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= 046157
(577 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 108/499 (21%), Positives = 197/499 (39%), Gaps = 62/499 (12%)
Query: 6 LDLPPECWELIFNSLNDQSHFESLSLVSHRFLSITNYLRNSLKLTDPSTPFLPQLFNRFQ 65
L P E E +F+ + S+SLV + I + R + + + + RF
Sbjct: 7 LSFPEEVLEHVFSFIQLDKDRNSVSLVCKSWYEIERWCRRKVFIGNCYAVSPATVIRRFP 66
Query: 66 NLKKIDLSEFQGDPNSILYLISRSGLDLESLNISNLKSFPFMGLKELGTK---------- 115
++ ++L +G P+ + + G S + L+E+ K
Sbjct: 67 KVRSVEL---KGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLE 123
Query: 116 -----MKNLKELNCSKNFSFRDSDLIAVAETCEFLEVLDISYPENDS------SFLPQGF 164
KN K L S F L A+A TC L+ LD+ + D S P +
Sbjct: 124 LIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTY 183
Query: 165 Q-----NIQSFSFYITDSGIEALSMKLKRLKRINLSGNFFITDKSLMFLSSNLVLLREI- 218
NI + ++ S +E L + LK + L N + + L L L E+
Sbjct: 184 TSLVSLNISCLASEVSFSALERLVTRCPNLKSLKL--NRAVPLEKLATLLQRAPQLEELG 241
Query: 219 ---LIRDCDFITQSGISFAMRNSPNLVSISVNGIGIPTIDSCFKESFAYARGLCEIDLSN 275
+ SG+S A+ L +S +P ++ L ++LS
Sbjct: 242 TGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAY---LPAVYSVCSRLTTLNLSY 298
Query: 276 SFI-SDELLRLLGEACLPLKKL-VLSHCYNFTLAGISFLLSKYQSLEHLN--------LE 325
+ + S +L++LL + C L++L VL + + AG+ L S + L L +E
Sbjct: 299 ATVQSYDLVKLLCQ-CPKLQRLWVLDYIED---AGLEVLASTCKDLRELRVFPSEPFVME 354
Query: 326 AANFLEDESMIDLSKFLTSLNFIDLGFCAKLTNSTFFTILRECPLLSEIKMETTNLGLDD 385
L ++ ++ +S L + L FC ++TN+ TI R P ++ ++ D
Sbjct: 355 PNVALTEQGLVSVSMGCPKLESV-LYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPD 413
Query: 386 FTT--PLVINPQVKSLH------LARNGNLSDESLKKLAILCPNLEVIDLSHCLGITEEG 437
+ T PL I H L+ +G L+D+ + + +E++ ++ G ++ G
Sbjct: 414 YLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFA-GDSDLG 472
Query: 438 IGEILKSCCEIKCLEIKRC 456
+ +L C ++ LEI+ C
Sbjct: 473 MHHVLSGCDSLRKLEIRDC 491
Score = 34.3 bits (77), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 38/73 (52%), Gaps = 5/73 (6%)
Query: 471 LEVLQASGSALNDHALKMIANTCSRILHLDLDNCLNVTTSGVKEVVEHCRTLREINLRWC 530
LE ++ + D L++IA + L L +C +T G+ + CR L+E++LR
Sbjct: 107 LEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLR-- 164
Query: 531 DEVNVDIVA--WM 541
E +VD V+ W+
Sbjct: 165 -ESDVDDVSGHWL 176
>pdb|3OGK|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGK|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And An
Incomplete Jaz1 Degron
pdb|3OGL|B Chain B, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|D Chain D, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|F Chain F, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|H Chain H, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|J Chain J, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|L Chain L, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|N Chain N, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGL|P Chain P, Structure Of Coi1-Ask1 In Complex With Ja-Isoleucine And
The Jaz1 Degron
pdb|3OGM|B Chain B, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|D Chain D, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|F Chain F, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|H Chain H, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|J Chain J, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|L Chain L, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|N Chain N, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
