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= 038521
(324 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 = 115 bits (288), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 61/140 (43%), Positives = 84/140 (60%), Gaps = 2/140 (1%)
Query: 15 HDVFVSFRGEDTRDNFTSHLFSALFQNNIETFIDN-DLKRGDEISESLLGTIEASTISII 73
+DVF+SFRG DTR NF S L+ L + +I TF D+ +L+ G S L IE S +++
Sbjct: 9 YDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVV 68
Query: 74 IFSEKYASSKWCLDELLKILECKRNYGQIVIPVFYRVDPSRVRKQIGSFGDSFFILKERF 133
+ SE YA+S WCLDEL+ I++ ++ V+P+FY V+P+ VR Q G + F R
Sbjct: 69 VVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASRE 128
Query: 134 -PYKTRNWRSALTEAANLSG 152
P K WR ALT A LSG
Sbjct: 129 DPEKVLKWRQALTNFAQLSG 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 = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 60/142 (42%), Positives = 89/142 (62%), Gaps = 3/142 (2%)
Query: 15 HDVFVSFRGEDTRDNFTSHLFSALFQNNIETFIDND-LKRGDEISESLLGTIEASTISII 73
++VF+SFRG DTR+ FT L+ +L + I TF D+D L +G EI +LL I+ S I +
Sbjct: 36 YEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVP 95
Query: 74 IFSEKYASSKWCLDELLKIL-ECKRNYGQIVIPVFYRVDPSRVRKQIGSFGDSFFILKER 132
I S YA SKWCL EL +I+ + + +I++P+FY VDPS VR Q G + +F +
Sbjct: 96 IISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANK 155
Query: 133 FPYKT-RNWRSALTEAANLSGF 153
F +T +NW+ AL + +L G+
Sbjct: 156 FDGQTIQNWKDALKKVGDLKGW 177
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/120 (24%), Positives = 57/120 (47%), Gaps = 12/120 (10%)
Query: 4 SSSPPRNDKKMHDVFVSFRGEDTRDNFTSHLFSALFQNNIETFIDN-DLKRGDEISESLL 62
+S+PP HD+F+S ED D F L L E + D+ L+ GD + S+
Sbjct: 16 TSAPP------HDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSID 68
Query: 63 GTIEASTISIIIFSEKYASSKWCLDELLKILECKRNYGQIVIPVFYRVDPSRVRKQIGSF 122
+ +S I++ S + +W EL + + + + ++P++++V + ++ SF
Sbjct: 69 KGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVS----KDEVASF 124
>pdb|1G8S|A Chain A, Methanococcus Jannaschii Fibrillarin Pre-Rrna Processing
Protein
Length = 230
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 39/80 (48%), Gaps = 5/80 (6%)
Query: 214 EKVLIVFDDVNHPRQIELLIGRLDRF-ASGSRVIITARDKQVLTNCEIDHIY-QMKELVH 271
EKV ++++DV P Q E+LI F G +I + + + + I+ + KE++
Sbjct: 142 EKVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGMIAIKARSIDVTKDPKEIFKEQKEILE 201
Query: 272 ANALKLFTQC---AFRRDHL 288
A K+ + F +DH+
Sbjct: 202 AGGFKIVDEVDIEPFEKDHV 221
>pdb|3DMS|A Chain A, 1.65a Crystal Structure Of Isocitrate Dehydrogenase From
Burkholderia Pseudomallei
Length = 427
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 25/46 (54%), Gaps = 7/46 (15%)
Query: 269 LVHANALKLFTQCAFRRDHLDAGYTALAHKAFSTRTQVIQTSPWPK 314
LVH + FT+ AFR DAGY ALA K F ++I PW K
Sbjct: 237 LVHKGNIMKFTEGAFR----DAGY-ALAQKEFG--AELIDGGPWMK 275
>pdb|1FBN|A Chain A, Crystal Structure Of A Fibrillarin Homologue From
