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= 002071
(973 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 = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 51/209 (24%), Positives = 91/209 (43%), Gaps = 37/209 (17%)
Query: 290 RFFLVLDDVWDGDYMKWEPFYHCLKNGLPESKILVTTRKESVA-FMMGSTDIIPVQE-LA 347
R L+LDDVWD W LK + +IL+TTR +SV +MG ++PV+ L
Sbjct: 237 RSLLILDDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLG 287
Query: 348 EEECWLLFNRIAFFGRPIEECVKLEKIGRKIAGKCRGLPLTTKAIGSLMRS--------- 398
+E+ + + + L + I +C+G PL IG+L+R
Sbjct: 288 KEKGLEILSLFVNMKK-----ADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYL 342
Query: 399 -KKTEEEWQRILSSELWKIEEIEKGVLTPLWLSYNDLPSRVKRCFSYCAVFPKDFNIEKE 457
+ ++++RI S + E +++ + +S L +K ++ ++ KD + +
Sbjct: 343 KQLQNKQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTK 398
Query: 458 RLITLWMAQGYLGVEQDEETNIIGEEYFN 486
L LW + EE I +E+ N
Sbjct: 399 VLCILWDMET-------EEVEDILQEFVN 420
>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 = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 44/125 (35%), Positives = 73/125 (58%), Gaps = 17/125 (13%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPTNV-KRLVHLRYLNLSHQSIE 639
L GN L+ L F++LT+L+ +L ++ + +P V +L +L YLNL+H ++
Sbjct: 92 LTGNQLQSLPNGVFDKLTNLK-----ELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQ 146
Query: 640 KLPETLCE-LYNLQKLDVSDCYG-LKELPQGI-GKLVNMKHLLDDKTDSLGHMPVGI-GR 695
LP+ + + L NL +LD+S Y L+ LP+G+ KL +K L + + L +P G+ R
Sbjct: 147 SLPKGVFDKLTNLTELDLS--YNQLQSLPEGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDR 203
Query: 696 LTSLR 700
LTSL+
Sbjct: 204 LTSLQ 208
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 83/189 (43%), Gaps = 36/189 (19%)
Query: 290 RFFLVLDDVWDGDYMKWEPFYHCLKNGLPESKILVTTRKESVA-FMMGSTDIIPVQE-LA 347
R L+LDDVWD P+ LK + +IL+TTR +SV +MG ++PV+ L
Sbjct: 237 RSLLILDDVWD-------PWV--LKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLG 287
Query: 348 EE---ECWLLFNRIAFFGRPIEECVKLEKIGRKIAGKCRGLPLTTKAIGSLMRS------ 398
E E LF + P E I +C+G PL IG+L+R
Sbjct: 288 REKGLEILSLFVNMKKEDLPAE--------AHSIIKECKGSPLVVSLIGALLRDFPNRWA 339
Query: 399 ----KKTEEEWQRILSSELWKIEEIEKGVLTPLWLSYNDLPSRVKRCFSYCAVFPKDFNI 454
+ ++++RI S + E +++ + +S L +K ++ ++ KD +
Sbjct: 340 YYLRQLQNKQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKV 395
Query: 455 EKERLITLW 463
+ L LW
Sbjct: 396 PTKVLCVLW 404
>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 = 46.6 bits (109), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 46/186 (24%), Positives = 83/186 (44%), Gaps = 30/186 (16%)
Query: 290 RFFLVLDDVWDGDYMKWEPFYHCLKNGLPESKILVTTRKESVA-FMMGSTDIIPVQE-LA 347
R L+LDDVWD W LK + +IL+TTR +SV +MG ++PV+ L
Sbjct: 243 RSLLILDDVWDS----W-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLG 293
Query: 348 EEECWLLFNRIAFFGRPIEECVKLEKIGRKIAGKCRGLPLTTKAIGSLMRS--------- 398
+E+ + + + L + I +C+G PL IG+L+R
Sbjct: 294 KEKGLEILSLFVNMKK-----ADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYL 348
Query: 399 -KKTEEEWQRILSSELWKIEEIEKGVLTPLWLSYNDLPSRVKRCFSYCAVFPKDFNIEKE 457
+ ++++RI S + E +++ + +S L +K ++ ++ KD + +
Sbjct: 349 KQLQNKQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTK 404
Query: 458 RLITLW 463
L LW
Sbjct: 405 VLCILW 410
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/189 (25%), Positives = 82/189 (43%), Gaps = 36/189 (19%)
Query: 290 RFFLVLDDVWDGDYMKWEPFYHCLKNGLPESKILVTTRKESVA-FMMGSTDIIPVQE-LA 347
R L+LDDVWD P+ LK + +IL+TT +SV +MG ++PV+ L
Sbjct: 244 RSLLILDDVWD-------PWV--LKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLG 294
Query: 348 EE---ECWLLFNRIAFFGRPIEECVKLEKIGRKIAGKCRGLPLTTKAIGSLMRS------ 398
E E LF + P E I +C+G PL IG+L+R
Sbjct: 295 REKGLEILSLFVNMKKEDLPAE--------AHSIIKECKGSPLVVSLIGALLRDFPNRWA 346
Query: 399 ----KKTEEEWQRILSSELWKIEEIEKGVLTPLWLSYNDLPSRVKRCFSYCAVFPKDFNI 454
+ ++++RI S + E +++ + +S L +K ++ ++ KD +
Sbjct: 347 YYLRQLQNKQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKV 402
Query: 455 EKERLITLW 463
+ L LW
Sbjct: 403 PTKVLCVLW 411
>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 = 40.4 bits (93), Expect = 0.005, Method: Composition-based stats.
