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= 046470
(888 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 46.2 bits (108), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 91/205 (44%), Gaps = 28/205 (13%)
Query: 257 VLLLDDIWKPINLKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEV---SCLAHDEA 313
+L+LDD+W LK ++ +I+LTTR V D + K V S L ++
Sbjct: 239 LLILDDVWDSWVLK-------AFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 291
Query: 314 WKLFQKMVERSTLDSHASIPELAKTLARECGGLPLALKTVGRAMKSRSNIGDW------K 367
++ V D +PE A ++ +EC G PL + +G ++ N ++
Sbjct: 292 LEILSLFVNMKKAD----LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQN 347
Query: 368 RAIKKIRTSAS-KFSGMEEKVFSRLKFSYDSLSDELRSCLLYCCLYPEDYKISKRELIDY 426
+ K+IR S+S + ++E + S + L ++++ + +D K+ + L
Sbjct: 348 KQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCIL 403
Query: 427 WISEGFVDDFDDGW-EFINDLLHAC 450
W E ++ +D EF+N L C
Sbjct: 404 WDME--TEEVEDILQEFVNKSLLFC 426
>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 = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 91/205 (44%), Gaps = 28/205 (13%)
Query: 257 VLLLDDIWKPINLKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEV---SCLAHDEA 313
+L+LDD+W LK ++ +I+LTTR V D + K V S L ++
Sbjct: 245 LLILDDVWDSWVLK-------AFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKG 297
Query: 314 WKLFQKMVERSTLDSHASIPELAKTLARECGGLPLALKTVGRAMKSRSNIGDW------K 367
++ V D +PE A ++ +EC G PL + +G ++ N ++
Sbjct: 298 LEILSLFVNMKKAD----LPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQN 353
Query: 368 RAIKKIRTSAS-KFSGMEEKVFSRLKFSYDSLSDELRSCLLYCCLYPEDYKISKRELIDY 426
+ K+IR S+S + ++E + S + L ++++ + +D K+ + L
Sbjct: 354 KQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCIL 409
Query: 427 WISEGFVDDFDDGW-EFINDLLHAC 450
W E ++ +D EF+N L C
Sbjct: 410 WDME--TEEVEDILQEFVNKSLLFC 432
>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 = 42.7 bits (99), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 2/86 (2%)
Query: 484 YLVRTGFRLTEAPAVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITD 541
YL G +L + A++E + L GN+ SL L L+L+ N + + D
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD 126
Query: 542 GFFQSMSSLRVLSLGSNALSKLPSGI 567
G F +++L L+L N L LP G+
Sbjct: 127 GVFDKLTNLTYLNLAHNQLQSLPKGV 152
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 51/130 (39%), Gaps = 23/130 (17%)
Query: 497 AVEEWEGAKRISLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLG 556
++ + ++L GN+ +S + L L+L N + + +G F +++L+ L L
Sbjct: 58 GIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLV 117
Query: 557 SNALSKLPSGIXXXXXXXXXXXXWTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLIS 616
N L LP G+ L L YLNL H + S +P +
Sbjct: 118 ENQLQSLPDGV----------------------FDKLTNLTYLNLAHNQLQS-LPKGVFD 154
Query: 617 GFSKLEVLRL 626
+ L L L
Sbjct: 155 KLTNLTELDL 164
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 45/111 (40%), Gaps = 12/111 (10%)
Query: 461 KMHDMIREMSLWVACTIEKEKENYLVRTGFRLTEAP--AVEEWEGAKRISLRGNRFDSLS 518
K+HD ++ E YL+ TG +L P ++ K + L N+ SL
Sbjct: 74 KLHD--------ISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLP 125
Query: 519 E--IPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
+ L L L N + + G F +++L L L N L LP G+
Sbjct: 126 DGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGV 176
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/181 (23%), Positives = 77/181 (42%), Gaps = 25/181 (13%)
Query: 257 VLLLDDIWKPINLKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEV---SCLAHDEA 313
+L+LDD+W P LK Q I+LTTR V D + K V S L ++
Sbjct: 239 LLILDDVWDPWVLKAFDNQCQ-------ILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291
Query: 314 WKLFQKMVERSTLDSHASIPELAKTLARECGGLPLALKTVGRAMKSRSNIGDW------K 367
++ V D +P A ++ +EC G PL + +G ++ N +
Sbjct: 292 LEILSLFVNMKKED----LPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQN 347
Query: 368 RAIKKIRTSAS-KFSGMEEKVFSRLKFSYDSLSDELRSCLLYCCLYPEDYKISKRELIDY 426
