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= 041427
(158 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 (312), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 68/143 (47%), Positives = 88/143 (61%), Gaps = 8/143 (5%)
Query: 18 TKYDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFKDDETLDRGNEISSELSKAIEESNVS 77
TKYDVFLSFRG DTR+NF L+ L+R FKDD+ L+ G S EL IE S +
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 78 IVILSKNYASSPWCLDELAKIVECGNKRNDRKVFAVFYGVDPTDRVFAK--YEEEFK--- 132
+V++S+NYA+S WCLDEL I++ K+ V +FYGV+P + E+FK
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDF-EKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHA 125
Query: 133 --ENHEKVLKWRAALTRVASLAG 153
E+ EKVLKWR 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 (285), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 59/147 (40%), Positives = 86/147 (58%), Gaps = 11/147 (7%)
Query: 19 KYDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFKDDETLDRGNEISSELSKAIEESNVSI 78
+Y+VFLSFRG DTR FTD L+ +L R F+DD+ L +G EI L +AI++S + +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 79 VILSKNYASSPWCLDELAKIVECGNKRNDRKVFAVFYGVDPTD---------RVFAKYEE 129
I+S YA S WCL ELA+IV + R + +FY VDP+D + F K+
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 130 EFKENHEKVLKWRAALTRVASLAGWHL 156
+F + + + W+ AL +V L GWH+
Sbjct: 155 KF--DGQTIQNWKDALKKVGDLKGWHI 179
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 33.9 bits (76), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 19 KYDVFLSFRGEDT---RNNFTDHLHVALIRNGFVAFKDDETLDRGNEISSELSKAIEESN 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|3UB4|A Chain A, S180l Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 60 GNEISSELSKAIEESNVSIVILSKNYASSPWC 91
G I SEL +A+ S+ +++++ + PWC
Sbjct: 51 GGAIVSELCQALSSSHCRVLLITPGFLQDPWC 82
>pdb|2Y92|A Chain A, Crystal Structure Of Mal Adaptor Protein
Length = 145
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 60 GNEISSELSKAIEESNVSIVILSKNYASSPWC 91
G I SEL +A+ S+ +++++ + PWC
Sbjct: 50 GGAIVSELCQALSSSHCRVLLITPGFLQDPWC 81
>pdb|3UB2|A Chain A, Tir Domain Of MalTIRAP
Length = 146
Score = 32.3 bits (72), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 60 GNEISSELSKAIEESNVSIVILSKNYASSPWC 91
G I SEL +A+ S+ +++++ + PWC
Sbjct: 51 GGAIVSELCQALSSSHCRVLLITPGFLQDPWC 82
>pdb|3UB3|A Chain A, D96n Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 32.0 bits (71), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 60 GNEISSELSKAIEESNVSIVILSKNYASSPWC 91
G I SEL +A+ S+ +++++ + PWC
Sbjct: 51 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 = 31.6 bits (70), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 54 DETLDRGNEISSELSKAIEESNVSIVILSKNYASSPWC 91
+ D G IS + IE+S SI +LS N+ + WC
Sbjct: 71 ESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEWC 108
>pdb|2L5O|A Chain A, Solution Structure Of A Putative Thioredoxin From
Neisseria Meningitidis
Length = 153
Score = 30.4 bits (67), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 85 YASSPWCLDELAKIVECGN--KRNDRKVFAVFYGVDPTDRV 123
+ S P C+ E+ KI++ N K + +V AV +DP + V
Sbjct: 37 FPSCPGCVSEMPKIIKTANDYKNKNFQVLAVAQPIDPIESV 77
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFK---DDETLDRGNEISSELSKAIEESNV 76
YD F+S+ D + ++L V + 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|4E9E|A Chain A, Structure Of The Glycosylase Domain Of Mbd4
pdb|4E9F|A Chain A, Stucture Of The Glycosylase Domain Of Mbd4 Bound To Ap
Site Containing Dna
Length = 161
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 65 SELSKAIEESNV---SIVILSKNYASSPWCLD-ELAKIVECGNKRNDRKVFAV--FYGVD 118
SEL K + ++ +IV S Y + W EL I + GN + ++F V + V
Sbjct: 75 SELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGN--DSYRIFCVNEWKQVH 132
Query: 119 PTDRVFAKYEEEFKENHEKV 138
P D KY + ENHEK+
Sbjct: 133 PEDHKLNKYHDWLWENHEKL 152
>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 = 1.6, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFK---DDETLDRGNEISSELSKAIEESNV 76
YD F+S+ D + ++L V + 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|4DK9|A Chain A, Crystal Structure Of Mbd4 Catalytic Domain Bound To Abasic
Dna
Length = 157
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 5/65 (7%)
Query: 77 SIVILSKNYASSPWCLD-ELAKIVECGNKRNDRKVFAV--FYGVDPTDRVFAKYEEEFKE 133
+IV S Y + W EL I + GN + ++F V + V P D KY + E
Sbjct: 92 TIVKFSDEYLTKQWKYPIELHGIGKYGN--DSYRIFCVNEWKQVHPEDHKLNKYHDWLWE 149
Query: 134 NHEKV 138
NHEK+
Sbjct: 150 NHEKL 154
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 5/79 (6%)
