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= 042597
(693 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 50/92 (54%), Gaps = 5/92 (5%)
Query: 353 RLLEIPT--CSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFF-LSKLRSGIANLV 409
L+EIP S L+ L +++N I ++ G F + ++ + +G N S G + +
Sbjct: 113 HLVEIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGL 172
Query: 410 SLHHLDLSSTNITGLPQDLKALEKLRYLNLDH 441
L++L +S +TG+P+DL E L L+LDH
Sbjct: 173 KLNYLRISEAKLTGIPKDLP--ETLNELHLDH 202
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/170 (25%), Positives = 74/170 (43%), Gaps = 33/170 (19%)
Query: 103 VLLLDDIWERIDLKELVS---LFLTTRSVDVCDQMDAEKLEV---YSLANDEAWKLFQEM 156
+L+LDD+W+ LK S + LTTR V D + K V SL ++ ++
Sbjct: 239 LLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLF 298
Query: 157 VDRSTLGSHTSIPELAETLARECSGLPLALKTVGRAMKSQTKVGDWQRAIKKMRISASKF 216
V+ +PE A ++ +EC G PL + +G ++ W+ +K+++
Sbjct: 299 VNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRWEYYLKQLQ------ 346
Query: 217 TGMDEKVFSRLK--FSYDSLSTDELRSCLLYCCLYPKDYEIPRRELIDYW 264
K F R++ SYD + DE S E+ R ++ DY+
Sbjct: 347 ----NKQFKRIRKSSSYDYEALDEAMSI---------SVEMLREDIKDYY 383
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/170 (25%), Positives = 75/170 (44%), Gaps = 33/170 (19%)
Query: 103 VLLLDDIWERIDLKELVS---LFLTTRSVDVCDQMDAEKLEV---YSLANDEAWKLFQEM 156
+L+LDD+W+ LK S + LTTR V D + K V SL ++ ++
Sbjct: 245 LLILDDVWDSWVLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLF 304
Query: 157 VDRSTLGSHTSIPELAETLARECSGLPLALKTVGRAMKSQTKVGDWQRAIKKMRISASKF 216
V+ +PE A ++ +EC G PL + +G ++ W+ +K+++
Sbjct: 305 VNMKK----ADLPEQAHSIIKECKGSPLVVSLIGALLRDFP--NRWEYYLKQLQ------ 352
Query: 217 TGMDEKVFSRLK--FSYDSLSTDELRSCLLYCCLYPKDYEIPRRELIDYW 264
K F R++ SYD + DE S + E+ R ++ DY+
Sbjct: 353 ----NKQFKRIRKSSSYDYEALDEAMSISV---------EMLREDIKDYY 389
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 55/108 (50%), Gaps = 4/108 (3%)
Query: 338 WEGAKRVSLMDNRILRLLEIPTCS---RLITLLLYENWIEEITDGFFQPMSSLRVLALGR 394
+EG + ++ + L +IP + RL L L N ++ I G FQ ++SLR L L
Sbjct: 152 FEGLVNLRYLNLGMCNLKDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMH 211
Query: 395 NFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDL-KALEKLRYLNLDH 441
+ R+ +L SL L+LS N+ LP DL L +L ++L+H
Sbjct: 212 AQVATIERNAFDDLKSLEELNLSHNNLMSLPHDLFTPLHRLERVHLNH 259
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 55/108 (50%), Gaps = 4/108 (3%)
Query: 338 WEGAKRVSLMDNRILRLLEIPTCS---RLITLLLYENWIEEITDGFFQPMSSLRVLALGR 394
+EG + ++ + L +IP + RL L L N ++ I G FQ ++SLR L L
Sbjct: 152 FEGLVNLRYLNLGMCNLKDIPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMH 211
Query: 395 NFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDL-KALEKLRYLNLDH 441
+ R+ +L SL L+LS N+ LP DL L +L ++L+H
Sbjct: 212 AQVATIERNAFDDLKSLEELNLSHNNLMSLPHDLFTPLHRLERVHLNH 259
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 38/148 (25%), Positives = 68/148 (45%), Gaps = 7/148 (4%)
Query: 321 FLVRAGIKLTEAPKVQEWEGAKRVSLMDNRILRLLE--IPTCSRLITLLLYENWIEEITD 378
+L G KL + ++E + L N++ L + L L+L EN ++ + D
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD 126
Query: 379 GFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDL-KALEKLRYL 437
G F +++L L L N S + L +L LDLS + LP+ + L +L+ L
Sbjct: 127 GVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDL 186
Query: 438 NLDHAYKLSIIPHKLKSGFSKLEALRLL 465
L + +L +P + F +L +L+ +
Sbjct: 187 RL-YQNQLKSVPDGV---FDRLTSLQYI 210
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 67/145 (46%), Gaps = 7/145 (4%)
Query: 321 FLVRAGIKLTEAPKVQEWEGAKRVSLMDNRILRLLE--IPTCSRLITLLLYENWIEEITD 378
+L G KL + ++E + L N++ L + L L+L EN ++ + D
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD 126
Query: 379 GFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDL-KALEKLRYL 437
G F +++L L L N S + L +L LDL + + LP+ + L +L+ L
Sbjct: 127 GVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQL 186
Query: 438 NLDHAYKLSIIPHKLKSGFSKLEAL 462
+L+ +L +P + F +L +L
Sbjct: 187 SLNDN-QLKSVPDGV---FDRLTSL 207
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/132 (22%), Positives = 53/132 (40%), Gaps = 12/132 (9%)
Query: 298 KMHDMIREMLLWIACTVEKEKESFLVRAGIKLTEAPK--VQEWEGAKRVSLMDNRILRLL 355
K+HD I+ E ++L+ G +L P + K + L++N++ L
Sbjct: 74 KLHD--------ISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLP 125
Query: 356 E--IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHH 413
+ + L L LY N ++ + G F +++L L L N S L L
Sbjct: 126 DGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQ 185
Query: 414 LDLSSTNITGLP 425
L L+ + +P
Sbjct: 186 LSLNDNQLKSVP 197
>pdb|2BNH|A Chain A, Porcine Ribonuclease Inhibitor
pdb|1DFJ|I Chain I, Ribonuclease Inhibitor Complexed With Ribonuclease A
Length = 457
Score = 36.6 bits (83), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 34/98 (34%), Positives = 51/98 (52%), Gaps = 9/98 (9%)
Query: 341 AKRVSLMDNRILRLLEIPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSK 400
+ VSLM + LLE+ +L + L ++ I+E+ QP ++LRVL LG +
Sbjct: 326 CQHVSLMLTQNKHLLEL----QLSSNKLGDSGIQELCQALSQPGTTLRVLCLGDCEVTNS 381
Query: 401 LRSGIANLV----SLHHLDLSSTNITGLPQDLKALEKL 434
S +A+L+ SL LDLS+ N G P L+ L L
