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= 042506
(90 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 = 67.8 bits (164), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 35/80 (43%), Positives = 47/80 (58%), Gaps = 1/80 (1%)
Query: 1 LERGESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYLIFYD 60
LE G+ SP L IE SR +++V+S NY +S+WCLDE+V I++ + V IFY
Sbjct: 46 LENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKG-SITVMPIFYG 104
Query: 61 VEPTMLRKQTRHFQEALAKH 80
VEP +R QT E KH
Sbjct: 105 VEPNHVRWQTGVLAEQFKKH 124
>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 = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 55/93 (59%), Gaps = 4/93 (4%)
Query: 1 LERGESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYLIFYD 60
L +G+ I P+LL+AI+ S+I + ++S Y S WCL E+ I+ + + + ++ IFY
Sbjct: 73 LLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYM 132
Query: 61 VEPTMLRKQTRHFQEALAKHEEFFR----QIWK 89
V+P+ +R QT +++A KH F Q WK
Sbjct: 133 VDPSDVRHQTGCYKKAFRKHANKFDGQTIQNWK 165
>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 = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%)
Query: 1 LERGESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVVY 41
+ G+SIS +++ IE S SI VLS N+ + WC E +
Sbjct: 74 FDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEWCHYEFYF 114
>pdb|1FYV|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr1
Length = 161
Score = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVVY 41
G+SI +++ IE S SI VLS N+ S WC E+ +
Sbjct: 52 GKSIVENIITCIEKSYKSIFVLSPNFVQSEWCHYELYF 89
>pdb|3E1Y|A Chain A, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|B Chain B, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|C Chain C, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|D Chain D, Crystal Structure Of Human Erf1ERF3 COMPLEX
Length = 451
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 7/45 (15%)
Query: 12 LKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYL 56
LKA+E + I+++ N LD + Y+L C+ T ++ ++YL
Sbjct: 323 LKALEMGAVEILIVYEN-------LDIMRYVLHCQGTEEEKILYL 360
>pdb|1DT9|A Chain A, The Crystal Structure Of Human Eukaryotic Release Factor
Erf1-Mechanism Of Stop Codon Recognition And
Peptidyl-Trna Hydrolysis
Length = 437
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 7/45 (15%)
Query: 12 LKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYL 56
LKA+E + I+++ N LD + Y+L C+ T ++ ++YL
Sbjct: 309 LKALEMGAVEILIVYEN-------LDIMRYVLHCQGTEEEKILYL 346
>pdb|3J2K|6 Chain 6, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 411
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 7/45 (15%)
Query: 12 LKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYL 56
LKA+E + I+++ N LD + Y+L C+ T ++ ++YL
Sbjct: 300 LKALEMGAVEILIVYEN-------LDIMRYVLHCQGTEEEKILYL 337
>pdb|2KTU|A Chain A, Human Erf1 C-Domain, "closed" Conformer
pdb|2KTV|A Chain A, Human Erf1 C-Domain, "open" Conformer
Length = 170
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 7/45 (15%)
Query: 12 LKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYL 56
LKA+E + I+++ N LD + Y+L C+ T ++ ++YL
Sbjct: 34 LKALEMGAVEILIVYEN-------LDIMRYVLHCQGTEEEKILYL 71
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 12/38 (31%), Positives = 22/38 (57%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVVY 41
GE+ ++ AI +SR + ++SR++ WCL+ Y
Sbjct: 715 GENRIANIQDAIWNSRKIVCLVSRHFLRDGWCLEAFSY 752
>pdb|4H6X|A Chain A, Structure Of Patellamide Maturation Protease Patg
pdb|4H6X|B Chain B, Structure Of Patellamide Maturation Protease Patg
Length = 357
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVV 40
GE I +K +D+ + I+ + N ++ +WCL V+
Sbjct: 184 GEEILVQAIKKCQDNNVLIVSPTGNNSNESWCLPAVL 220
>pdb|4AKT|A Chain A, Patg Macrocyclase In Complex With Peptide
pdb|4AKT|B Chain B, Patg Macrocyclase In Complex With Peptide