Methanococcus Jannaschii, A Hyperthermophile, At 1.6 A
Length = 230
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 5/80 (6%)
Query: 214 EKVLIVFDDVNHPRQIELLIGRLDRF-ASGSRVIITARDKQVLTNCEIDHIY-QMKELVH 271
EKV ++++DV P Q E+LI F G I + + + + I+ + KE++
Sbjct: 142 EKVDVIYEDVAQPNQAEILIKNAKWFLKKGGYGXIAIKARSIDVTKDPKEIFKEQKEILE 201
Query: 272 ANALKLFTQC---AFRRDHL 288
A K+ + F +DH+
Sbjct: 202 AGGFKIVDEVDIEPFEKDHV 221
>pdb|3NYL|A Chain A, The X-Ray Structure Of An Antiparallel Dimer Of The Human
Amyloid Precursor Protein E2 Domain
Length = 210
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 41/104 (39%), Gaps = 14/104 (13%)
Query: 104 IPVFYRVDPSRVRKQIGSFGDS-----FFILKERFPYK--------TRNWRSALTEAANL 150
+P P V K + + GD F KER K R W A +A NL
Sbjct: 4 MPTTAASTPDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNL 63
Query: 151 SGFDSR-VIRHFQGSYFAHNVRSAEETGRLDDLRKELLSKLLND 193
D + VI+HFQ + +A E +L + + +LND
Sbjct: 64 PKADKKAVIQHFQEKVESLEQEAANERQQLVETHMARVEAMLND 107
>pdb|3UMH|A Chain A, X-Ray Structure Of The E2 Domain Of The Human Amyloid
Precursor Protein (App) In Complex With Cadmium
pdb|3UMI|A Chain A, X-Ray Structure Of The E2 Domain Of The Human Amyloid
Precursor Protein (App) In Complex With Zinc
pdb|3UMK|A Chain A, X-Ray Structure Of The E2 Domain Of The Human Amyloid
Precursor Protein (App) In Complex With Copper
Length = 211
Score = 32.0 bits (71), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 39/96 (40%), Gaps = 14/96 (14%)
Query: 112 PSRVRKQIGSFGDS-----FFILKERFPYK--------TRNWRSALTEAANLSGFDSR-V 157
P V K + + GD F KER K R W A +A NL D + V
Sbjct: 4 PDAVDKYLETPGDENEHAHFQKAKERLEAKHRERMSQVMREWEEAERQAKNLPKADKKAV 63
Query: 158 IRHFQGSYFAHNVRSAEETGRLDDLRKELLSKLLND 193
I+HFQ + +A E +L + + +LND
Sbjct: 64 IQHFQEKVESLEQEAANERQQLVETHMARVEAMLND 99
>pdb|3NYJ|A Chain A, Crystal Structure Analysis Of App E2 Domain
Length = 207
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 38/96 (39%), Gaps = 14/96 (14%)
Query: 112 PSRVRKQIGSFGDS-----FFILKERFPYK--------TRNWRSALTEAANLSGFDSR-V 157
P V K + + GD F KER K R W A +A NL D + V
Sbjct: 12 PDAVDKYLETPGDENEHAHFQKAKERLEAKHRERXSQVXREWEEAERQAKNLPKADKKAV 71
Query: 158 IRHFQGSYFAHNVRSAEETGRLDDLRKELLSKLLND 193
I+HFQ + +A E +L + + LND
Sbjct: 72 IQHFQEKVESLEQEAANERQQLVETHXARVEAXLND 107
>pdb|3S7T|A Chain A, Crystal Structure Of Semet B. Licheniformis Cdps Yvmc-Blic
pdb|3S7T|B Chain B, Crystal Structure Of Semet B. Licheniformis Cdps Yvmc-Blic
Length = 257
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 45/117 (38%)
Query: 194 WNVRNFQNINVNFQSKRLAREKVLIVFDDVNHPRQIELLIGRLDRFASGSRVIITARDKQ 253
W VR FQ+++V K A + R++ + R RFA + +
Sbjct: 54 WAVREFQSVSVLLAGKEAANLLEALGTPHGKAERKVRKEVSRNRRFAEKALEAHGGNPED 113
Query: 254 VLTNCEIDHIYQMKELVHANALKLFTQCAFRRDHLDAGYTALAHKAFSTRTQVIQTS 310
+ T + + + L F Q FR L+ + A+ +A TR V++ S