+ K+IR S+S + ++E + S + L ++++ + +D K+ + L
Sbjct: 348 KQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVL 403
Query: 427 W 427
W
Sbjct: 404 W 404
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/101 (30%), Positives = 47/101 (46%), Gaps = 2/101 (1%)
Query: 529 LLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI-XXXXXXXXXXXXWTEITGLP 587
L L +N + + G F S++ L VL LG+N L+ LPS + ++T LP
Sbjct: 69 LYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELP 128
Query: 588 QELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRLLG 628
+ ++ L L +L L+ + S IPH S L L G
Sbjct: 129 RGIERLTHLTHLALDQNQLKS-IPHGAFDRLSSLTHAYLFG 168
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 2/86 (2%)
Query: 484 YLVRTGFRLTEAPAVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITD 541
YL G +L + A++E + L GN+ SL L L+L+ N + + D
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD 126
Query: 542 GFFQSMSSLRVLSLGSNALSKLPSGI 567
G F +++L L L N L LP G+
Sbjct: 127 GVFDKLTNLTYLYLYHNQLQSLPKGV 152
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 60/132 (45%), Gaps = 3/132 (2%)
Query: 497 AVEEWEGAKRISLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLG 556
++ + ++L GN+ +S + L L+L N + + +G F +++L+ L L
Sbjct: 58 GIQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLV 117
Query: 557 SNALSKLPSGIXXXXXXXXXXXXW-TEITGLPQEL-KALEKLRYLNLEHAYMLSIIPHQL 614
N L LP G+ + ++ LP+ + L L L+L++ + S +P +
Sbjct: 118 ENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQS-LPEGV 176
Query: 615 ISGFSKLEVLRL 626
++L+ L L
Sbjct: 177 FDKLTQLKQLSL 188
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
SL FD L+ L L L N + + +G F ++ L+ LSL N L +P G+
Sbjct: 147 SLPKGVFDKLT------NLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLNDNQLKSVPDGV 200
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 42/181 (23%), Positives = 76/181 (41%), Gaps = 25/181 (13%)
Query: 257 VLLLDDIWKPINLKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEV---SCLAHDEA 313
+L+LDD+W P LK Q I+LTT V D + K V S L ++
Sbjct: 246 LLILDDVWDPWVLKAFDNQCQ-------ILLTTSDKSVTDSVMGPKHVVPVESGLGREKG 298
Query: 314 WKLFQKMVERSTLDSHASIPELAKTLARECGGLPLALKTVGRAMKSRSNIGDW------K 367
++ V D +P A ++ +EC G PL + +G ++ N +
Sbjct: 299 LEILSLFVNMKKED----LPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQN 354
Query: 368 RAIKKIRTSAS-KFSGMEEKVFSRLKFSYDSLSDELRSCLLYCCLYPEDYKISKRELIDY 426
+ K+IR S+S + ++E + S + L ++++ + +D K+ + L
Sbjct: 355 KQFKRIRKSSSYDYEALDEA----MSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVL 410
Query: 427 W 427
W
Sbjct: 411 W 411
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 36/128 (28%), Positives = 53/128 (41%), Gaps = 9/128 (7%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
+L FD L+E L TL L N + + G F ++ L L LG N L LPSG+
Sbjct: 73 TLSAGVFDDLTE------LGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGV 126
Query: 568 XXXXXXXXXXXXWT-EITGLPQ-ELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLR 625
T ++ +P L L+ L+L + S +PH KL+ +
Sbjct: 127 FDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQS-VPHGAFDRLGKLQTIT 185
Query: 626 LLGCGSNC 633
L G +C
Sbjct: 186 LFGNQFDC 193
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 506 RISLRGNRFDSLSEIPTS-----PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNAL 560
++ L GN+ SL P+ +L L L N + I G F +++L+ LSL +N L
Sbjct: 111 KLYLGGNQLKSL---PSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQL 167
Query: 561 SKLPSG 566
+P G
Sbjct: 168 QSVPHG 173
>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 = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 36/128 (28%), Positives = 53/128 (41%), Gaps = 9/128 (7%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
+L FD L+E L TL L N + + G F ++ L L LG N L LPSG+
Sbjct: 73 TLSAGVFDDLTE------LGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQLKSLPSGV 126
Query: 568 XXXXXXXXXXXXWT-EITGLPQ-ELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLR 625
