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= 036345
(954 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 = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 82/341 (24%), Positives = 139/341 (40%), Gaps = 67/341 (19%)
Query: 202 ISLVGMGGIGKTTLAQFAYNDNDVMNS-FEIRM-WVCVSDPFDEFRVARAIIEALEGSAS 259
+++ GM G GK+ LA A D+ ++ F + WV V + ++ L+ +
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK-----QDKSGLLMKLQNLCT 204
Query: 260 NLGELQSLLQRIQTSIAGKK-------------FLLVLDDMWTDDYSKWEPFNNCLMNGL 306
L + +S QR+ +I K LL+LDD+W D + F++
Sbjct: 205 RLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW--DSWVLKAFDS------ 256
Query: 307 RGSKILVTTRKKTVA-QMMESTDVFSIKE-LSKQECWSLFKRFAFFGRHPSECEQLEEIG 364
+IL+TTR K+V +M V ++ L K++ + F + L E
Sbjct: 257 -QCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKK-----ADLPEQA 310
Query: 365 RKIVSRCKGLPLAAKTIGSLLRFKKTREEW----------QRILDSEMWKLKEFEKGLLA 414
I+ CKG PL IG+LLR R E+ +RI S + + ++ +
Sbjct: 311 HSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSI 370
Query: 415 PLLLSYNDLPTMVKRCFSYCAVFPKDYNIEKDELIKVWMAQGYIGPKENEEMEIIGQEYF 474
+ + D +K ++ ++ KD + L +W E EE+E I QE+
Sbjct: 371 SVEMLRED----IKDYYTDLSILQKDVKVPTKVLCILW-------DMETEEVEDILQEFV 419
Query: 475 DYLATRSFFQEFEKDEEGFVIRCKMHDIVHDFAQFLTKNEC 515
+ + F D G R +HD+ D FLT+ C
Sbjct: 420 N--KSLLFC-----DRNGKSFRYYLHDLQVD---FLTEKNC 450
>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 = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 82/341 (24%), Positives = 139/341 (40%), Gaps = 67/341 (19%)
Query: 202 ISLVGMGGIGKTTLAQFAYNDNDVM-NSFEIRM-WVCVSDPFDEFRVARAIIEALEGSAS 259
+++ GM G GK+ LA A D+ ++ F + WV V + ++ L+ +
Sbjct: 156 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK-----QDKSGLLMKLQNLCT 210
Query: 260 NLGELQSLLQRIQTSIAGKK-------------FLLVLDDMWTDDYSKWEPFNNCLMNGL 306
L + +S QR+ +I K LL+LDD+W D + F++
Sbjct: 211 RLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW--DSWVLKAFDS------ 262
Query: 307 RGSKILVTTRKKTVA-QMMESTDVFSIKE-LSKQECWSLFKRFAFFGRHPSECEQLEEIG 364
+IL+TTR K+V +M V ++ L K++ + F + L E
Sbjct: 263 -QCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKK-----ADLPEQA 316
Query: 365 RKIVSRCKGLPLAAKTIGSLLRFKKTREEW----------QRILDSEMWKLKEFEKGLLA 414
I+ CKG PL IG+LLR R E+ +RI S + + ++ +
Sbjct: 317 HSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSI 376
Query: 415 PLLLSYNDLPTMVKRCFSYCAVFPKDYNIEKDELIKVWMAQGYIGPKENEEMEIIGQEYF 474
+ + D +K ++ ++ KD + L +W E EE+E I QE+
Sbjct: 377 SVEMLRED----IKDYYTDLSILQKDVKVPTKVLCILW-------DMETEEVEDILQEFV 425
Query: 475 DYLATRSFFQEFEKDEEGFVIRCKMHDIVHDFAQFLTKNEC 515
+ +S D G R +HD+ D FLT+ C
Sbjct: 426 N----KSL---LFCDRNGKSFRYYLHDLQVD---FLTEKNC 456
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 68/303 (22%), Positives = 122/303 (40%), Gaps = 61/303 (20%)
Query: 202 ISLVGMGGIGKTTLAQFAYNDNDVMNSFEIRMWVCVSDPFDEFRVAR----AIIEALEGS 257
