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= 038751
(915 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 = 46.6 bits (109), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 55/204 (26%), Positives = 84/204 (41%), Gaps = 40/204 (19%)
Query: 201 ISLVGMGGIGKTTLAQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGLEGSLPNL 260
+++ GM G GK+ LA A D ++E C S I K GL L NL
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 261 ----RELNSLLEYIHTSIKEKK-------------FFLILDDVWPDDYSKWEPFHNCLMN 303
+ S + + +I+E K LILDDVW +P+ +
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW-------DPWVLKAFD 255
Query: 304 GLCGSRILVTTRKETVA-RMMESTDVISIKE-LSEQECWSLFKRFAFSGRSPTECEQLEE 361
C +IL+TTR ++V +M V+ ++ L ++ + F + E L
Sbjct: 256 NQC--QILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 308
Query: 362 IGRKIVGKCKGLPLAAKTIGSLLR 385
I+ +CKG PL IG+LLR
Sbjct: 309 EAHSIIKECKGSPLVVSLIGALLR 332
>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 = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 69/280 (24%), Positives = 113/280 (40%), Gaps = 54/280 (19%)
Query: 201 ISLVGMGGIGKTTLAQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGLEGSLPNL 260
+++ GM G GK+ LA A D ++E C + K GL L NL
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEG-------CFPGGVHWVSVGKQDKSGLLMKLQNL 202
Query: 261 ----RELNSLLEYIHTSIKEKK-------------FFLILDDVWPDDYSKWEPFHNCLMN 303
+ S + + +I+E K LILDDVW D + F +
Sbjct: 203 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW--DSWVLKAF-----D 255
Query: 304 GLCGSRILVTTRKETVA-RMMESTDVISIKE-LSEQECWSLFKRFAFSGRSPTECEQLEE 361
C +IL+TTR ++V +M V+ ++ L +++ + F ++ L E
Sbjct: 256 SQC--QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA-----DLPE 308
Query: 362 IGRKIVGKCKGLPLAAKTIGSLLRFKKTREEWHIILNSEMWQLEEFER----------GL 411
I+ +CKG PL IG+LLR R E+++ + Q ++F+R L
Sbjct: 309 QAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYL----KQLQNKQFKRIRKSSSYDYEAL 364
Query: 412 LAPLLLSYNDLPSAIKRCFLYCAVFPKDYNLDKDELVKLW 451
+ +S L IK + ++ KD + L LW
Sbjct: 365 DEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 404
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 45.1 bits (105), Expect = 2e-04, Method: Composition-based stats.
Identities = 33/87 (37%), Positives = 48/87 (55%), Gaps = 9/87 (10%)
Query: 552 IFDAKTLHSLILVYSSNNQVAASPVLQGLFDQLTCLRALKIEDLPPTIKIPKGLENLIHL 611
+FD +L +L +Y +NQ+ A PV G+FD LT L L + T+ + L+HL
Sbjct: 59 VFD--SLINLKELYLGSNQLGALPV--GVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHL 114
Query: 612 RYL-----KLSMVPNGIERLTSLRTLS 633
+ L KL+ +P GIERLT L L+
Sbjct: 115 KELFMCCNKLTELPRGIERLTHLTHLA 141
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 54/204 (26%), Positives = 83/204 (40%), Gaps = 40/204 (19%)
Query: 201 ISLVGMGGIGKTTLAQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGLEGSLPNL 260
+++ GM G GK+ LA A D ++E C S I K GL L NL
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 261 ----RELNSLLEYIHTSIKEKK-------------FFLILDDVWPDDYSKWEPFHNCLMN 303
+ S + + +I+E K LILDDVW +P+ +
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW-------DPWVLKAFD 262
Query: 304 GLCGSRILVTTRKETVA-RMMESTDVISIKE-LSEQECWSLFKRFAFSGRSPTECEQLEE 361