T ++ +P L L+ L+L + S +PH KL+ +
Sbjct: 127 FDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQS-VPHGAFDRLGKLQTIT 185
Query: 626 LLGCGSNC 633
L G +C
Sbjct: 186 LFGNQFDC 193
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 506 RISLRGNRFDSLSEIPTS-----PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNAL 560
++ L GN+ SL P+ +L L L N + I G F +++L+ LSL +N L
Sbjct: 111 KLYLGGNQLKSL---PSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQL 167
Query: 561 SKLPSG 566
+P G
Sbjct: 168 QSVPHG 173
>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 = 37.0 bits (84), Expect = 0.049, Method: Composition-based stats.
Identities = 33/113 (29%), Positives = 53/113 (46%), Gaps = 5/113 (4%)
Query: 518 SEIPTS-PRLITLL-LIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGIXXXXXXXX 575
+ +PT P T L L NS+ + +G F ++SL L LG N L LP+G+
Sbjct: 20 TSVPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLT 79
Query: 576 XXXXWT-EITGLPQEL-KALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
T ++ LP + L +L+ L L + L +P + ++L+ LRL
Sbjct: 80 YLNLSTNQLQSLPNGVFDKLTQLKELAL-NTNQLQSLPDGVFDKLTQLKDLRL 131
Score = 32.0 bits (71), Expect = 1.7, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 6/60 (10%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
SL FD L++ L L L N + + DG F ++ L+ L L N L +P G+
Sbjct: 90 SLPNGVFDKLTQ------LKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGV 143
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 32/68 (47%), Gaps = 6/68 (8%)
Query: 500 EWEGAKRISLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNA 559
E E K SL FD L++ L L L N I + DG F ++ L +L L N
Sbjct: 34 ELESNKLQSLPHGVFDKLTQ------LTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENK 87
Query: 560 LSKLPSGI 567
L LP+G+
Sbjct: 88 LQSLPNGV 95
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 6/60 (10%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
SL FD L+ +L L L N + + +G F ++ L+ L+L +N L +P GI
Sbjct: 66 SLPDGVFDKLT------KLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQLKSVPDGI 119
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 515 DSLSEIP-----TSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKL 563
+ LS +P +P+L TL + N+++ I D FQ+ +SL+ L L SN L+ +
Sbjct: 133 NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHV 186
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 39/64 (60%), Gaps = 3/64 (4%)
Query: 507 ISLRGNRF--DSLSEIPTSPRLITLLLIAN-SIDEITDGFFQSMSSLRVLSLGSNALSKL 563
+ + GN F + L +I T R +T L ++ +++++ F S+SSL+VL++ SN L +
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSV 509
Query: 564 PSGI 567
P GI
Sbjct: 510 PDGI 513
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 111
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 112 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156
>pdb|3TWI|D Chain D, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|E Chain E, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|F Chain F, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
Length = 179
Score = 34.7 bits (78), Expect = 0.24, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 29/48 (60%), Gaps = 2/48 (4%)
Query: 520 IPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
IPT+ +++ L + N I ++ G F S++ L L+L N L+ LP G+
Sbjct: 38 IPTTTQVLHLYI--NQITKLEPGVFDSLTQLTYLNLAVNQLTALPVGV 83
>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 = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 489 GFRLTEAPA-VEEWEGAKRISLRGNRFDSLSEIPTS--PRLITLLLIANSIDEITDGFFQ 545
G + T P + ++ I L NR +LS S +L+TL+L N + I F
Sbjct: 40 GNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFD 99
Query: 546 SMSSLRVLSLGSNALSKLPSG 566
+ SLR+LSL N +S +P G
Sbjct: 100 GLKSLRLLSLHGNDISVVPEG 120
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 32/54 (59%), Gaps = 5/54 (9%)
Query: 515 DSLSEIP-----TSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKL 563
+ LS +P +P+L TL + N+++ I D FQ+ +SL+ L L SN L+ +
