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= 036681
(159 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 = 117 bits (292), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 59/148 (39%), Positives = 90/148 (60%), Gaps = 3/148 (2%)
Query: 6 SSSSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDE-EIRRGDEISTAISDAIEA 64
S ++ KYDVF++F G DTR NF S L L R+++TF D+ E+ G S + IE
Sbjct: 3 SHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEV 62
Query: 65 SKISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFV 124
S+ +V++ SE+YA+S WCL+EL+ I++ + K V+P+FY V+P+ V +Q+G + F
Sbjct: 63 SRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFK 122
Query: 125 MHEGQFQVHPENVQKWRDGLTEASLIVG 152
H + PE V KWR LT + + G
Sbjct: 123 KHAS--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 = 107 bits (267), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 59/149 (39%), Positives = 89/149 (59%), Gaps = 4/149 (2%)
Query: 6 SSSSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDE-EIRRGDEISTAISDAIEA 64
S S +Y+VF++F G DTR+ FT L +L + TF D+ E+ +G EI + AI+
Sbjct: 30 SFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQ 89
Query: 65 SKISVIIFSEDYASSKWCLNELLKILECKGKKG-QIVIPVFYEVDPSDVCYQSGSFRDPF 123
SKI V I S YA SKWCL EL +I+ + + +I++P+FY VDPSDV +Q+G ++ F
Sbjct: 90 SKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAF 149
Query: 124 VMHEGQFQVHPENVQKWRDGLTEASLIVG 152
H +F + +Q W+D L + + G
Sbjct: 150 RKHANKFD--GQTIQNWKDALKKVGDLKG 176
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/116 (20%), Positives = 54/116 (46%), Gaps = 2/116 (1%)
Query: 7 SSSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDE-EIRRGDEISTAISDAIEAS 65
+S+ +D+FI+ D D F L L + + D+ +R GD + +I + +S
Sbjct: 16 TSAPPHDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSS 74
Query: 66 KISVIIFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRD 121
+ +++ S + +W EL + + + ++P++++V +V S + D
Sbjct: 75 RFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMAD 130
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 33.1 bits (74), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 18/90 (20%)
Query: 7 SSSCKYDVFINFGGGDTR----------DNFTSHLVAALHDRNVKTFIDEEIRRGDEIST 56
S + YD F+++ D +NF LH R+ FI G I
Sbjct: 1 SRNIXYDAFVSYSERDAYWVENLMVQELENFNPPFKLXLHKRD---FI-----HGKWIID 52
Query: 57 AISDAIEASKISVIIFSEDYASSKWCLNEL 86
I D+IE S +V + SE++ S+W EL
Sbjct: 53 NIIDSIEKSHKTVFVLSENFVKSEWXKYEL 82
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 33.1 bits (74), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 38/90 (42%), Gaps = 18/90 (20%)
Query: 7 SSSCKYDVFINFGGGDTR----------DNFTSHLVAALHDRNVKTFIDEEIRRGDEIST 56
S + YD F+++ D +NF LH R+ FI G I
Sbjct: 1 SRNIXYDAFVSYSERDAYWVENLXVQELENFNPPFKLXLHKRD---FIP-----GKWIID 52
Query: 57 AISDAIEASKISVIIFSEDYASSKWCLNEL 86
I D+IE S +V + SE++ S+W EL
Sbjct: 53 NIIDSIEKSHKTVFVLSENFVKSEWXKYEL 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 = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 36/85 (42%), Gaps = 18/85 (21%)
Query: 12 YDVFINFGGGDTR----------DNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDA 61
YD F+++ D +NF LH R+ FI G I I D+
Sbjct: 3 YDAFVSYSERDAYWVENLMVQELENFNPPFKLCLHKRD---FIP-----GKWIIDNIIDS 54
Query: 62 IEASKISVIIFSEDYASSKWCLNEL 86
IE S +V + SE++ S+W EL
Sbjct: 55 IEKSHKTVFVLSENFVKSEWSKYEL 79
>pdb|1XR7|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 16
pdb|1XR7|B Chain B, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 16
Length = 460
Score = 30.4 bits (67), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 37 DRNVKTFIDEEIRRGDEISTAISDAIEASKIS-VIIFSEDYAS--SKWCLN 84
D + TF+ +E+R+ D+I+ + IEAS I+ I+F Y + SK+ LN
Sbjct: 151 DLPMITFLKDELRKKDKIAAGKTRVIEASSINDTILFRTVYGNLFSKFHLN 201
>pdb|1TP7|A Chain A, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|B Chain B, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|C Chain C, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|D Chain D, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
Length = 460
Score = 30.0 bits (66), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 3/46 (6%)
Query: 42 TFIDEEIRRGDEISTAISDAIEASKIS-VIIFSEDYAS--SKWCLN 84
TF+ +E+R+ D+I+ + IEAS I+ I+F Y + SK+ LN
Sbjct: 156 TFLKDELRKKDKIAAGKTRVIEASSINDTILFRTVYGNLFSKFHLN 201
>pdb|1XR6|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 1b
Length = 460
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 37 DRNVKTFIDEEIRRGDEISTAISDAIEASKIS-VIIFSEDYAS--SKWCLN 84
D + TF+ +E+R+ ++IS + IEAS I+ I+F + + SK+ LN
Sbjct: 151 DLPMITFLKDELRKKEKISAGKTRVIEASSINDTILFRTTFGNLFSKFHLN 201
>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 = 28.9 bits (63), Expect = 1.4, Method: Composition-based stats.
