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= 040920
(163 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 = 129 bits (323), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 69/143 (48%), Positives = 88/143 (61%), Gaps = 3/143 (2%)
Query: 15 KYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDK-LNRGNEISPSLSSAIEGSKISI 73
KYDVFLSFRG D RHNFIS L L R+ I TF DDK L G SP L S IE S+ ++
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 74 VIFSKGYASSRLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEER 133
V+ S+ YA+S CL+ELV I++ + K V+P+FY V+P+ VR QTG + F K R
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASR 127
Query: 134 FKEKIDMLQTWRIAMREAANLSG 156
E + + WR A+ 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 = 128 bits (321), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 66/159 (41%), Positives = 101/159 (63%), Gaps = 4/159 (2%)
Query: 1 MASSSSSINMIPHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETF-IDDKLNRGNEIS 59
++ S++ P ++Y+VFLSFRG D R F L +L R KI TF DD+L +G EI
Sbjct: 21 ISDSTNPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIG 80
Query: 60 PSLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYG-QIVVPVFYLVDPSDVRN 118
P+L AI+ SKI + I S GYA S+ CL EL +I+ + + +I++P+FY+VDPSDVR+
Sbjct: 81 PNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRH 140
Query: 119 QTGTFGDSFSKLEERFKEKIDMLQTWRIAMREAANLSGF 157
QTG + +F K +F + +Q W+ A+++ +L G+
Sbjct: 141 QTGCYKKAFRKHANKFDGQ--TIQNWKDALKKVGDLKGW 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 = 35.4 bits (80), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 25/128 (19%), Positives = 58/128 (45%), Gaps = 2/128 (1%)
Query: 2 ASSSSSINMIPHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDD-KLNRGNEISP 60
A +++ ++ +D+F+S +D + +F+ L L E + DD L G+ +
Sbjct: 7 AGPTTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRR 65
Query: 61 SLSSAIEGSKISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQT 120
S+ + S+ IV+ S + EL + + ++ ++P+++ V +V + +
Sbjct: 66 SIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFS 125
Query: 121 GTFGDSFS 128
T D +
Sbjct: 126 PTMADKLA 133
>pdb|3MKQ|B Chain B, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|D Chain D, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
pdb|3MKQ|F Chain F, Crystal Structure Of Yeast AlphaBETAPRIME-Cop Subcomplex
Of The Copi Vesicular Coat
Length = 177
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 50/103 (48%), Gaps = 14/103 (13%)
Query: 12 PHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGS-- 69
PHI++D+ L + D + LN ++ +++ I + L +GN SL+ I +
Sbjct: 8 PHIRFDLALEYGNLDAALDEAKKLNDSITWERL---IQEALAQGN---ASLAEMIYQTQH 61
Query: 70 ---KISIVIFSKGYASSRLCLNELVKILESKNKYGQIVVPVFY 109
K+S + G + L+++ I +++ +G +++ FY
Sbjct: 62 SFDKLSFLYLVTGDVNK---LSKMQNIAQTREDFGSMLLNTFY 101
>pdb|3P0A|A Chain A, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|B Chain B, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|C Chain C, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|D Chain D, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|E Chain E, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|F Chain F, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|G Chain G, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|H Chain H, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|I Chain I, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|J Chain J, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|K Chain K, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|L Chain L, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|M Chain M, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|N Chain N, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|O Chain O, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|P Chain P, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|Q Chain Q, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|R Chain R, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|S Chain S, X-Ray Structure Of Pentameric Hiv-1 Ca
pdb|3P0A|T Chain T, X-Ray Structure Of Pentameric Hiv-1 Ca
Length = 231
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 31/63 (49%), Gaps = 6/63 (9%)
Query: 81 ASSRLCLNELVKILESKNKYGQIVVPVFYLVD----PSDVRNQTGTFGDSFSKLEERFKE 136
A S LCLN VK++E K + V+P+F + P D+ T G + + + KE