Query: 20 YDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFK---DDETLDRGNEISSELSKAIEESNV 76
YD F+S+ D + ++L V + 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|4EW4|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With Dna
Containing A Ribose Sugar
Length = 146
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 38/80 (47%), Gaps = 8/80 (10%)
Query: 65 SELSKAIEESNV---SIVILSKNYASSPWCLD-ELAKIVECGNKRNDRKVFAV--FYGVD 118
SEL K + ++ +I+ S Y + W EL I + GN + ++F V + V
Sbjct: 66 SELLKPLGLYDLRAKTIIKFSDEYLTKQWRYPIELHGIGKYGN--DSYRIFCVNEWKQVH 123
Query: 119 PTDRVFAKYEEEFKENHEKV 138
P D KY + ENHEK+
Sbjct: 124 PEDHKLNKYHDWLWENHEKL 143
>pdb|1NGN|A Chain A, Mismatch Repair In Methylated Dna. Structure Of The
Mismatch-Specific Thymine Glycosylase Domain Of
Methyl-Cpg- Binding Protein Mbd4
Length = 155
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 5/65 (7%)
Query: 77 SIVILSKNYASSPWCLD-ELAKIVECGNKRNDRKVFAV--FYGVDPTDRVFAKYEEEFKE 133
+I+ S Y + W EL I + GN + ++F V + V P D KY + E
Sbjct: 90 TIIKFSDEYLTKQWRYPIELHGIGKYGN--DSYRIFCVNEWKQVHPEDHKLNKYHDWLWE 147
Query: 134 NHEKV 138
NHEK+
Sbjct: 148 NHEKL 152
>pdb|1RYT|A Chain A, Rubrerythrin
Length = 190
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 17 QTKYDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFKD--DETLDRGNEISSELSKAIEES 74
+T+ ++ +F GE N ++ ++GFV D ET D+ E + L K +E
Sbjct: 7 RTEKNILTAFAGESQARNRYNYFGGQAKKDGFVQISDIFAETADQEREHAKRLFKFLEGG 66
Query: 75 NVSIV 79
++ IV
Sbjct: 67 DLEIV 71
>pdb|1B71|A Chain A, Rubrerythrin
pdb|1DVB|A Chain A, Rubrerythrin
pdb|1JYB|A Chain A, Crystal Structure Of Rubrerythrin
pdb|1LKM|A Chain A, Crystal Structure Of Desulfovibrio Vulgaris Rubrerythrin
All-Iron(Iii) Form
pdb|1LKO|A Chain A, Crystal Structure Of Desulfovibrio Vulgaris Rubrerythrin
All-iron(ii) Form
pdb|1LKP|A Chain A, Crystal Structure Of Desulfovibrio Vulgaris Rubrerythrin
All-iron(ii) Form, Azide Adduct
pdb|1QYB|A Chain A, X-Ray Crystal Structure Of Desulfovibrio Vulgaris
Rubrerythrin With Zinc Substituted Into The [fe(Scys)4]
Site And Alternative Diiron Site Structures
pdb|1S2Z|A Chain A, X-Ray Crystal Structure Of Desulfovibrio Vulgaris
Rubrerythrin With Displacement Of Iron By Zinc At The
Diiron Site
pdb|1S30|A Chain A, X-Ray Crystal Structure Of Desulfovibrio Vulgaris
Rubrerythrin With Displacement Of Iron By Zinc At The
Diiron Site
Length = 191
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 17 QTKYDVFLSFRGEDTRNNFTDHLHVALIRNGFVAFKD--DETLDRGNEISSELSKAIEES 74
+T+ ++ +F GE N ++ ++GFV D ET D+ E + L K +E
Sbjct: 8 RTEKNILTAFAGESQARNRYNYFGGQAKKDGFVQISDIFAETADQEREHAKRLFKFLEGG 67
Query: 75 NVSIV 79
++ IV
Sbjct: 68 DLEIV 72
>pdb|1QHH|B Chain B, Structure Of Dna Helicase With Adpnp
Length = 273
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 59 RGNEISSELSKAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRNDRKVFA 112
RG +I + LS + N +++L +NY S+ L +++E R ++++
Sbjct: 93 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWT 146
>pdb|2PJR|A Chain A, Helicase Product Complex
pdb|2PJR|F Chain F, Helicase Product Complex
Length = 548
Score = 26.9 bits (58), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 59 RGNEISSELSKAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRNDRKVFA 112
RG +I + LS + N +++L +NY S+ L +++E R ++++
Sbjct: 260 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIWT 313
>pdb|2AMY|A Chain A, X-Ray Structure Of Human Phosphomannomutase 2 (Pmm2)
pdb|2Q4R|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Human Phosphomannomutase 2 (Pmm2)
Length = 246
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 13/70 (18%)
Query: 29 EDTRNNFTDHLHVALIRNGFVAFKDDETLDRGNEISSELSKAIEESNVSIVILSKNYASS 88
E N+ + NG VA+KD + L R N I S L +A+ + ++
Sbjct: 54 EQLGNDVVEKYDYVFPENGLVAYKDGKLLCRQN-IQSHLGEALIQDLIN----------- 101
Query: 89 PWCLDELAKI 98
+CL +AKI
Sbjct: 102 -YCLSYIAKI 110
>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 = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 28/53 (52%)
Query: 59 RGNEISSELSKAIEESNVSIVILSKNYASSPWCLDELAKIVECGNKRNDRKVF 111
RG +I + LS + N +++L +NY S+ L +++E R ++++
Sbjct: 260 RGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNVNRKPKRIW 312
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
0.319 0.133 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,203,263
Number of Sequences: 62578
Number of extensions: 154066
Number of successful extensions: 486
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 465
Number of HSP's gapped (non-prelim): 37
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)