Sbjct: 382 GCSSLASLLLANRSLRELDLSN-NCVGDPGVLQLLGSL 418
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 36.2 bits (82), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 52/108 (48%), Gaps = 4/108 (3%)
Query: 338 WEGAKRVSLMDNRILRLLEIPTCSRLITLL---LYENWIEEITDGFFQPMSSLRVLALGR 394
+EG + ++ + L EIP + LI L L N + I G FQ + L+ L + +
Sbjct: 181 FEGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQ 240
Query: 395 NFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDL-KALEKLRYLNLDH 441
+ R+ NL SL ++L+ N+T LP DL L L ++L H
Sbjct: 241 SQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHH 288
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 54/113 (47%), Gaps = 7/113 (6%)
Query: 357 IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDL 416
I T +RL+ L +EN I+ I F+ + L +L L RN + L +L+ L+L
Sbjct: 62 ISTNTRLLNL--HENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLEL 119
Query: 417 SSTNITGLPQD-LKALEKLRYLNLDHAYKLSIIPHKLKSGFSKLEALRLLECG 468
+T +P L KL+ L L + SI + F+++ +LR L+ G
Sbjct: 120 FDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSY----AFNRIPSLRRLDLG 168
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 41/130 (31%), Positives = 58/130 (44%), Gaps = 7/130 (5%)
Query: 337 EWEGAKRVSLMDNRILRLLE--IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGR 394
E G K L ++I LL+ + L L L +N I +I D F ++ L L L +
Sbjct: 273 EASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQ 332
Query: 395 NFFLSKLRSGIANLVSLHHLDLSSTNITGL-PQDLKALEKLRYLNLDHAYKLSIIPHKLK 453
NF S NL L LDLS +I L Q L L+ L LD +L +P +
Sbjct: 333 NFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALD-TNQLKSVPDGI- 390
Query: 454 SGFSKLEALR 463
F +L +L+
Sbjct: 391 --FDRLTSLQ 398
>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 = 33.9 bits (76), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 378 DGFFQPMSSLRVLALGRNFFLSKLRSGI-ANLVSLHHLDLSSTNITGL-PQDLKALEKLR 435
+G F +SSL VL + N F I L +L LDLS + L P +L L+
Sbjct: 143 NGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ 202
Query: 436 YLNLDHA--YKLSIIPHK 451
LN+ H + L P+K
Sbjct: 203 VLNMSHNNFFSLDTFPYK 220
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 39/170 (22%), Positives = 71/170 (41%), Gaps = 33/170 (19%)
Query: 103 VLLLDDIWERIDLKEL---VSLFLTTRSVDVCDQMDAEKLEV---YSLANDEAWKLFQEM 156
+L+LDD+W+ LK + LTTR V D + K V L ++ ++
Sbjct: 239 LLILDDVWDPWVLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLF 298
Query: 157 VDRSTLGSHTSIPELAETLARECSGLPLALKTVGRAMKSQTKVGDWQRAIKKMRISASKF 216
V+ +P A ++ +EC G PL + +G ++ W +++++
Sbjct: 299 VNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFPN--RWAYYLRQLQ------ 346
Query: 217 TGMDEKVFSRLK--FSYDSLSTDELRSCLLYCCLYPKDYEIPRRELIDYW 264
K F R++ SYD + DE S + E+ R ++ DY+
Sbjct: 347 ----NKQFKRIRKSSSYDYEALDEAMSISV---------EMLREDIKDYY 383
>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 = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 378 DGFFQPMSSLRVLALGRNFFLSKLRSGI-ANLVSLHHLDLSSTNITGL-PQDLKALEKLR 435
+G F +SSL VL + N F I L +L LDLS + L P +L L+
Sbjct: 462 NGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ 521
Query: 436 YLNLDHA--YKLSIIPHK 451
LN+ H + L P+K
Sbjct: 522 VLNMSHNNFFSLDTFPYK 539
Score = 28.9 bits (63), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVL-------ALGRNFFLSKLRS---------- 403
S L TL+L N I+ + G F +SSL+ L A NF + L++
Sbjct: 100 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 159
Query: 404 --------GIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
+NL +L HLDLSS I + DL+ L ++
Sbjct: 160 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 199
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 50/102 (49%), Gaps = 3/102 (2%)
Query: 365 TLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGL 424
+L L N I I++ Q +L+ L L N + ++L SL HLDLS ++ L
Sbjct: 56 SLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNL 115
Query: 425 PQD-LKALEKLRYLN-LDHAYKLSIIPHKLKSGFSKLEALRL 464
K L L +LN L + YK ++ L S +KL+ LR+
Sbjct: 116 SSSWFKPLSSLTFLNLLGNPYK-TLGETSLFSHLTKLQILRV 156
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 5/103 (4%)
Query: 338 WEGAKRVSLMDNRILRLLEIPTCSRLITLLLYE---NWIEEITDGFFQPMSSLRVLALGR 394
+EG + ++ + + ++P + L+ L E N EI G F +SSL+ L +
Sbjct: 192 FEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMN 251
Query: 395 NFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDLKALEKLRYL 437
+ R+ L SL L+L+ N++ LP DL LRYL
Sbjct: 252 SQVSLIERNAFDGLASLVELNLAHNNLSSLPHDL--FTPLRYL 292
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 37/81 (45%), Gaps = 2/81 (2%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTN 420
+ L TL L++NW+ I G F+ +S LR L L N S + SL LDL
Sbjct: 123 ASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELK 182
Query: 421 ITGLPQD--LKALEKLRYLNL 439
+ + L L+YLNL
Sbjct: 183 KLEYISEGAFEGLFNLKYLNL 203
>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 = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 378 DGFFQPMSSLRVLALGRNFFLSKLRSGI-ANLVSLHHLDLSSTNITGL-PQDLKALEKLR 435
+G F +SSL VL + N F I L +L LDLS + L P +L L+
Sbjct: 438 NGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQ 497
Query: 436 YLNLDHA--YKLSIIPHK 451
LN+ H + L P+K
Sbjct: 498 VLNMSHNNFFSLDTFPYK 515
