 MLREDIKDYYTDLSIL--QKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNGK 437
Query: 486 RLR--MHDL 492
R +HDL
Sbjct: 438 SFRYYLHDL 446
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 65/254 (25%), Positives = 112/254 (44%), Gaps = 42/254 (16%)
Query: 217 VGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREES----NKMGVIHVRDEVISRVL 272
V I+GM G GK+ +A+ S +G CF V S +K G++ + R+
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 207
Query: 273 GENLKIGTPTIPQNIRKRLQRIKVL---------IVLDDVHDGFTQLENLVGGSDKFSPG 323
E + + +P NI + R++VL ++LDDV D + F
Sbjct: 208 QE--ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVL--------KAFDNQ 257
Query: 324 SRIIITTRDKRVLDKC-GVDNIFEVK-GLQHSKALELFCRKAFRQNNRSHDLLELSQEVV 381
+I++TTRDK V D G ++ V+ GL K LE+ + N + DL + ++
Sbjct: 258 CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSII 314
Query: 382 CYADGNPLALEVLGSSLHQKSKQQWEDKLHNL-----KLISEPSIY------KVLKISYD 430
G+PL + ++G+ L + +W L L K I + S Y + + IS +
Sbjct: 315 KECKGSPLVVSLIGALL-RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVE 373
Query: 431 ELNSEEKEIFLDIA 444
L + K+ + D++
Sbjct: 374 MLREDIKDYYTDLS 387
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 46.2 bits (108), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 64/254 (25%), Positives = 111/254 (43%), Gaps = 42/254 (16%)
Query: 217 VGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREES----NKMGVIHVRDEVISRVL 272
V I+GM G GK+ +A+ S +G CF V S +K G++ + R+
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 214
Query: 273 GENLKIGTPTIPQNIRKRLQRIKV---------LIVLDDVHDGFTQLENLVGGSDKFSPG 323
E + + +P NI + R++V L++LDDV D + F
Sbjct: 215 QE--ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVL--------KAFDNQ 264
Query: 324 SRIIITTRDKRVLDKC-GVDNIFEVK-GLQHSKALELFCRKAFRQNNRSHDLLELSQEVV 381
+I++TT DK V D G ++ V+ GL K LE+ + N + DL + ++
Sbjct: 265 CQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSII 321
Query: 382 CYADGNPLALEVLGSSLHQKSKQQWEDKLHNL-----KLISEPSIY------KVLKISYD 430
G+PL + ++G+ L + +W L L K I + S Y + + IS +
Sbjct: 322 KECKGSPLVVSLIGALL-RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVE 380
Query: 431 ELNSEEKEIFLDIA 444
L + K+ + D++
Sbjct: 381 MLREDIKDYYTDLS 394
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 46.2 bits (108), Expect = 5e-05, Method: Composition-based stats.
Identities = 31/132 (23%), Positives = 61/132 (46%), Gaps = 3/132 (2%)
Query: 12 LTAQSKYEVFLSFRGEDTRNGFTSHLAAALHRKQIQFFIDDEELKKGDEISPTILKAIET 71
LT+ +++F+S ED + F LA L + + DD L+ GD + +I K + +
Sbjct: 15 LTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGS 73
Query: 72 SDISIIIFSKDYAASKWCLNELVKILDCKKINGQIVIPVFYQVDPSNVRKQSGSFGE--A 129
S I++ S + +W EL + + ++P++++V V S + + A
Sbjct: 74 SRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLA 133
Query: 130 FDEYEKNFPNMV 141
F+ K+ +V
Sbjct: 134 FNTSTKSVDEIV 145
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 47/92 (51%), Gaps = 8/92 (8%)
Query: 154 ISGYHESRTFRNEAELVENIVEDISEKLEDMSNSTDLDSFVGLNSRIEEMKSLMCL---- 209
+ GY + + + ++ +++++S D+ S DL + + I+++ +
Sbjct: 234 LKGYLPAENMKIRPDEIKFMLKEVS----DLDLSKDLKTKMKWTKIIKKLGDFQLVVDNG 289
Query: 210 ESHDVRIVGIWGMGGVGKTTIASVVFHQISRD 241
E+ + I+GI G G+GKTT A ++ +I+ D
Sbjct: 290 EAKEGEIIGILGPNGIGKTTFARILVGEITAD 321
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 33/61 (54%), Gaps = 13/61 (21%)
Query: 216 IVGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREESNKMGVIHVRDEVISRVLGEN 275
I+G+ G GVGKTT+ ++ +I +F + ++K+G +DEV+ R G+
Sbjct: 27 ILGVLGKNGVGKTTVLKILAGEIIPNFG---------DPNSKVG----KDEVLKRFRGKE 73
Query: 276 L 276
+
Sbjct: 74 I 74
>pdb|1KNQ|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KNQ|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO1|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO1|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO5|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO5|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KO8|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO8|B Chain B, Crystal Structure Of Gluconate Kinase
