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= psy5588
(61 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1I1N|A Chain A, Human Protein L-Isoaspartate O-Methyltransferase With S-
Adenosyl Homocysteine
pdb|1KR5|A Chain A, Crystal Structure Of Human L-Isoaspartyl Methyltransferase
Length = 226
Score = 80.5 bits (197), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 38/55 (69%), Positives = 43/55 (78%)
Query: 5 LIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQHQW 59
LIDQL+PGGRLI+PVGP G Q LEQ DK DG+I PLM V+YVPLTDK+ QW
Sbjct: 168 LIDQLKPGGRLILPVGPAGGNQMLEQYDKLQDGSIKMKPLMGVIYVPLTDKEKQW 222
>pdb|1R18|A Chain A, Drosophila Protein Isoaspartyl Methyltransferase With
S-Adenosyl-L- Homocysteine
Length = 227
Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/50 (56%), Positives = 38/50 (76%)
Query: 3 VELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPL 52
ELI+QL GGRLI+PVGP+G +Q ++Q DK+ +G + T LM V+YVPL
Sbjct: 178 TELINQLASGGRLIVPVGPDGGSQYMQQYDKDANGKVEMTRLMGVMYVPL 227
>pdb|1JG4|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosylmethionine
pdb|1JG3|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl)
O-Methyltransferase With Adenosine & Vyp(Isp)ha
Substrate
pdb|1JG3|B Chain B, Crystal Structure Of L-Isoaspartyl (D-Aspartyl)
O-Methyltransferase With Adenosine & Vyp(Isp)ha
Substrate
pdb|1JG2|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With Adenosine
pdb|1JG1|A Chain A, Crystal Structure Of L-Isoaspartyl (D-Aspartyl) O-
Methyltransferase With S-Adenosyl-L-Homocysteine
Length = 235
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 5 LIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPL 52
LI+QL+ GG+LIIPVG Q L ++ K DG + V +VPL
Sbjct: 175 LIEQLKIGGKLIIPVGSYHLWQELLEVRKTKDGIKIKNH-GGVAFVPL 221
>pdb|2PBF|A Chain A, Crystal Structure Of A Putative Protein-L-Isoaspartate O-
Methyltransferase Beta-Aspartate Methyltransferase
(Pcmt) From Plasmodium Falciparum In Complex With
S-Adenosyl-L-Homocysteine
pdb|2PBF|B Chain B, Crystal Structure Of A Putative Protein-L-Isoaspartate O-
Methyltransferase Beta-Aspartate Methyltransferase
(Pcmt) From Plasmodium Falciparum In Complex With
S-Adenosyl-L-Homocysteine
Length = 227
Score = 28.9 bits (63), Expect = 0.73, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 5 LIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPL 52
L+D L G+LIIP+ E Q L +I K +G I + L V +V L
Sbjct: 179 LVDLLAENGKLIIPI-EEDYTQVLYEITKK-NGKIIKDRLFDVCFVSL 224
>pdb|2YXE|A Chain A, Crystal Structure Of L-Isoaspartyl Protein Carboxyl
Methyltranferase
pdb|2YXE|B Chain B, Crystal Structure Of L-Isoaspartyl Protein Carboxyl
Methyltranferase
Length = 215
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 5 LIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQ 56
LI QL+ GG+L++PVG Q L +K D I + V +VPL K+
Sbjct: 163 LIRQLKDGGKLLMPVGR--YLQRLVLAEKRGDEIIIKD-CGPVAFVPLVGKE 211
>pdb|2YCB|A Chain A, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
pdb|2YCB|B Chain B, Structure Of The Archaeal Beta-Casp Protein With
N-Terminal Kh Domains From Methanothermobacter
Thermautotrophicus
Length = 636
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 1 MVVELIDQLRPGGRLIIPVGPEGSAQSL 28
+V + LR GG+++IPV G AQ L
Sbjct: 397 LVKTIYSTLRRGGKILIPVFAVGRAQEL 424
>pdb|2ZWY|A Chain A, Alpha-L-Fucosidase
pdb|2ZWY|B Chain B, Alpha-L-Fucosidase
pdb|2ZWZ|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Core1
pdb|2ZWZ|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Core1
pdb|2ZX5|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10
pdb|2ZX5|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10
pdb|2ZX6|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-1c
pdb|2ZX6|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-1c
pdb|2ZX7|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c
pdb|2ZX7|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c
pdb|2ZX8|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c-O
pdb|2ZX8|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, F10-2c-O
pdb|2ZX9|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, B4
pdb|2ZX9|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, B4
pdb|2ZXA|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Fnj-Acetyl
pdb|2ZXA|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Fnj-Acetyl
pdb|2ZXB|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Ph-6fnj
pdb|2ZXB|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Ph-6fnj
pdb|2ZXD|A Chain A, Alpha-L-Fucosidase Complexed With Inhibitor, Iso-6fnj
pdb|2ZXD|B Chain B, Alpha-L-Fucosidase Complexed With Inhibitor, Iso-6fnj
Length = 455
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 1 MVVELIDQLRPGGRLIIPVGPEG 23
+V L+D + GG L++ VGP+G
Sbjct: 307 LVYTLVDVVSKGGNLLLNVGPKG 329
>pdb|1ODU|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With Fucose
pdb|1ODU|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With Fucose
Length = 449
Score = 25.8 bits (55), Expect = 6.8, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 1 MVVELIDQLRPGGRLIIPVGPEG 23
+V L+D + GG L++ VGP+G
Sbjct: 307 LVYTLVDVVSKGGNLLLNVGPKG 329
>pdb|1HL8|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
pdb|1HL8|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
pdb|1HL9|A Chain A, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With A Mechanism Based Inhibitor
pdb|1HL9|B Chain B, Crystal Structure Of Thermotoga Maritima Alpha-Fucosidase
In Complex With A Mechanism Based Inhibitor
Length = 449
Score = 25.8 bits (55), Expect = 6.9, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 1 MVVELIDQLRPGGRLIIPVGPEG 23
+V L+D + GG L++ VGP+G
Sbjct: 307 LVYTLVDVVSKGGNLLLNVGPKG 329
>pdb|2WSP|A Chain A, Thermotoga Maritima Alpha-L-Fucosynthase, Tmd224g, In
Complex With Alpha-L-Fuc-(1-2)-Beta-L-Fuc-N3
pdb|2WSP|B Chain B, Thermotoga Maritima Alpha-L-Fucosynthase, Tmd224g, In
Complex With Alpha-L-Fuc-(1-2)-Beta-L-Fuc-N3
Length = 449
Score = 25.8 bits (55), Expect = 6.9, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 1 MVVELIDQLRPGGRLIIPVGPEG 23
+V L+D + GG L++ VGP+G
Sbjct: 307 LVYTLVDVVSKGGNLLLNVGPKG 329
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
0.317 0.140 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,844,013
Number of Sequences: 62578
Number of extensions: 56773
Number of successful extensions: 132
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 120
Number of HSP's gapped (non-prelim): 13
length of query: 61
length of database: 14,973,337
effective HSP length: 32
effective length of query: 29
effective length of database: 12,970,841
effective search space: 376154389
effective search space used: 376154389
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)