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= 027772
(219 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 = 129 bits (323), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 71/146 (48%), Positives = 93/146 (63%), Gaps = 4/146 (2%)
Query: 18 SKYDVFLSFRGEDTRNNFTDNLHTALIRNGFIAFKDDETLDRGNEISSELSKAIEESNVS 77
+KYDVFLSFRG DTR+NF L+ L+R FKDD+ L+ G S EL IE S +
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 78 IVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADVRKQKGEDFERVFAKY 137
+V++S+NYA+S WCLDEL I++ K+ V +FYGV+P VR Q G E+ F K+
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDF-EKKGSITVMPIFYGVEPNHVRWQTGVLAEQ-FKKH 124
Query: 138 EEEFKENHEKVLKWRAALTTVASLAG 163
+E+ EKVLKWR ALT A L+G
Sbjct: 125 AS--REDPEKVLKWRQALTNFAQLSG 148
>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 = 122 bits (306), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 63/148 (42%), Positives = 91/148 (61%), Gaps = 3/148 (2%)
Query: 19 KYDVFLSFRGEDTRNNFTDNLHTALIRNGFIAFKDDETLDRGNEISSELSKAIEESNVSI 78
+Y+VFLSFRG DTR FTD L+ +L R F+DD+ L +G EI L +AI++S + +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 79 VILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADVRKQKGEDFERVFAKYE 138
I+S YA S WCL ELA+IV + R + +FY VDP+DVR Q G +++ F K+
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGC-YKKAFRKHA 153
Query: 139 EEFKENHEKVLKWRAALTTVASLAGWHL 166
+F + + + W+ AL V L GWH+
Sbjct: 154 NKF--DGQTIQNWKDALKKVGDLKGWHI 179
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 19 KYDVFLSFRGEDT---RNNFTDNLHTALIRNGFIAFKDDETLDRGNEISSELSKAIEESN 75
++ F+S+ G D+ +N NL + G + G I + IE+S
Sbjct: 12 QFHAFISYSGHDSFWVKNELLPNLE----KEGXQICLHERNFVPGKSIVENIITCIEKSY 67
Query: 76 VSIVILSKNYASSPWCLDEL 95
SI +LS N+ S WC EL
Sbjct: 68 KSIFVLSPNFVQSEWCHYEL 87
>pdb|2L5O|A Chain A, Solution Structure Of A Putative Thioredoxin From
Neisseria Meningitidis
Length = 153
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 85 YASSPWCLDELAKIVECGN--KRKDRKVFAVFYGVDPADVRKQKGEDFERVF 134
+ S P C+ E+ KI++ N K K+ +V AV +DP + +Q +D+ F
Sbjct: 37 FPSCPGCVSEMPKIIKTANDYKNKNFQVLAVAQPIDPIESVRQYVKDYGLPF 88
>pdb|3UB4|A Chain A, S180l Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 20 YDVFLSFRGED--TRNNFTDNLH--TALIRNGFIAFKDDETLDRGNEISSELSKAIEESN 75
YDV + ED + L TA +R F+ +D G I SEL +A+ S+
Sbjct: 11 YDVCVCHSEEDLVAAQDLVSYLEGSTASLRC-FLQLRDATP---GGAIVSELCQALSSSH 66
Query: 76 VSIVILSKNYASSPWC 91
+++++ + PWC
Sbjct: 67 CRVLLITPGFLQDPWC 82
>pdb|2Y92|A Chain A, Crystal Structure Of Mal Adaptor Protein
Length = 145
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 20 YDVFLSFRGED--TRNNFTDNLH--TALIRNGFIAFKDDETLDRGNEISSELSKAIEESN 75
YDV + ED + L TA +R F+ +D G I SEL +A+ S+
Sbjct: 10 YDVCVCHSEEDLVAAQDLVSYLEGSTASLRC-FLQLRDATP---GGAIVSELCQALSSSH 65
Query: 76 VSIVILSKNYASSPWC 91
+++++ + PWC
Sbjct: 66 CRVLLITPGFLQDPWC 81
>pdb|3UB2|A Chain A, Tir Domain Of MalTIRAP
Length = 146
