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= 002569
(906 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 46/154 (29%), Positives = 82/154 (53%), Gaps = 13/154 (8%)
Query: 505 LTEAPADVRGWEIVRRLSLMRNSIDNLPTVPTCPHLLT----LFLNRNPLRTITGGFFQS 560
LT P+++ ++L L N + +LP+ H LT L+LN N L+T+ G F+
Sbjct: 28 LTAIPSNIPA--DTKKLDLQSNKLSSLPS--KAFHRLTKLRLLYLNDNKLQTLPAGIFKE 83
Query: 561 MSCLTVLKMSDNETLRQLPMGI-SKLVSLQLLDISKTSVVELPEEL-KALVNLKCLNLDW 618
+ L L ++DN+ L+ LP+G+ +LV+L L + + + LP + +L L L+L +
Sbjct: 84 LKNLETLWVTDNK-LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGY 142
Query: 619 AKELVVVPQQLLSNFSRLRVLRMFAIGV-RSPYG 651
EL +P+ + + L+ LR++ + R P G
Sbjct: 143 -NELQSLPKGVFDKLTSLKELRLYNNQLKRVPEG 175
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 43.9 bits (102), Expect = 4e-04, Method: Composition-based stats.
Identities = 36/130 (27%), Positives = 63/130 (48%), Gaps = 9/130 (6%)
Query: 497 FLVYAGSGLTEAPADV-RGWEIVRRLSLMRNSIDNLP--TVPTCPHLLTLFLNRNPLRTI 553
+L+ G+ L P V ++ L L+ N + +LP +L L+L N L+++
Sbjct: 89 YLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSL 148
Query: 554 TGGFFQSMSCLTVLKMSDNETLRQLPMGI-SKLVSLQLLDISKTSVVELP----EELKAL 608
G F ++ LT L + DN L+ LP G+ KL L+ L ++ + +P + L +L
Sbjct: 149 PKGVFDKLTNLTRLDL-DNNQLQSLPEGVFDKLTQLKQLSLNDNQLKSVPDGVFDRLTSL 207
Query: 609 VNLKCLNLDW 618
++ LN W
Sbjct: 208 THIWLLNNPW 217
>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 = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 65/140 (46%), Gaps = 8/140 (5%)
Query: 504 GLTEAPADVRGWEIVRRLSLMRNSIDNLPT--VPTCPHLLTLFLNRNPLRTITGGFFQSM 561
G T P + L L NS+ +LP L L+L N L+++ G F +
Sbjct: 18 GRTSVPTGIPAQTTY--LDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKL 75
Query: 562 SCLTVLKMSDNETLRQLPMGI-SKLVSLQLLDISKTSVVELPEEL-KALVNLKCLNLDWA 619
+ LT L +S N+ L+ LP G+ KL L+ L ++ + LP+ + L LK L L +
Sbjct: 76 TSLTYLNLSTNQ-LQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRL-YQ 133
Query: 620 KELVVVPQQLLSNFSRLRVL 639
+L VP + + L+ +
Sbjct: 134 NQLKSVPDGVFDRLTSLQYI 153
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 3/102 (2%)
Query: 543 LFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGI-SKLVSLQLLDISKTSVVEL 601
L+L N L + G F S++ LTVL + N+ L LP + +LV L+ L + + EL
Sbjct: 69 LYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ-LTVLPSAVFDRLVHLKELFMCCNKLTEL 127
Query: 602 PEELKALVNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFA 643
P ++ L +L L LD +L +P S L +F
Sbjct: 128 PRGIERLTHLTHLALD-QNQLKSIPHGAFDRLSSLTHAYLFG 168
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 50/169 (29%), Positives = 80/169 (47%), Gaps = 10/169 (5%)
Query: 518 VRRLSLMRNSIDNLPT--VPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETL 575
R L L +N I L + PHL L LN N + + G F ++ L L + N L
Sbjct: 34 TRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNR-L 92
Query: 576 RQLPMGI-SKLVSLQLLDISKTSVVELPEEL-KALVNLKCLNLDWAKELVVVPQQLLSNF 633
+ +P+G+ + L +L LDIS+ +V L + + + L NLK L + +LV + + S
Sbjct: 93 KLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVG-DNDLVYISHRAFSGL 151
Query: 634 SRLRVLRMFAIGVRS-PYGLSSSWHENVAEELLGLKYLEVLEITFRSFK 681
+ L L + + S P S H + +L L++L + I SFK
Sbjct: 152 NSLEQLTLEKCNLTSIPTEALSHLHGLI---VLRLRHLNINAIRDYSFK 197
>pdb|2WQX|A Chain A, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQX|B Chain B, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
Length = 289
Score = 39.3 bits (90), Expect = 0.010, Method: Composition-based stats.
Identities = 32/108 (29%), Positives = 54/108 (50%), Gaps = 6/108 (5%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ R +P+ ++L
Sbjct: 120 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQIRRIVPL--ARL 175
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNLDWAKELVVVPQQLLSNF 633
LQ L +SK + +L L+ L NL L L +++E + P SN
Sbjct: 176 TKLQNLYLSKNHISDL-RALRGLKNLDVLEL-FSQEALNKPINHQSNL 221
>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 = 37.7 bits (86), Expect = 0.026, Method: Composition-based stats.