Sbjct: 14 AISCLCLNAWVKVVEEK-AFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAM-QMLKE 71
Query: 137 KID 139
I+
Sbjct: 72 TIN 74
>pdb|1ATT|A Chain A, Crystal Structure Of Cleaved Bovine Antithrombin Iii At
3.2 Angstroms Resolution
pdb|1ATT|B Chain B, Crystal Structure Of Cleaved Bovine Antithrombin Iii At
3.2 Angstroms Resolution
Length = 429
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 43/98 (43%), Gaps = 9/98 (9%)
Query: 2 ASSSSSINMIPHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIET--------FIDDKLN 53
A +++ ++ K+D +S + D H F + LN L RK ++ DK
Sbjct: 91 ACNNTLTQLMEVFKFDT-ISEKTSDQIHFFFAKLNCRLYRKANKSSELVSANRLFGDKSI 149
Query: 54 RGNEISPSLSSAIEGSKISIVIFSKGYASSRLCLNELV 91
NE +S + G+K+ + F SRL +N+ +
Sbjct: 150 TFNETYQDISEVVYGAKLQPLDFKGNAEQSRLTINQWI 187
>pdb|1DKG|D Chain D, Crystal Structure Of The Nucleotide Exchange Factor Grpe
Bound To The Atpase Domain Of The Molecular Chaperone
Dnak
Length = 383
Score = 27.7 bits (60), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 5/72 (6%)
Query: 2 ASSSSSINMIPHIKYDVFLSFRGKDVRHNFISHLNAALCRKKIETFIDDKLNRGNEISPS 61
A+ + I + + DV L + D H+N + R K+E+ ++D +NR E+
Sbjct: 265 AAEKAKIELSSAQQTDVNLPYITADATGP--KHMNIKVTRAKLESLVEDLVNRSIEL--- 319
Query: 62 LSSAIEGSKISI 73
L A++ + +S+
Sbjct: 320 LKVALQDAGLSV 331
>pdb|3TTS|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|C Chain C, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|D Chain D, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|E Chain E, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTS|F Chain F, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus
pdb|3TTY|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|C Chain C, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|D Chain D, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|E Chain E, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
pdb|3TTY|F Chain F, Crystal Structure Of Beta-Galactosidase From Bacillus
Circulans Sp. Alkalophilus In Complex With Galactose
Length = 675
Score = 27.3 bits (59), Expect = 4.3, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 89 ELVKILESKNKYGQIVVPVFYLVDPSDVRN------QTGTFGDSF 127
+++ + E +KY ++ PV Y+V P Q GTF +F
Sbjct: 442 DMISVEEDLSKYKVVIAPVMYMVKPGFAERVERFVAQGGTFVTTF 486
>pdb|2KHO|A Chain A, Nmr-Rdc XRAY STRUCTURE OF E. COLI HSP70 (DNAK) CHAPERONE
(1-605) Complexed With Adp And Substrate
Length = 605
Score = 26.6 bits (57), Expect = 6.0, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 25/40 (62%), Gaps = 3/40 (7%)
Query: 34 HLNAALCRKKIETFIDDKLNRGNEISPSLSSAIEGSKISI 73
H+N + R K+E+ ++D +NR I P L A++ + +S+
Sbjct: 295 HMNIKVTRAKLESLVEDLVNR--SIEP-LKVALQDAGLSV 331
>pdb|3JZL|A Chain A, Crystal Structure Of A Putative Cystathionine Beta-Lyase
Involved In Aluminum Resistance (Lmof2365_1314) From
Listeria Monocytogenes Str. 4b F2365 At 1.91 A
Resolution
pdb|3JZL|B Chain B, Crystal Structure Of A Putative Cystathionine Beta-Lyase
Involved In Aluminum Resistance (Lmof2365_1314) From
Listeria Monocytogenes Str. 4b F2365 At 1.91 A
Resolution
Length = 409
Score = 26.6 bits (57), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 36 NAALCRKKIETFIDDKLNRGNEIS 59
N RKK+ET IDD N+ +EI+
Sbjct: 4 NIQAIRKKVETQIDDLQNKTDEIA 27
>pdb|3RBJ|A Chain A, Crystal Structure Of The Lid-Mutant Of Streptococcus
Agalactiae Sortase C1
pdb|3RBJ|B Chain B, Crystal Structure Of The Lid-Mutant Of Streptococcus
Agalactiae Sortase C1
Length = 230
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 34/60 (56%), Gaps = 4/60 (6%)
Query: 51 KLNRGNEISPSLSSAIEGSKIS----IVIFSKGYASSRLCLNELVKILESKNKYGQIVVP 106
++NR E++ + +++I G+K + +I + G + + E ++LE K + G +++P
Sbjct: 31 EINRRLELAYAYNASIAGAKTNGEYPALIPNTGAEQKQAGVVEYARMLEVKEQIGHVIIP 90
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 0.135 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,517,705
Number of Sequences: 62578
Number of extensions: 167249
Number of successful extensions: 436
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 426
Number of HSP's gapped (non-prelim): 21
length of query: 163
length of database: 14,973,337
effective HSP length: 91
effective length of query: 72
effective length of database: 9,278,739
effective search space: 668069208
effective search space used: 668069208
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)