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 20 YDVFLSFRGED--TRNNFTDNLH--TALIRNGFIAFKDDETLDRGNEISSELSKAIEESN 75
YDV + ED + L TA +R F+ +D G I SEL +A+ S+
Sbjct: 11 YDVCVCHSEEDLVAAQDLVSYLEGSTASLRC-FLQLRDATP---GGAIVSELCQALSSSH 66
Query: 76 VSIVILSKNYASSPWC 91
+++++ + PWC
Sbjct: 67 CRVLLITPGFLQDPWC 82
>pdb|3UB3|A Chain A, D96n Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 27/51 (52%), Gaps = 4/51 (7%)
Query: 41 TALIRNGFIAFKDDETLDRGNEISSELSKAIEESNVSIVILSKNYASSPWC 91
TA +R F+ +D G I SEL +A+ S+ +++++ + PWC
Sbjct: 36 TASLRC-FLQLRDATP---GGAIVSELCQALSSSHCRVLLITPGFLQDPWC 82
>pdb|2J67|A Chain A, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
pdb|2J67|B Chain B, The Tir Domain Of Human Toll-Like Receptor 10 (Tlr10)
Length = 178
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 7/77 (9%)
Query: 19 KYDVFLSFRGEDT---RNNFTDNLHTALIRNGFIAFKDDET-LDRGNEISSELSKAIEES 74
++ F+S+ D+ +N NL +G I E+ D G IS + IE+S
Sbjct: 35 RFHAFISYSEHDSLWVKNELIPNLEK---EDGSILICLYESYFDPGKSISENIVSFIEKS 91
Query: 75 NVSIVILSKNYASSPWC 91
SI +LS N+ + WC
Sbjct: 92 YKSIFVLSPNFVQNEWC 108
>pdb|1QHH|B Chain B, Structure Of Dna Helicase With Adpnp
Length = 273
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 29/54 (53%)
Query: 59 RGNEISSELSKAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFA 112
RG +I + LS + N +++L +NY S+ L +++E RK ++++
Sbjct: 93 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWT 146
>pdb|2PJR|A Chain A, Helicase Product Complex
pdb|2PJR|F Chain F, Helicase Product Complex
Length = 548
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 59 RGNEISSELSKAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVF 111
RG +I + LS + N +++L +NY S+ L +++E RK ++++
Sbjct: 260 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIW 312
>pdb|3PJR|A Chain A, Helicase Substrate Complex
pdb|1QHG|A Chain A, Structure Of Dna Helicase Mutant With Adpnp
pdb|1PJR|A Chain A, Structure Of Dna Helicase
Length = 724
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 29/53 (54%)
Query: 59 RGNEISSELSKAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVF 111
RG +I + LS + N +++L +NY S+ L +++E RK ++++
Sbjct: 260 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIW 312
>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 = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 158 VASLAGWHLQDRFFPLIYLLLFNYLFTLIIFCLFSGDVSPLAFYKHTHVTSLEISSSNFF 217
V +AG Q+ F P I+ L N F + C +SP AF + + L +S +NFF
Sbjct: 154 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFF 212
>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 = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 158 VASLAGWHLQDRFFPLIYLLLFNYLFTLIIFCLFSGDVSPLAFYKHTHVTSLEISSSNFF 217
V +AG Q+ F P I+ L N F + C +SP AF + + L +S +NFF
Sbjct: 473 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFF 531
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDNLHTALIRNGFIAFK---DDETLDRGNEISSELSKAIEESNV 76
YD F+S+ D + +NL + N FK G I + +IE+S+
