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= 002154
(959 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 = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 85/353 (24%), Positives = 158/353 (44%), Gaps = 62/353 (17%)
Query: 174 KNELVNRLLCESSKEQKGPRIISLVGMGGIGKTTLAQFAYNNDSVKRN-FQKRI-WVCVS 231
+ +LVN + + SK + P +++ GM G GK+ LA A + S+ F + WV V
Sbjct: 129 RKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG 188
Query: 232 EPFDEFRIARAIIEALKPGSAKELVEFQSLMQHIQEYVVEGE------------KFLLVL 279
+ + ++ L+ L + +S Q + + E + + LL+L
Sbjct: 189 K-----QDKSGLLMKLQ-NLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLIL 242
Query: 280 DDVWNEDYGKWEPFYNCLKSSPHGSKLLITTRKETVA-LIMGSTQVISVNELSEMECWSV 338
DDVW+ W LK+ ++L+TTR ++V +MG V+ V S +
Sbjct: 243 DDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE--SSLGKEKG 291
Query: 339 FESLAFFGKSMQERENLEKIGWEIVRKCKGLPLAAKTIASLL----------LSKNTEKE 388
E L+ F ++ +L + I+++CKG PL I +LL L + K+
Sbjct: 292 LEILSLFVN--MKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQ 349
Query: 389 WQNILESEIWELEAIEKGLLAPLLLSYKELPSKVKRCFSYCAVFLKDYEIRKHKLIELWM 448
++ I +S ++ EA+++ + +S + L +K ++ ++ KD ++ L LW
Sbjct: 350 FKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW- 404
Query: 449 AQGYLSEKGAKEMEDIGEEYFNILARRSFFQDFDKGYDGEISTYKMHDIVHDF 501
+ +E+EDI +E+ N + F D +G+ Y +HD+ DF
Sbjct: 405 ------DMETEEVEDILQEFVN---KSLLFCD----RNGKSFRYYLHDLQVDF 444
>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 = 58.9 bits (141), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 85/353 (24%), Positives = 159/353 (45%), Gaps = 62/353 (17%)
Query: 174 KNELVNRLLCESSKEQKGPRIISLVGMGGIGKTTLAQFAYNNDSVKRN-FQKRI-WVCVS 231
+ +LVN + + SK + P +++ GM G GK+ LA A + S+ F + WV V
Sbjct: 135 RKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG 194
Query: 232 EPFDEFRIARAIIEALKPGSAKELVEFQSLMQHIQEYVVEGE------------KFLLVL 279
+ + ++ L+ + L + +S Q + + E + + LL+L
Sbjct: 195 K-----QDKSGLLMKLQNLCTR-LDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLIL 248
Query: 280 DDVWNEDYGKWEPFYNCLKSSPHGSKLLITTRKETVA-LIMGSTQVISVNELSEMECWSV 338
DDVW+ W LK+ ++L+TTR ++V +MG V+ V S +
Sbjct: 249 DDVWD----SW-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE--SSLGKEKG 297
Query: 339 FESLAFFGKSMQERENLEKIGWEIVRKCKGLPLAAKTIASLL----------LSKNTEKE 388
E L+ F ++ +L + I+++CKG PL I +LL L + K+
Sbjct: 298 LEILSLFVN--MKKADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQ 355
Query: 389 WQNILESEIWELEAIEKGLLAPLLLSYKELPSKVKRCFSYCAVFLKDYEIRKHKLIELWM 448
++ I +S ++ EA+++ + +S + L +K ++ ++ KD ++ L LW
Sbjct: 356 FKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW- 410
Query: 449 AQGYLSEKGAKEMEDIGEEYFNILARRSFFQDFDKGYDGEISTYKMHDIVHDF 501
+ +E+EDI +E+ N + F D +G+ Y +HD+ DF
Sbjct: 411 ------DMETEEVEDILQEFVN---KSLLFCD----RNGKSFRYYLHDLQVDF 450