Sbjct: 127 NDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHV 180
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N++ E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 33.9 bits (76), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N++ E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 33.5 bits (75), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N++ E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N++ E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N + E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N + E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N++ E+ G
Sbjct: 112 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNG 171
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 172 LENLDTLLLQENSLYTIPKGF 192
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N + E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>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 = 33.5 bits (75), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 34/128 (26%), Positives = 58/128 (45%), Gaps = 10/128 (7%)
Query: 515 DSLSEIPTS--PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNAL--SKLPSGIXXX 570
+ L EIP + L+ L + N I ++ G F + ++ + +G N L S G
Sbjct: 112 NHLVEIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDG 171
Query: 571 XXXXXXXXXWTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRLLGCG 630
++TG+P++L E L L+L+H + +I L+ +SK L LG G
Sbjct: 172 LKLNYLRISEAKLTGIPKDLP--ETLNELHLDHNKIQAIELEDLLR-YSK---LYRLGLG 225
Query: 631 SNCVTVTE 638
N + + E
Sbjct: 226 HNQIRMIE 233
>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 = 33.5 bits (75), Expect = 0.58, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 516 SLSEIPTSPRLIT--LLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
SL+ +PT T L L N I ++ G F ++ L L L +N L+ LP+G+
Sbjct: 28 SLASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGV 81
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N + E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 40/87 (45%), Gaps = 11/87 (12%)
Query: 488 TGFRLTEAPA--VEEWEGAKRISLRGNRFDSLSEIPTS-----PRLITLLLIANSIDEIT 540
T RLT PA + + + LR N + E+P+ L ++ +N + ++
Sbjct: 131 TTRRLTHIPANLLTDMRNLSHLELRAN----IEEMPSHLFDDLENLESIEFGSNKLRQMP 186
Query: 541 DGFFQSMSSLRVLSLGSNALSKLPSGI 567
G F M L+ L+L SN L +P GI
Sbjct: 187 RGIFGKMPKLKQLNLASNQLKSVPDGI 213
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 35/74 (47%), Gaps = 7/74 (9%)
Query: 498 VEEWEGAKRISLRGNRFDSLSEIP----TSPRLITLLLIANSIDEITDGFFQSMSSLRVL 553
++ G KR R L+ IP T R ++ L + +I+E+ F + +L +
Sbjct: 119 LDRLHGLKRFRFTTRR---LTHIPANLLTDMRNLSHLELRANIEEMPSHLFDDLENLESI 175
Query: 554 SLGSNALSKLPSGI 567
GSN L ++P GI
Sbjct: 176 EFGSNKLRQMPRGI 189
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 33.1 bits (74), Expect = 0.62, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 516 SLSEIPTSPRLIT--LLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
SL+ +PT T L L N I ++ G F ++ L L L +N L+ LP+G+
Sbjct: 20 SLASVPTGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGV 73
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 4/81 (4%)
Query: 491 RLTEAP--AVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQS 546
RLT P A+ + + L+GN +L + +P+L L L N + E+ G
Sbjct: 111 RLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNG 170
Query: 547 MSSLRVLSLGSNALSKLPSGI 567
+ +L L L N+L +P G
Sbjct: 171 LENLDTLLLQENSLYTIPKGF 191
>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 = 33.1 bits (74), Expect = 0.78, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 516 SLSEIPTSPRLIT--LLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGI 567
SL+ +PT T L L N I ++ G F ++ L L L +N L+ LP+G+
Sbjct: 20 SLASVPTGIPTTTQVLYLYDNRITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGV 73
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 11/130 (8%)
Query: 504 AKRISLRGNRFDSLSEIPTSP-----RLITLLLIANSIDEITDGFFQSMSSLRVLSLGSN 558
K++ L+ N+ LS +P+ +L L L N + + G F+ + +L L + N