Identities = 41/124 (33%), Positives = 67/124 (54%), Gaps = 15/124 (12%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPTNV-KRLVHLRYLNLSHQSIE 639
L+ N L+ L F+ELTSL ++L+ + + +P V +L L YLNLS ++
Sbjct: 35 LETNSLKSLPNGVFDELTSL-----TQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQ 89
Query: 640 KLPETLCE-LYNLQKLDVSDCYGLKELPQGI-GKLVNMKHLLDDKTDSLGHMPVGI-GRL 696
LP + + L L++L + + L+ LP G+ KL +K L + + L +P G+ RL
Sbjct: 90 SLPNGVFDKLTQLKELAL-NTNQLQSLPDGVFDKLTQLKDLRLYQ-NQLKSVPDGVFDRL 147
Query: 697 TSLR 700
TSL+
Sbjct: 148 TSLQ 151
>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 = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 39/74 (52%), Gaps = 1/74 (1%)
Query: 605 VSKLFYTKSTILEIPTNVKRLVHLRYLNLSHQSIEKLPETLCELYNLQKLDVSDCYGLKE 664
+++L+ +++ E+P +K L +LR L+LSH + LP L + L+ D +
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNM-VTT 307
Query: 665 LPQGIGKLVNMKHL 678
LP G L N++ L
Sbjct: 308 LPWEFGNLCNLQFL 321
Score = 29.6 bits (65), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 48/104 (46%), Gaps = 11/104 (10%)
Query: 601 RAIEVSKLFYTKSTILEIPTNVKRLVHLRYLNLSHQSIEKLPETLCELYNLQKLDVSDCY 660
A+++S L I I N+ + L L L+ S+ +LP + L NL+ LD+S
Sbjct: 227 HALDLSNL-----QIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN- 280
Query: 661 GLKELPQGIGKLVNMK--HLLDDKTDSLGHMPVGIGRLTSLRTL 702
L LP +G +K + D+ +L P G L +L+ L
Sbjct: 281 RLTSLPAELGSCFQLKYFYFFDNMVTTL---PWEFGNLCNLQFL 321
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 39.7 bits (91), Expect = 0.008, Method: Composition-based stats.