+++ GM G GK+ LA A D+ ++ C S + + ++ L+
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 202
Query: 258 ASNLGELQSLLQRIQTSIAGKK-------------FLLVLDDMWTDDYSKWEPFNNCLMN 304
L + +S QR+ +I K LL+LDD+W D + F+N
Sbjct: 203 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW--DPWVLKAFDN---- 256
Query: 305 GLRGSKILVTTRKKTVA-QMMESTDVFSIKE-LSKQECWSLFKRFAFFGRHPSECEQLEE 362
+IL+TTR K+V +M V ++ L +++ + F + E L
Sbjct: 257 ---QCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 308
Query: 363 IGRKIVSRCKGLPLAAKTIGSLLRFKKTR----------EEWQRILDSEMWKLKEFEKGL 412
I+ CKG PL IG+LLR R ++++RI S + + ++ +
Sbjct: 309 EAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAM 368
Query: 413 LAPLLLSYNDLPTMVKRCFSYCAVFPKDYNIEKDELIKVWMAQGYIGPKENEEMEIIGQE 472
+ + D +K ++ ++ KD + L +W E EE+E I QE
Sbjct: 369 SISVEMLRED----IKDYYTDLSILQKDVKVPTKVLCVLW-------DLETEEVEDILQE 417
Query: 473 YFD 475
+ +
Sbjct: 418 FVN 420
>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 = 8e-05, Method: Compositional matrix adjust.
Identities = 67/303 (22%), Positives = 121/303 (39%), Gaps = 61/303 (20%)
Query: 202 ISLVGMGGIGKTTLAQFAYNDNDVMNSFEIRMWVCVSDPFDEFRVAR----AIIEALEGS 257
+++ GM G GK+ LA A D+ ++ C S + + ++ L+
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEG-------CFSGGVHWVSIGKQDKSGLLMKLQNL 209
Query: 258 ASNLGELQSLLQRIQTSIAGKK-------------FLLVLDDMWTDDYSKWEPFNNCLMN 304
L + +S QR+ +I K LL+LDD+W D + F+N
Sbjct: 210 CMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW--DPWVLKAFDN---- 263
Query: 305 GLRGSKILVTTRKKTVA-QMMESTDVFSIKE-LSKQECWSLFKRFAFFGRHPSECEQLEE 362
+IL+TT K+V +M V ++ L +++ + F + E L
Sbjct: 264 ---QCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKK-----EDLPA 315
Query: 363 IGRKIVSRCKGLPLAAKTIGSLLRFKKTR----------EEWQRILDSEMWKLKEFEKGL 412
I+ CKG PL IG+LLR R ++++RI S + + ++ +
Sbjct: 316 EAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAM 375
Query: 413 LAPLLLSYNDLPTMVKRCFSYCAVFPKDYNIEKDELIKVWMAQGYIGPKENEEMEIIGQE 472
+ + D +K ++ ++ KD + L +W E EE+E I QE
Sbjct: 376 SISVEMLRED----IKDYYTDLSILQKDVKVPTKVLCVLW-------DLETEEVEDILQE 424
Query: 473 YFD 475
+ +
Sbjct: 425 FVN 427
>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 = 43.1 bits (100), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 46/153 (30%), Positives = 68/153 (44%), Gaps = 11/153 (7%)
Query: 529 LRRTSKEKLYHLMLMINLFST-FPVSIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTF 587
L + K L L L N F+ P ++ +L SL L SF LS +P L+
Sbjct: 388 LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHL----SFNYLSGTIPSSLGSLSK 443
Query: 588 LRTLKITGESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLE-ELPETCCELVNLQTLDIE 646
LR LK+ + EIP+E+ +K L L L DL E+P NL + +
Sbjct: 444 LRDLKLW-----LNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLS 498
Query: 647 ACGSLKRLPQGIGKLVNLRHLMISHNVYLDYMP 679
+P+ IG+L NL L +S+N + +P
Sbjct: 499 NNRLTGEIPKWIGRLENLAILKLSNNSFSGNIP 531
