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= 039252
(139 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 = 125 bits (315), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 63/121 (52%), Positives = 79/121 (65%), Gaps = 1/121 (0%)
Query: 14 TKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTFNDDK-LNRGDEISPSLSSAIEGSKIS 72
TKYDVFLSFRG D RHNFIS L L R+ I TF DDK L G SP L S IE S+ +
Sbjct: 7 TKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFA 66
Query: 73 IVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSFSKLEE 132
+V+ S+ YA+S WCL+ELV I++ + K V+P+FY V+P+ VR QTG + F K
Sbjct: 67 VVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHAS 126
Query: 133 R 133
R
Sbjct: 127 R 127
>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 = 120 bits (302), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 62/141 (43%), Positives = 91/141 (64%), Gaps = 2/141 (1%)
Query: 1 MASSSSSINMIPHTKYDVFLSFRGKDVRHNFISHLNAALCRKKIVTF-NDDKLNRGDEIS 59
++ S++ P +Y+VFLSFRG D R F L +L R KI TF +DD+L +G EI
Sbjct: 21 ISDSTNPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIG 80
Query: 60 PSLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYG-QIVVPVFYLVDPSDVRN 118
P+L AI+ SKI + I S GYA S+WCL EL +I+ + + +I++P+FY+VDPSDVR+
Sbjct: 81 PNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRH 140
Query: 119 QTGTFGDSFSKLEERFKEKMV 139
QTG + +F K +F + +
Sbjct: 141 QTGCYKKAFRKHANKFDGQTI 161
>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 = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/128 (20%), Positives = 59/128 (46%), Gaps = 2/128 (1%)
Query: 2 ASSSSSINMIPHTKYDVFLSFRGKDVRHNFISHLNAAL-CRKKIVTFNDDKLNRGDEISP 60
A +++ ++ +D+F+S +D + +F+ L L V ++D L GD +
Sbjct: 7 AGPTTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRR 65
Query: 61 SLSSAIEGSKISIVIFSKGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQT 120
S+ + S+ IV+ S + W EL + + ++ ++P+++ V +V + +
Sbjct: 66 SIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFS 125
Query: 121 GTFGDSFS 128
T D +
Sbjct: 126 PTMADKLA 133
>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 = 3.0, 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|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 = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 34/60 (56%), Gaps = 4/60 (6%)
Query: 51 KLNRGDEISPSLSSAIEGSKIS----IVIFSKGYASSRWCLNELVKILESKNKYGQIVVP 106
++NR E++ + +++I G+K + +I + G + + E ++LE K + G +++P
Sbjct: 31 EINRRLELAYAYNASIAGAKTNGEYPALIPNTGAEQKQAGVVEYARMLEVKEQIGHVIIP 90
>pdb|3RGW|L Chain L, Crystal Structure At 1.5 A Resolution Of An H2-Reduced,
O2-Tolerant Hydrogenase From Ralstonia Eutropha Unmasks
A Novel Iron-Sulfur Cluster
Length = 603
Score = 26.6 bits (57), Expect = 4.9, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 81 ASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDVRNQTGTFGDSF 127
A+ R L ++I + + + Q VVP + P D + Q G F S
Sbjct: 527 AAPRGALGHWIRIKDGRIENYQCVVPTTWNGSPRDYKGQIGAFEASL 573
>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 = 26.2 bits (56), Expect = 6.1, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 18 VFLSFRGKDVRHNF---ISHLNAALCRKKI----VTFNDDKLNRGDEISPSLSSAIEGSK 70
V L + KD+ +N IS L AL + + +TF D+L + D+I+ + IE S
Sbjct: 121 VTLGIKKKDLINNKTKDISKLKLALDKYDVDLPXITFLKDELRKKDKIAAGKTRVIEASS 180
Query: 71 IS-IVIFSKGYAS--SRWCLN 88
I+ ++F Y + S++ LN
Sbjct: 181 INDTILFRTVYGNLFSKFHLN 201
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
0.318 0.134 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,992,115
Number of Sequences: 62578
Number of extensions: 147571
Number of successful extensions: 339
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 331
Number of HSP's gapped (non-prelim): 10
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)