Identities = 40/143 (27%), Positives = 71/143 (49%), Gaps = 15/143 (10%)
Query: 565 CRIKRMRSLLIG-----GVVFDHSSLDGNILEELFEELTSLRAIEVSKLFYTKSTILEIP 619
CR KR S+ G +++ H + + +F+ L +L+ +L+ + + +P
Sbjct: 26 CRSKRHASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLK-----ELYLGSNQLGALP 80
Query: 620 TNV-KRLVHLRYLNLSHQSIEKLPETLCE-LYNLQKLDVSDCYGLKELPQGIGKLVNMKH 677
V L L L+L + LP + + L +L++L + C L ELP+GI +L ++ H
Sbjct: 81 VGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMC-CNKLTELPRGIERLTHLTH 139
Query: 678 LLDDKTDSLGHMPVG-IGRLTSL 699
L D+ + L +P G RL+SL
Sbjct: 140 LALDQ-NQLKSIPHGAFDRLSSL 161
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 35.0 bits (79), Expect = 0.20, Method: Composition-based stats.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 1/85 (1%)
Query: 618 IPTNVKRLVHLRYLNLSHQSIE-KLPETLCELYNLQKLDVSDCYGLKELPQGIGKLVNMK 676
IP + +L L YL ++H ++ +P+ L ++ L LD S LP I L N+
Sbjct: 93 IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLV 152
Query: 677 HLLDDKTDSLGHMPVGIGRLTSLRT 701
+ D G +P G + L T
Sbjct: 153 GITFDGNRISGAIPDSYGSFSKLFT 177
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 33.5 bits (75), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 51/101 (50%), Gaps = 14/101 (13%)
Query: 217 GMGGIGKTALAQLACNNDEVNRK----FDKILWVCVSEAFEEFRIARAIVEALDV----S 268
G+ G GKTA+A+L E K ++V +R+A AI EA+ V +
Sbjct: 51 GLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFT 110
Query: 269 SSGLGE-FQSLLKTISKSITGKRFFLVLDDVWDGDYMKWEP 308
+GE ++ L+K +S+ + G + +VLD++ D++ P
Sbjct: 111 GLSVGEVYERLVKRLSR-LRGI-YIIVLDEI---DFLPKRP 146
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 58/122 (47%), Gaps = 4/122 (3%)
Query: 580 FDHSSLDGNILEELFEELTSLRAIEVSKLFYTKSTILEIPTNVKRLVHLRYLNLSHQSIE 639
F HS+L +F L +L +++S +T+ I + L L+ S Q
Sbjct: 403 FQHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAGNSFQE-N 460
Query: 640 KLPETLCELYNLQKLDVSDCYGLKELPQGIGKLVNMKHLLDDKTDSLGHMPVGI-GRLTS 698
LP+ EL NL LD+S C + P L +++ +L+ ++ L +P GI RLTS
Sbjct: 461 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ-VLNMASNQLKSVPDGIFDRLTS 519
Query: 699 LR 700
L+
Sbjct: 520 LQ 521
>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 = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 48/90 (53%), Gaps = 8/90 (8%)
Query: 13 LISFAAEEMQQQAQLVTGVKKEVDKLTSNLRAIEAVLDDAEE--RLVKDKAVRLWLEQLK 70
LI E + ++ +L GVKK ++ L L + A L E R D +LW ++++
Sbjct: 6 LIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLWADEVR 65
Query: 71 YVSNDIEDVLDEWITARRKLQIEG-GVDDN 99
+S IEDV+D+++ +Q++G DDN
Sbjct: 66 ELSYVIEDVVDKFL-----VQVDGIKSDDN 90
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 40/101 (39%), Gaps = 23/101 (22%)
Query: 625 LVHLRYLNLSHQSIEKLPETLCELYN-----------------------LQKLDVSDCYG 661
LV+L+ L L I LP ++ L N L++LD+ C
Sbjct: 182 LVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTA 241
Query: 662 LKELPQGIGKLVNMKHLLDDKTDSLGHMPVGIGRLTSLRTL 702
L+ P G +K L+ +L +P+ I RLT L L
Sbjct: 242 LRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 37/153 (24%), Positives = 58/153 (37%), Gaps = 33/153 (21%)
Query: 806 VFPGWMMPLTNLRSLTLEKCEKCKQIP-PLGK---------LSSLEKLMI-W-GLKSVK- 852
P + L LR L++ C + ++P PL L +L+ L + W G++S+
Sbjct: 141 ALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPA 200
Query: 853 RVAN--------------EFLGIEIIAFPKLKSLTFYWMEEFEEWDYGITGMGSTSIMPC 898
+AN LG I PKL+ L + G
Sbjct: 201 SIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP------ 254
Query: 899 LSYLAIISCPKLKALPDHFHQMTTLKELYILGC 931
L L + C L LP H++T L++L + GC
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGC 287
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 58/127 (45%), Gaps = 12/127 (9%)
Query: 207 QKGLHIISIVGMGGIGKTALAQLACNNDEVNRKFDKILWVCVSEAFEEFRIARAIVEALD 266
QK + +VG G GKTA + + + +++V ++ + + ++++A