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 607 IPKEIEKLKHLRFLKLSQVDLE-ELPETCCELVNLQTLDIEACGSLKRLPQGIGKLVNLR 665
IPKEI + +L L L D+ +P+ +L L LD+ + R+PQ + L L
Sbjct: 648 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT 707
Query: 666 HLMISHNVYLDYMPK 680
+ +S+N +P+
Sbjct: 708 EIDLSNNNLSGPIPE 722
>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 = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/153 (30%), Positives = 68/153 (44%), Gaps = 11/153 (7%)
Query: 529 LRRTSKEKLYHLMLMINLFST-FPVSIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTF 587
L + K L L L N F+ P ++ +L SL L SF LS +P L+
Sbjct: 385 LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHL----SFNYLSGTIPSSLGSLSK 440
Query: 588 LRTLKITGESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLE-ELPETCCELVNLQTLDIE 646
LR LK+ + EIP+E+ +K L L L DL E+P NL + +
Sbjct: 441 LRDLKLW-----LNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLS 495
Query: 647 ACGSLKRLPQGIGKLVNLRHLMISHNVYLDYMP 679
+P+ IG+L NL L +S+N + +P
Sbjct: 496 NNRLTGEIPKWIGRLENLAILKLSNNSFSGNIP 528
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 1/75 (1%)
Query: 607 IPKEIEKLKHLRFLKLSQVDLE-ELPETCCELVNLQTLDIEACGSLKRLPQGIGKLVNLR 665
IPKEI + +L L L D+ +P+ +L L LD+ + R+PQ + L L
Sbjct: 645 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT 704
Query: 666 HLMISHNVYLDYMPK 680
+ +S+N +P+
Sbjct: 705 EIDLSNNNLSGPIPE 719
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 41.2 bits (95), Expect = 0.002, Method: Composition-based stats.
Identities = 34/105 (32%), Positives = 48/105 (45%), Gaps = 10/105 (9%)
Query: 579 PGLFDQLTFLRTLKITGESAGVEKSIREIPKEI-EKLKHLRFLKLSQVDLEELPETCCE- 636
PG+FD L L+ L + G +P + + L L L L L LP +
Sbjct: 57 PGVFDSLINLKELYLGSNQLGA------LPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDR 110
Query: 637 LVNLQTLDIEACGSLKRLPQGIGKLVNLRHLMISHNVYLDYMPKG 681
LV+L+ L C L LP+GI +L +L HL + N L +P G
Sbjct: 111 LVHLKEL-FMCCNKLTELPRGIERLTHLTHLALDQN-QLKSIPHG 153
Score = 33.1 bits (74), Expect = 0.83, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 7/56 (12%)
Query: 577 VLP-GLFDQLTFLRTLKITGESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLEELP 631
VLP +FD+L L+ L + + E+P+ IE+L HL L L Q L+ +P
Sbjct: 102 VLPSAVFDRLVHLKELFMCC------NKLTELPRGIERLTHLTHLALDQNQLKSIP 151
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 60/109 (55%), Gaps = 13/109 (11%)
Query: 580 GLFDQLTFLRTLKITGESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLEEL-PETCCELV 638
G+F+ L+ L LK+ G S +++ +P +L++L FL LSQ LE+L P L
Sbjct: 439 GIFNGLSSLEVLKMAGNS--FQENF--LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLS 494
Query: 639 NLQTLDIEACGSLKRLPQGI-GKLVNLRHLMISHNVY------LDYMPK 680
+LQ L++ A LK +P GI +L +L+ + + N + +DY+ +
Sbjct: 495 SLQVLNM-ASNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSR 542