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 57.0 bits (136), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 80/331 (24%), Positives = 150/331 (45%), Gaps = 54/331 (16%)
Query: 192 PRIISLVGMGGIGKTTLAQFAYNNDSVKRN-FQKRI-WVCVSEPFDEFRIARAIIEALKP 249
P +++ GM G GK+ LA A + S+ F + WV + + + + ++ L
Sbjct: 147 PGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK--LQNLCM 204
Query: 250 GSAKELVEFQSLMQHIQE--------YVVEGEKFLLVLDDVWNEDYGKWEPFYNCLKSSP 301
+E Q L +I+E + + + LL+LDDVW +P+ LK+
Sbjct: 205 RLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW-------DPWV--LKAFD 255
Query: 302 HGSKLLITTRKETVA-LIMGSTQVISVNELSEMECWSVFESLAFFGKSMQERENLEKIGW 360
+ ++L+TTR ++V +MG V+ V E E L+ F ++E+L
Sbjct: 256 NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE--KGLEILSLFVN--MKKEDLPAEAH 311
Query: 361 EIVRKCKGLPLAAKTIASLL----------LSKNTEKEWQNILESEIWELEAIEKGLLAP 410
I+++CKG PL I +LL L + K+++ I +S ++ EA+++
Sbjct: 312 SIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEA---- 367
Query: 411 LLLSYKELPSKVKRCFSYCAVFLKDYEIRKHKLIELWMAQGYLSEKGAKEMEDIGEEYFN 470
+ +S + L +K ++ ++ KD ++ L LW + +E+EDI +E+ N
Sbjct: 368 MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE-------TEEVEDILQEFVN 420
Query: 471 ILARRSFFQDFDKGYDGEISTYKMHDIVHDF 501
+ F + +G+ Y +HD+ DF
Sbjct: 421 ---KSLLFCN----RNGKSFCYYLHDLQVDF 444
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 54.3 bits (129), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 79/331 (23%), Positives = 149/331 (45%), Gaps = 54/331 (16%)
Query: 192 PRIISLVGMGGIGKTTLAQFAYNNDSVKRN-FQKRI-WVCVSEPFDEFRIARAIIEALKP 249
P +++ GM G GK+ LA A + S+ F + WV + + + + ++ L
Sbjct: 154 PGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMK--LQNLCM 211
Query: 250 GSAKELVEFQSLMQHIQE--------YVVEGEKFLLVLDDVWNEDYGKWEPFYNCLKSSP 301
+E Q L +I+E + + + LL+LDDVW +P+ LK+
Sbjct: 212 RLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW-------DPWV--LKAFD 262
Query: 302 HGSKLLITTRKETVA-LIMGSTQVISVNELSEMECWSVFESLAFFGKSMQERENLEKIGW 360
+ ++L+TT ++V +MG V+ V E E L+ F ++E+L
Sbjct: 263 NQCQILLTTSDKSVTDSVMGPKHVVPVESGLGRE--KGLEILSLFVN--MKKEDLPAEAH 318
Query: 361 EIVRKCKGLPLAAKTIASLL----------LSKNTEKEWQNILESEIWELEAIEKGLLAP 410
I+++CKG PL I +LL L + K+++ I +S ++ EA+++
Sbjct: 319 SIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEA---- 374
Query: 411 LLLSYKELPSKVKRCFSYCAVFLKDYEIRKHKLIELWMAQGYLSEKGAKEMEDIGEEYFN 470
+ +S + L +K ++ ++ KD ++ L LW + +E+EDI +E+ N
Sbjct: 375 MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE-------TEEVEDILQEFVN 427
Query: 471 ILARRSFFQDFDKGYDGEISTYKMHDIVHDF 501
+ F + +G+ Y +HD+ DF
Sbjct: 428 ---KSLLFCN----RNGKSFCYYLHDLQVDF 451
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 42/125 (33%), Positives = 73/125 (58%), Gaps = 19/125 (15%)
Query: 575 EVLPQ-LFDKLTCLRALKLEVRQPWWCQNFIKDIPENI-EKLLHLKYLSLAHQEAIERLP 632
