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= 000202
(1866 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 131 bits (329), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 71/160 (44%), Positives = 96/160 (60%), Gaps = 4/160 (2%)
Query: 16 YDVFLSFRGEDTRDNFTSHLYSALCQNNVETFIDN-DLKRGDEIPESLLGTIEASTISII 74
YDVFLSFRG DTR NF S LY L + ++ TF D+ +L+ G L IE S +++
Sbjct: 9 YDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVV 68
Query: 75 IFSEKYASSKWCLDELLKILECKRNYGQIVIPVFYRVDPSHVRKQIGSFGDSFFMLEERF 134
+ SE YA+S WCLDEL+ I++ ++ V+P+FY V+P+HVR Q G + F R
Sbjct: 69 VVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASRE 128
Query: 135 -PYKMRNWRSALTEAADLSGFDSCVIRPESRLVADIANEV 173
P K+ WR ALT A LSG C +S+LV IANE+
Sbjct: 129 DPEKVLKWRQALTNFAQLSG--DCSGDDDSKLVDKIANEI 166
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 113 bits (282), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 62/142 (43%), Positives = 89/142 (62%), Gaps = 3/142 (2%)
Query: 16 YDVFLSFRGEDTRDNFTSHLYSALCQNNVETFIDND-LKRGDEIPESLLGTIEASTISII 74
Y+VFLSFRG DTR+ FT LY +L + + TF D+D L +G EI +LL I+ S I +
Sbjct: 36 YEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVP 95
Query: 75 IFSEKYASSKWCLDELLKILECK-RNYGQIVIPVFYRVDPSHVRKQIGSFGDSFFMLEER 133
I S YA SKWCL EL +I+ + + +I++P+FY VDPS VR Q G + +F +
Sbjct: 96 IISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANK 155
Query: 134 FPYK-MRNWRSALTEAADLSGF 154
F + ++NW+ AL + DL G+
Sbjct: 156 FDGQTIQNWKDALKKVGDLKGW 177
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
Effector Xcv3220 (Xopl)
Length = 328
Score = 45.1 bits (105), Expect = 4e-04, Method: Composition-based stats.
Identities = 57/187 (30%), Positives = 84/187 (44%), Gaps = 24/187 (12%)
Query: 1319 GFQFLSRAYSRLAELPNAGTS-------SLRS-PERSRLFIPEAYQFLLGARAGLTEPPS 1370
G + L+ A + L LP + S S+R+ PE + L P A G GL S
Sbjct: 128 GLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQS 187
Query: 1371 EE-EWTHAKMIFFMDNDLQTLPGR-PSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLN 1428
EWT +++LP + NL +L + RN L + P+ L L+ L+
Sbjct: 188 LRLEWT----------GIRSLPASIANLQNLKSLKI-RNSPLSALGPAIHHL-PKLEELD 235
Query: 1429 LSK-TRIKSLPETLVNLKCLQILILRDCDFLFVLPPEVGSLECLEVLDLRG-TEIKMLPK 1486
L T +++ P L+ LIL+DC L LP ++ L LE LDLRG + LP
Sbjct: 236 LRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPS 295
Query: 1487 EIGKLTS 1493
I +L +
Sbjct: 296 LIAQLPA 302
Score = 39.3 bits (90), Expect = 0.022, Method: Composition-based stats.
