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= 038551
(366 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 = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 77/279 (27%), Positives = 117/279 (41%), Gaps = 66/279 (23%)
Query: 47 QNLTEIPT--CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-L 103
+ LT IP+ + L L SN L ++ + FH + LR+L L+ N+ L+ LP GIF L
Sbjct: 26 KKLTAIPSNIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIFKEL 84
Query: 104 VSLQHLDISWTGITTLPIEL-KYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRMFEC 162
+L+ L ++ + LPI + LVNL L L+ +L +P +V L L L +
Sbjct: 85 KNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRN-QLKSLPPRVFDSLTKLTYLSL--- 140
Query: 163 GFNVELEADSILFGDSXXXXXXXXXXXXXXXXTITLQSF--GALQRLLSYCRLGSISTQC 220
G+N LQS G +L S L
Sbjct: 141 GYN-------------------------------ELQSLPKGVFDKLTSLKEL------- 162
Query: 221 LCLRHLNNS-NSLSVFAFASLRHLRTLQLYFNDLEELKIDAGELKRIREICGFHSLQKVF 279
R NN + AF L L+TL K+D +LKR+ E F SL+K+
Sbjct: 163 ---RLYNNQLKRVPEGAFDKLTELKTL----------KLDNNQLKRVPE-GAFDSLEKL- 207
Query: 280 YKILKIEARDMACTCSQYQACPRGLTKFEEHPLKRLECA 318
K+L+++ CTC+ + L K + L ++ A
Sbjct: 208 -KMLQLQENPWDCTCNGIIYMAKWLKKKADEGLGGVDTA 245
Score = 48.9 bits (115), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 42/141 (29%), Positives = 71/141 (50%), Gaps = 7/141 (4%)
Query: 24 LTEAPSIGMWKETTRMSLMQNAIQNLTEIP--TCPRLRTLFLPSNHLGTVSNNFFHSMAS 81
LT PS + +T ++ L N + +L +LR L+L N L T+ F + +
Sbjct: 28 LTAIPS-NIPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKN 86
Query: 82 LRVLILSYNRSLENLPLGIFN-LVSLQHLDISWTGITTLPIEL-KYLVNLKCLNLEYTFR 139
L L ++ N+ L+ LP+G+F+ LV+L L + + +LP + L L L+L Y
Sbjct: 87 LETLWVTDNK-LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN-E 144
Query: 140 LSRIPQQVISDLKMLRALRMF 160
L +P+ V L L+ LR++
Sbjct: 145 LQSLPKGVFDKLTSLKELRLY 165
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 65/143 (45%), Gaps = 7/143 (4%)
Query: 21 GVGLTEAPSIGMWKETTRMSLMQNAIQNLTEIP--TCPRLRTLFLPSNHLGTVSNNFFHS 78
G L PS G+ +T ++ L + L++ +L L L N L T+S F
Sbjct: 23 GKSLDSVPS-GIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDD 81
Query: 79 MASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWTGITTLPIEL-KYLVNLKCLNLEY 136
+ L L L+ N+ L +LPLG+F+ L L L + + +LP + L LK L L
Sbjct: 82 LTELGTLGLANNQ-LASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLN- 139
Query: 137 TFRLSRIPQQVISDLKMLRALRM 159
T +L IP L L+ L +
Sbjct: 140 TNQLQSIPAGAFDKLTNLQTLSL 162
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/143 (30%), Positives = 65/143 (45%), Gaps = 7/143 (4%)
Query: 21 GVGLTEAPSIGMWKETTRMSLMQNAIQNLTEIP--TCPRLRTLFLPSNHLGTVSNNFFHS 78
G L PS G+ +T ++ L + L++ +L L L N L T+S F
Sbjct: 23 GKSLDSVPS-GIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDD 81
Query: 79 MASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWTGITTLPIEL-KYLVNLKCLNLEY 136
+ L L L+ N+ L +LPLG+F+ L L L + + +LP + L LK L L
Sbjct: 82 LTELGTLGLANNQ-LASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLN- 139
Query: 137 TFRLSRIPQQVISDLKMLRALRM 159
T +L IP L L+ L +
Sbjct: 140 TNQLQSIPAGAFDKLTNLQTLSL 162
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 59/119 (49%), Gaps = 8/119 (6%)
Query: 23 GLTEAPSIGMWKETTRMSLMQNAIQNL--TEIPTCPRLRTLFLPSNHLGTVSNNFFHSMA 80
GL P + ++TT +++ QN I L ++I + +LR L + N + + + F
Sbjct: 11 GLIHVPK-DLSQKTTILNISQNYISELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQ 69
Query: 81 SLRVLILSYNRSLENLPLGIFNLVSLQHLDISWTGITTLPI--ELKYLVNLKCLNLEYT 137
L L LS+N+ ++ + V+L+HLD+S+ LPI E + LK L L T
Sbjct: 70 ELEYLDLSHNKLVK---ISCHPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTT 125
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 39/118 (33%), Positives = 60/118 (50%), Gaps = 11/118 (9%)
Query: 44 NAIQNLTEIPTCPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIF-N 102
N I + +P P LR L L SNHL T+ F + +L VL+L YN + + F +
Sbjct: 77 NFISSEAFVPV-PNLRYLDLSSNHLHTLDEFLFSDLQALEVLLL-YNNHIVVVDRNAFED 134
Query: 103 LVSLQHLDISWTGITTLPIEL----KYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRA 156
+ LQ L +S I+ P+EL L L L+L + +L ++P ++DL+ L A
Sbjct: 135 MAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLS-SNKLKKLP---LTDLQKLPA 188
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 67/143 (46%), Gaps = 6/143 (4%)
Query: 16 FLVLAGVGLTEAPSIGMWKETTRMSLMQNAIQNLTE--IPTCPRLRTLFLPSNHLGTVSN 73
+L L G L + ++ T + L N +Q+L L+ L L N L ++ +
Sbjct: 67 YLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD 126
Query: 74 NFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWTGITTLPIEL-KYLVNLKC 131
F + +L L L +N+ L++LP G+F+ L +L LD+ + +LP + L LK
Sbjct: 127 GVFDKLTNLTYLYLYHNQ-LQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQ 185
Query: 132 LNLEYTFRLSRIPQQVISDLKML 154
L+L +L +P V L L
Sbjct: 186 LSLNDN-QLKSVPDGVFDRLTSL 207
>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 = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 76/154 (49%), Gaps = 7/154 (4%)
Query: 15 NFLVLAGVGLTEAPSIGMWKETTRMSLMQNAIQNLTEIPTCP--RLRTLFLPSNHLGTVS 72
N + G GLTE P+ + + T + L QN I+ + P +LR + L +N + ++
Sbjct: 14 NIVDCRGKGLTEIPT-NLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELA 72
Query: 73 NNFFHSMASLRVLILSYNRSLENLPLGIF-NLVSLQHLDISWTGITTLPIE-LKYLVNLK 130
+ F + SL L+L Y + LP +F L SLQ L ++ I L ++ + L NL
Sbjct: 73 PDAFQGLRSLNSLVL-YGNKITELPKSLFEGLFSLQLLLLNANKINXLRVDAFQDLHNLN 131
Query: 131 CLNLEYTFRLSRIPQQVISDLKMLRALRMFECGF 164
L+L Y +L I + S L+ ++ + + + F
Sbjct: 132 LLSL-YDNKLQTIAKGTFSPLRAIQTMHLAQNPF 164
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 76/154 (49%), Gaps = 7/154 (4%)
Query: 15 NFLVLAGVGLTEAPSIGMWKETTRMSLMQNAIQNLTEIPTCP--RLRTLFLPSNHLGTVS 72
N + G GLTE P+ + + T + L QN I+ + P +LR + L +N + ++
Sbjct: 14 NIVDCRGKGLTEIPT-NLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELA 72
Query: 73 NNFFHSMASLRVLILSYNRSLENLPLGIF-NLVSLQHLDISWTGITTLPIE-LKYLVNLK 130
+ F + SL L+L Y + LP +F L SLQ L ++ I L ++ + L NL
Sbjct: 73 PDAFQGLRSLNSLVL-YGNKITELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLN 131
Query: 131 CLNLEYTFRLSRIPQQVISDLKMLRALRMFECGF 164
L+L Y +L I + S L+ ++ + + + F
Sbjct: 132 LLSL-YDNKLQTIAKGTFSPLRAIQTMHLAQNPF 164
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 34.7 bits (78), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 6/82 (7%)
Query: 102 NLVSLQHLDISWTGITTLPIELKYLVNLKCLNLEYT------FRLSRIPQQVISDLKMLR 155
LV+LQ L + WTGI +LP + L NLK L + + + +P+ DL+
Sbjct: 181 GLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCT 240
Query: 156 ALRMFECGFNVELEADSILFGD 177
ALR + F ++ D
Sbjct: 241 ALRNYPPIFGGRAPLKRLILKD 262
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 34.7 bits (78), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 42/69 (60%), Gaps = 3/69 (4%)
Query: 55 CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFNLVSLQHLDISWT 114
P+L TL + +N+L + ++ F + SL+ L LS NR L ++ L + + SL H ++S+
Sbjct: 146 TPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVDLSL--IPSLFHANVSYN 202
Query: 115 GITTLPIEL 123
++TL I +
Sbjct: 203 LLSTLAIPI 211
>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 = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 2/59 (3%)
Query: 63 LPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWTGITTLP 120
L +N + T+SN F +M L LILSYNR L +P F+ L SL+ L + I+ +P
Sbjct: 61 LSNNRISTLSNQSFSNMTQLLTLILSYNR-LRCIPPRTFDGLKSLRLLSLHGNDISVVP 118
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 42/69 (60%), Gaps = 3/69 (4%)
Query: 55 CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFNLVSLQHLDISWT 114
P+L TL + +N+L + ++ F + SL+ L LS NR L ++ L + + SL H ++S+