Sbjct: 6 YDAFVSYSERDAY--WVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHK 63
Query: 77 SIVILSKNYASSPWCLDEL 95
++ +LS+N+ S W EL
Sbjct: 64 TVFVLSENFVKSEWXKYEL 82
>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 = 2.4, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 158 VASLAGWHLQDRFFPLIYLLLFNYLFTLIIFCLFSGDVSPLAFYKHTHVTSLEISSSNFF 217
V +AG Q+ F P I+ L N F + C +SP AF + + L +S +NFF
Sbjct: 449 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFF 507
>pdb|1O77|A Chain A, Crystal Structure Of The C713s Mutant Of The Tir Domain
Of Human Tlr2
pdb|1O77|B Chain B, Crystal Structure Of The C713s Mutant Of The Tir Domain
Of Human Tlr2
pdb|1O77|C Chain C, Crystal Structure Of The C713s Mutant Of The Tir Domain
Of Human Tlr2
pdb|1O77|D Chain D, Crystal Structure Of The C713s Mutant Of The Tir Domain
Of Human Tlr2
pdb|1O77|E Chain E, Crystal Structure Of The C713s Mutant Of The Tir Domain
Of Human Tlr2
Length = 146
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDNLHTALIRNGFIAFK---DDETLDRGNEISSELSKAIEESNV 76
YD F+S+ D + +NL + N FK G I + +IE+S+
Sbjct: 3 YDAFVSYSERDAY--WVENLMVQELENFNPPFKLCLHKRDFIPGKWIIDNIIDSIEKSHK 60
Query: 77 SIVILSKNYASSPWCLDEL 95
++ +LS+N+ S W EL
Sbjct: 61 TVFVLSENFVKSEWSKYEL 79
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDNLHTALIRNGFIAFK---DDETLDRGNEISSELSKAIEESNV 76
YD F+S+ D + +NL + N FK G I + +IE+S+
Sbjct: 6 YDAFVSYSERDAY--WVENLXVQELENFNPPFKLXLHKRDFIPGKWIIDNIIDSIEKSHK 63
Query: 77 SIVILSKNYASSPWCLDEL 95
++ +LS+N+ S W EL
Sbjct: 64 TVFVLSENFVKSEWXKYEL 82
>pdb|2CRG|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
Mouse Mta3 Protein
Length = 70
Score = 27.3 bits (59), Expect = 6.3, Method: Composition-based stats.
Identities = 10/41 (24%), Positives = 19/41 (46%)
Query: 130 FERVFAKYEEEFKENHEKVLKWRAALTTVASLAGWHLQDRF 170
FE KY ++F + + L W++ + + W DR+
Sbjct: 19 FEEALEKYGKDFNDIRQDFLPWKSLTSIIEYYYMWKTTDRY 59
>pdb|2EEX|A Chain A, Crystal Structure Of Cel44a, Gh Family 44 Endoglucanase
From Clostridium Thermocellum
pdb|2EJ1|A Chain A, Crystal Structure Of Cel44a, Gh Family 44 Endoglucanase
From Clostridium Thermocellum
pdb|2EQD|A Chain A, Crystal Structure Of Cel44a, Gh Family 44 Endoglucanase
From Clostridium Thermocellum
Length = 519
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 12/77 (15%)
Query: 18 SKYDVFLSFRGEDTRNNFTD---NLHTALIRNGFIAFKDD----ETLDRGNEISSELSKA 70
KY V+L+ D NN+T+ NL+T G F D ET D E+SS +
Sbjct: 382 GKYGVYLATFWGDASNNYTEAGINLYTNYDGKGG-KFGDTSVKCETSDI--EVSSAYASI 438
Query: 71 IEE--SNVSIVILSKNY 85
+ E S + I++L+KNY
Sbjct: 439 VGEDDSKLHIILLNKNY 455
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
0.322 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,897,403
Number of Sequences: 62578
Number of extensions: 230677
Number of successful extensions: 671
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 40
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
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: 49 (23.5 bits)