Identities = 26/94 (27%), Positives = 45/94 (47%), Gaps = 9/94 (9%)
Query: 1415 PSFFELMTSLKVLNLSKTRIKSLPETLVNLKCLQILILRDCDFLFVLPPEVGSLEC---- 1470
P + L+ L L++ +++LP ++ +L L+ L +R C L LP + S +
Sbjct: 120 PDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEH 179
Query: 1471 -----LEVLDLRGTEIKMLPKEIGKLTSLRYLTV 1499
L+ L L T I+ LP I L +L+ L +
Sbjct: 180 QGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKI 213
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 44.7 bits (104), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 73/164 (44%), Gaps = 38/164 (23%)
Query: 1375 THAKMIFFMDNDLQTLPGR--PSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKT 1432
T ++++ DN LQTLP NL TL++ N +L+ +P F+ + +L L L +
Sbjct: 61 TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN-KLQALPIGVFDQLVNLAELRLDRN 119
Query: 1433 RIKSLPETLVNLKCLQILILRDCDFLFVLPPEVGSLECLEVLDLRGTEIKMLPKEI-GKL 1491
++KSLP P SL L L L E++ LPK + KL
Sbjct: 120 QLKSLP-----------------------PRVFDSLTKLTYLSLGYNELQSLPKGVFDKL 156
Query: 1492 TSLRYLTVFFFGSMYKSEYIKLPPDLISSDILSRLQALETLSID 1535
TSL+ L +Y ++ ++P +L L+TL +D
Sbjct: 157 TSLKEL------RLYNNQLKRVP-----EGAFDKLTELKTLKLD 189
Score = 38.5 bits (88), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 39/132 (29%), Positives = 63/132 (47%), Gaps = 6/132 (4%)
Query: 1372 EEWTHAKMIFFMDNDLQTLPGR--PSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNL 1429
+E + + ++ DN LQ LP NL L L RN +L+ +PP F+ +T L L+L
Sbjct: 82 KELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRN-QLKSLPPRVFDSLTKLTYLSL 140
Query: 1430 SKTRIKSLPETLVN-LKCLQILILRDCDFLFVLPPEVGSLECLEVLDLRGTEIKMLPKEI 1488
++SLP+ + + L L+ L L + V L L+ L L ++K +P+
Sbjct: 141 GYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPE-- 198
Query: 1489 GKLTSLRYLTVF 1500
G SL L +
Sbjct: 199 GAFDSLEKLKML 210
>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 = 0.002, Method: Composition-based stats.
Identities = 46/156 (29%), Positives = 75/156 (48%), Gaps = 14/156 (8%)
Query: 1350 FIPEAYQFLLGARAGLTEPPSEEEWTHAKMIFFMDNDLQTLPGR--PSCPNLLTLFLQRN 1407
++P LG L + + +E T+ + N LQ+LP NL L L N
Sbjct: 61 YLPNVRYLALGGNK-LHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVEN 119
Query: 1408 CRLRVIPPSFFELMTSLKVLNLSKTRIKSLP----ETLVNLKCLQILILRDCDFLFVLPP 1463
+L+ +P F+ +T+L LNL+ +++SLP + L NL L + + L LP
Sbjct: 120 -QLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDL----SYNQLQSLPE 174
Query: 1464 EV-GSLECLEVLDLRGTEIKMLPKEI-GKLTSLRYL 1497
V L L+ L L ++K +P + +LTSL+Y+
Sbjct: 175 GVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYI 210
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 40.4 bits (93), Expect = 0.010, Method: Composition-based stats.
Identities = 40/121 (33%), Positives = 63/121 (52%), Gaps = 13/121 (10%)
Query: 1385 NDLQTLPGR--PSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLP---- 1438
N L++LP +L L+L N +L+ +P F +TSL LNLS +++SLP
Sbjct: 38 NSLKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVF 96
Query: 1439 ETLVNLKCLQILILRDCDFLFVLPPEV-GSLECLEVLDLRGTEIKMLPKEI-GKLTSLRY 1496
+ L LK L + + + L LP V L L+ L L ++K +P + +LTSL+Y
Sbjct: 97 DKLTQLKELAL----NTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQY 152
Query: 1497 L 1497
+
Sbjct: 153 I 153
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 39.7 bits (91), Expect = 0.015, Method: Composition-based stats.