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 36/139 (25%), Positives = 54/139 (38%), Gaps = 19/139 (13%)
Query: 540 LMLMINLFSTFPVSIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTFLRTLKITGESAG 599
L L N P SI +LR L + A P L + L + +GE G
Sbjct: 132 LTLARNPLRALPASIASLNRLRELSIRA----------CPELTELPEPLASTDASGEHQG 181
Query: 600 VEK---------SIREIPKEIEKLKHLRFLKLSQVDLEELPETCCELVNLQTLDIEACGS 650
+ IR +P I L++L+ LK+ L L L L+ LD+ C +
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 651 LKRLPQGIGKLVNLRHLMI 669
L+ P G L+ L++
Sbjct: 242 LRNYPPIFGGRAPLKRLIL 260
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 46/102 (45%), Gaps = 14/102 (13%)
Query: 578 LPGLFDQLTFLRTLK-ITGESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLEELPETCCE 636
LP DQ L L+ T ++AG + E+P ++ L L L++ L LP +
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAG----LXELPDTXQQFAGLETLTLARNPLRALPASIAS 148
Query: 637 LVNLQTLDIEACGSLKRLPQGIGK---------LVNLRHLMI 669
L L+ L I AC L LP+ + LVNL+ L +
Sbjct: 149 LNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL 190
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 47/114 (41%), Gaps = 11/114 (9%)
Query: 549 TFPVSIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTFLRTLKITGESAGVEKSIREIP 608
+ P SI + L+SL + N L P + L L L + G +A +R P
Sbjct: 197 SLPASIANLQNLKSLK-IRNSPLSALGPAI----HHLPKLEELDLRGCTA-----LRNYP 246
Query: 609 KEIEKLKHLRFLKLSQV-DLEELPETCCELVNLQTLDIEACGSLKRLPQGIGKL 661
L+ L L +L LP L L+ LD+ C +L RLP I +L
Sbjct: 247 PIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>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 = 38.5 bits (88), Expect = 0.019, Method: Composition-based stats.
Identities = 40/132 (30%), Positives = 67/132 (50%), Gaps = 17/132 (12%)
Query: 554 IRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTFLRTLKITGESAGVEKSIREIPKEI-E 612
I+Y +R L L N + + +LT L L +TG ++ +P + +
Sbjct: 59 IQYLPNVRYLALGGNKLHDISA------LKELTNLTYLILTG------NQLQSLPNGVFD 106
Query: 613 KLKHLRFLKLSQVDLEELPETCCE-LVNLQTLDIEACGSLKRLPQGI-GKLVNLRHLMIS 670
KL +L+ L L + L+ LP+ + L NL L++ A L+ LP+G+ KL NL L +S
Sbjct: 107 KLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNL-AHNQLQSLPKGVFDKLTNLTELDLS 165
Query: 671 HNVYLDYMPKGI 682
+N L +P+G+
Sbjct: 166 YN-QLQSLPEGV 176
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 35/113 (30%), Positives = 54/113 (47%), Gaps = 16/113 (14%)
Query: 580 GLFDQLTFLRTLKITGESAGVEKSIRE--IPKEIEKLKHLRFLKLSQVDLEEL-PETCCE 636
G+F+ L+ L LK+ G S +E +P +L++L FL LSQ LE+L P
Sbjct: 463 GIFNGLSSLEVLKMAG------NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNS 516
Query: 637 LVNLQTLDIEACG--SLKRLP-QGIGKL----VNLRHLMISHNVYLDYMPKGI 682
L +LQ L++ SL P + + L +L H+M S L + P +
Sbjct: 517 LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSL 569
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/113 (30%), Positives = 54/113 (47%), Gaps = 16/113 (14%)