Length = 360
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVV 40
GE I +K +D+ + I+ + N ++ +WCL V+
Sbjct: 202 GEEILVQAIKKCQDNNVLIVSPTGNNSNESWCLPAVL 238
>pdb|4AKS|A Chain A, Patg Macrocyclase Domain
pdb|4AKS|B Chain B, Patg Macrocyclase Domain
Length = 360
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 11/37 (29%), Positives = 21/37 (56%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVV 40
GE I +K +D+ + I+ + N ++ +WCL V+
Sbjct: 202 GEEILVQAIKKCQDNNVLIVSPTGNNSNESWCLPAVL 238
>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 = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%)
Query: 1 LERGESISPSLLKAIEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTN 49
L G+S+ S+ K + SR I+VLS ++ W E+ + + + +
Sbjct: 57 LRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSG 105
>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 = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTW 34
G+ I +++ +IE S ++ VLS N+ S W
Sbjct: 44 GKWIIDNIIDSIEKSHKTVFVLSENFVKSEW 74
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTW 34
G+ I +++ +IE S ++ VLS N+ S W
Sbjct: 47 GKWIIDNIIDSIEKSHKTVFVLSENFVKSEW 77
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 4 GESISPSLLKAIEDSRISIIVLSRNYTSSTW 34
G+ I +++ +IE S ++ VLS N+ S W
Sbjct: 47 GKWIIDNIIDSIEKSHKTVFVLSENFVKSEW 77
>pdb|3NEV|A Chain A, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
pdb|3NEV|B Chain B, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
pdb|3NEV|C Chain C, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
pdb|3NEV|D Chain D, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
Length = 298
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 4 GESISPSLLKAIEDSRISII 23
G+ ++P+L+K + DSR +II
Sbjct: 141 GQDLTPALVKTLADSRSNII 160
>pdb|2V9D|A Chain A, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V9D|B Chain B, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V9D|C Chain C, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V9D|D Chain D, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
Length = 343
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 4 GESISPSLLKAIEDSRISII 23
G+ ++P+L+K + DSR +II
Sbjct: 170 GQDLTPALVKTLADSRSNII 189
>pdb|2V8Z|A Chain A, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V8Z|B Chain B, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V8Z|C Chain C, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V8Z|D Chain D, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
Length = 343
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 9/20 (45%), Positives = 16/20 (80%)
Query: 4 GESISPSLLKAIEDSRISII 23
G+ ++P+L+K + DSR +II
Sbjct: 170 GQDLTPALVKTLADSRSNII 189
>pdb|1GZ3|A Chain A, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|B Chain B, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|C Chain C, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
pdb|1GZ3|D Chain D, Molecular Mechanism For The Regulation Of Human
Mitochondrial Nad(P)+-Dependent Malic Enzyme By Atp And
Fumarate
Length = 554
Score = 25.0 bits (53), Expect = 10.0, Method: Composition-based stats.
Identities = 17/72 (23%), Positives = 32/72 (44%)
Query: 15 IEDSRISIIVLSRNYTSSTWCLDEVVYILECKHTNDQPMVYLIFYDVEPTMLRKQTRHFQ 74
IE I + RN T L++ +YI+ + N++ ++ D+E M T
Sbjct: 39 IETQDIQALRFHRNLKKMTSPLEKYIYIMGIQERNEKLFYRILQDDIESLMPIVYTPTVG 98
Query: 75 EALAKHEEFFRQ 86
A +++ FR+
Sbjct: 99 LACSQYGHIFRR 110
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 0.135 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,523,474
Number of Sequences: 62578
Number of extensions: 79276
Number of successful extensions: 136
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 122
Number of HSP's gapped (non-prelim): 20
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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: 45 (21.9 bits)