+ LP +FDKLT L+ L L +N ++ +P+ + +KL +L YL+LAH + ++ LP
Sbjct: 98 QSLPNGVFDKLTNLKELVL-------VENQLQSLPDGVFDKLTNLTYLNLAHNQ-LQSLP 149
Query: 633 EALCE-LYNLERLNVSGCSHLRELPRGI-GKLRKL--MYLYNAGTDSLRYLPAGI-DELI 687
+ + + L NL L++S + L+ LP G+ KL +L + LY + L+ +P G+ D L
Sbjct: 150 KGVFDKLTNLTELDLS-YNQLQSLPEGVFDKLTQLKDLRLYQ---NQLKSVPDGVFDRLT 205
Query: 688 RLRSV 692
L+ +
Sbjct: 206 SLQYI 210
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 44.7 bits (104), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 56/213 (26%), Positives = 97/213 (45%), Gaps = 24/213 (11%)
Query: 486 DGEISTYKMHDIVHDFAQYLCRNECFALEIHSGSGEESAMSSFGETKILHLMLTLYKGAS 545
+ E T+++ D+ Q +C L + + GE + + + G +
Sbjct: 32 NAENPTFRLTIQPKDYVQIMCN-----LTDTTDYQQLPKKLRIGEVDRVQMRRCMLPGHT 86
Query: 546 VPIPIWDNVKGLRGLRSLLVESDEYSWFSEVLPQLFDKLTCLRALKLEVRQPWWCQNFIK 605
I D + G+ +L+ ESD + Q D+L L+ + R+ +
Sbjct: 87 PIASILDYL-GIVSPTTLIFESDNLGM--NITRQHLDRLHGLKRFRFTTRR-------LT 136
Query: 606 DIPENI-EKLLHLKYLSLAHQEAIERLPEALCE-LYNLERLNVSGCSHLRELPRGI-GKL 662
IP N+ + +L +L L + IE +P L + L NLE + G + LR++PRGI GK+
Sbjct: 137 HIPANLLTDMRNLSHLEL--RANIEEMPSHLFDDLENLESIEF-GSNKLRQMPRGIFGKM 193
Query: 663 RKLMYLYNAGTDSLRYLPAGIDELIRLRSVRKF 695
KL L N ++ L+ +P GI + RL S++K
Sbjct: 194 PKLKQL-NLASNQLKSVPDGIFD--RLTSLQKI 223
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 36.6 bits (83), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 6/100 (6%)
Query: 569 EYSWFSEVLPQLFDKLTCLRALKLEVRQPWWCQNFIKDIPENIEKLLHLKYLSLAHQEAI 628
+++ S +P L+ LR LKL W +IP+ + + L+ L L +
Sbjct: 426 SFNYLSGTIPSSLGSLSKLRDLKL------WLNMLEGEIPQELMYVKTLETLILDFNDLT 479
Query: 629 ERLPEALCELYNLERLNVSGCSHLRELPRGIGKLRKLMYL 668
+P L NL +++S E+P+ IG+L L L
Sbjct: 480 GEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAIL 519
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 36.6 bits (83), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 44/100 (44%), Gaps = 6/100 (6%)
Query: 569 EYSWFSEVLPQLFDKLTCLRALKLEVRQPWWCQNFIKDIPENIEKLLHLKYLSLAHQEAI 628
+++ S +P L+ LR LKL W +IP+ + + L+ L L +
Sbjct: 423 SFNYLSGTIPSSLGSLSKLRDLKL------WLNMLEGEIPQELMYVKTLETLILDFNDLT 476
Query: 629 ERLPEALCELYNLERLNVSGCSHLRELPRGIGKLRKLMYL 668
+P L NL +++S E+P+ IG+L L L
Sbjct: 477 GEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAIL 516
>pdb|1C7I|A Chain A, Thermophylic Pnb Esterase
Length = 489
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 4/74 (5%)
Query: 363 VRKCKGLPLAAKTIASLLLSKNTEKE-WQNILESEIWELEAIEKGLLAPLLLSYKELPSK 421
V K KG+P A + E W+++L++ ++ + L L LSYKELP +
Sbjct: 21 VHKWKGIPYAKPPVGQWRFKAPEPPEVWEDVLDATVYGPVCPQPSDL--LSLSYKELPRQ 78
Query: 422 VKRCFSYCAVFLKD 435
+ C Y VF D
Sbjct: 79 SEDCL-YVNVFAPD 91
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 33.9 bits (76), Expect = 0.42, Method: Composition-based stats.