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 11 KYDVFINFGGGD---TRDNFTSHLVAALHDRNVKT--FIDEEIRRGDEISTAISDAIEAS 65
KYD ++ F D ++ HL D+N F + + G+ I DAI S
Sbjct: 670 KYDAYLCFSSKDFTWVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNS 729
Query: 66 KISVIIFSEDYASSKWCL 83
+ V + S + WCL
Sbjct: 730 RKIVCLVSRHFLRDGWCL 747
>pdb|2Z5V|A Chain A, Solution Structure Of The Tir Domain Of Human Myd88
Length = 149
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFI---DEEIRRGDEISTAISDAIEA-SK 66
++D FI + D + F ++ L N + + D ++ G + + S+ IE +
Sbjct: 13 RFDAFICYCPSDIQ--FVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCR 70
Query: 67 ISVIIFSEDYASSKWC 82
V++ S+DY SK C
Sbjct: 71 RMVVVVSDDYLQSKEC 86
>pdb|2JS7|A Chain A, Solution Nmr Structure Of Human Myeloid Differentiation
Primary Response (Myd88). Northeast Structural Genomics
Target Hr2869a
Length = 160
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 6/76 (7%)
Query: 11 KYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFI---DEEIRRGDEISTAISDAIEA-SK 66
++D FI + D + F ++ L N + + D ++ G + + S+ IE +
Sbjct: 16 RFDAFICYCPSDIQ--FVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCR 73
Query: 67 ISVIIFSEDYASSKWC 82
V++ S+DY SK C
Sbjct: 74 RMVVVVSDDYLQSKEC 89
>pdb|3E1Y|E Chain E, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|F Chain F, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|G Chain G, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|H Chain H, Crystal Structure Of Human Erf1ERF3 COMPLEX
Length = 204
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 71 IFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSFRDPFVMHEGQF 130
I S+D + E LKI KG + + ++P F DP+++C+ +F V+ E +
Sbjct: 51 ILSDDVETDTVAPGENLKI-RLKGIEEEEILPGFILCDPNNLCHSGRTFDAQIVIIEHKS 109
Query: 131 QVHP 134
+ P
Sbjct: 110 IICP 113
>pdb|3EB3|A Chain A, Voltage-Dependent K+ Channel Beta Subunit (W121a) In
Complex With Cortisone
Length = 327
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 4/81 (4%)
Query: 3 SALSSSSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAI 62
S L S ++ FGG T D HL+ +D + F E+ + + + I
Sbjct: 11 SGLRVSCLGLGTWVTFGGQIT-DEMAEHLMTLAYDNGINLFDTAEVYAAGKAEVVLGNII 69
Query: 63 EAS---KISVIIFSEDYASSK 80
+ + S++I ++ +A K
Sbjct: 70 KKKGWRRSSLVITTKIFAGGK 90
>pdb|1DWA|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 1:
Structure Prior To Irradiation
pdb|1DWF|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 2:
Structure After Irradiation With 9.110e15 PhotonsMM2
pdb|1DWG|M Chain M, Study On Radiation Damage On A Cryocooled Crystal: Part 3
Structure After Irradiation With 18.210e15 PhotonsMM2.