Identities = 30/98 (30%), Positives = 51/98 (52%), Gaps = 9/98 (9%)
Query: 527 SIDNLPT-VPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGI-SK 584
S+ ++PT +PT +L L+ N+ + + G F ++ LT L + DN L LP G+ K
Sbjct: 28 SLASVPTGIPTTTQVLYLYDNQ--ITKLEPGVFDRLTQLTRLDL-DNNQLTVLPAGVFDK 84
Query: 585 LVSLQLLDISKTSVVELP----EELKALVNLKCLNLDW 618
L L L ++ + +P + LK+L ++ LN W
Sbjct: 85 LTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWLLNNPW 122
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 37.7 bits (86), Expect = 0.027, Method: Composition-based stats.
Identities = 30/98 (30%), Positives = 51/98 (52%), Gaps = 9/98 (9%)
Query: 527 SIDNLPT-VPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGI-SK 584
S+ ++PT +PT +L L+ N+ + + G F ++ LT L + DN L LP G+ K
Sbjct: 20 SLASVPTGIPTTTQVLYLYDNQ--ITKLEPGVFDRLTQLTRLDL-DNNQLTVLPAGVFDK 76
Query: 585 LVSLQLLDISKTSVVELP----EELKALVNLKCLNLDW 618
L L L ++ + +P + LK+L ++ LN W
Sbjct: 77 LTQLTQLSLNDNQLKSIPRGAFDNLKSLTHIWLLNNPW 114
>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 = 37.4 bits (85), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 60/136 (44%), Gaps = 15/136 (11%)
Query: 251 EKAQDIFKTLSKKKF---VLLLDDLWERVDLKKVGVPLPKNSAVVFTTRFVDVCGG-MEA 306
E+A+D + L +K +L+LDD+W+ LK ++ TTR V M
Sbjct: 227 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLK----AFDSQCQILLTTRDKSVTDSVMGP 282
Query: 307 RRKFKVEC-LSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMA 365
+ VE L E E+ V + + +PE A ++ EC G PL + IG +
Sbjct: 283 KYVVPVESSLGKEKGLEILSLFVNMKKAD----LPEQAHSIIKECKGSPLVVSLIGALL- 337
Query: 366 YKKTPEEWRYAIEVLR 381
+ P W Y ++ L+
Sbjct: 338 -RDFPNRWEYYLKQLQ 352
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 83/195 (42%), Gaps = 22/195 (11%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKLVSLQLLDISKTS 597
P L L N + I G F+++ L L + +N+ + P + LV L+ L +SK
Sbjct: 52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 111
Query: 598 VVELPEEL-KALVNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSW 656
+ ELPE++ K L L+ E+ V + + + +++ V+ + G L SS
Sbjct: 112 LKELPEKMPKTLQELRV----HENEITKVRKSVFNGLNQMIVVEL---GTNP---LKSSG 161
Query: 657 HENVAEELLGLKYLEVLEITFRSFKAYQTFLSSQKLRSCTQALLLDEFDREESIDVADLA 716
EN A + G+K L + I + Q L L LD I D A
Sbjct: 162 IENGAFQ--GMKKLSYIRIADTNITTI-----PQGLPPSLTELHLD----GNKITKVDAA 210
Query: 717 DLEQLNTLSFVGCDW 731
L+ LN L+ +G +
Sbjct: 211 SLKGLNNLAKLGLSF 225
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 83/195 (42%), Gaps = 22/195 (11%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKLVSLQLLDISKTS 597
P L L N + I G F+++ L L + +N+ + P + LV L+ L +SK
Sbjct: 52 PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 111
Query: 598 VVELPEEL-KALVNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSW 656
+ ELPE++ K L L+ E+ V + + + +++ V+ + G L SS
Sbjct: 112 LKELPEKMPKTLQELRV----HENEITKVRKSVFNGLNQMIVVEL---GTNP---LKSSG 161
Query: 657 HENVAEELLGLKYLEVLEITFRSFKAYQTFLSSQKLRSCTQALLLDEFDREESIDVADLA 716
EN A + G+K L + I + Q L L LD I D A
Sbjct: 162 IENGAFQ--GMKKLSYIRIADTNITTI-----PQGLPPSLTELHLD----GNKITKVDAA 210
Query: 717 DLEQLNTLSFVGCDW 731
L+ LN L+ +G +
Sbjct: 211 SLKGLNNLAKLGLSF 225
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 37.4 bits (85), Expect = 0.042, Method: Composition-based stats.
