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= 042778
(311 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 = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 57/141 (40%), Positives = 68/141 (48%), Gaps = 31/141 (21%)
Query: 18 KYDVFQSFRGEDNRDNFTGHLYSALSQKGIETFIDD-QLNRGDEISQSLVDAIEASAISL 76
KYDVF SFRG D R NF LY L ++ I TF DD +L G S L IE S ++
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 77 IIFSEAYASSRWCLDELVKILTRE-------------------------LEEMFK----- 106
++ SE YA+S WCLDELV I+ E L E FK
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 107 ENSEKLQTWRNALKEAAGLSG 127
E+ EK+ WR AL A LSG
Sbjct: 128 EDPEKVLKWRQALTNFAQLSG 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 = 84.3 bits (207), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 51/144 (35%), Positives = 76/144 (52%), Gaps = 32/144 (22%)
Query: 18 KYDVFQSFRGEDNRDNFTGHLYSALSQKGIETF-IDDQLNRGDEISQSLVDAIEASAISL 76
+Y+VF SFRG D R+ FT LY +L + I TF DD+L +G EI +L+ AI+ S I +
Sbjct: 35 EYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYV 94
Query: 77 IIFSEAYASSRWCLDELVKILTRELEE--------------------------MFKENSE 110
I S YA S+WCL EL +I+ R+ E+ F++++
Sbjct: 95 PIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHAN 154
Query: 111 K-----LQTWRNALKEAAGLSGFH 129
K +Q W++ALK+ L G+H
Sbjct: 155 KFDGQTIQNWKDALKKVGDLKGWH 178
>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 = 0.24, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 18 KYDVFQSFRGEDNRDNFTGHLYSALSQKGIETFIDD-QLNRGDEISQSLVDAIEASAISL 76
+D+F S ED D F L L G E + DD L GD + +S+ + +S +
Sbjct: 20 PHDIFISHAWEDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGI 78
Query: 77 IIFSEAYASSRWCLDEL 93
++ S + W EL
Sbjct: 79 VVLSTHFFKKEWPQKEL 95
>pdb|3AXJ|A Chain A, High Resolution Crystal Structure Of C3po
Length = 249
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 74 ISLIIFS--EAYASSRWCLDELVKILTRELEEMFKENSEKLQTWRNALKEAAGLSGFHSQ 131
++L IFS + Y + + E ++I+ RE+E + KE KLQ + L + + G +
Sbjct: 19 VNLDIFSNYQKYIDNEQEVRENIRIVVREIEHLSKEAQIKLQIIHSDLSQISAACGLARK 78
Query: 132 NIRLAEVSPCSNKNQ 146
+ L C+ K Q
Sbjct: 79 QVEL-----CAQKYQ 88
>pdb|4DG7|A Chain A, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|B Chain B, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|C Chain C, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|D Chain D, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|E Chain E, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|F Chain F, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|G Chain G, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|H Chain H, Low Resolution Structure Of Drosophila Translin
Length = 255
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 74 ISLIIFS--EAYASSRWCLDELVKILTRELEEMFKENSEKLQTWRNALKEAAGLSGFHSQ 131
++L IFS + Y + + E ++I+ RE+E + KE KLQ + L + + G +
Sbjct: 25 VNLDIFSNYQKYIDNEQEVRENIRIVVREIEHLSKEAQIKLQIIHSDLSQISAACGLARK 84
Query: 132 NIRLAEVSPCSNKNQ 146
+ L C+ K Q
Sbjct: 85 QVEL-----CAQKYQ 94
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 1/38 (2%)
Query: 163 AESKDVYALGIWGIGGIDRTTIARAIFNKISSNFEGSC 200
E+K+ +GI G GI +TT AR + +I+++ EGS
Sbjct: 289 GEAKEGEIIGILGPNGIGKTTFARILVGEITAD-EGSV 325
>pdb|2QVA|A Chain A, Crystal Structure Of Drosophila Melanogaster Translin
Protein
pdb|2QVA|B Chain B, Crystal Structure Of Drosophila Melanogaster Translin
Protein
pdb|2QVA|C Chain C, Crystal Structure Of Drosophila Melanogaster Translin
Protein
pdb|2QVA|D Chain D, Crystal Structure Of Drosophila Melanogaster Translin
Protein
Length = 247
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 74 ISLIIFS--EAYASSRWCLDELVKILTRELEEMFKENSEKLQTWRNALKEAAGLSGFHSQ 131
++L IFS + Y + + E ++I+ RE+E + KE KLQ + L + + G +
Sbjct: 17 VNLDIFSNYQKYIDNEQEVRENIRIVVREIEHLSKEAQIKLQIIHSDLSQISAACGLARK 76
Query: 132 NIRLAEVSPCSNKNQ 146
+ L C+ K Q
Sbjct: 77 QVEL-----CAQKYQ 86
>pdb|3RIU|A Chain A, Crystal Structure Of Drosophila Hexameric C3po Formed By
Truncated Translin And Trax
pdb|3RIU|B Chain B, Crystal Structure Of Drosophila Hexameric C3po Formed By
Truncated Translin And Trax
Length = 218
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 74 ISLIIFS--EAYASSRWCLDELVKILTRELEEMFKENSEKLQTWRNALKEAAGLSGFHSQ 131
++L IFS + Y + + E ++I+ RE+E + KE KLQ + L + + G +
Sbjct: 6 VNLDIFSNYQKYIDNEQEVRENIRIVVREIEHLSKEAQIKLQIIHSDLSQISAACGLARK 65
Query: 132 NIRLAEVSPCSNKNQ 146
+ L C+ K Q
Sbjct: 66 QVEL-----CAQKYQ 75
>pdb|2QRX|A Chain A, Crystal Structure Of Drosophila Melanogaster Translin
Protein
Length = 235
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 7/75 (9%)
Query: 74 ISLIIFS--EAYASSRWCLDELVKILTRELEEMFKENSEKLQTWRNALKEAAGLSGFHSQ 131
++L IFS + Y + + E ++I+ RE+E + KE KLQ + L + + G +
Sbjct: 5 VNLDIFSNYQKYIDNEQEVRENIRIVVREIEHLSKEAQIKLQIIHSDLSQISAACGLARK 64
Query: 132 NIRLAEVSPCSNKNQ 146
+ L C+ K Q
Sbjct: 65 QVEL-----CAQKYQ 74
>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 = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 29 DNRDNFTGHLYSALSQKGIE----TFIDDQLNRGDEISQSLVDAIEASAIS-LIIFSEAY 83
+N+ L AL + G++ TF+ D+L + D+I+ IEAS+I+ I+F Y
Sbjct: 132 NNKTKDISKLKLALDKYGVDLPMITFLKDELRKKDKIAAGKTRVIEASSINDTILFRTVY 191
Query: 84 AS 85
+
Sbjct: 192 GN 193
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 0.135 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,614,675
Number of Sequences: 62578
Number of extensions: 271183
Number of successful extensions: 784
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 776
Number of HSP's gapped (non-prelim): 14
length of query: 311
length of database: 14,973,337
effective HSP length: 99
effective length of query: 212
effective length of database: 8,778,115
effective search space: 1860960380
effective search space used: 1860960380
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: 51 (24.3 bits)