Identities = 28/116 (24%), Positives = 54/116 (46%), Gaps = 8/116 (6%)
Query: 2 ASSSSSPPRNDKKMYDVFLSFRGEDTRDNFTSHLYSALCQNNVETFIDN-DLKRGDEIPE 60
A +S+PP +D+F+S ED D F L L E + D+ L+ GD +
Sbjct: 13 ADLTSAPP------HDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRR 65
Query: 61 SLLGTIEASTISIIIFSEKYASSKWCLDELLKILECKRNYGQIVIPVFYRVDPSHV 116
S+ + +S I++ S + +W EL + + + + ++P++++V V
Sbjct: 66 SIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEV 121
>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 = 38.5 bits (88), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 39/78 (50%), Gaps = 3/78 (3%)
Query: 1368 PPSEEEWTHAKMIFFMDNDLQTLPGRP--SCPNLLTLFLQRNCRLRVIPPSFFELMTSLK 1425
P + H +I +N + TL + + LLTL L N RLR IPP F+ + SL+
Sbjct: 47 PKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYN-RLRCIPPRTFDGLKSLR 105
Query: 1426 VLNLSKTRIKSLPETLVN 1443
+L+L I +PE N
Sbjct: 106 LLSLHGNDISVVPEGAFN 123
>pdb|1XEU|A Chain A, Crystal Structure Of Internalin C From Listeria
Monocytogenes
Length = 263
Score = 38.5 bits (88), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 45/178 (25%), Positives = 83/178 (46%), Gaps = 30/178 (16%)
Query: 1361 ARAGLTEPPSEEEWTHAKMIFFMDNDLQTLPGRPSCPNLLTLFLQRNCRLRVIPPSFFEL 1420
+ +T+ S++E + + ++++Q+L G NL L L N + P +
Sbjct: 27 GKQSVTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSP---LKD 83
Query: 1421 MTSLKVLNLSKTRIKSL--------------------PETLVNLKCLQILILRDCDFLFV 1460
+T L+ L++++ R+K+L ++L++LK L+IL +R+ +
Sbjct: 84 LTKLEELSVNRNRLKNLNGIPSACLSRLFLDNNELRDTDSLIHLKNLEILSIRNNKLKSI 143
Query: 1461 LPPEVGSLECLEVLDLRGTEIKMLPKEIGKLTSLRYLT-VFFFGSMYKSEYIKLPPDL 1517
+ +G L LEVLDL G EI G LT L+ + + G +E +K P+L
Sbjct: 144 V--MLGFLSKLEVLDLHGNEI----TNTGGLTRLKKVNWIDLTGQKCVNEPVKYQPEL 195
>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 = 38.5 bits (88), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 50/212 (23%), Positives = 94/212 (44%), Gaps = 22/212 (10%)
Query: 237 FEGSYFACNVRAAEETGRLDDLRKELLSKLLNDRNVKNFQNISVNFQSKRLARKKVLIVF 296
F G +V +++G L L+ L ++L D + Q + +N + + R ++L++
Sbjct: 184 FPGGVHWVSVGKQDKSGLLMKLQN-LCTRLDQDESFS--QRLPLNIEEAK-DRLRILML- 238
Query: 297 DDVNHPRQIELLIGRLDR-----FASGSQVIITTRDKQVLTNCEVDHIYQMKELVHADA- 350
HPR + +L D F S Q+++TTRDK V D + K +V ++
Sbjct: 239 --RKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSV-----TDSVMGPKYVVPVESS 291
Query: 351 ---HKLFTQCAFRGDHLDAGYTELAHKALKYAQGVPLALKVLGCYLCGRSKEEWESAMRK 407
K + + A E AH +K +G PL + ++G L WE +++
Sbjct: 292 LGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL-RDFPNRWEYYLKQ 350
Query: 408 LEIVPHMEIQEVLKISYDSLDDSQKRMHDLLR 439
L+ I++ Y++LD++ ++LR
Sbjct: 351 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLR 382
>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 = 38.1 bits (87), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 58/218 (26%), Positives = 86/218 (39%), Gaps = 27/218 (12%)
Query: 1398 NLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLPETLVNLKCLQILILRDCDF 1457
NL TL L N ++ I P F + L+ L LSK ++K LPE + K LQ L + + +
Sbjct: 77 NLHTLILINN-KISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELRVHENEI 133
Query: 1458 LFVLPPEVGSLECLEVLDLRGTEIKMLPKEIGKLTSLRYLTVFFFGSMYKSEYIKLPPDL 1517
V L + V++L +K E G F M K YI+ +
Sbjct: 134 TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA-----------FQGMKKLSYIR----I 178
Query: 1518 ISSDILSRLQALETLSIDVHPGDKRWDKDVKIVITEVSGLTKLSSLSFHFPEIECVAEFL 1577
++I + Q L ++H +K K+ + GL L+ L F I V
Sbjct: 179 ADTNITTIPQGLPPSLTELH---LDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDN-- 233