Query: 580 GLFDQLTFLRTLKITGESAGVEKSIRE--IPKEIEKLKHLRFLKLSQVDLEEL-PETCCE 636
G+F+ L+ L LK+ G S +E +P +L++L FL LSQ LE+L P
Sbjct: 144 GIFNGLSSLEVLKMAG------NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNS 197
Query: 637 LVNLQTLDIEACG--SLKRLP-QGIGKL----VNLRHLMISHNVYLDYMPKGI 682
L +LQ L++ SL P + + L +L H+M S L + P +
Sbjct: 198 LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSL 250
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 35/113 (30%), Positives = 54/113 (47%), Gaps = 16/113 (14%)
Query: 580 GLFDQLTFLRTLKITGESAGVEKSIRE--IPKEIEKLKHLRFLKLSQVDLEEL-PETCCE 636
G+F+ L+ L LK+ G S +E +P +L++L FL LSQ LE+L P
Sbjct: 439 GIFNGLSSLEVLKMAG------NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNS 492
Query: 637 LVNLQTLDIEACG--SLKRLP-QGIGKL----VNLRHLMISHNVYLDYMPKGI 682
L +LQ L++ SL P + + L +L H+M S L + P +
Sbjct: 493 LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSL 545
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 39/89 (43%), Gaps = 13/89 (14%)
Query: 587 FLRTLKITGESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLEELPE---TCCELVNLQTL 643
FL L + G S+ E+P EI+ L +LR L LS L LP +C +L
Sbjct: 248 FLTRLYLNG------NSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFF 301
Query: 644 DIEACGSLKRLPQGIGKLVNLRHLMISHN 672
D + LP G L NL+ L + N
Sbjct: 302 D----NMVTTLPWEFGNLCNLQFLGVEGN 326
>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 = 34.7 bits (78), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 23 EELRLVVGVDQEVERLKRNFRAIQAVLVDAEQ--RQVKEEAVRLWLDKLKHASYDMEDVL 80
EE +L GV + +E L + + A L+ + R+ + +LW D+++ SY +EDV+
Sbjct: 16 EEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLWADEVRELSYVIEDVV 75
Query: 81 DEWIT 85
D+++
Sbjct: 76 DKFLV 80
>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
Nucleotide Free Form
pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
Analogue, Gmppnp
Length = 592
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 45/93 (48%), Gaps = 5/93 (5%)
Query: 81 DEWITARLKLQILQSV-DGNALVPQRKVRFFSPAASCFGFKQIFLRRDIAVKIKEINQNL 139
DE++T LKL+ S D +P+ +R F P CF F + RR +A K ++ L
Sbjct: 199 DEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPVHRRKLAQLEKLQDEEL 258
Query: 140 DD--IAKLKDFFSFNVITSTGKSDRIQSTALIN 170
D + ++ DF S+ I S K+ + +N
Sbjct: 259 DPEFVQQVADFCSY--IFSNSKTKTLSGGIQVN 289
>pdb|2B8W|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GmpALF4
pdb|2B8W|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GmpALF4
pdb|2B92|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GdpALF3
pdb|2B92|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With GdpALF3
pdb|2BC9|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Non-Hydrolysable Gtp Analogue Gppnhp
pdb|2D4H|A Chain A, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Gmp
pdb|2D4H|B Chain B, Crystal-Structure Of The N-Terminal Large Gtpase Domain Of