Sbjct: 39 TKKLDLQSNK---LSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN 95
Query: 559 ALSKLPSGI-XXXXXXXXXXXXWTEITGLPQEL-KALEKLRYLNLEHAYMLSIIPHQLIS 616
L LP G+ ++ LP + +L KL YL+L + + S +P +
Sbjct: 96 KLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQS-LPKGVFD 154
Query: 617 GFSKLEVLRL 626
+ L+ LRL
Sbjct: 155 KLTSLKELRL 164
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 45/103 (43%), Gaps = 3/103 (2%)
Query: 526 LITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGIXXXXXXXXXXXXW-TEIT 584
L L L N + + F S++ L LSLG N L LP G+ + ++
Sbjct: 111 LAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLK 170
Query: 585 GLPQ-ELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+P+ L +L+ L L++ L +P KL++L+L
Sbjct: 171 RVPEGAFDKLTELKTLKLDN-NQLKRVPEGAFDSLEKLKMLQL 212
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSG 566
SL FDSL+ +L L L N + + G F ++SL+ L L +N L ++P G
Sbjct: 123 SLPPRVFDSLT------KLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEG 175
>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 = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 31/59 (52%), Gaps = 4/59 (6%)
Query: 508 SLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSG 566
+L F SL+ P L+TL L N I +I +G F + LR+L LG N + + SG
Sbjct: 369 TLTNETFVSLAHSP----LLTLNLTKNHISKIANGTFSWLGQLRILDLGLNEIEQKLSG 423
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 59/145 (40%), Gaps = 31/145 (21%)
Query: 505 KRISLRGNRFDSLSEIPTS----PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNAL 560
+ +SL N+ + SE S L L L N++ ++ +G F + SLR LSL N +
Sbjct: 225 QNLSLANNQLLATSESTFSGLKWTNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSLEYNNI 284
Query: 561 SKLPSGIXXXXXXXXXXXXWTEITGLPQELKALEKLRYLNLEHAYM---LSIIPHQLISG 617
+L P+ L LRYL+L+ A+ +S+ H I
Sbjct: 285 QRLS----------------------PRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDD 322
Query: 618 FSK--LEVLRLLGCGSNCVTVTEEE 640
FS L+ L L N + T+
Sbjct: 323 FSFQWLKYLEYLNMDDNNIPSTKSN 347
>pdb|2HLD|G Chain G, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|P Chain P, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|Y Chain Y, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|3FKS|G Chain G, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|P Chain P, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|Y Chain Y, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|2WPD|G Chain G, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|3OEE|G Chain G, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|P Chain P, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|Y Chain Y, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEH|G Chain G, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|P Chain P, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|Y Chain Y, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OFN|G Chain G, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|P Chain P, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|Y Chain Y, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3ZRY|G Chain G, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|4B2Q|G Chain G, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|GG Chain g, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|3ZIA|G Chain G, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|Q Chain Q, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
Length = 278
Score = 32.7 bits (73), Expect = 1.0, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 32/63 (50%)
Query: 269 LKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEVSCLAHDEAWKLFQKMVERSTLDS 328
LK++ + L+++ KI T + V AEK ++S DEA +LF K E LD
Sbjct: 3 LKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKMDEAEQLFYKNAETKNLDV 62
Query: 329 HAS 331
A+
Sbjct: 63 EAT 65
>pdb|3OE7|G Chain G, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|P Chain P, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|Y Chain Y, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