Query: 1578 KGSAWNNQQLTEFKFVVGHDVKSIVSWVTD--YVQCDY 1613
GS N L E VK + + D Y+Q Y
Sbjct: 234 -GSLANTPHLRELHLNNNKLVK-VPGGLADHKYIQVVY 269
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 38.1 bits (87), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 58/218 (26%), Positives = 86/218 (39%), Gaps = 27/218 (12%)
Query: 1398 NLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLPETLVNLKCLQILILRDCDF 1457
NL TL L N ++ I P F + L+ L LSK ++K LPE + K LQ L + + +
Sbjct: 77 NLHTLILINN-KISKISPGAFAPLVKLERLYLSKNQLKELPEKMP--KTLQELRVHENEI 133
Query: 1458 LFVLPPEVGSLECLEVLDLRGTEIKMLPKEIGKLTSLRYLTVFFFGSMYKSEYIKLPPDL 1517
V L + V++L +K E G F M K YI+ +
Sbjct: 134 TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA-----------FQGMKKLSYIR----I 178
Query: 1518 ISSDILSRLQALETLSIDVHPGDKRWDKDVKIVITEVSGLTKLSSLSFHFPEIECVAEFL 1577
++I + Q L ++H +K K+ + GL L+ L F I V
Sbjct: 179 ADTNITTIPQGLPPSLTELH---LDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDN-- 233
Query: 1578 KGSAWNNQQLTEFKFVVGHDVKSIVSWVTD--YVQCDY 1613
GS N L E VK + + D Y+Q Y
Sbjct: 234 -GSLANTPHLRELHLNNNKLVK-VPGGLADHKYIQVVY 269
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A Novel
E3 Ligase
Length = 622
Score = 38.1 bits (87), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 37/119 (31%), Positives = 51/119 (42%), Gaps = 15/119 (12%)
Query: 1375 THAKMIFFMDNDLQTLPGRPSCPNLLTLFLQRN--CRLRVIPPSFFELMTSLKVLNLSKT 1432
H + DN+L +LP P P L TL + N L V+PP E L + + T
Sbjct: 61 AHITTLVIPDNNLTSLPALP--PELRTLEVSGNQLTSLPVLPPGLLE----LSIFSNPLT 114
Query: 1433 RIKSLPETLVNLKCLQILILRDCDFLFVLPPEVGSLECLEVLDLRGTEIKMLPKEIGKL 1491
+ +LP L C + L VLPP L+ L V D + + LP E+ KL
Sbjct: 115 HLPALPSGL----CKLWIFGNQLTSLPVLPP---GLQELSVSDNQLASLPALPSELCKL 166
Score = 31.2 bits (69), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 62/143 (43%), Gaps = 19/143 (13%)
Query: 1384 DNDLQTLPGRPSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLPETLVN 1443
DN L +LP PS L N +L +P L + L+ L++S ++ SLP
Sbjct: 150 DNQLASLPALPSE---LCKLWAYNNQLTSLP----MLPSGLQELSVSDNQLASLPTLPSE 202
Query: 1444 LKCLQILILRDCDFLFVLPPEVGSLECLEVLDLRGTEIKMLPKEI-------GKLTSLRY 1496
L L R L LP L+ L V R T + +LP E+ +LTSL
Sbjct: 203 LYKLWAYNNR----LTSLPALPSGLKELIVSGNRLTSLPVLPSELKELMVSGNRLTSLPM 258
Query: 1497 LTVFFFG-SMYKSEYIKLPPDLI 1518
L S+Y+++ +LP LI
Sbjct: 259 LPSGLLSLSVYRNQLTRLPESLI 281
>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 = 37.7 bits (86), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 50/212 (23%), Positives = 94/212 (44%), Gaps = 22/212 (10%)
Query: 237 FEGSYFACNVRAAEETGRLDDLRKELLSKLLNDRNVKNFQNISVNFQSKRLARKKVLIVF 296
F G +V +++G L L+ L ++L D + Q + +N + + R ++L++
Sbjct: 178 FPGGVHWVSVGKQDKSGLLMKLQN-LCTRLDQDESFS--QRLPLNIEEAK-DRLRILML- 232
Query: 297 DDVNHPRQIELLIGRLDR-----FASGSQVIITTRDKQVLTNCEVDHIYQMKELVHADA- 350
HPR + +L D F S Q+++TTRDK V D + K +V ++
Sbjct: 233 --RKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSV-----TDSVMGPKYVVPVESS 285
Query: 351 ---HKLFTQCAFRGDHLDAGYTELAHKALKYAQGVPLALKVLGCYLCGRSKEEWESAMRK 407
K + + A E AH +K +G PL + ++G L WE +++
Sbjct: 286 LGKEKGLEILSLFVNMKKADLPEQAHSIIKECKGSPLVVSLIGALL-RDFPNRWEYYLKQ 344
Query: 408 LEIVPHMEIQEVLKISYDSLDDSQKRMHDLLR 439
L+ I++ Y++LD++ ++LR
Sbjct: 345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLR 376
>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 = 37.7 bits (86), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 42/150 (28%), Positives = 69/150 (46%), Gaps = 17/150 (11%)
Query: 1426 VLNLSKTRIKSLPETLVNLKCLQILILRDCDFLFVLPPEVGSLECLEVLDLRGTEIKMLP 1485