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 33/102 (32%), Positives = 50/102 (49%), Gaps = 3/102 (2%)
Query: 365 TLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGL 424
+L L N I I++ Q +L+ L L N + ++L SL HLDLS ++ L
Sbjct: 30 SLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNL 89
Query: 425 PQD-LKALEKLRYLN-LDHAYKLSIIPHKLKSGFSKLEALRL 464
K L L +LN L + YK ++ L S +KL+ LR+
Sbjct: 90 SSSWFKPLSSLTFLNLLGNPYK-TLGETSLFSHLTKLQILRV 130
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 2/56 (3%)
Query: 386 SLRVLALGRNFFLSKLRSG--IANLVSLHHLDLSSTNITGLPQDLKALEKLRYLNL 439
SL+ L L +N S ++G + L +L ++D+S + +P+ + EK++YLNL
Sbjct: 362 SLQTLILRQNHLASLEKTGETLLTLKNLTNIDISKNSFHSMPETCQWPEKMKYLNL 417
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 33.1 bits (74), Expect = 0.48, Method: Composition-based stats.
Identities = 27/87 (31%), Positives = 46/87 (52%), Gaps = 8/87 (9%)
Query: 357 IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIAN-LVSLHHLD 415
IPT +++ L LY+N I ++ G F ++ L L L N L+ L +G+ + L L L
Sbjct: 36 IPTTTQV--LYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLS 92
Query: 416 LSSTNITGLPQ----DLKALEKLRYLN 438
L+ + +P+ +LK+L + LN
Sbjct: 93 LNDNQLKSIPRGAFDNLKSLTHIWLLN 119
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 33.1 bits (74), Expect = 0.48, Method: Composition-based stats.
Identities = 27/87 (31%), Positives = 46/87 (52%), Gaps = 8/87 (9%)
Query: 357 IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIAN-LVSLHHLD 415
IPT +++ L LY+N I ++ G F ++ L L L N L+ L +G+ + L L L
Sbjct: 28 IPTTTQV--LYLYDNQITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLS 84
Query: 416 LSSTNITGLPQ----DLKALEKLRYLN 438
L+ + +P+ +LK+L + LN
Sbjct: 85 LNDNQLKSIPRGAFDNLKSLTHIWLLN 111
>pdb|2W58|A Chain A, Crystal Structure Of The Dnai
pdb|2W58|B Chain B, Crystal Structure Of The Dnai
Length = 202
Score = 33.1 bits (74), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 44/88 (50%), Gaps = 8/88 (9%)
Query: 24 RCITDQEKNRRIIGLY--GTGGVGKTTILTQVNNNFCHQQHNFDVVIWAAVIGFSDDKKW 81
R + + E +++ GLY G+ GVGKT +L + N + + + ++ + +
Sbjct: 43 RFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRN------VSSLIVYVPELFRE 96
Query: 82 KEKSLQDKAADISSILSRKKFVLLLDDI 109
+ SLQD+ + +K VL+LDD+
Sbjct: 97 LKHSLQDQTMNEKLDYIKKVPVLMLDDL 124
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 33.1 bits (74), Expect = 0.58, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 322 LVRAGIKLTEAPKVQEWEGAKRVSLMD---NRI--LRLLEIPTCSRLITLLLYENWIEEI 376
LV G K+TE PK +EG + L+ N+I LR+ L L LY+N ++ I
Sbjct: 85 LVLYGNKITELPK-SLFEGLFSLQLLLLNANKINXLRVDAFQDLHNLNLLSLYDNKLQTI 143
Query: 377 TDGFFQPMSSLRVLALGRNFFL 398
G F P+ +++ + L +N F+
Sbjct: 144 AKGTFSPLRAIQTMHLAQNPFI 165
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 33.1 bits (74), Expect = 0.59, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 322 LVRAGIKLTEAPKVQEWEGAKRVSLMD---NRI--LRLLEIPTCSRLITLLLYENWIEEI 376
LV G K+TE PK +EG + L+ N+I LR+ L L LY+N ++ I
Sbjct: 85 LVLYGNKITELPK-SLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDNKLQTI 143
Query: 377 TDGFFQPMSSLRVLALGRNFFL 398
G F P+ +++ + L +N F+
Sbjct: 144 AKGTFSPLRAIQTMHLAQNPFI 165
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 32.7 bits (73), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 36/130 (27%), Positives = 58/130 (44%), Gaps = 30/130 (23%)
Query: 357 IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFF------------------- 397
IPT +++ L L++N I ++ G F + +L+ L LG N
Sbjct: 38 IPTNAQI--LYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDL 95
Query: 398 ----LSKLRSGIAN-LVSLHHLDLSSTNITGLPQDLKALEKLRYLNLDHAYKLSIIPHKL 452
L+ L S + + LV L L + +T LP+ ++ L L +L LD +L IPH
Sbjct: 96 GTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQ-NQLKSIPH-- 152
Query: 453 KSGFSKLEAL 462
F +L +L
Sbjct: 153 -GAFDRLSSL 161
>pdb|2XOK|D Chain D, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
pdb|2XOK|E Chain E, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
pdb|2XOK|F Chain F, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
Length = 511
Score = 32.3 bits (72), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT + ++ NN F V
Sbjct: 186 IGLFGGAGVGKTVFIQELINNIAKAHGGFSV 216
>pdb|4B2Q|D Chain D, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|DD Chain d, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 470
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT + ++ NN F V
Sbjct: 148 IGLFGGAGVGKTVFIQELINNIAKAHGGFSV 178
>pdb|3OEH|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
Length = 484
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT + ++ NN F V
Sbjct: 159 IGLFGGAGVGKTVFIQELINNIAKAHGGFSV 189