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 576 VLPQ-LFDKLTCLRALKLEVRQPWWCQNFIKDIPENIEKLLHLKYLSLAHQEAIERLPEA 634
VLP +FD+L L+ L + C N + ++P IE+L HL +L+L Q ++ +P
Sbjct: 102 VLPSAVFDRLVHLKEL-------FMCCNKLTELPRGIERLTHLTHLAL-DQNQLKSIPHG 153
Query: 635 LCELYNLERLNVSGCSHLRELPRGIGKLRKLMYLYNAGTD 674
+RL+ ++L P + R +MYL N D
Sbjct: 154 A-----FDRLSSLTHAYLFGNPWDC-ECRDIMYLRNWVAD 187
Score = 30.0 bits (66), Expect = 6.2, Method: Composition-based stats.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 607 IPENIEKLLHLKYLSLAHQEAIERL-PEALCELYNLERLNVSGCSHLRELPRGIGKLRKL 665
+P I + YL H I +L P L NL+ L + G + L LP G+
Sbjct: 34 VPAGIPTNAQILYL---HDNQITKLEPGVFDSLINLKELYL-GSNQLGALPVGVFDSLTQ 89
Query: 666 MYLYNAGTDSLRYLPAGI-DELIRLRSV 692
+ + + GT+ L LP+ + D L+ L+ +
Sbjct: 90 LTVLDLGTNQLTVLPSAVFDRLVHLKEL 117
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 33.9 bits (76), Expect = 0.42, Method: Composition-based stats.
Identities = 28/77 (36%), Positives = 45/77 (58%), Gaps = 6/77 (7%)
Query: 619 YLSLAHQEAIERLPEALC-ELYNLERLNVSGCSHLRELPRGI-GKLRKLMYLYNAGTDSL 676
YL L +++ LP + EL +L +L + G + L+ LP G+ KL L YL N T+ L
Sbjct: 32 YLDL-ETNSLKSLPNGVFDELTSLTQLYLGG-NKLQSLPNGVFNKLTSLTYL-NLSTNQL 88
Query: 677 RYLPAGI-DELIRLRSV 692
+ LP G+ D+L +L+ +
Sbjct: 89 QSLPNGVFDKLTQLKEL 105
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 71/172 (41%), Gaps = 16/172 (9%)
Query: 524 AMSSFGETKILHLMLTLYKGASVPIPIWDNVKGLRGLRSLLVESDEYSWFSEVLPQLFDK 583
+ S FG T + +L L+ + G I + N GL L L + SE F
Sbjct: 366 SQSDFGTTSLKYLDLS-FNGV---ITMSSNFLGLEQLEHLDFQHSNLKQMSE-----FSV 416
Query: 584 LTCLRAL-KLEVRQPWWCQNFIKDIPENIEKLLHLKYLSLAHQEAIERLPEALCELYNLE 642
LR L L++ F I + L LK + QE LP+ EL NL
Sbjct: 417 FLSLRNLIYLDISHTHTRVAF-NGIFNGLSSLEVLKMAGNSFQENF--LPDIFTELRNLT 473
Query: 643 RLNVSGCSHLRELPRGIGKLRKLMYLYNAGTDSLRYLPAGIDELIRLRSVRK 694
L++S C + P L L L N ++ L+ +P GI + RL S++K
Sbjct: 474 FLDLSQCQLEQLSPTAFNSLSSLQVL-NMASNQLKSVPDGIFD--RLTSLQK 522
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 4 AIISPLLEQLISVAVEEPKEQVRLVNGVGKEVEKLTSNLQAIQAVL---HDAEKRQVKEE 60
A IS L+ +L + EE +L GV K +E L L++ A L + + Q+ +
Sbjct: 1 AAISNLIPKLGELLTEE----FKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQ 56
Query: 61 TVRLWLDQLRGTSYDMEDVLGEW 83
+LW D++R SY +EDV+ ++
Sbjct: 57 D-KLWADEVRELSYVIEDVVDKF 78
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 44/148 (29%), Positives = 65/148 (43%), Gaps = 23/148 (15%)
Query: 560 LRSLLVESDEYSWFSEVLPQLF------DKLTCLRALKLEVRQPWWCQNFIKDIPENIEK 613
LR+L V ++ + + P L + LT L AL + + W N + +P
Sbjct: 83 LRTLEVSGNQLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPG 142
Query: 614 LLHLKYLSLAHQEAIERLPEALCEL--YN------------LERLNVSGCSHLRELPRGI 659
L L +S ++ LP LC+L YN L+ L+VS + L LP