C +IL+TT ++V +M V+ ++ L ++ + F + E L
Sbjct: 263 NQC--QILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 315
Query: 362 IGRKIVGKCKGLPLAAKTIGSLLR 385
I+ +CKG PL IG+LLR
Sbjct: 316 EAHSIIKECKGSPLVVSLIGALLR 339
>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 = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 68/280 (24%), Positives = 111/280 (39%), Gaps = 54/280 (19%)
Query: 201 ISLVGMGGIGKTTLAQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGLEGSLPNL 260
+++ GM G GK+ LA A D ++E C + K GL L NL
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEG-------CFPGGVHWVSVGKQDKSGLLMKLQNL 208
Query: 261 ----RELNSLLEYIHTSIKEKK-------------FFLILDDVWPDDYSKWEPFHNCLMN 303
+ S + + +I+E K LILDDVW K +
Sbjct: 209 CTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLK-------AFD 261
Query: 304 GLCGSRILVTTRKETVA-RMMESTDVISIKE-LSEQECWSLFKRFAFSGRSPTECEQLEE 361
C +IL+TTR ++V +M V+ ++ L +++ + F ++ L E
Sbjct: 262 SQC--QILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA-----DLPE 314
Query: 362 IGRKIVGKCKGLPLAAKTIGSLLRFKKTREEWHIILNSEMWQLEEFER----------GL 411
I+ +CKG PL IG+LLR R E+++ + Q ++F+R L
Sbjct: 315 QAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYL----KQLQNKQFKRIRKSSSYDYEAL 370
Query: 412 LAPLLLSYNDLPSAIKRCFLYCAVFPKDYNLDKDELVKLW 451
+ +S L IK + ++ KD + L LW
Sbjct: 371 DEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 410
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 34.3 bits (77), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 46/85 (54%), Gaps = 8/85 (9%)
Query: 4 AIVSPLLEQLISISYEEAKQQVRLVAGVGKQVKKLTSNLRAIQAVL---NDAEQRQVKEE 60
A +S L+ +L + EE K L GV K ++ L L + A L + + Q+ +
Sbjct: 1 AAISNLIPKLGELLTEEFK----LHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQ 56
Query: 61 SVRLWLDQLKETSYDIDDVLDEWIT 85
+LW D+++E SY I+DV+D+++
Sbjct: 57 D-KLWADEVRELSYVIEDVVDKFLV 80
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.7 bits (73), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 31/96 (32%), Positives = 49/96 (51%), Gaps = 11/96 (11%)
Query: 534 KLRHLMLVLGFWAKFPFSIFDAKTLHSLILVYSSNNQVAASPVLQGLFDQLTCLRALKIE 593
KL +L L P +FD T + +Y NNQ+ P +G FD+LT L+ LK++
Sbjct: 134 KLTYLSLGYNELQSLPKGVFDKLTSLKELRLY--NNQLKRVP--EGAFDKLTELKTLKLD 189
Query: 594 DLPPTIKIPKG-LENLIHLRYLKLSMVP-----NGI 623
+ ++P+G ++L L+ L+L P NGI
Sbjct: 190 N-NQLKRVPEGAFDSLEKLKMLQLQENPWDCTCNGI 224
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 34/68 (50%), Gaps = 11/68 (16%)
Query: 195 RNAVQIISLVGMGGIGKTTL-AQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGL 253
RN +I L+G GG+GKTT+ A A D+ FD + + SDP + L
Sbjct: 324 RNEHGLIMLMGKGGVGKTTMAAAIAVRLADM--GFD--VHLTTSDPAAHLSMT------L 373
Query: 254 EGSLPNLR 261
GSL NL+
Sbjct: 374 NGSLNNLQ 381
>pdb|3KT0|A Chain A, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet
pdb|3KT3|A Chain A, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trpamp
pdb|3KT3|B Chain B, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trpamp
pdb|3KT3|C Chain C, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trpamp
pdb|3KT3|D Chain D, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trpamp