Human Guanylate Binding Protein 1 (Hgbp1) In Complex
With Gmp
Length = 328
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 50/110 (45%), Gaps = 12/110 (10%)
Query: 81 DEWITARLKLQILQSV-DGNALVPQRKVRFFSPAASCFGFKQIFLRRDIAVKIKEINQNL 139
DE++T LKL+ S D +P+ +R F P CF F + RR +A K ++ L
Sbjct: 210 DEYLTYSLKLKKGTSQKDETFNLPRLCIRKFFPKKKCFVFDRPVHRRKLAQLEKLQDEEL 269
Query: 140 DD--IAKLKDFFSFNVITSTGKS---------DRIQSTALINVSEVRGRD 178
D + ++ DF S+ S K+ R++S L V+ + D
Sbjct: 270 DPEFVQQVADFCSYIFSNSKTKTLSGGIQVNGPRLESLVLTYVNAISSGD 319
>pdb|3I6D|A Chain A, Crystal Structure Of Ppo From Bacillus Subtilis With Af
pdb|3I6D|B Chain B, Crystal Structure Of Ppo From Bacillus Subtilis With Af
Length = 470
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 43/150 (28%), Positives = 67/150 (44%), Gaps = 24/150 (16%)
Query: 544 INLFSTFPVSIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTFLRTLKITGESAGVEKS 603
++L STFP + +K RSL L K P G QLT + + S G++
Sbjct: 184 LSLMSTFPQFYQTEQKHRSLIL----GMKKTRP--QGSGQQLTAKKQGQFQTLSTGLQTL 237
Query: 604 IREIPKEIEKLKHLRFLKLSQVDLEELPETC--CELVNLQTLDIE----------ACGSL 651
+ EI K+++ K + K++++ +C EL N TLD + A G L
Sbjct: 238 VEEIEKQLKLTKVYKGTKVTKLSHS---GSCYSLELDNGVTLDADSVIVTAPHKAAAGML 294
Query: 652 KRLPQGIGKLVNLRHLMISHNVYLDYMPKG 681
LP I L N+ ++ NV L + P+G
Sbjct: 295 SELP-AISHLKNMHSTSVA-NVALGF-PEG 321
>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A
Novel Type Of Action Of A Bacterial Exoenzyme
pdb|2A9K|A Chain A, Crystal Structure Of The C3bot-Nad-Rala Complex Reveals A
Novel Type Of Action Of A Bacterial Exoenzyme
Length = 187
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 20/30 (66%), Gaps = 1/30 (3%)
Query: 194 QQPNAIHVISLVGMGGIGKTTLA-QFAYND 222
Q A+H + +VG GG+GK+ L QF Y++
Sbjct: 13 QNSLALHKVIMVGSGGVGKSALTLQFMYDE 42
>pdb|1AYR|A Chain A, Arrestin From Bovine Rod Outer Segments
pdb|1AYR|C Chain C, Arrestin From Bovine Rod Outer Segments
pdb|1AYR|B Chain B, Arrestin From Bovine Rod Outer Segments
pdb|1AYR|D Chain D, Arrestin From Bovine Rod Outer Segments
Length = 368
Score = 30.0 bits (66), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 15 SISLQEAREELRLVVGVDQEVERLKRNFRAIQAVLVDAEQRQV-KEEAVRLWLDKLKHAS 73
S+ LQ A +++ GVD E+ +A D E+ ++ K+ +VRL + K++HA
Sbjct: 129 SVMLQPAPQDVGKSCGVDFEI-------KAFATHSTDVEEDKIPKKSSVRLLIRKVQHAP 181
Query: 74 YDM 76
DM
Sbjct: 182 RDM 184
>pdb|3UGU|A Chain A, Crystal Structure Of P44 (Splice Variant Of Visual
Arrestin)
Length = 380
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 15 SISLQEAREELRLVVGVDQEVERLKRNFRAIQAVLVDAEQRQV-KEEAVRLWLDKLKHAS 73
S+ LQ A +++ GVD E+ +A D E+ ++ K+ +VRL + K++HA
Sbjct: 139 SVMLQPAPQDVGKSCGVDFEI-------KAFATHSTDVEEDKIPKKSSVRLLIRKVQHAP 191
Query: 74 YDM 76
DM
Sbjct: 192 RDM 194
>pdb|1CF1|A Chain A, Arrestin From Bovine Rod Outer Segments
pdb|1CF1|B Chain B, Arrestin From Bovine Rod Outer Segments