Identities = 37/121 (30%), Positives = 56/121 (46%), Gaps = 10/121 (8%)
Query: 502 GSGLTEAPADV---RGWEIVRRLSLMRNSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFF 558
G GL E P D+ ++ L R S D L PHL+ L L RN L I F
Sbjct: 17 GRGLKEIPRDIPLHTTELLLNDNELGRISSDGL--FGRLPHLVKLELKRNQLTGIEPNAF 74
Query: 559 QSMSCLTVLKMSDN---ETLRQLPMGISKLVSLQLLDISKTSVVELPEELKALVNLKCLN 615
+ S + L++ +N E ++ +G+ +L +L L D + V +P + L +L LN
Sbjct: 75 EGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCV--MPGSFEHLNSLTSLN 132
Query: 616 L 616
L
Sbjct: 133 L 133
>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 = 37.0 bits (84), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 60/136 (44%), Gaps = 15/136 (11%)
Query: 251 EKAQDIFKTLSKKKF---VLLLDDLWERVDLKKVGVPLPKNSAVVFTTRFVDVCGG-MEA 306
E+A+D + L +K +L+LDD+W+ LK ++ TTR V M
Sbjct: 221 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLK----AFDSQCQILLTTRDKSVTDSVMGP 276
Query: 307 RRKFKVEC-LSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMA 365
+ VE L E E+ V + + +PE A ++ EC G PL + IG +
Sbjct: 277 KYVVPVESSLGKEKGLEILSLFVNMKKAD----LPEQAHSIIKECKGSPLVVSLIGALL- 331
Query: 366 YKKTPEEWRYAIEVLR 381
+ P W Y ++ L+
Sbjct: 332 -RDFPNRWEYYLKQLQ 346
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 37.0 bits (84), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 70/149 (46%), Gaps = 9/149 (6%)
Query: 497 FLVYAGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPTVP---TCPHLLTLFLNRNPLRTI 553
+L + +G+ ++ G E + L +++ + + +L+ L ++ R
Sbjct: 377 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 436
Query: 554 TGGFFQSMSCLTVLKMSDNETLRQ-LPMGISKLVSLQLLDISKTSVVEL-PEELKALVNL 611
G F +S L VLKM+ N LP ++L +L LD+S+ + +L P +L +L
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 496
Query: 612 KCLNLDWAKELVVVPQQLLSNFSRLRVLR 640
+ LN+ + +L VP + F RL L+
Sbjct: 497 QVLNM-ASNQLKSVPDGI---FDRLTSLQ 521
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 105
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 106 --VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 649 PY 650
Y
Sbjct: 164 IY 165
>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 = 0.094, Method: Compositional matrix adjust.
Identities = 47/185 (25%), Positives = 81/185 (43%), Gaps = 17/185 (9%)
Query: 539 HLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKTS 597
HL L L+RN +RTI G F ++ L L++ DN L +P G L L+ L +
Sbjct: 89 HLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNR-LTTIPNGAFVYLSKLKELWLRNNP 147
Query: 598 VVELPE-ELKALVNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSW 656
+ +P + +L+ L+L K L + + S LR L + +R L+
Sbjct: 148 IESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLT--- 204
Query: 657 HENVAEELLGLKYLEVLEITFRSFK--AYQTFLSSQKL---RSCTQALLLDEFDREESID 711
L+ L L++ + + ++Q + QKL +S Q + + FD +S+
Sbjct: 205 ------PLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLV 258
Query: 712 VADLA 716
+LA
Sbjct: 259 EINLA 263
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 51/103 (49%), Gaps = 6/103 (5%)
Query: 504 GLTEAPADVRGWEIVRRLSLMRNSIDNLP--TVPTCPHLLTLFLNRNPLRTITGGFFQSM 561
GLT P + RL L N + +LP L L L++N ++++ G F +
Sbjct: 18 GLTSVPTGIP--SSATRLELESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKL 75
Query: 562 SCLTVLKMSDNETLRQLPMGI-SKLVSLQLLDISKTSVVELPE 603
+ LT+L + +N+ L+ LP G+ KL L+ L + + +P+
Sbjct: 76 TKLTILYLHENK-LQSLPNGVFDKLTQLKELALDTNQLKSVPD 117
>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 = 35.0 bits (79), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 30/125 (24%), Positives = 59/125 (47%), Gaps = 5/125 (4%)
Query: 497 FLVYAGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPTVP---TCPHLLTLFLNRNPLRTI 553
+L + +G+ ++ G E + L +++ + + +L+ L ++ R
Sbjct: 401 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 460
Query: 554 TGGFFQSMSCLTVLKMSDNETLRQ-LPMGISKLVSLQLLDISKTSVVEL-PEELKALVNL 611
G F +S L VLKM+ N LP ++L +L LD+S+ + +L P +L +L
Sbjct: 461 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 520
Query: 612 KCLNL 616
+ LN+
Sbjct: 521 QVLNM 525
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 76 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 129
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 130 --VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 187
Query: 649 PY 650
Y
Sbjct: 188 IY 189
>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
Length = 251
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 6/87 (6%)
Query: 521 LSLMRNSIDNLPTVPTCPHLLTL---FLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQ 577
L L N + +LP + HL L +L N L+++ G F ++ L L+++ N+ L+
Sbjct: 88 LGLANNQLASLP-LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQS 145
Query: 578 LPMG-ISKLVSLQLLDISKTSVVELPE 603
+P G KL +LQ L +S + +P
Sbjct: 146 IPAGAFDKLTNLQTLSLSTNQLQSVPH 172
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 45/87 (51%), Gaps = 6/87 (6%)
Query: 521 LSLMRNSIDNLPTVPTCPHLLTL---FLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQ 577
L L N + +LP + HL L +L N L+++ G F ++ L L+++ N+ L+
Sbjct: 88 LGLANNQLASLP-LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQ-LQS 145
Query: 578 LPMG-ISKLVSLQLLDISKTSVVELPE 603
+P G KL +LQ L +S + +P
Sbjct: 146 IPAGAFDKLTNLQTLSLSTNQLQSVPH 172
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 2/86 (2%)
Query: 518 VRRLSLMRNSIDNLP--TVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETL 575
+++L + N+I LP P L L L RN L ++ G F + LT L MS+N
Sbjct: 101 IQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLE 160
Query: 576 RQLPMGISKLVSLQLLDISKTSVVEL 601
R SLQ L +S + +
Sbjct: 161 RIEDDTFQATTSLQNLQLSSNRLTHV 186
>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 = 34.7 bits (78), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 30/125 (24%), Positives = 59/125 (47%), Gaps = 5/125 (4%)
Query: 497 FLVYAGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPTVP---TCPHLLTLFLNRNPLRTI 553
+L + +G+ ++ G E + L +++ + + +L+ L ++ R
Sbjct: 377 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 436
Query: 554 TGGFFQSMSCLTVLKMSDNETLRQ-LPMGISKLVSLQLLDISKTSVVEL-PEELKALVNL 611
G F +S L VLKM+ N LP ++L +L LD+S+ + +L P +L +L
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 496
Query: 612 KCLNL 616
+ LN+
Sbjct: 497 QVLNM 501
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQ------- 103
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
+V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 649 PY 650
Y
Sbjct: 164 IY 165
>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 = 0.46, Method: Compositional matrix adjust.