>pdb|3FKS|D Chain D, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|E Chain E, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|F Chain F, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|M Chain M, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|N Chain N, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|O Chain O, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|V Chain V, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|W Chain W, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|X Chain X, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3OE7|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OEE|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OFN|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|E Chain E, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|F Chain F, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|M Chain M, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|N Chain N, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|O Chain O, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|V Chain V, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|W Chain W, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|X Chain X, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
Length = 484
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT + ++ NN F V
Sbjct: 159 IGLFGGAGVGKTVFIQELINNIAKAHGGFSV 189
>pdb|2HLD|D Chain D, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|E Chain E, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|F Chain F, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|M Chain M, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|N Chain N, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|O Chain O, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|V Chain V, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|W Chain W, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|X Chain X, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2WPD|D Chain D, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|2WPD|E Chain E, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|2WPD|F Chain F, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|3ZRY|D Chain D, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZRY|E Chain E, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZRY|F Chain F, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZIA|D Chain D, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|E Chain E, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|F Chain F, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|N Chain N, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|O Chain O, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|P Chain P, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
Length = 478
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT + ++ NN F V
Sbjct: 153 IGLFGGAGVGKTVFIQELINNIAKAHGGFSV 183
>pdb|4B2Q|E Chain E, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|F Chain F, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|EE Chain e, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|FF Chain f, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 473
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT + ++ NN F V
Sbjct: 148 IGLFGGAGVGKTVFIQELINNIAKAHGGFSV 178
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 44/98 (44%), Gaps = 5/98 (5%)
Query: 379 GFFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDLKALEKLRYLN 438
Q + SL +L L LS + L +++HLDLS ++TG D + K YLN
Sbjct: 469 NLLQMVGSLEILILSSCNLLSIDQQAFHGLRNVNHLDLSHNSLTGDSMDALSHLKGLYLN 528
Query: 439 LDHAYKLSIIPHKLKSGFSKLEALRL----LECGSGGV 472
+ + + IIP L S+ + L L+C +
Sbjct: 529 MA-SNNIRIIPPHLLPALSQQSIINLSHNPLDCTCSNI 565
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 26/87 (29%), Positives = 46/87 (52%), Gaps = 8/87 (9%)
Query: 357 IPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGIAN-LVSLHHLD 415
IPT +++ L LY+N I ++ G F ++ L L L N L+ L +G+ + L L L
Sbjct: 28 IPTTTQV--LYLYDNRITKLEPGVFDRLTQLTRLDLDNN-QLTVLPAGVFDKLTQLTQLS 84
Query: 416 LSSTNITGLPQ----DLKALEKLRYLN 438
L+ + +P+ +L++L + LN
Sbjct: 85 LNDNQLKSIPRGAFDNLRSLTHIWLLN 111
>pdb|1M9L|A Chain A, Relaxation-Based Refined Structure Of Chlamydomonas Outer
Arm Dynein Light Chain 1
Length = 199
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 62/150 (41%), Gaps = 31/150 (20%)
Query: 311 ACTVEKEKESFLVRAGIKLTEAPKVQEWEGAKRVSLMDNRILRLLEIPTCSRLITLLLYE 370
A T++ F R + TEA KV+ + MD L + C L L
Sbjct: 5 ATTIKDAIRIFEERKSVVATEAEKVELHGMIPPIEKMD---ATLSTLKACKHLA---LST 58
Query: 371 NWIEEITDGFFQPMSSLRVLALGRNFF------------LSKL---------RSGIANLV 409
N IE+I+ M +LR+L+LGRN L +L SGI LV
Sbjct: 59 NNIEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLV 116
Query: 410 SLHHLDLSSTNIT--GLPQDLKALEKLRYL 437
+L L +S+ IT G L AL+KL L
Sbjct: 117 NLRVLYMSNNKITNWGEIDKLAALDKLEDL 146
>pdb|1DS9|A Chain A, Solution Structure Of Chlamydomonas Outer Arm Dynein Light
Chain 1
Length = 198
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 62/150 (41%), Gaps = 31/150 (20%)
Query: 311 ACTVEKEKESFLVRAGIKLTEAPKVQEWEGAKRVSLMDNRILRLLEIPTCSRLITLLLYE 370
A T++ F R + TEA KV+ + MD L + C L L
Sbjct: 4 ATTIKDAIRIFEERKSVVATEAEKVELHGMIPPIEKMD---ATLSTLKACKHLA---LST 57
Query: 371 NWIEEITDGFFQPMSSLRVLALGRNFF------------LSKL---------RSGIANLV 409
N IE+I+ M +LR+L+LGRN L +L SGI LV
Sbjct: 58 NNIEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLV 115
Query: 410 SLHHLDLSSTNIT--GLPQDLKALEKLRYL 437
+L L +S+ IT G L AL+KL L
Sbjct: 116 NLRVLYMSNNKITNWGEIDKLAALDKLEDL 145
>pdb|2W6E|D Chain D, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
1.