pdb|3OGM|P Chain P, Structure Of Coi1-Ask1 In Complex With Coronatine And The
Jaz1 Degron
Length = 592
Score = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 113/536 (21%), Positives = 208/536 (38%), Gaps = 106/536 (19%)
Query: 14 ELIFNSLNDQSHFESLSLVSHRFLSITNYLRNSLKLTDPSTPFLPQLFNRFQNLKKIDLS 73
E + + D +S SLV R+ I + R + + T +L RF NL+ + L
Sbjct: 22 EQVMTYITDPKDRDSASLVCRRWFKIDSETREHVTMALCYTATPDRLSRRFPNLRSLKL- 80
Query: 74 EFQGDPNSILY-LISRS-------GLDLESLNISNLKSFPF-------MGLKELG-TKMK 117
+G P + ++ LI + + S N+ LKS F + L L +
Sbjct: 81 --KGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARAD 138
Query: 118 NLKELNCSKNFSFRDSDLIAVAETCEFLEVL---DISYPENDSSFLPQGFQN---IQSFS 171
+L+ L K F L+++ C ++ L + S+ E D +L + Q+ ++ +
Sbjct: 139 DLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLN 198
Query: 172 FYITDSGIEALSMKLKRLKRINLSGNFFITDKSLMFLSSNLVLLREILIRDCDFITQSGI 231
FY+T+ I+ K L ++ N L + + D + + G
Sbjct: 199 FYMTEFAK--------------------ISPKDLETIARNCRSLVSVKVGDFEILELVGF 238
Query: 232 SFAMRNSPNLVSISVN-GIGIPTIDSCFKESFAYARGLCEIDLSNSFISDELLRLLGEAC 290
A N S+N IG+P + + R LC + L S++ + +L
Sbjct: 239 FKAAANLEEFCGGSLNEDIGMPEK----YMNLVFPRKLCRLGL--SYMGPNEMPILFPFA 292
Query: 291 LPLKKL--------------VLSHCYNFTL---------AGISFLLSKYQSLEHLNLEAA 327
++KL ++ C N + G+ L + L+ L +E
Sbjct: 293 AQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERG 352
Query: 328 ---NFLEDE-------SMIDLSKFLTSLNFIDLGFCAKLTNSTFFTILRECPLLSEIKM- 376
+EDE +I L++ L ++ + + + +TN + +I L + ++
Sbjct: 353 ADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDITNESLESIGTYLKNLCDFRLV 411
Query: 377 ------ETTNLGLDDFTTPLVINPQVKSLH----LARNGNLSDESLKKLAILCPNLEVID 426
T+L LD+ L+I K L R G L+D L + PN+ +
Sbjct: 412 LLDREERITDLPLDNGVRSLLIG--CKKLRRFAFYLRQGGLTDLGLSYIGQYSPNVRWML 469
Query: 427 LSHCLGITEEGIGEILKSCCEIKCLEIKRC----RAVFDLGIDLELPKLEVLQASG 478
L + +G ++EG+ E + C ++ LE++ C RA+ +LP L L G
Sbjct: 470 LGY-VGESDEGLMEFSRGCPNLQKLEMRGCCFSERAI--AAAVTKLPSLRYLWVQG 522
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 37.0 bits (84), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 41/154 (26%), Positives = 75/154 (48%), Gaps = 8/154 (5%)
Query: 293 LKKLVLSHCYNFTLAGISFLLSKYQSLEHLNLEAA-NFLEDESMIDLSKFLTSLNFIDL- 350
L +L LS C F+ + LLS L+ LNL +F E + ++ ++ ++L
Sbjct: 144 LVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLS 203
Query: 351 GFCAKLTNSTFFTILRECPLLSEIKM-ETTNLGLDDFTTPLVINPQVKSLHLARNGNLSD 409
G+ L S T++R CP L + + ++ L D F +N ++ L L+R ++
Sbjct: 204 GYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLN-YLQHLSLSRCYDIIP 262
Query: 410 ESLKKLAILCPNLEVIDLSHCLGITEEGIGEILK 443
E+L +L + P L+ + + GI +G ++LK
Sbjct: 263 ETLLELGEI-PTLKTLQV---FGIVPDGTLQLLK 292
Score = 32.7 bits (73), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 463 GIDLELPKLEVLQASGSALNDHALKMIANTCSRILHLDLDNCLNVTTSGVKEVVEHCRTL 522
GI + KL+ L G L+D + +A S ++ L+L C + ++ ++ C L
Sbjct: 112 GILSQCSKLQNLSLEGLRLSDPIVNTLAKN-SNLVRLNLSGCSGFSEFALQTLLSSCSRL 170
Query: 523 REINLRWC 530
E+NL WC
Sbjct: 171 DELNLSWC 178
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 359 STFFTILRECPLLSEIKMETTNLGLDDFTTPLVINPQVKSLHLARNGNLSDESLKKLAIL 418