L+LS +I ++ + L L L + + L LP E+ +L L VLDL + LP
Sbjct: 228 ALDLSNLQIFNISANIFKYDFLTRLYL-NGNSLTELPAEIKNLSNLRVLDLSHNRLTSLP 286
Query: 1486 KEIGKLTSLRYLTVFFFGSMYKSEYIKLPPDLISSDILSRLQALETLSIDVHPGDKRWDK 1545
E+G L+Y +FF +M + LP + L L+ L ++ +P +K++ K
Sbjct: 287 AELGSCFQLKYF--YFFDNMVTT----LPWE------FGNLCNLQFLGVEGNPLEKQFLK 334
Query: 1546 DVKIVITEVSGLTKLSSLSFHFPEIECVAE 1575
++TE S + L + PEI E
Sbjct: 335 ----ILTEKSVTGLIFYLRDNRPEIPLPHE 360
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 36.2 bits (82), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 44/90 (48%), Gaps = 18/90 (20%)
Query: 1451 ILRDCDFLFVLPPEVGSLECLEVLDLRGTEIKMLPKEIGKLTSLRYLTVFFFGSMYKSEY 1510
IL D F LPP + +VLDL +IK +PK++ KL +L+ L V S
Sbjct: 410 ILTDTIFR-CLPPRI------KVLDLHSNKIKSIPKQVVKLEALQELNV-------ASNQ 455
Query: 1511 IKLPPDLISSDILSRLQALETLSIDVHPGD 1540
+K PD I RL +L+ + + +P D
Sbjct: 456 LKSVPD----GIFDRLTSLQKIWLHTNPWD 481
>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 = 34.3 bits (77), Expect = 0.72, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 1375 THAKMIFFMDNDLQTL-PGRPSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTR 1433
T ++++ DN + L PG LT N +L V+P F+ +T L L+L+ +
Sbjct: 38 TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ 97
Query: 1434 IKSLPE-TLVNLKCL 1447
+KS+P NLK L
Sbjct: 98 LKSIPRGAFDNLKSL 112
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 34.3 bits (77), Expect = 0.74, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 1375 THAKMIFFMDNDLQTL-PGRPSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTR 1433
T ++++ DN + L PG LT N +L V+P F+ +T L L+L+ +
Sbjct: 30 TTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ 89
Query: 1434 IKSLPE-TLVNLKCL 1447
+KS+P NLK L
Sbjct: 90 LKSIPRGAFDNLKSL 104
>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 = 33.5 bits (75), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 48/94 (51%), Gaps = 8/94 (8%)
Query: 1398 NLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLP----ETLVNLKCLQILILR 1453
NL TL L+ N RL++IP F +++L L++S+ +I L + L NLK L++
Sbjct: 81 NLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEV---G 136
Query: 1454 DCDFLFVLPPEVGSLECLEVLDLRGTEIKMLPKE 1487
D D +++ L LE L L + +P E
Sbjct: 137 DNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTE 170
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.1 bits (74), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 28/44 (63%)
Query: 1400 LTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLPETLVN 1443
LT C+L + P+ F ++SL+VLN++ ++KS+P+ + +
Sbjct: 472 LTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFD 515
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.7 bits (73), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 50/187 (26%), Positives = 77/187 (41%), Gaps = 39/187 (20%)
Query: 1368 PPSEEEWTHAKMI--FFMDNDLQTLPGRPSCPNLLTLFLQRNCRLRVIPPSFFEL----- 1420
PPS +T F D+ Q G + L TL LQRN +FF++
Sbjct: 349 PPSPSSFTFLNFTQNVFTDSVFQ---GCSTLKRLQTLILQRNGL-----KNFFKVALMTK 400
Query: 1421 -MTSLKVLNLSKTRIKSLPETLVNLKCLQILILRDCDFLFV------LPPEVGSLECLEV 1473
M+SL+ L++S + S IL+L + LPP+V +V
Sbjct: 401 NMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKV------KV 454
Query: 1474 LDLRGTEIKMLPKEIGKLTSLRYLTVFFFGSMYKSEYIKLPPDLISSDILSRLQALETLS 1533
LDL I +PK++ L +L+ L V S +K PD + RL +L+ +
Sbjct: 455 LDLHNNRIMSIPKDVTHLQALQELNV-------ASNQLKSVPD----GVFDRLTSLQYIW 503
Query: 1534 IDVHPGD 1540
+ +P D
Sbjct: 504 LHDNPWD 510
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 32.7 bits (73), Expect = 2.2, Method: Composition-based stats.