pdb|2W6E|E Chain E, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
1.
pdb|2W6E|F Chain F, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
1.
pdb|2W6F|D Chain D, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
2.
pdb|2W6F|E Chain E, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
2.
pdb|2W6F|F Chain F, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
2.
pdb|2W6I|D Chain D, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4b.
pdb|2W6I|E Chain E, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4b.
pdb|2W6I|F Chain F, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4b.
pdb|2W6J|D Chain D, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
5.
pdb|2W6J|E Chain E, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
5.
pdb|2W6J|F Chain F, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
5.
pdb|2W6G|D Chain D, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
3.
pdb|2W6G|E Chain E, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
3.
pdb|2W6G|F Chain F, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
3.
pdb|2W6H|D Chain D, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4a.
pdb|2W6H|E Chain E, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4a.
pdb|2W6H|F Chain F, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4a
Length = 528
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 202 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 232
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 38/170 (22%), Positives = 70/170 (41%), Gaps = 33/170 (19%)
Query: 103 VLLLDDIWERIDLKEL---VSLFLTTRSVDVCDQMDAEKLEV---YSLANDEAWKLFQEM 156
+L+LDD+W+ LK + LTT V D + K V L ++ ++
Sbjct: 246 LLILDDVWDPWVLKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLF 305
Query: 157 VDRSTLGSHTSIPELAETLARECSGLPLALKTVGRAMKSQTKVGDWQRAIKKMRISASKF 216
V+ +P A ++ +EC G PL + +G ++ W +++++
Sbjct: 306 VNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALLRDFPN--RWAYYLRQLQ------ 353
Query: 217 TGMDEKVFSRLK--FSYDSLSTDELRSCLLYCCLYPKDYEIPRRELIDYW 264
K F R++ SYD + DE S + E+ R ++ DY+
Sbjct: 354 ----NKQFKRIRKSSSYDYEALDEAMSISV---------EMLREDIKDYY 390
>pdb|1NBM|D Chain D, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
pdb|1NBM|F Chain F, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
Length = 480
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 156 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 186
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 37/146 (25%), Positives = 61/146 (41%), Gaps = 3/146 (2%)
Query: 322 LVRAGIKLTEAPKVQEWEGAKRVSLMDNRILRLLEIPT--CSRLITLLLYENWIEEITDG 379
LV + ++ QE + D R IP+ + + +L L N I I G
Sbjct: 11 LVAITVLFSKRCSAQESLSCDASGVCDGRSRSFTSIPSGLTAAMKSLDLSFNKITYIGHG 70
Query: 380 FFQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGLPQD-LKALEKLRYLN 438
+ ++L+VL L + + +L SL HLDLS +++ L L L+YLN
Sbjct: 71 DLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLN 130
Query: 439 LDHAYKLSIIPHKLKSGFSKLEALRL 464
L ++ L + L+ LR+
Sbjct: 131 LMGNPYQTLGVTSLFPNLTNLQTLRI 156
Score = 29.6 bits (65), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 386 SLRVLALGRNFFLSKLRSG--IANLVSLHHLDLSSTNITGLPQDLKALEKLRYLNL 439
SL+ L L +N S ++G + L +L LD+S +P + EK+R+LNL
Sbjct: 388 SLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNL 443
>pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Covalently Inhibited
With 4-Chloro-7-Nitrobenzofurazan
Length = 480
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 156 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 186
>pdb|4ASU|D Chain D, F1-Atpase In Which All Three Catalytic Sites Contain Bound
Nucleotide, With Magnesium Ion Released In The Empty
Site
pdb|4ASU|E Chain E, F1-Atpase In Which All Three Catalytic Sites Contain Bound
Nucleotide, With Magnesium Ion Released In The Empty
Site
pdb|4ASU|F Chain F, F1-Atpase In Which All Three Catalytic Sites Contain Bound
Nucleotide, With Magnesium Ion Released In The Empty
Site
Length = 480
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 154 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 184
>pdb|1COW|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1COW|E Chain E, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1COW|F Chain F, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B
pdb|1EFR|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1EFR|E Chain E, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1EFR|F Chain F, Bovine Mitochondrial F1-Atpase Complexed With The Peptide