Sbjct: 920 QKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKATL 979
Query: 267 VSSSGLGEFQSLLKTISKSITG----KRFFLVLDDVWDGDYMKWEPFYHCLKNGLPESKI 322
GL F S+L+ ++ ITG R ++V D D +Y++ + + L ++KI
Sbjct: 980 EWRDGL--FTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVE------AMNSVLDDNKI 1031
Query: 323 LVTTRKE 329
L E
Sbjct: 1032 LTLPNGE 1038
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 29/127 (22%), Positives = 58/127 (45%), Gaps = 12/127 (9%)
Query: 207 QKGLHIISIVGMGGIGKTALAQLACNNDEVNRKFDKILWVCVSEAFEEFRIARAIVEALD 266
QK + +VG G GKTA + + + +++V ++ + + ++++A
Sbjct: 701 QKTQQALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGSMLKATL 760
Query: 267 VSSSGLGEFQSLLKTISKSITG----KRFFLVLDDVWDGDYMKWEPFYHCLKNGLPESKI 322
GL F S+L+ ++ ITG R ++V D D +Y++ + + L ++KI
Sbjct: 761 EWRDGL--FTSILRRVNDDITGTFKNSRIWVVFDSDLDPEYVE------AMNSVLDDNKI 812
Query: 323 LVTTRKE 329
L E
Sbjct: 813 LTLPNGE 819
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 45/152 (29%), Positives = 68/152 (44%), Gaps = 39/152 (25%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPTNVKRLVHLRYLNLSHQSIE- 639
L GN ++ L F L+SL+ ++ L +++ P + L L+ LN++H I+
Sbjct: 85 LTGNPIQSLALGAFSGLSSLQ--KLVALETNLASLENFP--IGHLKTLKELNVAHNLIQS 140
Query: 640 -KLPETLCELYNLQKLDVSD-------CYGLKELPQ--------------------GIGK 671
KLPE L NL+ LD+S C L+ L Q G K
Sbjct: 141 FKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFK 200
Query: 672 LVNMKHLLDDKTDSLGHMPVGI-GRLTSLRTL 702
+ +K L D T+ L +P GI RLTSL+ +
Sbjct: 201 EIRLKELALD-TNQLKSVPDGIFDRLTSLQKI 231
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 45/153 (29%), Positives = 67/153 (43%), Gaps = 41/153 (26%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPT-NVKRLVHLRYLNLSHQSIE 639
L GN ++ L F L+SL+ KL ++ + + + L L+ LN++H I+
Sbjct: 83 LTGNPIQSLALGAFSGLSSLQ-----KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 137
Query: 640 --KLPETLCELYNLQKLDVSD-------CYGLKELPQ--------------------GIG 670
KLPE L NL+ LD+S C L+ L Q G
Sbjct: 138 SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 197
Query: 671 KLVNMKHLLDDKTDSLGHMPVGI-GRLTSLRTL 702
K + +K L D T+ L +P GI RLTSL+ +
Sbjct: 198 KEIRLKELALD-TNQLKSVPDGIFDRLTSLQKI 229
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 45/153 (29%), Positives = 67/153 (43%), Gaps = 41/153 (26%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPT-NVKRLVHLRYLNLSHQSIE 639
L GN ++ L F L+SL+ KL ++ + + + L L+ LN++H I+
Sbjct: 84 LTGNPIQSLALGAFSGLSSLQ-----KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 138
Query: 640 --KLPETLCELYNLQKLDVSD-------CYGLKELPQ--------------------GIG 670
KLPE L NL+ LD+S C L+ L Q G
Sbjct: 139 SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 198
Query: 671 KLVNMKHLLDDKTDSLGHMPVGI-GRLTSLRTL 702
K + +K L D T+ L +P GI RLTSL+ +
Sbjct: 199 KEIRLKELALD-TNQLKSVPDGIFDRLTSLQKI 230
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 45/153 (29%), Positives = 67/153 (43%), Gaps = 41/153 (26%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPT-NVKRLVHLRYLNLSHQSIE 639
L GN ++ L F L+SL+ KL ++ + + + L L+ LN++H I+
Sbjct: 85 LTGNPIQSLALGAFSGLSSLQ-----KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 139
Query: 640 --KLPETLCELYNLQKLDVSD-------CYGLKELPQ--------------------GIG 670
KLPE L NL+ LD+S C L+ L Q G
Sbjct: 140 SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 199
Query: 671 KLVNMKHLLDDKTDSLGHMPVGI-GRLTSLRTL 702
K + +K L D T+ L +P GI RLTSL+ +
Sbjct: 200 KEIRLKELALD-TNQLKSVPDGIFDRLTSLQKI 231
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 45/153 (29%), Positives = 67/153 (43%), Gaps = 41/153 (26%)
Query: 585 LDGNILEEL----FEELTSLRAIEVSKLFYTKSTILEIPT-NVKRLVHLRYLNLSHQSIE 639
L GN ++ L F L+SL+ KL ++ + + + L L+ LN++H I+
Sbjct: 84 LTGNPIQSLALGAFSGLSSLQ-----KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 138