Identities = 30/125 (24%), Positives = 59/125 (47%), Gaps = 5/125 (4%)
Query: 497 FLVYAGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPTVP---TCPHLLTLFLNRNPLRTI 553
+L + +G+ ++ G E + L +++ + + +L+ L ++ R
Sbjct: 82 YLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 141
Query: 554 TGGFFQSMSCLTVLKMSDNETLRQ-LPMGISKLVSLQLLDISKTSVVEL-PEELKALVNL 611
G F +S L VLKM+ N LP ++L +L LD+S+ + +L P +L +L
Sbjct: 142 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSL 201
Query: 612 KCLNL 616
+ LN+
Sbjct: 202 QVLNM 206
>pdb|1H6T|A Chain A, Internalin B: Crystal Structure Of Fused N-Terminal
Domains
Length = 291
Score = 33.9 bits (76), Expect = 0.47, Method: Composition-based stats.
Identities = 31/108 (28%), Positives = 51/108 (47%), Gaps = 6/108 (5%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ + L
Sbjct: 122 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AGL 177
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNLDWAKELVVVPQQLLSNF 633
LQ L +SK + +L L L NL L L +++E + P SN
Sbjct: 178 TKLQNLYLSKNHISDL-RALAGLKNLDVLEL-FSQECLNKPINHQSNL 223
>pdb|2UZX|A Chain A, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Crystal Form I
pdb|2UZX|C Chain C, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Crystal Form I
pdb|2UZY|A Chain A, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Low Resolution, Crystal Form Ii
pdb|2UZY|C Chain C, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Low Resolution, Crystal Form Ii
pdb|2WQU|A Chain A, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|B Chain B, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|C Chain C, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|D Chain D, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|E Chain E, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|F Chain F, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQV|A Chain A, Internalin Domain Of Listeria Monocytogenes Inlb:
Rhombohedral Crystal Form
pdb|2WQV|B Chain B, Internalin Domain Of Listeria Monocytogenes Inlb:
Rhombohedral Crystal Form
Length = 289
Score = 33.5 bits (75), Expect = 0.49, Method: Composition-based stats.
Identities = 31/108 (28%), Positives = 51/108 (47%), Gaps = 6/108 (5%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ + L
Sbjct: 120 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AGL 175
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNLDWAKELVVVPQQLLSNF 633
LQ L +SK + +L L L NL L L +++E + P SN
Sbjct: 176 TKLQNLYLSKNHISDL-RALAGLKNLDVLEL-FSQECLNKPINHQSNL 221
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 33.5 bits (75), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 38/88 (43%), Gaps = 2/88 (2%)
Query: 516 EIVRRLSLMRNSIDNLP--TVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNE 573
+++L + N+I LP P L L L RN L ++ G F + LT L MS+N
Sbjct: 93 HTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNN 152
Query: 574 TLRQLPMGISKLVSLQLLDISKTSVVEL 601
R SLQ L +S + +
Sbjct: 153 LERIEDDTFQATTSLQNLQLSSNRLTHV 180
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 57/136 (41%), Gaps = 15/136 (11%)
Query: 251 EKAQDIFKTLSKKKF---VLLLDDLWERVDLKKVGVPLPKNSAVVFTTRFVDVCGG-MEA 306
E+A+D + L +K +L+LDD+W+ LK ++ TTR V M
Sbjct: 221 EEAKDRLRVLMLRKHPRSLLILDDVWDPWVLK----AFDNQCQILLTTRDKSVTDSVMGP 276
Query: 307 RRKFKVEC-LSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMA 365
+ VE L E E+ V + +P A ++ EC G PL + IG +
Sbjct: 277 KHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALL- 331
Query: 366 YKKTPEEWRYAIEVLR 381
+ P W Y + L+
Sbjct: 332 -RDFPNRWAYYLRQLQ 346
>pdb|1OTM|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 33.1 bits (74), Expect = 0.63, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 8/91 (8%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ + L
Sbjct: 140 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AGL 195
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNL 616
LQ L +SK + +L+AL LK L++
Sbjct: 196 TKLQNLYLSKNHI----SDLRALAGLKNLDV 222
>pdb|1OTN|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 33.1 bits (74), Expect = 0.66, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 8/91 (8%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ + L
Sbjct: 140 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AGL 195
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNL 616
LQ L +SK + +L+AL LK L++
Sbjct: 196 TKLQNLYLSKNHI----SDLRALAGLKNLDV 222