Length = 278
Score = 32.7 bits (73), Expect = 1.0, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 32/63 (50%)
Query: 269 LKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEVSCLAHDEAWKLFQKMVERSTLDS 328
LK++ + L+++ KI T + V AEK ++S DEA +LF K E LD
Sbjct: 3 LKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKMDEAEQLFYKNAETKNLDV 62
Query: 329 HAS 331
A+
Sbjct: 63 EAT 65
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 1/77 (1%)
Query: 526 LITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGIXXXXXXXXXXXXWTEITG 585
L L L NS+ E+ +++S+LRVL L N L+ LP+ + +T
Sbjct: 249 LTRLYLNGNSLTELP-AEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTT 307
Query: 586 LPQELKALEKLRYLNLE 602
LP E L L++L +E
Sbjct: 308 LPWEFGNLCNLQFLGVE 324
>pdb|2V70|A Chain A, Third Lrr Domain Of Human Slit2
pdb|2V70|B Chain B, Third Lrr Domain Of Human Slit2
pdb|2V70|C Chain C, Third Lrr Domain Of Human Slit2
pdb|2V70|D Chain D, Third Lrr Domain Of Human Slit2
Length = 220
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 494 EAPAVEEWEGAKRISLRGNRFDSLSE--IPTSPRLITLLLIANSIDEITDGFFQSMSSLR 551
E A E G I L NR +++ L TL+L +N I + + F +SS+R
Sbjct: 73 EEGAFEGASGVNEILLTSNRLENVQHKMFKGLESLKTLMLRSNRITCVGNDSFIGLSSVR 132
Query: 552 VLSLGSNALSKLPSG 566
+LSL N ++ + G
Sbjct: 133 LLSLYDNQITTVAPG 147
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%)
Query: 526 LITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP 564
L TL+LI N I +I+ G F + L L L N L +LP
Sbjct: 78 LHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELP 116
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 54/115 (46%), Gaps = 8/115 (6%)
Query: 516 SLSEIPT--SPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKL-PSGIXXXXX 572
L ++P P L L N I EI DG F+++ +L L L +N +SK+ P
Sbjct: 42 GLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 101
Query: 573 XXXXXXXWTEITGLPQEL-KALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
++ LP+++ K L++LR H ++ + + +G +++ V+ L
Sbjct: 102 LERLYLSKNQLKELPEKMPKTLQELRV----HENEITKVRKSVFNGLNQMIVVEL 152
>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 = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 22/40 (55%)
Query: 525 RLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP 564
L TL+LI N I +I+ G F + L L L N L +LP
Sbjct: 77 NLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELP 116
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 54/115 (46%), Gaps = 8/115 (6%)
Query: 516 SLSEIPT--SPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKL-PSGIXXXXX 572
L ++P P L L N I EI DG F+++ +L L L +N +SK+ P
Sbjct: 42 GLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 101
Query: 573 XXXXXXXWTEITGLPQEL-KALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
++ LP+++ K L++LR H ++ + + +G +++ V+ L
Sbjct: 102 LERLYLSKNQLKELPEKMPKTLQELRV----HENEITKVRKSVFNGLNQMIVVEL 152
>pdb|1RQG|A Chain A, Methionyl-Trna Synthetase From Pyrococcus Abyssi
Length = 722
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 2 GNLVSTFLPADLFDRTLNCVGEQAKYIWGLEKN 34
G+L +LPAD+F R L GE +I G +++
Sbjct: 20 GHLAGAYLPADIFVRYLRLKGEDVVFICGTDEH 52
>pdb|2XOK|G Chain G, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
Length = 311
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 32/63 (50%)
Query: 269 LKDMGVPLQNLNAGSKIVLTTRSVDVCDQMDAEKVEVSCLAHDEAWKLFQKMVERSTLDS 328
LK++ + L+++ KI T + V AEK ++S DEA +LF K E LD
Sbjct: 36 LKEVEMRLKSIKNIEKITKTMKIVASTRLSKAEKAKISAKKMDEAEQLFYKNAETKNLDV 95
Query: 329 HAS 331
A+
Sbjct: 96 EAT 98
>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 = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 76 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 135
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 136 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 180
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 54 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 113