Antibiotic Efrapeptin
pdb|1BMF|D Chain D, Bovine Mitochondrial F1-Atpase
pdb|1BMF|E Chain E, Bovine Mitochondrial F1-Atpase
pdb|1BMF|F Chain F, Bovine Mitochondrial F1-Atpase
pdb|1QO1|D Chain D, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1QO1|E Chain E, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1QO1|F Chain F, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1E1Q|D Chain D, Bovine Mitochondrial F1-Atpase At 100k
pdb|1E1Q|E Chain E, Bovine Mitochondrial F1-Atpase At 100k
pdb|1E1Q|F Chain F, Bovine Mitochondrial F1-Atpase At 100k
pdb|1E1R|D Chain D, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1R|E Chain E, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E1R|F Chain F, Bovine Mitochondrial F1-Atpase Inhibited By Mg2+adp And
Aluminium Fluoride
pdb|1E79|E Chain E, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1E79|F Chain F, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1H8H|D Chain D, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1H8H|E Chain E, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1H8H|F Chain F, Bovine Mitochondrial F1-Atpase Crystallised In The
Presence Of 5mm Amppnp
pdb|1H8E|D Chain D, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1H8E|E Chain E, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1H8E|F Chain F, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|1OHH|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With The
Inhibitor Protein If1
pdb|1OHH|E Chain E, Bovine Mitochondrial F1-Atpase Complexed With The
Inhibitor Protein If1
pdb|1OHH|F Chain F, Bovine Mitochondrial F1-Atpase Complexed With The
Inhibitor Protein If1
pdb|1W0J|D Chain D, Beryllium Fluoride Inhibited Bovine F1-Atpase
pdb|1W0J|E Chain E, Beryllium Fluoride Inhibited Bovine F1-Atpase
pdb|1W0J|F Chain F, Beryllium Fluoride Inhibited Bovine F1-Atpase
pdb|1W0K|D Chain D, Beryllium Fluoride Inhibited Bovine F1-Atpase
pdb|1W0K|E Chain E, Beryllium Fluoride Inhibited Bovine F1-Atpase
pdb|1W0K|F Chain F, Beryllium Fluoride Inhibited Bovine F1-Atpase
pdb|2CK3|D Chain D, Azide Inhibited Bovine F1-Atpase
pdb|2CK3|E Chain E, Azide Inhibited Bovine F1-Atpase
pdb|2CK3|F Chain F, Azide Inhibited Bovine F1-Atpase
pdb|2JDI|D Chain D, Ground State Structure Of F1-Atpase From Bovine Heart
Mitochondria (Bovine F1-Atpase Crystallised In The
Absence Of Azide)
pdb|2JDI|E Chain E, Ground State Structure Of F1-Atpase From Bovine Heart
Mitochondria (Bovine F1-Atpase Crystallised In The
Absence Of Azide)
pdb|2JDI|F Chain F, Ground State Structure Of F1-Atpase From Bovine Heart
Mitochondria (Bovine F1-Atpase Crystallised In The
Absence Of Azide)
pdb|2JIZ|D Chain D, The Structure Of F1-Atpase Inhibited By Resveratrol.
pdb|2JIZ|E Chain E, The Structure Of F1-Atpase Inhibited By Resveratrol.
pdb|2JIZ|F Chain F, The Structure Of F1-Atpase Inhibited By Resveratrol.
pdb|2JIZ|K Chain K, The Structure Of F1-Atpase Inhibited By Resveratrol.
pdb|2JIZ|L Chain L, The Structure Of F1-Atpase Inhibited By Resveratrol.
pdb|2JIZ|M Chain M, The Structure Of F1-Atpase Inhibited By Resveratrol.
pdb|2JJ1|D Chain D, The Structure Of F1-Atpase Inhibited By Piceatannol.
pdb|2JJ1|E Chain E, The Structure Of F1-Atpase Inhibited By Piceatannol.
pdb|2JJ1|F Chain F, The Structure Of F1-Atpase Inhibited By Piceatannol.
pdb|2JJ1|K Chain K, The Structure Of F1-Atpase Inhibited By Piceatannol.
pdb|2JJ1|L Chain L, The Structure Of F1-Atpase Inhibited By Piceatannol.
pdb|2JJ1|M Chain M, The Structure Of F1-Atpase Inhibited By Piceatannol.
pdb|2JJ2|D Chain D, The Structure Of F1-atpase Inhibited By Quercetin.
pdb|2JJ2|E Chain E, The Structure Of F1-atpase Inhibited By Quercetin.
pdb|2JJ2|F Chain F, The Structure Of F1-atpase Inhibited By Quercetin.
pdb|2JJ2|K Chain K, The Structure Of F1-atpase Inhibited By Quercetin.
pdb|2JJ2|L Chain L, The Structure Of F1-atpase Inhibited By Quercetin.
pdb|2JJ2|M Chain M, The Structure Of F1-atpase Inhibited By Quercetin.
pdb|2V7Q|D Chain D, The Structure Of F1-Atpase Inhibited By I1-60his, A
Monomeric Form Of The Inhibitor Protein, If1.
pdb|2V7Q|E Chain E, The Structure Of F1-Atpase Inhibited By I1-60his, A
Monomeric Form Of The Inhibitor Protein, If1.
pdb|2V7Q|F Chain F, The Structure Of F1-Atpase Inhibited By I1-60his, A
Monomeric Form Of The Inhibitor Protein, If1.