pdb|1CF1|C Chain C, Arrestin From Bovine Rod Outer Segments
pdb|1CF1|D Chain D, Arrestin From Bovine Rod Outer Segments
Length = 404
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 15 SISLQEAREELRLVVGVDQEVERLKRNFRAIQAVLVDAEQRQV-KEEAVRLWLDKLKHAS 73
S+ LQ A +++ GVD E+ +A D E+ ++ K+ +VRL + K++HA
Sbjct: 129 SVMLQPAPQDVGKSCGVDFEI-------KAFATHSTDVEEDKIPKKSSVRLLIRKVQHAP 181
Query: 74 YDM 76
DM
Sbjct: 182 RDM 184
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 29.6 bits (65), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 63/141 (44%), Gaps = 18/141 (12%)
Query: 536 KLYHLMLMINLFSTFPV-SIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTFLRTLKIT 594
L L L N +T P + Y KLR L+L N + S F+++ LR L +
Sbjct: 84 SLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYA----FNRVPSLRRLDL- 138
Query: 595 GESAGVEKSIREIPKEIEKLKHLRFLKLSQVDLEELPETCCELVNLQTLDIEACGSLKRL 654
GE +E I E E L +LR+L L +L+++P LV L+ L++ RL
Sbjct: 139 GELKRLEY-ISE--AAFEGLVNLRYLNLGMCNLKDIPNL-TALVRLEELELSG----NRL 190
Query: 655 ----PQGIGKLVNLRHLMISH 671
P L +LR L + H
Sbjct: 191 DLIRPGSFQGLTSLRKLWLMH 211
>pdb|3UGX|A Chain A, Crystal Structure Of Visual Arrestin
pdb|3UGX|B Chain B, Crystal Structure Of Visual Arrestin
pdb|3UGX|C Chain C, Crystal Structure Of Visual Arrestin
pdb|3UGX|D Chain D, Crystal Structure Of Visual Arrestin
Length = 414
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 8/63 (12%)
Query: 15 SISLQEAREELRLVVGVDQEVERLKRNFRAIQAVLVDAEQRQV-KEEAVRLWLDKLKHAS 73
S+ LQ A +++ GVD E+ +A D E+ ++ K+ +VRL + K++HA
Sbjct: 139 SVMLQPAPQDVGKSCGVDFEI-------KAFATHSTDVEEDKIPKKSSVRLLIRKVQHAP 191
Query: 74 YDM 76
DM
Sbjct: 192 RDM 194
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 42/137 (30%), Positives = 62/137 (45%), Gaps = 18/137 (13%)
Query: 540 LMLMINLFSTFPV-SIRYAKKLRSLFLVANGSFKVLSPVLPGLFDQLTFLRTLKITGESA 598
L L N +T P + Y KLR L+L N + S F+++ LR L + GE
Sbjct: 88 LELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYA----FNRVPSLRRLDL-GELK 142
Query: 599 GVEKSIREIPKEIEKLKHLRFLKLSQVDLEELPETCCELVNLQTLDIEACGSLKRL---- 654
+E I E E L +LR+L L +L+++P LV L+ L++ RL
Sbjct: 143 RLEY-ISE--AAFEGLVNLRYLNLGMCNLKDIPNL-TALVRLEELELSG----NRLDLIR 194
Query: 655 PQGIGKLVNLRHLMISH 671
P L +LR L + H
Sbjct: 195 PGSFQGLTSLRKLWLMH 211
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 0.137 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,928,073
Number of Sequences: 62578
Number of extensions: 1013798
Number of successful extensions: 2952
Number of sequences better than 100.0: 39
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 2915
Number of HSP's gapped (non-prelim): 59
length of query: 954
length of database: 14,973,337
effective HSP length: 108
effective length of query: 846
effective length of database: 8,214,913
effective search space: 6949816398
effective search space used: 6949816398
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)