Identities = 23/75 (30%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 1375 THAKMIFFMDNDLQTL-PGRPSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTR 1433
T ++++ DN + L PG LT N +L V+P F+ +T L L+L+ +
Sbjct: 30 TTTQVLYLYDNRITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQ 89
Query: 1434 IKSLPE-TLVNLKCL 1447
+KS+P NL+ L
Sbjct: 90 LKSIPRGAFDNLRSL 104
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 32.0 bits (71), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 67/159 (42%), Gaps = 29/159 (18%)
Query: 291 KVLIVFDDVNHPRQIELLIGRLDRFASGSQVIITTRDKQVLTNCEVDHIYQMKELVHADA 350
+ L++ DDV P L F + Q+++TTRDK V D + K +V ++
Sbjct: 237 RSLLILDDVWDP-------WVLKAFDNQCQILLTTRDKSV-----TDSVMGPKHVVPVES 284
Query: 351 H----------KLFTQCAFRGDHLDAGYTELAHKALKYAQGVPLALKVLGCYLCGRSKEE 400
LF + + L A AH +K +G PL + ++G L
Sbjct: 285 GLGREKGLEILSLFVN--MKKEDLPAE----AHSIIKECKGSPLVVSLIGALL-RDFPNR 337
Query: 401 WESAMRKLEIVPHMEIQEVLKISYDSLDDSQKRMHDLLR 439
W +R+L+ I++ Y++LD++ ++LR
Sbjct: 338 WAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLR 376
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 31.6 bits (70), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 1378 KMIFFMDNDLQTLPGRPSCPNLLTLFLQRNCRLRVIPPSFFELMTSLK 1425
K ++ N L TLP P LL L + RN +L+ +P F+ +TSL+
Sbjct: 454 KELYISRNKLMTLPDASLLPMLLVLKISRN-QLKSVPDGIFDRLTSLQ 500
>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 = 31.6 bits (70), Expect = 4.6, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 6/64 (9%)
Query: 1398 NLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLPE-TLVNLKCLQILILR--- 1453
NL L+ N +L IP F+ +T L L+L+ +KS+P NLK L + L
Sbjct: 58 NLQQLYFNSN-KLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYLYNNP 116
Query: 1454 -DCD 1456
DC+
Sbjct: 117 WDCE 120
>pdb|1GTM|A Chain A, Structure Of Glutamate Dehydrogenase
pdb|1GTM|B Chain B, Structure Of Glutamate Dehydrogenase
pdb|1GTM|C Chain C, Structure Of Glutamate Dehydrogenase
Length = 419
Score = 30.8 bits (68), Expect = 8.0, Method: Composition-based stats.
Identities = 29/105 (27%), Positives = 41/105 (39%), Gaps = 29/105 (27%)
Query: 454 PGKRSRLWHDEDIYEVLKK----NTGTEAIKDISL------------NMSDNEKEIFART 497
P K WH E+ +K T A+ D+ +SD EKE AR
Sbjct: 66 PTKGGIRWHPEETLSTVKALAAWMTWKTAVMDLPYGGGKGGIIVDPKKLSDREKERLAR- 124
Query: 498 FSTMTNLGHLKAYESREIKDVMSDLEVVPFPEVYAKNLVSLKMWD 542
G+++A I DV+S E +P P+VY + M D
Sbjct: 125 -------GYIRA-----IYDVISPYEDIPAPDVYTNPQIMAWMMD 157
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 30.4 bits (67), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 1383 MDNDLQTLPGRPSCPNLLTLFLQRNCRLRVIPPSFFELMTSLKVLNLSKTRIKSLPETLV 1442
+D D L P P LL N +L +P EL TSL+VL++ ++ LPE
Sbjct: 125 LDVDNNQLTXLPELPALLEYINADNNQLTXLP----ELPTSLEVLSVRNNQLTFLPELPE 180
Query: 1443 NLKCLQI 1449
+L+ L +
Sbjct: 181 SLEALDV 187
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 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 51,131,885
Number of Sequences: 62578
Number of extensions: 2030028
Number of successful extensions: 4847
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 40
Number of HSP's that attempted gapping in prelim test: 4774
Number of HSP's gapped (non-prelim): 91
length of query: 1866
length of database: 14,973,337
effective HSP length: 113
effective length of query: 1753
effective length of database: 7,902,023
effective search space: 13852246319
effective search space used: 13852246319
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (27.3 bits)