Sbjct: 140 TPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR-LTHVDLSL--IPSLFHANVSYN 196
Query: 115 GITTLPIEL 123
++TL I +
Sbjct: 197 LLSTLAIPI 205
>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 = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 35/58 (60%), Gaps = 1/58 (1%)
Query: 78 SMASLRVLILSYNRSLENLPLGIFNLVSLQHLDISWTGITTLPIELKYLVNLKCLNLE 135
++++LRVL LS+NR L +LP + + L++ +TTLP E L NL+ L +E
Sbjct: 268 NLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE 324
Score = 31.6 bits (70), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 90 NRSLENLPLGIFNLVSLQHLDISWTGITTLPIELKYLVNLKCLNLEYTFRLSRIPQQVIS 149
N + N+ IF L L ++ +T LP E+K L NL+ L+L + RL+ +P ++ S
Sbjct: 233 NLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN-RLTSLPAELGS 291
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 5/47 (10%)
Query: 92 SLENLPLGIFNLVSLQHLDISWTGITTLPIELKYLVNLKCLNLEYTF 138
SL LP I NL +L+ LD+S +T+LP EL C L+Y +
Sbjct: 258 SLTELPAEIKNLSNLRVLDLSHNRLTSLPAELG-----SCFQLKYFY 299
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.0 bits (71), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 25/106 (23%)
Query: 40 SLMQNAIQNLTEIPT--CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLP 97
S++ + +NLT +P PR + L L N + + ++ LRVL LS+NR + +L
Sbjct: 34 SMVDYSNRNLTHVPKDLPPRTKALSLSQNSISELRMPDISFLSELRVLRLSHNR-IRSLD 92
Query: 98 LGIF----------------------NLVSLQHLDISWTGITTLPI 121
+F + SL+HLD+S+ LP+
Sbjct: 93 FHVFLFNQDLEYLDVSHNRLQNISCCPMASLRHLDLSFNDFDVLPV 138
>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 = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 56/115 (48%), Gaps = 8/115 (6%)
Query: 49 LTEIPT-----CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIF-N 102
LT +PT +LR L+L +N + ++ + F+ + SLR L L + LE + F
Sbjct: 95 LTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEG 154
Query: 103 LVSLQHLDISWTGITTLPIELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRAL 157
LV+L++L++ + +P L LV L+ L L RL I L LR L
Sbjct: 155 LVNLRYLNLGMCNLKDIP-NLTALVRLEELELSGN-RLDLIRPGSFQGLTSLRKL 207
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 53 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 111
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 112 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 157
>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 = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 76 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 134
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 135 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 180
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 4/45 (8%)
Query: 76 FHSMASLRVLILSYNR--SLENLPLGIFNLVSLQHLDISWTGITT 118
F+S++SL+VL +S+N SL+ P N SLQ LD S I T
Sbjct: 514 FNSLSSLQVLNMSHNNFFSLDTFPYKCLN--SLQVLDYSLNHIMT 556
>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 = 1.4, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 56/115 (48%), Gaps = 8/115 (6%)
Query: 49 LTEIPT-----CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIF-N 102
LT +PT +LR L+L +N + ++ + F+ + SLR L L + LE + F
Sbjct: 95 LTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEG 154
Query: 103 LVSLQHLDISWTGITTLPIELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRAL 157
LV+L++L++ + +P L LV L+ L L RL I L LR L
Sbjct: 155 LVNLRYLNLGMCNLKDIP-NLTALVRLEELELSGN-RLDLIRPGSFQGLTSLRKL 207
>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 = 1.5, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 110
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 110
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156
>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 = 1.5, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 54 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 112