Query: 640 --KLPETLCELYNLQKLDVSD-------CYGLKELPQ--------------------GIG 670
KLPE L NL+ LD+S C L+ L Q G
Sbjct: 139 SFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAF 198
Query: 671 KLVNMKHLLDDKTDSLGHMPVGI-GRLTSLRTL 702
K + +K L D T+ L +P GI RLTSL+ +
Sbjct: 199 KEIRLKELALD-TNQLKSVPDGIFDRLTSLQKI 230
>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 = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 618 IPTNVKRLVHLRYLNLSHQSIE-KLPETLCELYNLQKL--DVSDCYGLKELPQGIGKLVN 674
IP+++ L LR L L +E ++P+ L + L+ L D +D G E+P G+ N
Sbjct: 434 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTG--EIPSGLSNCTN 491
Query: 675 MKHLLDDKTDSLGHMPVGIGRLTSLRTL 702
+ + G +P IGRL +L L
Sbjct: 492 LNWISLSNNRLTGEIPKWIGRLENLAIL 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 = 29.6 bits (65), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 618 IPTNVKRLVHLRYLNLSHQSIE-KLPETLCELYNLQKL--DVSDCYGLKELPQGIGKLVN 674
IP+++ L LR L L +E ++P+ L + L+ L D +D G E+P G+ N
Sbjct: 431 IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTG--EIPSGLSNCTN 488
Query: 675 MKHLLDDKTDSLGHMPVGIGRLTSLRTL 702
+ + G +P IGRL +L L
Sbjct: 489 LNWISLSNNRLTGEIPKWIGRLENLAIL 516
>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 = 29.6 bits (65), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 45/107 (42%), Gaps = 13/107 (12%)
Query: 158 FKFLESGSKSSEIPRRVQSASFIDEEEICGRVSEKNELISKLLCESSEHQKGLHIISIVG 217
K +++ K++ + ++ ++ + GR+S ++ + KLL E Q I + G
Sbjct: 82 LKIIQAARKAANLGTFXRADEYLKKRATIGRISTGSKSLDKLLGGGIETQA---ITEVFG 138
Query: 218 MGGIGKTALA-------QLACNNDEVNRKFDKILWVCVSEAFEEFRI 257
G GKT LA QL +N ++W+ F RI
Sbjct: 139 EFGSGKTQLAHTLAVXVQLPPEEGGLN---GSVIWIDTENTFRPERI 182
>pdb|3A5C|D Chain D, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|E Chain E, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|F Chain F, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|L Chain L, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|M Chain M, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|N Chain N, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|D Chain D, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|E Chain E, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|F Chain F, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|L Chain L, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|M Chain M, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|N Chain N, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3J0J|D Chain D, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
pdb|3J0J|E Chain E, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
pdb|3J0J|F Chain F, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
Length = 478
Score = 29.3 bits (64), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 57/119 (47%), Gaps = 22/119 (18%)
Query: 187 GRVSEKNELISKLLCESSEHQKGLHIISIVGMGGIGKTALAQLACNNDEVNRKFDKILWV 246
G+ E ++ +S L S + G+ I +V + IG+ AL + ND +F
Sbjct: 369 GKTREDHKQVSDQLY--SAYANGVDIRKLVAI--IGEDALTE----NDRRYLQF------ 414
Query: 247 CVSEAFEEFRIA-----RAIVEALDVSSSGLGEF-QSLLKTISKSITGKRFFLVLDDVW 299
++AFE F I R+I E+L ++ + L Q LK ISK GK + L+++W
Sbjct: 415 --ADAFERFFINQGQQNRSIEESLQIAWALLSMLPQGELKRISKDHIGKYYGQKLEEIW 471
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: 27,014,500
Number of Sequences: 62578
Number of extensions: 1094394
Number of successful extensions: 2806
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 2774
Number of HSP's gapped (non-prelim): 63
length of query: 973
length of database: 14,973,337
effective HSP length: 108
effective length of query: 865
effective length of database: 8,214,913
effective search space: 7105899745
effective search space used: 7105899745
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)