pdb|2WSS|D Chain D, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|E Chain E, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|F Chain F, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|M Chain M, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|N Chain N, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|O Chain O, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|1E79|D Chain D, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
Length = 482
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 156 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 186
>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 = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 14/68 (20%)
Query: 384 MSSLRVLALGRNFF--------------LSKLRSGIANLVSLHHLDLSSTNITGLPQDLK 429
+S+L++ + N F L++L + I NL +L LDLS +T LP +L
Sbjct: 231 LSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELG 290
Query: 430 ALEKLRYL 437
+ +L+Y
Sbjct: 291 SCFQLKYF 298
>pdb|2XND|D Chain D, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp
Synthase
pdb|2XND|E Chain E, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp
Synthase
pdb|2XND|F Chain F, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp
Synthase
Length = 467
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 144 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 174
>pdb|1MAB|B Chain B, Rat Liver F1-Atpase
pdb|2F43|B Chain B, Rat Liver F1-atpase
Length = 479
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 152 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 182
>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|E Chain E, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|F Chain F, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
Length = 462
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 36 IGLYGTGGVGKTTILTQVNNNFCHQQHNFDV 66
IGL+G GVGKT ++ ++ NN + V
Sbjct: 147 IGLFGGAGVGKTVLIQELINNVAQEHGGLSV 177
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 42/162 (25%), Positives = 71/162 (43%), Gaps = 18/162 (11%)
Query: 374 EEITDGFFQPMSSLRV--LALGRNFFLSKLRSGIANLVSLHHLDLSSTNITGLPQDLKAL 431
E+I+ F+ + + V + L +++F + + L LDL++T+++ LP L L
Sbjct: 241 EDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGL 300
Query: 432 EKLRYLNLDHAYKLSIIPHKLKSGFSKLEALRL------LECGSGGVIEEEG----NVLC 481
L+ L L A K + S F L L + LE G+G + E ++
Sbjct: 301 STLKKLVLS-ANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSH 359
Query: 482 DDAEP---LMKELLGLKHLNVLSWSFRS--SLAVQKFFKYPK 518
DD E +L L HL L+ S+ SL + F + P+
Sbjct: 360 DDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQ 401
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 43/142 (30%), Positives = 61/142 (42%), Gaps = 12/142 (8%)
Query: 315 EKEKESFLVRAGIKLTEAPKVQEWEGAKRVSLMDNRI--LRLLEIPTCSRLITLLLYENW 372
E ES + + LT PK K +SL N I LR+ +I S L L L N
Sbjct: 29 SNELESMVDYSNRNLTHVPK-DLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR 87
Query: 373 IEEITDGFFQPMSSLRVLALGRNFFLSKLRS-GIANLVSLHHLDLSSTNITGLP--QDLK 429
I + F L L + N +L++ + SL HLDLS + LP ++
Sbjct: 88 IRSLDFHVFLFNQDLEYLDVSHN----RLQNISCCPMASLRHLDLSFNDFDVLPVCKEFG 143
Query: 430 ALEKLRYLNLDHA--YKLSIIP 449
L KL +L L A +L ++P
Sbjct: 144 NLTKLTFLGLSAAKFRQLDLLP 165
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 39/74 (52%), Gaps = 9/74 (12%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRS----GIANLVSLH---- 412
S L+TL L +N I +I +G F + LR+L LG N KL G+ N+ ++
Sbjct: 381 SPLLTLNLTKNHISKIANGTFSWLGQLRILDLGLNEIEQKLSGQEWRGLRNIFEIYLSYN 440
Query: 413 -HLDLSSTNITGLP 425
+L LS+++ +P
Sbjct: 441 KYLQLSTSSFALVP 454
>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 = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 384 MSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITG-LPQDLKALEKLRYLNLDHA 442
M L +L LG N + + +L L+ LDLSS + G +PQ + AL L ++L +
Sbjct: 655 MPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNN 714
Query: 443 YKLSIIP 449
IP
Sbjct: 715 NLSGPIP 721
>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5
Length = 187
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 17 LLLYRVWRCITDQEKNRRIIGLYGTGGVGKTTILTQVNNN 56
+L R+WR QE I+GL GKTTIL Q + N
Sbjct: 3 ILFTRIWRLFNHQEHKVIIVGL---DNAGKTTILYQFSMN 39
>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 = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 384 MSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSSTNITG-LPQDLKALEKLRYLNLDHA 442
M L +L LG N + + +L L+ LDLSS + G +PQ + AL L ++L +
Sbjct: 652 MPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNN 711
Query: 443 YKLSIIP 449
IP
Sbjct: 712 NLSGPIP 718
>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5
pdb|1Z6Y|B Chain B, Structure Of Human Adp-Ribosylation Factor-Like 5
Length = 179
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 17 LLLYRVWRCITDQEKNRRIIGLYGTGGVGKTTILTQVNNN 56
+L R+WR QE I+GL GKTTIL Q + N
Sbjct: 3 ILFTRIWRLFNHQEHKVIIVGL---DNAGKTTILYQFSMN 39
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 53/120 (44%), Gaps = 3/120 (2%)
Query: 348 DNRILRLLEIPT--CSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRNFFLSKLRSGI 405
D R IP+ + + +L L N I I G + ++L+VL L + +
Sbjct: 11 DGRSRSFTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAF 70
Query: 406 ANLVSLHHLDLSSTNITGLPQD-LKALEKLRYLNLDHAYKLSIIPHKLKSGFSKLEALRL 464
+L SL HLDLS +++ L L L+YLNL ++ L + L+ LR+
Sbjct: 71 YSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRI 130
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 386 SLRVLALGRNFFLSKLRSG--IANLVSLHHLDLSSTNITGLPQDLKALEKLRYLNL 439
SL+ L L +N S ++G + L +L LD+S +P + EK+R+LNL
Sbjct: 362 SLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNL 417
>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 = 29.6 bits (65), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 42/100 (42%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVLA------------------------LGRNF 396