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 113 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 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 = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 52 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 110
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 156
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 4/45 (8%)
Query: 76 FHSMASLRVLILSYNR--SLENLPLGIFNLVSLQHLDISWTGITT 118
F+S++SL+VL +S+N SL+ P N SLQ LD S I T
Sbjct: 490 FNSLSSLQVLNMSHNNFFSLDTFPYKCLN--SLQVLDYSLNHIMT 532
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 53 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 111
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 112 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 157
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 53/106 (50%), Gaps = 3/106 (2%)
Query: 56 PRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFN-LVSLQHLDISWT 114
P L+ L L + T+ + + S++ L LIL+ N +++L LG F+ L SLQ L T
Sbjct: 54 PELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVALET 112
Query: 115 GITTLP-IELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ +L + +L LK LN+ + S + S+L L L +
Sbjct: 113 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDL 158
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 33/86 (38%), Gaps = 23/86 (26%)
Query: 58 LRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNR-----------------------SLE 94
L+ L+L SN LG + F S+ L VL L N+ L
Sbjct: 66 LKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLT 125
Query: 95 NLPLGIFNLVSLQHLDISWTGITTLP 120
LP GI L L HL + + ++P
Sbjct: 126 ELPRGIERLTHLTHLALDQNQLKSIP 151
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 3/81 (3%)
Query: 22 VGLTEAPSIGMWKETTRMSLMQ---NAIQNLTEIPTCPRLRTLFLPSNHLGTVSNNFFHS 78
+G + I K+ T++ + N I +++ + +L +LFL +N LG
Sbjct: 250 IGTNQISDINAVKDLTKLKXLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDXEVIGG 309
Query: 79 MASLRVLILSYNRSLENLPLG 99
+ +L L LS N + PL
Sbjct: 310 LTNLTTLFLSQNHITDIRPLA 330
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 33/72 (45%), Gaps = 12/72 (16%)
Query: 209 SYCRLGSISTQCLCLRHLNNSNSLSVFAFASLRHLRTLQLYFNDLEELKIDAGELKRIRE 268
SY LG+ S LRHL+ S + ++ A+ L LQ L LKR+ E
Sbjct: 369 SYSDLGTNS-----LRHLDLSFNGAIIMSANFMGLEELQ-------HLDFQHSTLKRVTE 416
Query: 269 ICGFHSLQKVFY 280
F SL+K+ Y
Sbjct: 417 FSAFLSLEKLLY 428
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 52/104 (50%), Gaps = 4/104 (3%)
Query: 58 LRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIF-NLVSLQHLDISWTGI 116
L+ L+L N+L + +N F + +L L L NR + ++P F L SL L + +
Sbjct: 130 LQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNR-IPSVPEHAFRGLHSLDRLLLHQNHV 188
Query: 117 TTL-PIELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLRALRM 159
+ P + L L L L + LS +P +V+ L+ L+ LR+
Sbjct: 189 ARVHPHAFRDLGRLMTLYL-FANNLSMLPAEVLVPLRSLQYLRL 231
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 33/72 (45%), Gaps = 12/72 (16%)
Query: 209 SYCRLGSISTQCLCLRHLNNSNSLSVFAFASLRHLRTLQLYFNDLEELKIDAGELKRIRE 268
SY LG+ S LRHL+ S + ++ A+ L LQ L LKR+ E
Sbjct: 364 SYSDLGTNS-----LRHLDLSFNGAIIMSANFMGLEELQ-------HLDFQHSTLKRVTE 411
Query: 269 ICGFHSLQKVFY 280
F SL+K+ Y
Sbjct: 412 FSAFLSLEKLLY 423
>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 = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 58/141 (41%), Gaps = 22/141 (15%)
Query: 39 MSLMQNAIQNLTEIPTCPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPL 98
+ N I+ L P RL+TL + +N + + ++ L LIL+ N
Sbjct: 47 IDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN-------- 98
Query: 99 GIFNLVSLQHLD--ISWTGITTLPIELKYLVNLKCLNLEYTFRLSRIPQQVISDLKMLR- 155
+LV L LD S +T L I + N K L + + ++PQ + D + ++
