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= 048656
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 104 bits (260), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 54/116 (46%), Positives = 76/116 (65%), Gaps = 2/116 (1%)
Query: 1 FRGEDICDNFLSHLVVALHRKNIETFVDE-ELTRGDEISPAFLKAIEESKISVKIFSKNY 59
FRG D + F L +L R I TF D+ EL +G EI P L+AI++SKI V I S Y
Sbjct: 42 FRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGY 101
Query: 60 ASSKWCLDELVKILKCHKKNG-QVVIPVFYNVDPSDVRNQKRSFKDAFVKHDKQFN 114
A SKWCL EL +I++ +++ ++++P+FY VDPSDVR+Q +K AF KH +F+
Sbjct: 102 ADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFD 157
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 95.5 bits (236), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 50/110 (45%), Positives = 65/110 (59%), Gaps = 1/110 (0%)
Query: 1 FRGEDICDNFLSHLVVALHRKNIETFVDE-ELTRGDEISPAFLKAIEESKISVKIFSKNY 59
FRG D NF+S L L R++I TF D+ EL G SP IE S+ +V + S+NY
Sbjct: 15 FRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENY 74
Query: 60 ASSKWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVRNQKRSFKDAFVKH 109
A+S WCLDELV I+ KK V+P+FY V+P+ VR Q + F KH
Sbjct: 75 AASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKH 124
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/102 (20%), Positives = 43/102 (42%), Gaps = 2/102 (1%)
Query: 4 EDICDNFLSHLVVALHRKNIETFVDE-ELTRGDEISPAFLKAIEESKISVKIFSKNYASS 62
ED D F+ L L E + D+ L GD + + K + S+ + + S ++
Sbjct: 30 EDKAD-FVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKK 88
Query: 63 KWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVRNQKRSFKD 104
+W EL + + ++P+++ V +V + + D
Sbjct: 89 EWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMAD 130
>pdb|2XMO|A Chain A, The Crystal Structure Of Lmo2642
pdb|2XMO|B Chain B, The Crystal Structure Of Lmo2642
Length = 443
Score = 30.8 bits (68), Expect = 0.19, Method: Composition-based stats.
Identities = 24/65 (36%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 29 EELTRGDEISPAFLKAIEESKISVKIFSKNYASS--KWCLDELVKILKCHKKNGQVVIPV 86
++L DEI+ AFL +E K V I S + ++ K +EL K L +KNG V V
Sbjct: 72 KQLAYSDEITDAFLADVESKKTDVLIISGDLTNNGEKTSHEELAKKLTQVEKNGTQVFVV 131
Query: 87 FYNVD 91
N D
Sbjct: 132 PGNHD 136
>pdb|1G03|A Chain A, Nmr Structure Of N-Terminal Domain Of Htlv-I Ca1-134
Length = 134
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 4 EDICDNFLSHLVVALHRKNIETFVDEELTRG 34
+D+ S LV +LH + +++ + E TRG
Sbjct: 56 QDLLQYLCSSLVASLHHQQLDSLISEAETRG 86
>pdb|1QRJ|B Chain B, Solution Structure Of Htlv-I Capsid Protein
Length = 199
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 4 EDICDNFLSHLVVALHRKNIETFVDEELTRG 34
+D+ S LV +LH + +++ + E TRG
Sbjct: 41 QDLLQYLCSSLVASLHHQQLDSLISEAETRG 71
>pdb|1DJU|A Chain A, Crystal Structure Of Aromatic Aminotransferase From
Pyrococcus Horikoshii Ot3
pdb|1DJU|B Chain B, Crystal Structure Of Aromatic Aminotransferase From
Pyrococcus Horikoshii Ot3
Length = 388
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 4 EDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSK 63