ST IL +C L + +E L D L N + L+L+ S+ +L+ L
Sbjct: 108 STLHGILSQCSKLQNLSLEGLRLS-DPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSS 166
Query: 419 CPNLEVIDLSHCLGITEEGI 438
C L+ ++LS C TE+ +
Sbjct: 167 CSRLDELNLSWCFDFTEKHV 186
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 57/111 (51%), Gaps = 8/111 (7%)
Query: 422 LEVIDLSHCLGITEEGIGEILKSCCEIKCLEIKRCR----AVFDLGIDLELPKLEVLQAS 477
++ +DLS+ + I + IL C +++ L ++ R V L + L +L + S
Sbjct: 95 VQHMDLSNSV-IEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCS 153
Query: 478 GSALNDHALKMIANTCSRILHLDLDNCLNVTTSGVKEVVEHC-RTLREINL 527
G ++ AL+ + ++CSR+ L+L C + T V+ V H T+ ++NL
Sbjct: 154 G--FSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNL 202
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 36.2 bits (82), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 72/153 (47%), Gaps = 6/153 (3%)
Query: 293 LKKLVLSHCYNFTLAGISFLLSKYQSLEHLNLEAA-NFLEDESMIDLSKFLTSLNFIDL- 350
L +L LS C F+ + LLS L+ LNL +F E + ++ ++ ++L
Sbjct: 106 LVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLS 165
Query: 351 GFCAKLTNSTFFTILRECPLLSEIKMETTNLGLDDFTTPLVINPQVKSLHLARNGNLSDE 410
G+ L S T++R CP L + + + + +D ++ L L+R ++ E
Sbjct: 166 GYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPE 225
Query: 411 SLKKLAILCPNLEVIDLSHCLGITEEGIGEILK 443
+L +L + P L+ + + GI +G ++LK
Sbjct: 226 TLLELGEI-PTLKTLQV---FGIVPDGTLQLLK 254
Score = 32.7 bits (73), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 463 GIDLELPKLEVLQASGSALNDHALKMIANTCSRILHLDLDNCLNVTTSGVKEVVEHCRTL 522
GI + KL+ L G L+D + +A S ++ L+L C + ++ ++ C L
Sbjct: 74 GILSQCSKLQNLSLEGLRLSDPIVNTLAKN-SNLVRLNLSGCSGFSEFALQTLLSSCSRL 132
Query: 523 REINLRWC 530
E+NL WC
Sbjct: 133 DELNLSWC 140
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 359 STFFTILRECPLLSEIKMETTNLGLDDFTTPLVINPQVKSLHLARNGNLSDESLKKLAIL 418
ST IL +C L + +E L D L N + L+L+ S+ +L+ L
Sbjct: 70 STLHGILSQCSKLQNLSLEGLRLS-DPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSS 128
Query: 419 CPNLEVIDLSHCLGITEEGI 438
C L+ ++LS C TE+ +
Sbjct: 129 CSRLDELNLSWCFDFTEKHV 148
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 57/111 (51%), Gaps = 8/111 (7%)
Query: 422 LEVIDLSHCLGITEEGIGEILKSCCEIKCLEIKRCR----AVFDLGIDLELPKLEVLQAS 477
++ +DLS+ + I + IL C +++ L ++ R V L + L +L + S
Sbjct: 57 VQHMDLSNSV-IEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCS 115
Query: 478 GSALNDHALKMIANTCSRILHLDLDNCLNVTTSGVKEVVEHC-RTLREINL 527
G ++ AL+ + ++CSR+ L+L C + T V+ V H T+ ++NL
Sbjct: 116 G--FSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNL 164
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 52/224 (23%), Positives = 100/224 (44%), Gaps = 44/224 (19%)
Query: 42 YLRNSLKLTDPSTPFLPQLFNRFQNLKKIDLSEFQGDPNSILYLISRSGLDLESLNISNL 101
Y++ +++ D T L +L +NL+K+DLS D+E+ + NL
Sbjct: 330 YIKGNMRKLDLGTRCLEKL----ENLQKLDLSHS----------------DIEASDCCNL 369
Query: 102 KSFPFMGLKELGTKMKNLKELNCSKNFSFRDSDLIAVAETCEFLEVLDISYPENDSSFLP 161
+ LK L ++L+ LN S N D + C LE+LD+++
Sbjct: 370 Q------LKNL----RHLQYLNLSYNEPLGLED--QAFKECPQLELLDVAFTHLHVKAPH 417
Query: 162 QGFQNIQ-----SFSFYITDSGIEALSMKLKRLKRINLSGNFF----ITDKSLMFLSSNL 212
FQN+ + S + D+ + L L+ L+ +NL GN F I+ +L+ + +L
