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= 026558
(237 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PXX|A Chain A, Human Putative Methyltransferase Mgc2408
Length = 215
Score = 102 bits (254), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 63/166 (37%), Positives = 88/166 (53%), Gaps = 12/166 (7%)
Query: 9 AYGEPWYWDNRY--AHESGPFDWYQKYPSLAPLIKLYVPSHHQRILIVGCGNSAFSEGMV 66
Y E YWD RY A +S P+DW+ + S L++ + RIL++GCGNSA S +
Sbjct: 3 GYREVEYWDQRYQGAADSAPYDWFGDFSSFRALLEPELRPE-DRILVLGCGNSALSYELF 61
Query: 67 DDGYXXXXXXXXXXXXXXAMMKKYSNRPQLKYIKMDVRQMDEFQTGSFDSVVDKGTLDSL 126
G+ AM Y++ PQL++ MDVR++D F + SFD V++KGTLD+L
Sbjct: 62 LGGFPNVTSVDYSSVVVAAMQACYAHVPQLRWETMDVRKLD-FPSASFDVVLEKGTLDAL 120
Query: 127 LCG--------SNSRQNATQMLKEVWRVLKDKGVYILVTYGAPIYR 164
L G S Q+L EV RVL G +I +T AP +R
Sbjct: 121 LAGERDPWTVSSEGVHTVDQVLSEVSRVLVPGGRFISMTSAAPHFR 166
>pdb|1VE3|A Chain A, Crystal Structure Of Ph0226 Protein From Pyrococcus
Horikoshii Ot3
pdb|1VE3|B Chain B, Crystal Structure Of Ph0226 Protein From Pyrococcus
Horikoshii Ot3
Length = 227
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 57/127 (44%), Gaps = 7/127 (5%)
Query: 28 DWYQKYPSLAPLIKLYVPSHHQRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMM 87
++ + +L PL+ Y ++L + CG FS + D G+ A
Sbjct: 20 EYRSRIETLEPLLXKYX-KKRGKVLDLACGVGGFSFLLEDYGFEVVGVDISEDXIRKARE 78
Query: 88 KKYSNRPQLKYIKMDVRQMDEFQTGSFDSVVDKGTLDSLLCGSNSRQNATQMLKEVWRVL 147
S +++I D R++ F+ +FD V+ +DS++ N Q+ KEV RVL
Sbjct: 79 YAKSRESNVEFIVGDARKLS-FEDKTFDYVI---FIDSIVHFEPLELN--QVFKEVRRVL 132
Query: 148 KDKGVYI 154
K G +I
Sbjct: 133 KPSGKFI 139
>pdb|3SM3|A Chain A, Crystal Structure Of Sam-Dependent Methyltransferases
Q8puk2_metma From Methanosarcina Mazei. Northeast
Structural Genomics Consortium Target Mar262
Length = 235
Score = 33.9 bits (76), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 35/140 (25%), Positives = 55/140 (39%), Gaps = 6/140 (4%)
Query: 36 LAPLIKLYVPSHHQRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMMKKYSNRPQ 95
L P+I Y+ + IL +GCG+ S + GY A S
Sbjct: 20 LYPIIHNYLQEDDE-ILDIGCGSGKISLELASKGYSVTGIDINSEAIRLAETAARSPGLN 78
Query: 96 LKYIKMDVRQMDEFQTGSF-DSVVDKGTLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYI 154
K +++ + SF DS D + + L + ++++KEV+RVLK
Sbjct: 79 QKTGGKAEFKVENASSLSFHDSSFDFAVMQAFLTSVPDPKERSRIIKEVFRVLKPGAYLY 138
Query: 155 LVTYGA----PIYRLGMLRD 170
LV +G +YR L D
Sbjct: 139 LVEFGQNWHLKLYRKRYLHD 158
>pdb|1DAP|A Chain A, C. Glutamicum Dap Dehydrogenase In Complex With Nadp+
pdb|1DAP|B Chain B, C. Glutamicum Dap Dehydrogenase In Complex With Nadp+
pdb|3DAP|A Chain A, C. Glutamicum Dap Dehydrogenase In Complex With Nadp+ And
The Inhibitor 5s-Isoxazoline
pdb|3DAP|B Chain B, C. Glutamicum Dap Dehydrogenase In Complex With Nadp+ And
The Inhibitor 5s-Isoxazoline
pdb|1F06|A Chain A, Three Dimensional Structure Of The Ternary Complex Of
Corynebacterium Glutamicum Diaminopimelate Dehydrogenase
Nadph-l-2-amino-6-methylene- Pimelate
pdb|1F06|B Chain B, Three Dimensional Structure Of The Ternary Complex Of
Corynebacterium Glutamicum Diaminopimelate Dehydrogenase
Nadph-l-2-amino-6-methylene- Pimelate
pdb|2DAP|A Chain A, C. Glutamicum Dap Dehydrogenase In Complex With Dap
Length = 320
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 21/32 (65%)
Query: 205 NDGRSVEELLGKNPDVHYIYVCTKDESLKTSS 236
N GRSVE+L+ K PD+ + + ++ +L T +
Sbjct: 13 NLGRSVEKLIAKQPDMDLVGIFSRRATLDTKT 44
>pdb|2Z86|A Chain A, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
pdb|2Z86|B Chain B, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
pdb|2Z86|C Chain C, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
pdb|2Z86|D Chain D, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With
Udp-Glcua And Udp
Length = 625