E+I D + H ++ + + E F+ ++ S A L + E I+V FSK +A +
Sbjct: 182 EEIADFVVEHDLIVISDEVYEHFIYDD---ARHYSIASLDGMFERTITVNGFSKTFAMTG 238
Query: 64 WCL 66
W L
Sbjct: 239 WRL 241
>pdb|1GDE|A Chain A, Crystal Structure Of Pyrococcus Protein A-1 E-form
pdb|1GDE|B Chain B, Crystal Structure Of Pyrococcus Protein A-1 E-form
pdb|1GD9|A Chain A, Crystall Structure Of Pyrococcus Protein-A1
pdb|1GD9|B Chain B, Crystall Structure Of Pyrococcus Protein-A1
Length = 389
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 4 EDICDNFLSHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSK 63
E+I D + H ++ + + E F+ ++ S A L + E I+V FSK +A +
Sbjct: 183 EEIADFVVEHDLIVISDEVYEHFIYDD---ARHYSIASLDGMFERTITVNGFSKTFAMTG 239
Query: 64 WCL 66
W L
Sbjct: 240 WRL 242
>pdb|2KRI|A Chain A, Structure Of A Complex Between Domain V Of Beta2-
Glycoprotein I And The Fourth Ligand-Binding Module
From Ldlr Determined With Haddock
pdb|3OP8|A Chain A, Crystal Structure Of The Domain V From
Beta2-Glycoprotein I
pdb|3OP8|B Chain B, Crystal Structure Of The Domain V From
Beta2-Glycoprotein I
Length = 85
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVK 71
+ +V R I+ + GD++S F +E K S Y C+D ++
Sbjct: 10 ATVVYQGERVKIQEKFKNGMLHGDKVS--FFCKNKEKKCS-------YTEDAQCIDGTIE 60
Query: 72 ILKCHKKNGQVVIPVFYNVDPSDVR 96
+ KC K++ + F+ D SDV+
Sbjct: 61 VPKCFKEHSSL---AFWKTDASDVK 82
>pdb|1WZA|A Chain A, Crystal Structure Of Alpha-Amylase From H.Orenii
Length = 488
Score = 25.4 bits (54), Expect = 8.7, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 14 LVVALHRKNIETFVDEELTRGDEISPAFLKA 44
LV A H++ I+ +D + E P FLKA
Sbjct: 87 LVEAAHQRGIKVIIDLPINHTSERHPWFLKA 117
>pdb|1G4F|A Chain A, Nmr Structure Of The Fifth Domain Of Human Beta2-
Glycoprotein I
pdb|1G4G|A Chain A, Nmr Structure Of The Fifth Domain Of Human Beta2-
Glycoprotein I
Length = 86
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 12 SHLVVALHRKNIETFVDEELTRGDEISPAFLKAIEESKISVKIFSKNYASSKWCLDELVK 71
+ +V R I+ + GD++S F +E K S Y C+D ++
Sbjct: 12 ATVVYQGERVKIQEKFKNGMLHGDKVS--FFCKNKEKKCS-------YTEDAQCIDGTIE 62
Query: 72 ILKCHKKNGQVVIPVFYNVDPSDVR 96
+ KC K++ + F+ D SDV+
Sbjct: 63 VPKCFKEHSSL---AFWKTDASDVK 84
>pdb|1C1Z|A Chain A, Crystal Structure Of Human Beta-2-Glycoprotein-I
(Apolipoprotein-H)
Length = 326
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 9/51 (17%)
Query: 52 VKIFSKN------YASSKWCLDELVKILKCHKKNGQVVIPVFYNVDPSDVR 96
V F KN Y C+D +++ KC K++ + F+ D SDV+
Sbjct: 277 VSFFCKNKEKKCSYTEDAQCIDGTIEVPKCFKEHSSL---AFWKTDASDVK 324
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
0.321 0.137 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,440,633
Number of Sequences: 62578
Number of extensions: 126852
Number of successful extensions: 322
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 313
Number of HSP's gapped (non-prelim): 17
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
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: 45 (21.9 bits)