>pdb|1OTO|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 33.1 bits (74), Expect = 0.66, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 8/91 (8%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ + L
Sbjct: 140 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AGL 195
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNL 616
LQ L +SK + +L+AL LK L++
Sbjct: 196 TKLQNLYLSKNHI----SDLRALAGLKNLDV 222
>pdb|1M9S|A Chain A, Crystal Structure Of Internalin B (Inlb), A Listeria
Monocytogenes Virulence Protein Containing Sh3-Like
Domains
Length = 605
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 525 RNSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISK 584
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ +
Sbjct: 118 HNGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AG 173
Query: 585 LVSLQLLDISKTSVVELPEELKALVNLKCLNL 616
L LQ L +SK + +L+AL LK L++
Sbjct: 174 LTKLQNLYLSKNHI----SDLRALAGLKNLDV 201
>pdb|1D0B|A Chain A, Internalin B Leucine Rich Repeat Domain
Length = 213
Score = 32.7 bits (73), Expect = 0.88, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 8/91 (8%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ + L
Sbjct: 117 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AGL 172
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNL 616
LQ L +SK + +L+AL LK L++
Sbjct: 173 TKLQNLYLSKNHI----SDLRALAGLKNLDV 199
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 54 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 107
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V L L +L N +L KEL V + SN + L L + + ++S
Sbjct: 108 --VALETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 165
Query: 649 PY 650
Y
Sbjct: 166 IY 167
>pdb|2WQW|A Chain A, Double-Disulfide Cross-Linked Crystal Dimer Of The
Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQW|B Chain B, Double-Disulfide Cross-Linked Crystal Dimer Of The
Listeria Monocytogenes Inlb Internalin Domain
Length = 286
Score = 32.7 bits (73), Expect = 0.97, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 526 NSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKL 585
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ L
Sbjct: 117 NGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPLAC--L 172
Query: 586 VSLQLLDISKTSVVELPEELKALVNLKCLNL 616
LQ L +SK + +L+AL LK L++
Sbjct: 173 TKLQNLYLSKNHI----SDLRALCGLKNLDV 199
>pdb|1SQD|A Chain A, Structural Basis For Inhibitor Selectivity Revealed By
Crystal Structures Of Plant And Mammalian 4-
Hydroxyphenylpyruvate Dioxygenases
pdb|1TFZ|A Chain A, Structural Basis For Herbicidal Inhibitor Selectivity
Revealed By Comparison Of Crystal Structures Of Plant
And Mammalian 4- Hydroxyphenylpyruvate Dioxygenases
pdb|1TG5|A Chain A, Crystal Structures Of Plant 4-Hydroxyphenylpyruvate
Dioxygenases Complexed With Das645
Length = 424
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%)
Query: 34 DNVVALETELEQLIAAKNDVMTRVLNSEHQHKMKRLNQVQVWLSRVETLKTEVDELMGRD 93
D+V E+ L + A ND M + +E H KR +Q+Q +L E + LM D
Sbjct: 235 DDVGTAESGLNSAVLASNDEMVLLPINEPVHGTKRKSQIQTYLEHNEGAGLQHLALMSED 294
>pdb|1SP9|A Chain A, 4-hydroxyphenylpyruvate Dioxygenase
pdb|1SP9|B Chain B, 4-hydroxyphenylpyruvate Dioxygenase
Length = 445
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%)
Query: 34 DNVVALETELEQLIAAKNDVMTRVLNSEHQHKMKRLNQVQVWLSRVETLKTEVDELMGRD 93
D+V E+ L + A ND M + +E H KR +Q+Q +L E + LM D
Sbjct: 256 DDVGTAESGLNSAVLASNDEMVLLPINEPVHGTKRKSQIQTYLEHNEGAGLQHLALMSED 315
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 47/181 (25%), Positives = 74/181 (40%), Gaps = 27/181 (14%)
Query: 559 QSMSCLTVLKMSDNETLRQLPMGISKLVSLQLLDISK-TSVVELPEEL---------KAL 608
Q + L L ++ N LR LP I+ L L+ L I + ELPE L + L
Sbjct: 124 QQFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGL 182
Query: 609 VNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSWHENVAEELLGLK 668
VNL+ L L+W + L ++ + L+ L+ I L + H L
Sbjct: 183 VNLQSLRLEWTGI-----RSLPASIANLQNLKSLKIRNSPLSALGPAIHH--------LP 229
Query: 669 YLEVLEITFRSFKAYQTFLSSQKLRSCTQALLLDEFDREESIDVADLADLEQLNTLSFVG 728
LE E+ R A + + R+ + L+L + ++ + D+ L QL L G
Sbjct: 230 KLE--ELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPL-DIHRLTQLEKLDLRG 286
Query: 729 C 729
C
Sbjct: 287 C 287
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 10/84 (11%)
Query: 542 TLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISK---------LVSLQLLD 592
TL L RNPLR + S++ L L + L +LP ++ LV+LQ L
Sbjct: 131 TLTLARNPLRALPASI-ASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLR 189