Sbjct: 418 SPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGSISKTNLLQMVGSL 477
Query: 213 VLLREILIRDCDFITQSGISFAMRNSPNLVSISVNGIGIPTIDS 256
+L ++ C+ ++ +F + N + +S N + ++D+
Sbjct: 478 EIL---ILSSCNLLSIDQQAFHGLRNVNHLDLSHNSLTGDSMDA 518
>pdb|4GS3|A Chain A, Dimeric Structure Of The N-terminal Domain Of Prib Protein
From Thermoanaerobacter Tencongensis Solved Ab Initio
Length = 107
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 323 NLEAANFLEDESMIDLSKFLTSLNFIDLGFCAKLTNSTFFTILRECPLLSEIK 375
N A NFLE+ ++ + K T L F +L FF + E P LSE K
Sbjct: 2 NAMAGNFLENNTVTLVGKVFTPLEF-----SHELYGEKFFNFILEVPRLSETK 49
>pdb|1M1C|A Chain A, Structure Of The L-A Virus
pdb|1M1C|B Chain B, Structure Of The L-A Virus
Length = 680
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 249 IGIPTIDSCFKESFAYARGLCE--IDLSNSFISDELLRLLGEACLPLKKLVLSHCYNFT 305
+G PT+ CF E +Y G+ + + L D +L L C V SH YN T
Sbjct: 56 VGNPTV--CFNEGSSYLEGIAKKYLTLDGGLAIDNVLNELRSTCGIPGNAVASHAYNIT 112
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 56/124 (45%), Gaps = 12/124 (9%)
Query: 142 CEFLEVLDISYPENDSSFLPQGFQNIQ-----SFSFYITDSGIEALSMKLKRLKRINLSG 196
C LE+LD+++ + FQN+ + ++ D+ + L L L+ +NL G
Sbjct: 396 CPQLELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYCFLDTSNQHLLAGLPVLRHLNLKG 455
Query: 197 NFF----ITDKSLMFLSSNLVLLREILIRDCDFITQSGISFAMRNSPNLVSISVNGIGIP 252
N F IT +L+ +L +L ++ C ++ +F + V +S N +
Sbjct: 456 NHFQDGTITKTNLLQTVGSLEVL---ILSSCGLLSIDQQAFHSLGKMSHVDLSHNSLTCD 512
Query: 253 TIDS 256
+IDS
Sbjct: 513 SIDS 516
>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 = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 56 FLPQLFNRFQNLKKIDLSEFQGD---PNSILYLISRSGLDLESLNISNLKSFPFMGLKEL 112
FLP +F +NL +DLS+ Q + P + L S L++ N +L +FP+ L L
Sbjct: 166 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSL 225
Query: 113 GTKMKNLKELNCSK 126
+L + SK
Sbjct: 226 QVLDYSLNHIMTSK 239
>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 = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 56 FLPQLFNRFQNLKKIDLSEFQGD---PNSILYLISRSGLDLESLNISNLKSFPFMGLKEL 112
FLP +F +NL +DLS+ Q + P + L S L++ N +L +FP+ L L
Sbjct: 485 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSL 544
Query: 113 GTKMKNLKELNCSK 126
+L + SK
Sbjct: 545 QVLDYSLNHIMTSK 558
>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 = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 56 FLPQLFNRFQNLKKIDLSEFQGD---PNSILYLISRSGLDLESLNISNLKSFPFMGLKEL 112
FLP +F +NL +DLS+ Q + P + L S L++ N +L +FP+ L L
Sbjct: 461 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSL 520
Query: 113 GTKMKNLKELNCSK 126
+L + SK
Sbjct: 521 QVLDYSLNHIMTSK 534
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
0.323 0.139 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,809,675
Number of Sequences: 62578
Number of extensions: 632183
Number of successful extensions: 1596
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1544
Number of HSP's gapped (non-prelim): 64
length of query: 577
length of database: 14,973,337
effective HSP length: 104
effective length of query: 473
effective length of database: 8,465,225
effective search space: 4004051425
effective search space used: 4004051425
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: 54 (25.4 bits)