pdb|3KT6|A Chain A, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trp
pdb|3KT6|B Chain B, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trp
pdb|3KT6|C Chain C, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trp
pdb|3KT6|D Chain D, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With Trp
pdb|3KT8|A Chain A, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With L-Tryptophanamide
pdb|3KT8|B Chain B, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With L-Tryptophanamide
pdb|3KT8|C Chain C, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With L-Tryptophanamide
pdb|3KT8|D Chain D, Crystal Structure Of S. Cerevisiae Tryptophanyl-Trna
Synthet Complex With L-Tryptophanamide
Length = 438
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 37/143 (25%), Positives = 52/143 (36%), Gaps = 25/143 (17%)
Query: 210 GKTTLAQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGLEGSLPNLRELNSLLE- 268
G T A F +ND D I F F +IA A S PN+ L
Sbjct: 206 GSTAKAVFGFNDSDCIGKFH----------FASIQIATA----FPSSFPNVLGLPDKTPC 251
Query: 269 YIHTSIKEKKFFLILDDVWPD-DYSKWEPFHNCLMNGLCGSRILVTTRKETVARMMESTD 327
I +I + +F + DV YSK H+ L GS ++ +T A M T
Sbjct: 252 LIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDT- 310
Query: 328 VISIKELSEQECWSLFKRFAFSG 350
++ ++AFSG
Sbjct: 311 --------PKQIQKKINKYAFSG 325
>pdb|2IP1|A Chain A, Crystal Structure Analysis Of S. Cerevisiae Tryptophanyl
Trna Synthetase
Length = 432
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 37/143 (25%), Positives = 52/143 (36%), Gaps = 25/143 (17%)
Query: 210 GKTTLAQFAYNDKDVIENFDKRIWVCVSDPFDEFRIAKAIIEGLEGSLPNLRELNSLLE- 268
G T A F +ND D I F F +IA A S PN+ L
Sbjct: 206 GSTAKAVFGFNDSDCIGKFH----------FASIQIATA----FPSSFPNVLGLPDKTPC 251
Query: 269 YIHTSIKEKKFFLILDDVWPD-DYSKWEPFHNCLMNGLCGSRILVTTRKETVARMMESTD 327
I +I + +F + DV YSK H+ L GS ++ +T A M T
Sbjct: 252 LIPCAIDQDPYFRVCRDVADKLKYSKPALLHSRFFPALQGSTTKMSASDDTTAIFMTDT- 310
Query: 328 VISIKELSEQECWSLFKRFAFSG 350
++ ++AFSG
Sbjct: 311 --------PKQIQKKINKYAFSG 325
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 30.4 bits (67), Expect = 4.1, Method: Composition-based stats.
Identities = 29/96 (30%), Positives = 44/96 (45%), Gaps = 24/96 (25%)
Query: 535 LRHLMLVLGFWAKFPFSIFDAKTLHSLILVYSSNNQVAASPVLQGLFDQLTCLRALKIED 594
L +L L P +FD L +L + NNQ+ + P +G+FD+LT L+ L + D
Sbjct: 135 LTYLYLYHNQLQSLPKGVFD--KLTNLTRLDLDNNQLQSLP--EGVFDKLTQLKQLSLND 190
Query: 595 LPPTIKIPKGLENLIHLRYLKLSMVPNGI-ERLTSL 629
+L VP+G+ +RLTSL
Sbjct: 191 -------------------NQLKSVPDGVFDRLTSL 207
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 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,173,846
Number of Sequences: 62578
Number of extensions: 1003416
Number of successful extensions: 2657
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 2640
Number of HSP's gapped (non-prelim): 27
length of query: 915
length of database: 14,973,337
effective HSP length: 108
effective length of query: 807
effective length of database: 8,214,913
effective search space: 6629434791
effective search space used: 6629434791
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: 56 (26.2 bits)