Sbjct: 143 LQELS-VSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSD-NQLASLPTLP 200
Query: 660 GKLRKLMYLYNAGTDSLRYLPAGIDELI 687
+L KL + YN SL LP+G+ ELI
Sbjct: 201 SELYKL-WAYNNRLTSLPALPSGLKELI 227
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 50/107 (46%), Gaps = 16/107 (14%)
Query: 152 ADQRVPSISSIDESEIFGRQKEKNELVNRLLCESSKEQKGPRIISLVGMGGIGKTTLAQF 211
A + PSI IDE + + +NE E+++ K ++ + G+G L
Sbjct: 101 ARENKPSIIFIDEIDSLCGSRSENE------SEAARRIKTEFLVQMQGVGVDNDGILVLG 154
Query: 212 AYN-----NDSVKRNFQKRIWVCVSEPFDEFRIARAIIEALKPGSAK 253
A N + +++R F+KRI++ + EP ARA + L G+ +
Sbjct: 155 ATNIPWVLDSAIRRRFEKRIYIPLPEPH-----ARAAMFKLHLGTTQ 196
>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q72|B Chain B, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q7P|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q7P|B Chain B, Crystal Structure Of Rad G-Domain-Gtp Analog Complex
pdb|3Q7Q|A Chain A, Crystal Structure Of Rad G-Domain Q148a-Gtp Analog Complex
pdb|3Q7Q|B Chain B, Crystal Structure Of Rad G-Domain Q148a-Gtp Analog Complex
Length = 166
Score = 31.2 bits (69), Expect = 2.9, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 269 VVEGEKFLLVLDDVWNEDYGKWEP 292
VV+GE+ L++ D+W +D G+W P
Sbjct: 43 VVDGEEASLMVYDIWEQDGGRWLP 66
>pdb|3U44|B Chain B, Crystal Structure Of Addab-Dna Complex
pdb|3U4Q|B Chain B, Structure Of Addab-Dna Complex At 2.8 Angstroms
Length = 1166
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 52/128 (40%), Gaps = 10/128 (7%)
Query: 819 WRNCEHLPPLGKLPSLEDLWIQGM--KSVKRVGNEFLGVESDTDGSSVIAFPK--LRRLR 874
WR +H + + P L +Q + K ++ EF + +D S A + L +
Sbjct: 73 WRVLQHTGGMSR-PFLTSTGVQMLLRKLIEEHKQEFKVYQKASDKSGFTAQVERMLTEFK 131
Query: 875 FVCME-----ELEEWDCGTAIKGEIIIMARLSSLSIVYCPKLKALPDHLLQKSTLQGFGI 929
C+E + E + +GE ++ +L LSI+Y K+L D L
Sbjct: 132 RYCLEPEDIRRMAESGTASEYRGERVLSEKLHDLSILYQQMEKSLADQYLHSEDYLTLLA 191
Query: 930 YHCPILEE 937
H P+ E+
Sbjct: 192 EHIPLAED 199
>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase
pdb|2DPX|B Chain B, Crystal Structure Of Human Rad Gtpase
Length = 174
Score = 31.2 bits (69), Expect = 3.0, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 269 VVEGEKFLLVLDDVWNEDYGKWEP 292
VV+GE+ L++ D+W +D G+W P
Sbjct: 48 VVDGEEASLMVYDIWEQDGGRWLP 71
>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp
pdb|2GJS|B Chain B, The Crystal Structure Of Human Rrad In Complex With Gdp
Length = 176
Score = 31.2 bits (69), Expect = 3.1, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 269 VVEGEKFLLVLDDVWNEDYGKWEP 292
VV+GE+ L++ D+W +D G+W P
Sbjct: 48 VVDGEEASLMVYDIWEQDGGRWLP 71
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 779 LGPPPNLKKLVIDEYRGRRNVVPINWIMSLTNLRDLSLNWWRNCEHLPPLGKL 831
+ P NL KL + Y G + I+ + +LTNLR+L LN N + PL L
