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= 043461
(196 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 (324), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 70/145 (48%), Positives = 90/145 (62%), Gaps = 4/145 (2%)
Query: 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSI 78
KYDVFLSFRG DTR+NF L+ L+R FKDD+ LE G S EL IE S ++
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 79 VILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADARTQKGEDFERVFAKYE 138
V++S+NYA+S WCLDEL I++ K+ V +FYGV+P R Q G E+ F K+
Sbjct: 68 VVVSENYAASSWCLDELVTIMDF-EKKGSITVMPIFYGVEPNHVRWQTGVLAEQ-FKKHA 125
Query: 139 EEFKENQEKVLKWRAAFTRVASLAG 163
+E+ EKVLKWR A T A L+G
Sbjct: 126 S--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 (307), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 61/148 (41%), Positives = 90/148 (60%), Gaps = 3/148 (2%)
Query: 19 KYDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESNVSI 78
+Y+VFLSFRG DTR FTD L+ +L R F+DD+ L +G EI L +AI++S + +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 79 VILSKNYASSPWCLDELAKIVECGNKRKDRKVFAVFYGVDPADARTQKGEDFERVFAKYE 138
I+S YA S WCL ELA+IV + R + +FY VDP+D R Q G +++ F K+
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGC-YKKAFRKHA 153
Query: 139 EEFKENQEKVLKWRAAFTRVASLAGWHL 166
+F + + + W+ A +V L GWH+
Sbjct: 154 NKF--DGQTIQNWKDALKKVGDLKGWHI 179
>pdb|3UB4|A Chain A, S180l Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 20 YDVFLSFRGED--TRNNFTDHLHA--ALIRNGFIAFKDDETLERGNEISSELSQAIEESN 75
YDV + ED + +L A +R F+ +D G I SEL QA+ 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 = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 20 YDVFLSFRGED--TRNNFTDHLHA--ALIRNGFIAFKDDETLERGNEISSELSQAIEESN 75
YDV + ED + +L A +R F+ +D G I SEL QA+ 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 = 34.3 bits (77), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 20 YDVFLSFRGED--TRNNFTDHLHA--ALIRNGFIAFKDDETLERGNEISSELSQAIEESN 75
YDV + ED + +L A +R F+ +D G I SEL QA+ 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 = 33.9 bits (76), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 48 FIAFKDDETLERGNEISSELSQAIEESNVSIVILSKNYASSPWC 91
F+ +D G I SEL QA+ S+ +++++ + PWC
Sbjct: 42 FLQLRDATP---GGAIVSELCQALSSSHCRVLLITPGFLQDPWC 82
>pdb|2L5O|A Chain A, Solution Structure Of A Putative Thioredoxin From
Neisseria Meningitidis
Length = 153
Score = 33.5 bits (75), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 85 YASSPWCLDELAKIVECGN--KRKDRKVFAVFYGVDPADARTQKGEDFERVF 134
+ S P C+ E+ KI++ N K K+ +V AV +DP ++ Q +D+ F
Sbjct: 37 FPSCPGCVSEMPKIIKTANDYKNKNFQVLAVAQPIDPIESVRQYVKDYGLPF 88
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 19 KYDVFLSFRGEDT---RNNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQAIEESN 75
++ F+S+ G D+ +N +L + 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|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 = 14/54 (25%), Positives = 29/54 (53%)
Query: 59 RGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFA 112
RG +I + LS + N +++L +NY S+ L +++E RK ++++
Sbjct: 93 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWT 146
>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 = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 60 GNEISSELSQAIEESNVSIVILSKNYASSPWC 91
G IS + IE+S SI +LS N+ + WC
Sbjct: 77 GKSISENIVSFIEKSYKSIFVLSPNFVQNEWC 108
>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 = 14/54 (25%), Positives = 29/54 (53%)
Query: 59 RGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVFA 112
RG +I + LS + N +++L +NY S+ L +++E RK ++++
Sbjct: 260 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWT 313
>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 RGNEISSELSQAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRKDRKVF 111
RG +I + LS + N +++L +NY S+ L +++E RK ++++
Sbjct: 260 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIW 312
>pdb|3RGC|A Chain A, The Virulence Factor Peb4 And The Periplasmic Protein
Cj1289 Are Two Structurally Related Sura-Like Chaperones
In The Human Pathogen Campylobacter Jejuni
pdb|3RGC|B Chain B, The Virulence Factor Peb4 And The Periplasmic Protein
Cj1289 Are Two Structurally Related Sura-Like Chaperones
In The Human Pathogen Campylobacter Jejuni
Length = 252
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 29/58 (50%)
Query: 139 EEFKENQEKVLKWRAAFTRVASLAGWHLQDSGDVSPFACYKHTHVTSLEISSSIFFQN 196
E+F+ N +K L+ R + ++AS+A D G F K +I+++I+ N
Sbjct: 87 EQFRTNFKKDLEKRKLYEKIASMAKTDFSDDGAKKFFEQNKDKFTFYTQINANIYLSN 144
>pdb|3ODM|A Chain A, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|B Chain B, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|C Chain C, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|D Chain D, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|E Chain E, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|F Chain F, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|G Chain G, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|H Chain H, Archaeal-Type Phosphoenolpyruvate Carboxylase
Length = 560
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 11/89 (12%)
Query: 21 DVFLSFRGEDTRNNFTDHLHAALIRNGFIAFKDDETLERGNEISSE------LS-QAIEE 73
+V + F G+ T + T + LI NG I KD R + E +S +I E
Sbjct: 67 EVMIDFEGKLTPYHQTSQIALGLISNGIIPGKDVRVTPRIPNANKESVFRQLMSIMSIIE 126
Query: 74 SNVSIVILSKNYASSPWCLDELAKIVECG 102
+NV SK +P + + ++E G
Sbjct: 127 TNVQ----SKELTGTPAISEVVVPMIETG 151
>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 = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 19/86 (22%)
Query: 20 YDVFLSFRGEDTR----------NNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQ 69
YD F+S+ D NF L + FI G I +
Sbjct: 3 YDAFVSYSERDAYWVENLMVQELENFNPPFKLCLHKRDFIP---------GKWIIDNIID 53
Query: 70 AIEESNVSIVILSKNYASSPWCLDEL 95
+IE+S+ ++ +LS+N+ S W EL
Sbjct: 54 SIEKSHKTVFVLSENFVKSEWSKYEL 79
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 26.9 bits (58), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 19/86 (22%)
Query: 20 YDVFLSFRGEDTR----------NNFTDHLHAALIRNGFIAFKDDETLERGNEISSELSQ 69
YD F+S+ D NF L + FI G I +
Sbjct: 6 YDAFVSYSERDAYWVENLXVQELENFNPPFKLXLHKRDFIP---------GKWIIDNIID 56
Query: 70 AIEESNVSIVILSKNYASSPWCLDEL 95
+IE+S+ ++ +LS+N+ S W EL
Sbjct: 57 SIEKSHKTVFVLSENFVKSEWXKYEL 82
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 26.6 bits (57), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDHLHAALIRNGFIAFK---DDETLERGNEISSELSQAIEESNV 76
YD F+S+ D + ++L + N FK G I + +IE+S+
Sbjct: 6 YDAFVSYSERDAY--WVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHK 63
Query: 77 SIVILSKNYASSPWCLDEL 95
++ +LS+N+ S W EL
Sbjct: 64 TVFVLSENFVKSEWXKYEL 82
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
0.318 0.132 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,213,380
Number of Sequences: 62578
Number of extensions: 195160
Number of successful extensions: 652
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 633
Number of HSP's gapped (non-prelim): 26
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)