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= 028695
(205 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 = 124 bits (310), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 68/143 (47%), Positives = 88/143 (61%), Gaps = 12/143 (8%)
Query: 18 SKYDVFLSFRGEDTRNNFTDNLHTALIRNGFIAFKDDETLDRGNEISSELSKAIEESNVS 77
+KYDVFLSFRG DTR+NF L+ L+R FKDD+ L+ G S EL IE S +
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 78 IVILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADVRKQKG---EDFER-- 132
+V++S+NYA+S WCLDEL I++ K+ V +FYGV+P VR Q G E F++
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDF-EKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHA 125
Query: 133 ------KVLKWRAALTTVASLAG 149
KVLKWR ALT A L+G
Sbjct: 126 SREDPEKVLKWRQALTNFAQLSG 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 = 114 bits (286), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 61/145 (42%), Positives = 85/145 (58%), Gaps = 11/145 (7%)
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 VILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADVRKQKG----------E 128
I+S YA S WCL ELA+IV + R + +FY VDP+DVR Q G
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 129 DFERKVLK-WRAALTTVASLAGWHL 152
F+ + ++ W+ AL V L GWH+
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGWHI 179
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 35.0 bits (79), Expect = 0.025, 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 = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 85 YASSPWCLDELAKIVECGN--KRKDRKVFAVFYGVDPADVRKQKGEDF 130
+ S P C+ E+ KI++ N K K+ +V AV +DP + +Q +D+
Sbjct: 37 FPSCPGCVSEMPKIIKTANDYKNKNFQVLAVAQPIDPIESVRQYVKDY 84
>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 = 32.3 bits (72), 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: 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 = 32.3 bits (72), Expect = 0.17, 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|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 = 0.23, 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|3UB3|A Chain A, D96n Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 31.6 bits (70), Expect = 0.28, 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|1QHH|B Chain B, Structure Of Dna Helicase With Adpnp
Length = 273
Score = 29.6 bits (65), Expect = 1.1, 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: 93 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIW 145
>pdb|2PJR|A Chain A, Helicase Product Complex
pdb|2PJR|F Chain F, Helicase Product Complex
Length = 548
Score = 29.3 bits (64), Expect = 1.4, 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 = 1.5, 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 = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 144 VASLAGWHLQDRFFPLIYLLLFNYLFTLIIFCLFSGDVSPLAFYKHTHVTSLEISSSNFF 203
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 = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 144 VASLAGWHLQDRFFPLIYLLLFNYLFTLIIFCLFSGDVSPLAFYKHTHVTSLEISSSNFF 203
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 = 29.3 bits (64), Expect = 1.6, 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: 6 YDAFVSYSERDAY--WVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHK 63
Query: 77 SIVILSKNYASSPWCLDEL 95
++ +LS+N+ S W EL
Sbjct: 64 TVFVLSENFVKSEWXKYEL 82
>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 = 28.9 bits (63), Expect = 1.8, 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|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 = 2.1, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 144 VASLAGWHLQDRFFPLIYLLLFNYLFTLIIFCLFSGDVSPLAFYKHTHVTSLEISSSNFF 203
V +AG Q+ F P I+ L N F + C +SP AF + + L +S +NFF
Sbjct: 449 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLE-QLSPTAFNSLSSLQVLNMSHNNFF 507
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 28.5 bits (62), Expect = 2.5, 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|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 = 8.7, 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
>pdb|2E0P|A Chain A, The Crystal Structure Of Cel44a
pdb|2E4T|A Chain A, Crystal Structure Of Cel44a, Gh Family 44 Endoglucanase
From Clostridium Thermocellum
pdb|2EO7|A Chain A, Crystal Structure Of Cel44a, Gh Family 44 Endoglucanase
From Clostridium Thermocellum
Length = 519
Score = 26.6 bits (57), Expect = 9.1, 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
0.323 0.137 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,408,308
Number of Sequences: 62578
Number of extensions: 205416
Number of successful extensions: 476
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 37
length of query: 205
length of database: 14,973,337
effective HSP length: 94
effective length of query: 111
effective length of database: 9,091,005
effective search space: 1009101555
effective search space used: 1009101555
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)