pdb|1KOF|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KOF|B Chain B, Crystal Structure Of Gluconate Kinase
Length = 175
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 207 MCLESHDVRIVGIWGMGGVGKTTIASVVFHQISRDF 242
M +HD I + G+ G GK+ +AS V HQ+ F
Sbjct: 1 MSTTNHDHHIYVLMGVSGSGKSAVASEVAHQLHAAF 36
>pdb|1KO4|A Chain A, Crystal Structure Of Gluconate Kinase
pdb|1KO4|B Chain B, Crystal Structure Of Gluconate Kinase
Length = 175
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 207 MCLESHDVRIVGIWGMGGVGKTTIASVVFHQISRDF 242
M +HD I + G+ G GK+ +AS V HQ+ F
Sbjct: 1 MSTTNHDHHIYVLXGVSGSGKSAVASEVAHQLHAAF 36
>pdb|3R9C|A Chain A, Crystal Structure Of Mycobacterium Smegmatis Cyp164a2 With
Econazole Bound
pdb|3R9B|A Chain A, Crystal Structure Of Mycobacterium Smegmatis Cyp164a2 In
Ligand Free State
pdb|3R9B|B Chain B, Crystal Structure Of Mycobacterium Smegmatis Cyp164a2 In
Ligand Free State
pdb|3R9B|C Chain C, Crystal Structure Of Mycobacterium Smegmatis Cyp164a2 In
Ligand Free State
Length = 418
Score = 30.4 bits (67), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 11/57 (19%)
Query: 266 EVISRVLGENLKIGTPTIPQNIRKRLQRIKVLIVLDDVHDGFTQLENLVGGSDKFSP 322
+++SR G++L IGT T+P+ +L++L H T +VG D+F P
Sbjct: 304 QLVSRYAGDDLTIGTHTVPKG-------DTMLLLLAAAHRDPT----IVGAPDRFDP 349
>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 473
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 217 VGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREESNK 257
+G++G GVGKT + + H I+++ G A V E + +
Sbjct: 154 IGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTRE 194
>pdb|1XP8|A Chain A, "deinococcus Radiodurans Reca In Complex With Atp-Gamma-S"
Length = 366
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 10/84 (11%)
Query: 215 RIVGIWGMGGVGKTTIASVVFHQISRDFQGKCFVADVREESNKMGVIHVRDEVISRVLGE 274
RI I+G GKTT+A + Q ++ G C D H D V +R LG
Sbjct: 75 RITEIYGPESGGKTTLALAIVAQ-AQKAGGTCAFIDAE---------HALDPVYARALGV 124
Query: 275 NLKIGTPTIPQNIRKRLQRIKVLI 298
N + P N + L+ +++L+
Sbjct: 125 NTDELLVSQPDNGEQALEIMELLV 148
>pdb|3TUI|C Chain C, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Native Crystal Form
pdb|3TUI|D Chain D, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Native Crystal Form
pdb|3TUI|G Chain G, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Native Crystal Form
pdb|3TUI|H Chain H, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Native Crystal Form
pdb|3TUZ|C Chain C, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Semet Soak Crystal Form
pdb|3TUZ|D Chain D, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Semet Soak Crystal Form
pdb|3TUZ|G Chain G, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Semet Soak Crystal Form
pdb|3TUZ|H Chain H, Inward Facing Conformations Of The Metni Methionine Abc
Transporter: Cy5 Semet Soak Crystal Form
Length = 366
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 32/154 (20%), Positives = 67/154 (43%), Gaps = 24/154 (15%)
Query: 215 RIVGIWGMGGVGKTTIASVVFHQISRDFQGKCFV----------ADVREESNKMGVIHVR 264
+I G+ G G GK+T+ V + + R +G V +++ + ++G+I
Sbjct: 55 QIYGVIGASGAGKSTLIRCV-NLLERPTEGSVLVDGQELTTLSESELTKARRQIGMIFQH 113
Query: 265 DEVISR--VLGE-NLKIGTPTIPQN-IRKRLQRIKVLIVLDDVHDGFTQLENLVGGSDK- 319
++S V G L + P++ +++R+ + L+ L D HD + NL GG +
Sbjct: 114 FNLLSSRTVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYP--SNLSGGQKQR 171
Query: 320 ------FSPGSRIIITTRDKRVLDKCGVDNIFEV 347
+ ++++ + LD +I E+
Sbjct: 172 VAIARALASNPKVLLCDQATSALDPATTRSILEL 205
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 0.136 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,586,227
Number of Sequences: 62578
Number of extensions: 652860
Number of successful extensions: 2038
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2025
Number of HSP's gapped (non-prelim): 16
length of query: 555
length of database: 14,973,337
effective HSP length: 104
effective length of query: 451
effective length of database: 8,465,225
effective search space: 3817816475
effective search space used: 3817816475
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: 54 (25.4 bits)