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= 048539
(119 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 = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 56/124 (45%), Positives = 71/124 (57%), Gaps = 15/124 (12%)
Query: 3 SSSIATKGRYDVFLSFRGEDTGDNFTSHLFAALPNR-------------GDEISLALLNA 49
SS ATK YDVFLSFRG DT NF S L+ L R G S L +
Sbjct: 2 SSHTATK--YDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSP 59
Query: 50 IEASKISIVIFSKNYASSKWCLDELVKILECKNCNGQMVVPVFYHVHPSDVRNQTGSFAK 109
IE S+ ++V+ S+NYA+S WCLDELV I++ + V+P+FY V P+ VR QTG A+
Sbjct: 60 IEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAE 119
Query: 110 LEKK 113
KK
Sbjct: 120 QFKK 123
>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 = 90.9 bits (224), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 50/116 (43%), Positives = 69/116 (59%), Gaps = 14/116 (12%)
Query: 12 YDVFLSFRGEDTGDNFTSHLFAALPN-------------RGDEISLALLNAIEASKISIV 58
Y+VFLSFRG DT + FT L+ +L +G EI LL AI+ SKI +
Sbjct: 36 YEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVP 95
Query: 59 IFSKNYASSKWCLDELVKILECKNCNG-QMVVPVFYHVHPSDVRNQTGSFAKLEKK 113
I S YA SKWCL EL +I+ + + ++++P+FY V PSDVR+QTG + K +K
Sbjct: 96 IISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRK 151
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 22/104 (21%), Positives = 46/104 (44%), Gaps = 18/104 (17%)
Query: 12 YDVFLSFRGEDTGDNFTSHL---------------FAALPNRGDEISLALLNAIEASKIS 56
+D+F+S ED D F L F+ P GD + ++ + +S+
Sbjct: 21 HDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRP--GDSLRRSIDKGLGSSRFG 77
Query: 57 IVIFSKNYASSKWCLDELVKILECKNCNGQMVVPVFYHVHPSDV 100
IV+ S ++ +W EL + + ++ ++P+++ V +V
Sbjct: 78 IVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEV 121
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 23/43 (53%)
Query: 65 ASSKWCLDELVKILECKNCNGQMVVPVFYHVHPSDVRNQTGSF 107
A+ + L ++I + + N Q VVP ++ P D + Q G+F
Sbjct: 527 AAPRGALGHWIRIKDGRIENYQCVVPTTWNGSPRDYKGQIGAF 569
>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 = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 14/77 (18%)
Query: 12 YDVFLSFRGEDTG----------DNFTSHLFAALPNR----GDEISLALLNAIEASKISI 57
YD F+S+ D +NF L R G I ++++IE S ++
Sbjct: 3 YDAFVSYSERDAYWVENLMVQELENFNPPFKLCLHKRDFIPGKWIIDNIIDSIEKSHKTV 62
Query: 58 VIFSKNYASSKWCLDEL 74
+ S+N+ S+W EL
Sbjct: 63 FVLSENFVKSEWSKYEL 79
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 14/77 (18%)
Query: 12 YDVFLSFRGEDTG----------DNFTSHLFAALPNR----GDEISLALLNAIEASKISI 57
YD F+S+ D +NF L R G I ++++IE S ++
Sbjct: 6 YDAFVSYSERDAYWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTV 65
Query: 58 VIFSKNYASSKWCLDEL 74
+ S+N+ S+W EL
Sbjct: 66 FVLSENFVKSEWXKYEL 82
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 14/77 (18%)
Query: 12 YDVFLSFRGEDTG----------DNFTSHLFAALPNR----GDEISLALLNAIEASKISI 57
YD F+S+ D +NF L R G I ++++IE S ++
Sbjct: 6 YDAFVSYSERDAYWVENLXVQELENFNPPFKLXLHKRDFIPGKWIIDNIIDSIEKSHKTV 65
Query: 58 VIFSKNYASSKWCLDEL 74
+ S+N+ S+W EL
Sbjct: 66 FVLSENFVKSEWXKYEL 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
0.319 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,370,960
Number of Sequences: 62578
Number of extensions: 115807
Number of successful extensions: 204
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 10
length of query: 119
length of database: 14,973,337
effective HSP length: 81
effective length of query: 38
effective length of database: 9,904,519
effective search space: 376371722
effective search space used: 376371722
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: 45 (21.9 bits)