Query: 593 ISKTSVVELPEELKALVNLKCLNL 616
+ T + LP + L NLK L +
Sbjct: 190 LEWTGIRSLPASIANLQNLKSLKI 213
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 564 LTVLKMSDNETLRQLPMGISKLVSLQLLDISKTSVVELPEELKALVNLK 612
LT L ++ N +L +LP I L +L++LD+S + LP EL + LK
Sbjct: 249 LTRLYLNGN-SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLK 296
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 518 VRRLSLMRNSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCL 564
++ L + RN + LP P LL L ++RN L+++ G F ++ L
Sbjct: 453 LKELYISRNKLMTLPDASLLPMLLVLKISRNQLKSVPDGIFDRLTSL 499
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 76/198 (38%), Gaps = 45/198 (22%)
Query: 490 IEKEKEGFLVYAGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPT--VPTCPHLLTLFLNR 547
I K G L SGLTEA V+ L L N I + + C +L L L
Sbjct: 9 ICKGSSGSLNSIPSGLTEA---------VKSLDLSNNRITYISNSDLQRCVNLQALVLTS 59
Query: 548 NPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKLVSLQLLDISKTSVVELPEE-LK 606
N + TI F S+ SL+ LD+S + L K
Sbjct: 60 NGINTIEEDSFSSLG------------------------SLEHLDLSYNYLSNLSSSWFK 95
Query: 607 ALVNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSWHENVAEELLG 666
L +L LNL + L S+ ++L++LR+ G ++ + ++ G
Sbjct: 96 PLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRV---------GNMDTFTKIQRKDFAG 146
Query: 667 LKYLEVLEITFRSFKAYQ 684
L +LE LEI ++Y+
Sbjct: 147 LTFLEELEIDASDLQSYE 164
>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 = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 54 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 107
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 108 --VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 165
Query: 649 PY 650
Y
Sbjct: 166 IY 167
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 519 RRLSLMRNSIDNL-PTV-PTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLR 576
+RL L N I L P V +L L+ N N L I G F ++ LT L ++DN L+
Sbjct: 36 QRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNH-LK 94
Query: 577 QLPMG 581
+P G
Sbjct: 95 SIPRG 99
>pdb|2PEF|A Chain A, Crystal Structure Of A Thermophilic Serpin, Tengpin, In
The Latent State
Length = 373
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 58/128 (45%), Gaps = 17/128 (13%)
Query: 524 MRNSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMS----DNETLRQLP 579
M +ID T + LF +N + +S + L M+ DNETL Q+
Sbjct: 1 MEKNIDEKFIYNTADFSIELF--KNSIDDKENSLISPLSAMLALAMTANGADNETLAQME 58
Query: 580 MGISKLVSLQLLDISK---TSVVELPEELKALVNLKCLNLDWAKELVVVPQ----QLLSN 632
+ K +S++ D++K T + +LP E K+ L N W KE +P Q++++
Sbjct: 59 KALGKDISIE--DLNKYLYTYMKKLPNEEKS--KLTIANSIWFKENDFMPSKDFLQIIAD 114
Query: 633 FSRLRVLR 640
+ + + +
Sbjct: 115 YYKADIFK 122
>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 = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 76/198 (38%), Gaps = 45/198 (22%)
Query: 490 IEKEKEGFLVYAGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPT--VPTCPHLLTLFLNR 547
I K G L SGLTEA V+ L L N I + + C +L L L
Sbjct: 35 ICKGSSGSLNSIPSGLTEA---------VKSLDLSNNRITYISNSDLQRCVNLQALVLTS 85
Query: 548 NPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKLVSLQLLDISKTSVVELPEE-LK 606
N + TI F S+ SL+ LD+S + L K
Sbjct: 86 NGINTIEEDSFSSLG------------------------SLEHLDLSYNYLSNLSSSWFK 121
Query: 607 ALVNLKCLNLDWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSWHENVAEELLG 666
L +L LNL + L S+ ++L++LR+ G ++ + ++ G
Sbjct: 122 PLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRV---------GNMDTFTKIQRKDFAG 172
Query: 667 LKYLEVLEITFRSFKAYQ 684
L +LE LEI ++Y+
Sbjct: 173 LTFLEELEIDASDLQSYE 190
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 53 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 106
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 107 --VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 164
Query: 649 PY 650
Y
Sbjct: 165 IY 166
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 31.6 bits (70), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 53 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 106
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 107 --VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 164
Query: 649 PY 650
Y
Sbjct: 165 IY 166
>pdb|2Y5Q|A Chain A, Listeria Monocytogenes Inlb (Internalin B) Residues 36-392
Length = 362
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 45/92 (48%), Gaps = 8/92 (8%)
Query: 525 RNSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISK 584
N I ++ + P L +L+L N + IT ++ L L + DN+ +P+ +