pdb|1DWH|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 4:
Structure After Irradiation With 27.210e15 PhotonsMM2
pdb|1DWI|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Part 5:
Structure After Irradiation With 54.010e15 PhotonsMM2
pdb|1DWJ|M Chain M, Study On Radiation Damage On A Cryocooled Crystal. Refined
Part 6: Structure After A Radiation Dose Of 5410e15
PhotonsMM2
Length = 499
Score = 26.9 bits (58), Expect = 5.2, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 107 VDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLTEASLIVG 152
VDPS CY S +P+++ Q H + V +R T +G
Sbjct: 208 VDPS--CYAGNSSTEPYIVAHHQLLAHAKVVDLYRKNYTHQGGKIG 251
>pdb|1MYR|A Chain A, Myrosinase From Sinapis Alba
Length = 501
Score = 26.9 bits (58), Expect = 5.3, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 107 VDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLTEASLIVG 152
VDPS CY S +P+++ Q H + V +R T +G
Sbjct: 210 VDPS--CYAGNSSTEPYIVAHHQLLAHAKVVDLYRKNYTHQGGKIG 253
>pdb|3J2K|7 Chain 7, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 439
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 71 IFSEDYASSKWCLNELLKILECKGKKGQIVIPVFYEVDPSDVCYQSGSF 119
I S+D + E LKI KG + + ++P F DPS++C+ +F
Sbjct: 289 ILSDDTETDFVAPGENLKI-RLKGIEEEEILPGFILCDPSNLCHSGRTF 336
>pdb|1E6Q|M Chain M, Myrosinase From Sinapis Alba With The Bound Transition
State Analogue Gluco-Tetrazole
pdb|1E6X|M Chain M, Myrosinase From Sinapis Alba With A Bound Transition State
Analogue,D-Glucono-1,5-Lactone
pdb|1E70|M Chain M, 2-F-Glucosylated Myrosinase From Sinapis Alba
pdb|1E71|M Chain M, Myrosinase From Sinapis Alba With Bound Ascorbate
pdb|1E72|M Chain M, Myrosinase From Sinapis Alba With Bound
Gluco-Hydroximolactam And Sulfate Or Ascorbate
pdb|1E73|M Chain M, 2-F-Glucosylated Myrosinase From Sinapis Alba With Bound
L-Ascorbate
pdb|1E6S|M Chain M, Myrosinase From Sinapis Alba With Bound
Gluco-Hydroximolactam And Sulfate
pdb|1E4M|M Chain M, Myrosinase From Sinapis Alba
pdb|1W9B|M Chain M, S. Alba Myrosinase In Complex With Carba-Glucotropaeolin
pdb|1W9D|M Chain M, S. Alba Myrosinase In Complex With S-Ethyl
Phenylacetothiohydroximate-O-Sulfate
pdb|2WXD|M Chain M, A Micromolar O-Sulfated Thiohydroximate Inhibitor Bound To
Plant Myrosinase
Length = 501
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 107 VDPSDVCYQSGSFRDPFVMHEGQFQVHPENVQKWRDGLTEASLIVG 152
VDPS CY S +P+++ Q H + V +R T +G
Sbjct: 210 VDPS--CYAGNSSTEPYIVAHHQLLAHAKVVDLYRKNYTHQGGKIG 253
>pdb|3TQP|A Chain A, Structure Of An Enolase (Eno) From Coxiella Burnetii
pdb|3TQP|B Chain B, Structure Of An Enolase (Eno) From Coxiella Burnetii
Length = 428
Score = 25.8 bits (55), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 7 SSSCKYDVFINFGGGDTRDNFTSHLVAALHDRNVKT 42
+ S KY V I+ G+T D + L A R +KT
Sbjct: 354 AKSNKYGVIISHRSGETEDTTIADLAVATDARQIKT 389
>pdb|2BMB|A Chain A, X-Ray Structure Of The Bifunctional 6-Hydroxymethyl-7,8-
Dihydroxypterin Pyrophosphokinase Dihydropteroate
Synthase From Saccharomyces Cerevisiae
Length = 545
Score = 25.8 bits (55), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 12/66 (18%)
Query: 14 VFINFGGGDTRDNFTSHLVAALHDRNVKTFIDEEIRRGDEISTAISDAIEASKISVIIFS 73
V I+ GG TR N +++ +EEIRR + AI ++ E + VI+
Sbjct: 269 VIIDVGGCSTRPN------------SIQASEEEEIRRSIPLIKAIRESTELPQDKVILSI 316
Query: 74 EDYASS 79
+ Y S+
Sbjct: 317 DTYRSN 322
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
0.320 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,748,948
Number of Sequences: 62578
Number of extensions: 183802
Number of successful extensions: 622
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 597
Number of HSP's gapped (non-prelim): 32
length of query: 159
length of database: 14,973,337
effective HSP length: 91
effective length of query: 68
effective length of database: 9,278,739
effective search space: 630954252
effective search space used: 630954252
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)