Sbjct: 81 ISPLSNLVKLT-NLYIGTNKITDISALQNLTNLRELYLN-EDNISDISPLANL 131
>pdb|2WPV|A Chain A, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|C Chain C, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|E Chain E, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|G Chain G, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
Length = 312
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 453 LSEKGAKEMEDIGEEYFNILA--RRSFFQDFDKGYDG 487
S+ E+E +G+EYFNI+A + +F QD G+ G
Sbjct: 273 FSQAYKSELEFLGQEYFNIVAPKQTNFLQDMMSGFLG 309
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 29.6 bits (65), Expect = 8.9, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 163 DESEIFGRQKEK-NELVNRLLCESSKEQKGPRIISLVGMGGIGKTT 207
D ++G KE+ E++ ++ + E K P +I +VG+ G+GKTT
Sbjct: 63 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT 108
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 302
Score = 29.6 bits (65), Expect = 9.3, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 163 DESEIFGRQKEK-NELVNRLLCESSKEQKGPRIISLVGMGGIGKTT 207
D ++G KE+ E++ ++ + E K P +I +VG+ G+GKTT
Sbjct: 68 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT 113
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 29.6 bits (65), Expect = 9.4, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 163 DESEIFGRQKEK-NELVNRLLCESSKEQKGPRIISLVGMGGIGKTT 207
D ++G KE+ E++ ++ + E K P +I +VG+ G+GKTT
Sbjct: 69 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT 114
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 29.3 bits (64), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 32/125 (25%), Positives = 56/125 (44%), Gaps = 19/125 (15%)
Query: 152 ADQRVPSISSIDESEIFGRQKEKNELVNRLLCESSKEQKGPRIISLVGMGGIGKTTLAQF 211
A + PSI IDE + + +NE E+++ K ++ + G+G L
Sbjct: 223 ARENKPSIIFIDEIDSLCGSRSENE------SEAARRIKTEFLVQMQGVGVDNDGILVLG 276
Query: 212 AYN-----NDSVKRNFQKRIWVCVSEPFDEFRIARAIIEALKPGSAKELV---EFQSLMQ 263
A N + +++R F+KRI++ + E ARA + L GS + + +FQ L +
Sbjct: 277 ATNIPWVLDSAIRRRFEKRIYIPLPEAH-----ARAAMFRLHLGSTQNSLTEADFQELGR 331
Query: 264 HIQEY 268
Y
Sbjct: 332 KTDGY 336
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
0.319 0.137 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 28,677,106
Number of Sequences: 62578
Number of extensions: 1228107
Number of successful extensions: 3266
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 3227
Number of HSP's gapped (non-prelim): 60
length of query: 959
length of database: 14,973,337
effective HSP length: 108
effective length of query: 851
effective length of database: 8,214,913
effective search space: 6990890963
effective search space used: 6990890963
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: 56 (26.2 bits)