Sbjct: 121 HNGISDINGLVHLPQLESLYLGNNKITDIT--VLSRLTKLDTLSLEDNQISDIVPL--AG 176
Query: 585 LVSLQLLDISKTSVVELPEELKALVNLKCLNL 616
L LQ L +SK + +L+AL LK L++
Sbjct: 177 LTKLQNLYLSKNHI----SDLRALAGLKNLDV 204
>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 = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 37/122 (30%), Positives = 57/122 (46%), Gaps = 17/122 (13%)
Query: 538 PHLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMG-ISKLVSLQLLDISKT 596
P L L L+R ++TI G +QS+S L+ L ++ N ++ L +G S L SLQ L
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP-IQSLALGAFSGLSSLQKL----- 105
Query: 597 SVVELPEELKALVNLKCLNLDWAKELVVVPQ--------QLLSNFSRLRVLRMFAIGVRS 648
V + L +L N +L KEL V + SN + L L + + ++S
Sbjct: 106 --VAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 649 PY 650
Y
Sbjct: 164 IY 165
>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 = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 36/118 (30%), Positives = 54/118 (45%), Gaps = 11/118 (9%)
Query: 558 FQSMSCLTVLKMSDNETLRQLPMGISKLVSLQLLDISKTSVVELPEEL-KALVNLKCLNL 616
F+ + L L + +N+ + S L LQ L ISK +VE+P L +LV L+ +
Sbjct: 74 FKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLPSSLVELRIHDN 133
Query: 617 DWAKELVVVPQQLLSNFSRLRVLRMFAIGVRSPYGLSSSWHENVAEELLGLKYLEVLE 674
K VP+ + FS LR + +G L +S E A + L L YL + E
Sbjct: 134 RIRK----VPKGV---FSGLRNMNCIEMGGNP---LENSGFEPGAFDGLKLNYLRISE 181
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 56/136 (41%), Gaps = 15/136 (11%)
Query: 251 EKAQDIFKTLSKKKF---VLLLDDLWERVDLKKVGVPLPKNSAVVFTTRFVDVCGG-MEA 306
E+A+D + L +K +L+LDD+W+ LK ++ TT V M
Sbjct: 228 EEAKDRLRVLMLRKHPRSLLILDDVWDPWVLK----AFDNQCQILLTTSDKSVTDSVMGP 283
Query: 307 RRKFKVEC-LSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMA 365
+ VE L E E+ V + +P A ++ EC G PL + IG +
Sbjct: 284 KHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIKECKGSPLVVSLIGALL- 338
Query: 366 YKKTPEEWRYAIEVLR 381
+ P W Y + L+
Sbjct: 339 -RDFPNRWAYYLRQLQ 353
>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 = 4.7, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 26/47 (55%)
Query: 518 VRRLSLMRNSIDNLPTVPTCPHLLTLFLNRNPLRTITGGFFQSMSCL 564
++ L + RN + LP P LL + ++RN L+++ G F ++ L
Sbjct: 453 LQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSL 499
>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 = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 531 LPTVPT-CPHLLT-LFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKLVSL 588
L +PT P +T + L +N ++ I G F L + +S+N+ P L SL
Sbjct: 23 LTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSL 82
Query: 589 QLLDISKTSVVELPEEL 605
L + + ELP+ L
Sbjct: 83 NSLVLYGNKITELPKSL 99
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 2/77 (2%)
Query: 531 LPTVPT-CPHLLT-LFLNRNPLRTITGGFFQSMSCLTVLKMSDNETLRQLPMGISKLVSL 588
L +PT P +T + L +N ++ I G F L + +S+N+ P L SL
Sbjct: 23 LTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSL 82
Query: 589 QLLDISKTSVVELPEEL 605
L + + ELP+ L
Sbjct: 83 NSLVLYGNKITELPKSL 99
>pdb|2VH4|A Chain A, Structure Of A Loop C-sheet Serpin Polymer
pdb|2VH4|B Chain B, Structure Of A Loop C-sheet Serpin Polymer
Length = 381
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 51/107 (47%), Gaps = 15/107 (14%)
Query: 545 LNRNPLRTITGGFFQSMSCLTVLKMS----DNETLRQLPMGISKLVSLQLLDISK---TS 597
L +N + +S + L M+ DNETL Q+ + K +S++ D++K T
Sbjct: 28 LFKNSIDDKENSLISPLSAMLALAMTANGADNETLAQMEKALGKDISIE--DLNKYLYTY 85
Query: 598 VVELPEELKALVNLKCLNLDWAKELVVVPQ----QLLSNFSRLRVLR 640
+ +LP E K+ L N W KE +P Q+++++ + + +
Sbjct: 86 MKKLPNEEKS--KLTIANSIWFKENDFMPSKDFLQIIADYYKADIFK 130
>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 = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 39/147 (26%), Positives = 64/147 (43%), Gaps = 6/147 (4%)
Query: 501 AGSGLTEAPADVRGWEIVRRLSLMRNSIDNLPTVPTC--PHLLTLFLNRNPLRTITG-GF 557
+ L+E P+ + G +++L L N +NL + P L L + N R G G
Sbjct: 286 TATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGC 345
Query: 558 FQSMSCLTVLKMS--DNETLRQLPMGISKLVSLQLLDISKTSVVEL-PEELKALVNLKCL 614
+++ L L +S D ET + + L LQ L++S + L E K L+ L
Sbjct: 346 LENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELL 405
Query: 615 NLDWAKELVVVPQQLLSNFSRLRVLRM 641
+L + + V Q N L+VL +
Sbjct: 406 DLAFTRLKVKDAQSPFQNLHLLKVLNL 432
>pdb|2PEE|A Chain A, Crystal Structure Of A Thermophilic Serpin, Tengpin, In
The Native State
pdb|2PEE|B Chain B, Crystal Structure Of A Thermophilic Serpin, Tengpin, In
The Native State
Length = 387