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 114 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 158
>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 = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 45/102 (44%), Gaps = 23/102 (22%)
Query: 525 RLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGIXXXXXXXXXXXXWTEIT 584
RL L L N +D I G FQ ++SLR L L ++ +
Sbjct: 179 RLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAF---------------- 222
Query: 585 GLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+LK+LE+ LNL H ++S +PH L + +LE + L
Sbjct: 223 ---DDLKSLEE---LNLSHNNLMS-LPHDLFTPLHRLERVHL 257
>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 = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 45/102 (44%), Gaps = 23/102 (22%)
Query: 525 RLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLPSGIXXXXXXXXXXXXWTEIT 584
RL L L N +D I G FQ ++SLR L L ++ +
Sbjct: 179 RLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAF---------------- 222
Query: 585 GLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+LK+LE+ LNL H ++S +PH L + +LE + L
Sbjct: 223 ---DDLKSLEE---LNLSHNNLMS-LPHDLFTPLHRLERVHL 257
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 111
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 112 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 53 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 112
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 113 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 157
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 53 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 112
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 113 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 157
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 30.0 bits (66), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 54 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVALETN 113
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 114 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 158
>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 = 30.0 bits (66), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 524 PRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKLP----SGIXXXXXXXXXXXX 579
P L L L I I DG +QS+S L L L N + L SG+
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN 111
Query: 580 WTEITGLPQELKALEKLRYLNLEHAYMLSIIPHQLISGFSKLEVLRL 626
+ P + L+ L+ LN+ H + S + S + LE L L
Sbjct: 112 LASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 534 NSIDEITDGFFQSMSSLRVLSLGSNALSKLPSG 566
NSI +I G F ++SL L L N L+ +PSG
Sbjct: 109 NSIRQIEVGAFNGLASLNTLELFDNWLTVIPSG 141
>pdb|1FAD|A Chain A, Death Domain Of Fas-Associated Death Domain Protein,
Residues 89-183
Length = 99
Score = 29.6 bits (65), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 28/46 (60%), Gaps = 8/46 (17%)
Query: 362 NIG-DWKRAIKKIRTSASKFSGMEEKVFSRLKFSYDSLSDELRSCL 406
N+G DWKR ++++ S +K G+EEK + R SLS+ +R L
Sbjct: 23 NVGRDWKRLARELKVSEAKMDGIEEK-YPR------SLSERVRESL 61
>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 = 9.4, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 27/57 (47%)
Query: 507 ISLRGNRFDSLSEIPTSPRLITLLLIANSIDEITDGFFQSMSSLRVLSLGSNALSKL 563
I N L P RL TLL+ N I I +G Q++ L L L +N+L +L
Sbjct: 47 IDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVEL 103
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.319 0.135 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,534,001
Number of Sequences: 62578
Number of extensions: 957425
Number of successful extensions: 2286
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 2171
Number of HSP's gapped (non-prelim): 132
length of query: 888
length of database: 14,973,337
effective HSP length: 107
effective length of query: 781
effective length of database: 8,277,491
effective search space: 6464720471
effective search space used: 6464720471
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)