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 38/98 (38%), Gaps = 26/98 (26%)
Query: 37 APLIKLYVPSHHQRILIVGCGNSAFSEGMV-------DDGYXXXXXXXXXXXXXXAMMKK 89
PL+ +Y+P+++ IV C SA ++ + DDG + +
Sbjct: 374 VPLVSIYIPAYNCSKYIVRCVESALNQTITDLEVCICDDG--------STDDTLRILQEH 425
Query: 90 YSNRPQLKYIKMD-----------VRQMDEFQTGSFDS 116
Y+N P++++I VR F G DS
Sbjct: 426 YANHPRVRFISQKNKGIGSASNTAVRLCRGFYIGQLDS 463
>pdb|2Z87|A Chain A, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With Udp-
Galnac And Udp
pdb|2Z87|B Chain B, Crystal Structure Of Chondroitin Polymerase From
Escherichia Coli Strain K4 (K4cp) Complexed With Udp-
Galnac And Udp
Length = 624
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 38/98 (38%), Gaps = 26/98 (26%)
Query: 37 APLIKLYVPSHHQRILIVGCGNSAFSEGMV-------DDGYXXXXXXXXXXXXXXAMMKK 89
PL+ +Y+P+++ IV C SA ++ + DDG + +
Sbjct: 373 VPLVSIYIPAYNCSKYIVRCVESALNQTITDLEVCICDDG--------STDDTLRILQEH 424
Query: 90 YSNRPQLKYIKMD-----------VRQMDEFQTGSFDS 116
Y+N P++++I VR F G DS
Sbjct: 425 YANHPRVRFISQKNKGIGSASNTAVRLCRGFYIGQLDS 462
>pdb|1R74|A Chain A, Crystal Structure Of Human Glycine N-Methyltransferase
pdb|1R74|B Chain B, Crystal Structure Of Human Glycine N-Methyltransferase
Length = 294
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/117 (18%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 49 QRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMMKKYSNRPQLKYIKMDVRQMD- 107
QR+L V CG S +V++G+ A+ ++++ R + + K + + +
Sbjct: 58 QRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRHEPAFDKWVIEEANW 117
Query: 108 --------EFQTGSFDSVVDKGTLDSLLCGSNSRQNATQM-LKEVWRVLKDKGVYIL 155
+ G FD+V+ G + L Q+ ++ LK + +++ G+ ++
Sbjct: 118 MTLDKDVPQSAEGGFDAVICLGNSFAHLPDCKGDQSEHRLALKNIASMVRAGGLLVI 174
>pdb|2AZT|A Chain A, Crystal Structure Of H176n Mutant Of Human Glycine
N-Methyltransferase
pdb|2AZT|B Chain B, Crystal Structure Of H176n Mutant Of Human Glycine
N-Methyltransferase
Length = 295
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 22/117 (18%), Positives = 51/117 (43%), Gaps = 10/117 (8%)
Query: 49 QRILIVGCGNSAFSEGMVDDGYXXXXXXXXXXXXXXAMMKKYSNRPQLKYIKMDVRQMD- 107
QR+L V CG S +V++G+ A+ ++++ R + + K + + +
Sbjct: 59 QRVLDVACGTGVDSIMLVEEGFSVTSVDASDKMLKYALKERWNRRHEPAFDKWVIEEANW 118
Query: 108 --------EFQTGSFDSVVDKGTLDSLLCGSNSRQNATQM-LKEVWRVLKDKGVYIL 155
+ G FD+V+ G + L Q+ ++ LK + +++ G+ ++
Sbjct: 119 MTLDKDVPQSAEGGFDAVICLGNSFAHLPDCKGDQSEHRLALKNIASMVRAGGLLVI 175
>pdb|2HJ9|A Chain A, Crystal Structure Of The Autoinducer-2-Bound Form Of
Vibrio Harveyi Luxp Complexed With The Periplasmic
Domain Of Luxq
pdb|2HJ9|B Chain B, Crystal Structure Of The Autoinducer-2-Bound Form Of
Vibrio Harveyi Luxp Complexed With The Periplasmic
Domain Of Luxq
Length = 339
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 214 LGKNPDVHYIYVCTKDESL 232
L K+PDV +IY C+ D +L
Sbjct: 226 LAKHPDVDFIYACSTDVAL 244
>pdb|1ZHH|A Chain A, Crystal Structure Of The Apo Form Of Vibrio Harveyi Luxp
Complexed With The Periplasmic Domain Of Luxq
Length = 344
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 214 LGKNPDVHYIYVCTKDESL 232
L K+PDV +IY C+ D +L
Sbjct: 231 LAKHPDVDFIYACSTDVAL 249
>pdb|1JX6|A Chain A, Crystal Structure Of Luxp From Vibrio Harveyi Complexed
With Autoinducer-2
Length = 342
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 14/19 (73%)
Query: 214 LGKNPDVHYIYVCTKDESL 232
L K+PDV +IY C+ D +L
Sbjct: 229 LAKHPDVDFIYACSTDVAL 247
>pdb|1S0I|A Chain A, Trypanosoma Cruzi Trans-Sialidase In Complex With Sialyl-
Lactose (Michaelis Complex)
pdb|1S0J|A Chain A, Trypanosoma Cruzi Trans-Sialidase In Complex With Munana
(Michaelis Complex)
Length = 648
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 53/128 (41%), Gaps = 15/128 (11%)
Query: 102 DVRQMDEFQTGSFDSV----VDKG-TLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYILV 156