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 51/107 (47%), Gaps = 15/107 (14%)
Query: 545 LNRNPLRTITGGFFQSMSCLTVLKMS----DNETLRQLPMGISKLVSLQLLDISK---TS 597
L +N + +S + L M+ DNETL Q+ + K +S++ D++K T
Sbjct: 35 LFKNSIDDKENSLISPLSAMLALAMTANGADNETLAQMEKALGKDISIE--DLNKYLYTY 92
Query: 598 VVELPEELKALVNLKCLNLDWAKELVVVPQ----QLLSNFSRLRVLR 640
+ +LP E K+ L N W KE +P Q+++++ + + +
Sbjct: 93 MKKLPNEEKS--KLTIANSIWFKENDFMPSKDFLQIIADYYKADIFK 137
>pdb|4H0W|A Chain A, Bismuth Bound Human Serum Transferrin
Length = 679
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 311 KVECLSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMAYKKTP 370
K+EC+S E + + + E S+ +A +CG +P+ ++ + TP
Sbjct: 365 KIECVSAETTEDCIAKIMNGEA--DAMSLDGGFVYIAGKCGLVPVLAENYNKSDNCEDTP 422
Query: 371 EEWRYAIEVLRRSASEF 387
E +AI V+++SAS+
Sbjct: 423 EAGYFAIAVVKKSASDL 439
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 10/65 (15%)
Query: 539 HLLTLFLNRNPLRTITGGFFQSMSCLTVLKMSDNE----TLRQLPMGISKLVSLQLLDIS 594
HL L+LN N L ++ G F ++ L L ++ N + LP +L++LDIS
Sbjct: 481 HLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLP------ANLEILDIS 534
Query: 595 KTSVV 599
+ ++
Sbjct: 535 RNQLL 539
>pdb|3V83|A Chain A, The 2.1 Angstrom Crystal Structure Of Diferric Human
Transferrin
pdb|3V83|B Chain B, The 2.1 Angstrom Crystal Structure Of Diferric Human
Transferrin
pdb|3V83|C Chain C, The 2.1 Angstrom Crystal Structure Of Diferric Human
Transferrin
pdb|3V83|D Chain D, The 2.1 Angstrom Crystal Structure Of Diferric Human
Transferrin
pdb|3V83|E Chain E, The 2.1 Angstrom Crystal Structure Of Diferric Human
Transferrin
pdb|3V83|F Chain F, The 2.1 Angstrom Crystal Structure Of Diferric Human
Transferrin
pdb|3V8X|B Chain B, The Crystal Structure Of Transferrin Binding Protein A
(Tbpa) From Neisserial Meningitidis Serogroup B In
Complex With Full Length Human Transferrin
Length = 698
Score = 29.6 bits (65), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 311 KVECLSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMAYKKTP 370
K+EC+S E + + + E S+ +A +CG +P+ ++ + TP
Sbjct: 384 KIECVSAETTEDCIAKIMNGEA--DAMSLDGGFVYIAGKCGLVPVLAENYNKSDNCEDTP 441
Query: 371 EEWRYAIEVLRRSASEF 387
E +A+ V+++SAS+
Sbjct: 442 EAGYFAVAVVKKSASDL 458
>pdb|3V89|B Chain B, The Crystal Structure Of Transferrin Binding Protein A
(Tbpa) From Neisseria Meningitidis Serogroup B In
Complex With The C-Lobe Of Human Transferrin
Length = 343
Score = 29.3 bits (64), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 25/42 (59%)
Query: 346 VANECGGLPLALITIGRAMAYKKTPEEWRYAIEVLRRSASEF 387
+A +CG +P+ ++ + TPE +A+ V+++SAS+
Sbjct: 62 IAGKCGLVPVLAENYNKSDNCEDTPEAGYFAVAVVKKSASDL 103
>pdb|3SKP|A Chain A, The Structure Of Apo-Human Transferrin C-Lobe With Bound
Sulfate Ions
Length = 342
Score = 29.3 bits (64), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 25/42 (59%)
Query: 346 VANECGGLPLALITIGRAMAYKKTPEEWRYAIEVLRRSASEF 387
+A +CG +P+ ++ + TPE +A+ V+++SAS+
Sbjct: 61 IAGKCGLVPVLAENYNKSDNCEDTPEAGYFAVAVVKKSASDL 102
>pdb|2HAV|A Chain A, Apo-Human Serum Transferrin (Glycosylated)
pdb|2HAV|B Chain B, Apo-Human Serum Transferrin (Glycosylated)
Length = 676
Score = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 311 KVECLSDEDAWELFREKVGEETIESHHSIPELAQTVANECGGLPLALITIGRAMAYKKTP 370
K+EC+S E + + + E S+ +A +CG +P+ ++ + TP
Sbjct: 362 KIECVSAETTEDCIAKIMNGEA--DAMSLDGGFVYIAGKCGLVPVLAENYNKSDNCEDTP 419
Query: 371 EEWRYAIEVLRRSASEF 387
E +A+ V+++SAS+
Sbjct: 420 EAGYFAVAVVKKSASDL 436
>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 = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 562 SCLTVLKMSDNETLRQLPMGISKLVSLQLLDISKTSVVEL-PEELKALVNLKCLNL 616
S +TVL ++ N+ R P ++ L +LD S+ +L PE + L LK LNL
Sbjct: 25 SNITVLNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPELCQILPLLKVLNL 80
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 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,954,991
Number of Sequences: 62578
Number of extensions: 979272
Number of successful extensions: 2469
Number of sequences better than 100.0: 75
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 52
Number of HSP's that attempted gapping in prelim test: 2390
Number of HSP's gapped (non-prelim): 127
length of query: 906
length of database: 14,973,337
effective HSP length: 108
effective length of query: 798
effective length of database: 8,214,913
effective search space: 6555500574
effective search space used: 6555500574
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)