Sbjct: 114 IHTFSDFANQTAYRNLRXEVEAAFFDQTHFRNACLEXSHAAILGRARGTRXDVVEVS 170
>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 = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 54 GDEISESLLGTIEASTISIIIFSEKYASSKWC 85
G ISE+++ IE S SI + S + ++WC
Sbjct: 77 GKSISENIVSFIEKSYKSIFVLSPNFVQNEWC 108
>pdb|3OQH|A Chain A, Crystal Structure Of B. Licheniformis Cdps Yvmc-Blic
pdb|3OQH|B Chain B, Crystal Structure Of B. Licheniformis Cdps Yvmc-Blic
pdb|3OQI|A Chain A, Crystal Structure Of B. Licheniformis Cdps Yvmc-Blic In
Complex With Ches
pdb|3OQJ|A Chain A, Crystal Structure Of B. Licheniformis Cdps Yvmc-Blic In
Complex With Capso
pdb|3OQJ|B Chain B, Crystal Structure Of B. Licheniformis Cdps Yvmc-Blic In
Complex With Capso
Length = 257
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 45/117 (38%)
Query: 194 WNVRNFQNINVNFQSKRLAREKVLIVFDDVNHPRQIELLIGRLDRFASGSRVIITARDKQ 253
W VR FQ+++V K A + R++ + R RFA + +
Sbjct: 54 WAVREFQSVSVLLAGKEAANLLEALGTPHGKAERKVRKEVSRNRRFAEKALEAHGGNPED 113
Query: 254 VLTNCEIDHIYQMKELVHANALKLFTQCAFRRDHLDAGYTALAHKAFSTRTQVIQTS 310
+ T + + + L F Q FR L+ + A+ +A TR V++ S
Sbjct: 114 IHTFSDFANQTAYRNLRMEVEAAFFDQTHFRNACLEMSHAAILGRARGTRMDVVEVS 170
>pdb|3OQI|B Chain B, Crystal Structure Of B. Licheniformis Cdps Yvmc-Blic In
Complex With Ches
Length = 257
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 45/117 (38%)
Query: 194 WNVRNFQNINVNFQSKRLAREKVLIVFDDVNHPRQIELLIGRLDRFASGSRVIITARDKQ 253
W VR FQ+++V K A + R++ + R RFA + +
Sbjct: 54 WAVREFQSVSVLLAGKEAANLLEALGTPHGKAERKVRKEVSRNRRFAEKALEAHGGNPED 113
Query: 254 VLTNCEIDHIYQMKELVHANALKLFTQCAFRRDHLDAGYTALAHKAFSTRTQVIQTS 310
+ T + + + L F Q FR L+ + A+ +A TR V++ S
Sbjct: 114 IHTFSDFANQTAYRNLRMEVEAAFFDQTHFRNACLEMSHAAILGRARGTRMDVVEVS 170
>pdb|3CSK|A Chain A, Structure Of Dpp Iii From Saccharomyces Cerevisiae
Length = 711
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 19/87 (21%), Positives = 35/87 (40%), Gaps = 4/87 (4%)
Query: 221 DDVNHPRQIELLIGRLDRFASGSRVIITARDKQVLTNCEIDHIYQMKELVHANALKLFTQ 280
DD+ +Q L + + +F S + D + + CE+ Q+ EL N +
Sbjct: 76 DDITQKQQTGLYLEYVSQFLSNLGNFKSFGDTKFIPRCEVKFFKQLLELAKINP----SS 131
Query: 281 CAFRRDHLDAGYTALAHKAFSTRTQVI 307
+D + +H FST ++I
Sbjct: 132 SPLTLSPVDVNHEFTSHHLFSTINELI 158
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 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,798,542
Number of Sequences: 62578
Number of extensions: 336027
Number of successful extensions: 1011
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1000
Number of HSP's gapped (non-prelim): 14
length of query: 324
length of database: 14,973,337
effective HSP length: 99
effective length of query: 225
effective length of database: 8,778,115
effective search space: 1975075875
effective search space used: 1975075875
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (24.3 bits)