S L TL+L N I+ + G F +SSL+ L + N
Sbjct: 76 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 135
Query: 397 FLS-KLRSGIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
S KL +NL +L HLDLSS I + DL+ L ++
Sbjct: 136 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 175
>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 = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVL-------ALGRNFFLSKLRS---------- 403
S L TL+L N I+ + G F +SSL+ L A NF + L++
Sbjct: 78 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 137
Query: 404 --------GIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
+NL +L HLDLSS I + DL+ L ++
Sbjct: 138 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 177
>pdb|1GS0|A Chain A, Crystal Structure Of The Catalytic Fragment Of Murine Poly
(Adp-Ribose) Polymerase-2
pdb|1GS0|B Chain B, Crystal Structure Of The Catalytic Fragment Of Murine Poly
(Adp-Ribose) Polymerase-2
Length = 351
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 244 LYCCLYPKDYEIPRRELIDYWISEGFVDDFNDGCEFINDLLHACLLEEEGDDHVKMHDMI 303
L+C L P D+E ++I ++ D + LL +E+EG+ D+
Sbjct: 135 LHCALRPLDHESNEFKVISQYLQSTHAPTHKD---YTMTLLDVFEVEKEGEKEAFREDLP 191
Query: 304 REMLLW 309
MLLW
Sbjct: 192 NRMLLW 197
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVL-------ALGRNFFLSKLRS---------- 403
S L TL+L N I+ + G F +SSL+ L A NF + L++
Sbjct: 77 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 136
Query: 404 --------GIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
+NL +L HLDLSS I + DL+ L ++
Sbjct: 137 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 176
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVL-------ALGRNFFLSKLRS---------- 403
S L TL+L N I+ + G F +SSL+ L A NF + L++
Sbjct: 77 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 136
Query: 404 --------GIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
+NL +L HLDLSS I + DL+ L ++
Sbjct: 137 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 176
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 29.6 bits (65), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVL-------ALGRNFFLSKLRS---------- 403
S L TL+L N I+ + G F +SSL+ L A NF + L++
Sbjct: 78 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVALETNLASLENFPIGHLKTLKELNVAHNL 137
Query: 404 --------GIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
+NL +L HLDLSS I + DL+ L ++
Sbjct: 138 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 177
>pdb|1A9N|A Chain A, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
pdb|1A9N|C Chain C, Crystal Structure Of The Spliceosomal U2b''-U2a' Protein
Complex Bound To A Fragment Of U2 Small Nuclear Rna
Length = 176
Score = 29.3 bits (64), Expect = 7.0, Method: Composition-based stats.
Identities = 19/52 (36%), Positives = 24/52 (46%)
Query: 344 VSLMDNRILRLLEIPTCSRLITLLLYENWIEEITDGFFQPMSSLRVLALGRN 395
+ DN I +L P RL TLL+ N I I +G Q + L L L N
Sbjct: 47 IDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN 98
>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 = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 393 GRNFFLSKLRSGIANLVSLHHLDLSSTNITG-LPQDLKALEKLRYLNLDHAYKLSIIPHK 451
G N + + IA L LH+L ++ TN++G +P L ++ L L+ + +P
Sbjct: 85 GINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPS 144
Query: 452 LKS 454
+ S
Sbjct: 145 ISS 147
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 28.9 bits (63), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 26/100 (26%)
Query: 361 SRLITLLLYENWIEEITDGFFQPMSSLRVL-------ALGRNFFLSKLRS---------- 403
S L TL+L N I+ + G F +SSL+ L A NF + L++
Sbjct: 76 SHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNL 135
Query: 404 --------GIANLVSLHHLDLSSTNITGL-PQDLKALEKL 434
+NL +L HLDLSS I + DL+ L ++
Sbjct: 136 IQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 175
>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 = 28.9 bits (63), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 31 KNRRIIGLYGTGGVGKTTIL 50
KN I+G+ G GVGKTT+L
Sbjct: 23 KNNTILGVLGKNGVGKTTVL 42
>pdb|1EHA|A Chain A, Crystal Structure Of Glycosyltrehalose Trehalohydrolase
From Sulfolobus Solfataricus
Length = 558
Score = 28.9 bits (63), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 15/69 (21%)
Query: 227 LKFSYDSLSTDELRSCLLYCCLYPKDYEIPRRELIDYWISEGFVDDFN-DGCEFINDLLH 285
L F++D +DE+R +L E ++YWI E VD F D I D
Sbjct: 217 LTFNFDDAESDEVRKFIL--------------ENVEYWIKEYNVDGFRLDAVHAIIDTSP 262
Query: 286 ACLLEEEGD 294
+LEE D
Sbjct: 263 KHILEEIAD 271
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 28.9 bits (63), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 45/98 (45%), Gaps = 7/98 (7%)
Query: 326 GIKLTEAPKVQEWEGAKRVSLMD---NRILRL--LEIPTCSRLITLLLYENWIEEITDGF 380
G + T PK E K ++L+D NRI L ++L+TL+L N + I
Sbjct: 40 GNQFTLVPK--ELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRT 97
Query: 381 FQPMSSLRVLALGRNFFLSKLRSGIANLVSLHHLDLSS 418
F + SLR+L+L N +L +L HL + +
Sbjct: 98 FDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGA 135
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 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,649,211
Number of Sequences: 62578
Number of extensions: 858554
Number of successful extensions: 2680
Number of sequences better than 100.0: 86
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 57
Number of HSP's that attempted gapping in prelim test: 2597
Number of HSP's gapped (non-prelim): 128
length of query: 693
length of database: 14,973,337
effective HSP length: 106
effective length of query: 587
effective length of database: 8,340,069
effective search space: 4895620503
effective search space used: 4895620503
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: 55 (25.8 bits)