Sbjct: 99 ---SLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRL---YVIYKVPQVRVLDFQKVKL 152
Query: 156 -----ALRMFECGFNVELEAD 171
A +MF+ +L D
Sbjct: 153 KERQEAEKMFKGKRGAQLAKD 173
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 47 QNLTEIPT--CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFNLV 104
++ T IP+ +++L L N + + + + A+L+VLIL +R ++L
Sbjct: 41 RSFTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLG 100
Query: 105 SLQHLDISWTGITTLPIE-LKYLVNLKCLNL 134
SL+HLD+S +++L L +LK LNL
Sbjct: 101 SLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 131
>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 = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 47 QNLTEIPT--CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENLPLGIFNLV 104
++ T IP+ +++L L N + + + + A+L+VLIL +R ++L
Sbjct: 15 RSFTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLG 74
Query: 105 SLQHLDISWTGITTLPIE-LKYLVNLKCLNL 134
SL+HLD+S +++L L +LK LNL
Sbjct: 75 SLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 105
>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 = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 39 MSLMQNAIQNLTEIPTCP--RLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLENL 96
+ L+ N I + E P +L+ L++ NHL + N S+ LR+ ++ + +
Sbjct: 83 LVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNLPSSLVELRI----HDNRIRKV 138
Query: 97 PLGIF 101
P G+F
Sbjct: 139 PKGVF 143
>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 = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 53/101 (52%), Gaps = 5/101 (4%)
Query: 38 RMSLMQNAIQNLTEIPT--CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLEN 95
R + + + +L IP+ +++L L +N + +SN+ +L+ L+L+ N +
Sbjct: 32 RNGICKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINT 90
Query: 96 LPLGIF-NLVSLQHLDISWTGITTLPIE-LKYLVNLKCLNL 134
+ F +L SL+HLD+S+ ++ L K L +L LNL
Sbjct: 91 IEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNL 131
>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 = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 4/45 (8%)
Query: 76 FHSMASLRVLILSYNR--SLENLPLGIFNLVSLQHLDISWTGITT 118
F+S++SL+VL +S+N SL+ P N SLQ LD S I T
Sbjct: 195 FNSLSSLQVLNMSHNNFFSLDTFPYKCLN--SLQVLDYSLNHIMT 237
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 53/101 (52%), Gaps = 5/101 (4%)
Query: 38 RMSLMQNAIQNLTEIPT--CPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYNRSLEN 95
R + + + +L IP+ +++L L +N + +SN+ +L+ L+L+ N +
Sbjct: 6 RNGICKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSN-GINT 64
Query: 96 LPLGIF-NLVSLQHLDISWTGITTLPIE-LKYLVNLKCLNL 134
+ F +L SL+HLD+S+ ++ L K L +L LNL
Sbjct: 65 IEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNL 105
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 28.1 bits (61), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 5/74 (6%)
Query: 38 RMSLMQNAIQNLTEIP--TCPRLRTLFLPSNHLGTVSNNFFHSMASLRVLILSYN--RSL 93
+++L QN I + + L L L N LG++ + F ++ L VL LSYN R+L
Sbjct: 303 QLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRAL 362
Query: 94 ENLP-LGIFNLVSL 106
+ LG+ NL L
Sbjct: 363 GDQSFLGLPNLKEL 376
>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 = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 58 LRTLFLPSNHLGTVSNNFFHSMASLRVLILSYN 90
LR L + N L T+ + FHS+ +L LIL N
Sbjct: 298 LRVLNVSGNQLTTLEESVFHSVGNLETLILDSN 330
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
0.324 0.138 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,286,162
Number of Sequences: 62578
Number of extensions: 338665
Number of successful extensions: 926
Number of sequences better than 100.0: 70
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 58
Number of HSP's that attempted gapping in prelim test: 844
Number of HSP's gapped (non-prelim): 150
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)