D R F D+V VD G T ++ + NSR ++ + + ++K +Y+LV
Sbjct: 65 DARYETSFANSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLV 124
Query: 157 -TYGAPIYRLGMLRDSCSWNIKLHVIE--------KLVVEEKSGHPIWELTNPVPLENDG 207
+Y + D+ W+I L V E K+ K G P+ L P E +G
Sbjct: 125 GSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPV-SLKEFFPAEMEG 183
Query: 208 RSVEELLG 215
+ LG
Sbjct: 184 MHTNQFLG 191
>pdb|1MS5|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase,
Soaked With N-Acetylneuraminyl-A-2,3-Thio-Galactoside
(Na-S-Gal)
pdb|1MS5|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase,
Soaked With N-Acetylneuraminyl-A-2,3-Thio-Galactoside
(Na-S-Gal)
Length = 648
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 53/128 (41%), Gaps = 15/128 (11%)
Query: 102 DVRQMDEFQTGSFDSV----VDKG-TLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYILV 156
D R F D+V VD G T ++ + NSR ++ + + ++K +Y+LV
Sbjct: 65 DARYETSFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLV 124
Query: 157 -TYGAPIYRLGMLRDSCSWNIKLHVIE--------KLVVEEKSGHPIWELTNPVPLENDG 207
+Y + D+ W+I L V E K+ K G P+ L P E +G
Sbjct: 125 GSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPV-SLKEFFPAEMEG 183
Query: 208 RSVEELLG 215
+ LG
Sbjct: 184 MHTNQFLG 191
>pdb|1MR5|A Chain A, Orthorhombic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS0|A Chain A, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)and Lactose
pdb|1MS0|B Chain B, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)and Lactose
pdb|1MS1|A Chain A, Monoclinic Form Of Trypanosoma Cruzi Trans-sialidase, In
Complex With 3-deoxy-2,3-dehydro-n-acetylneuraminic Acid
(dana)
pdb|1MS1|B Chain B, Monoclinic Form Of Trypanosoma Cruzi Trans-sialidase, In
Complex With 3-deoxy-2,3-dehydro-n-acetylneuraminic Acid
(dana)
pdb|1MS3|A Chain A, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS3|B Chain B, Monoclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS4|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS4|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase
pdb|1MS8|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)
pdb|1MS8|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With 3-Deoxy-2,3-Dehydro-N-Acetylneuraminic Acid
(Dana)
pdb|1MS9|A Chain A, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With Lactose
pdb|1MS9|B Chain B, Triclinic Form Of Trypanosoma Cruzi Trans-Sialidase, In
Complex With Lactose
pdb|2AH2|A Chain A, Trypanosoma Cruzi Trans-Sialidase In Complex With
2,3-Difluorosialic Acid (Covalent Intermediate)
pdb|3B69|A Chain A, T Cruzi Trans-Sialidase Complex With Benzoylated Nana
Derivative
pdb|3OPZ|A Chain A, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|B Chain B, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|C Chain C, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
Length = 648
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 53/128 (41%), Gaps = 15/128 (11%)
Query: 102 DVRQMDEFQTGSFDSV----VDKG-TLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYILV 156
D R F D+V VD G T ++ + NSR ++ + + ++K +Y+LV
Sbjct: 65 DARYETSFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLV 124
Query: 157 -TYGAPIYRLGMLRDSCSWNIKLHVIE--------KLVVEEKSGHPIWELTNPVPLENDG 207
+Y + D+ W+I L V E K+ K G P+ L P E +G
Sbjct: 125 GSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPV-SLKEFFPAEMEG 183
Query: 208 RSVEELLG 215
+ LG
Sbjct: 184 MHTNQFLG 191
>pdb|3PJQ|A Chain A, Trypanosoma Cruzi Trans-Sialidase-Like Inactive Isoform
(Including The Natural Mutation Tyr342his) In Complex
With Lactose
Length = 648
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 33/128 (25%), Positives = 53/128 (41%), Gaps = 15/128 (11%)
Query: 102 DVRQMDEFQTGSFDSV----VDKG-TLDSLLCGSNSRQNATQMLKEVWRVLKDKGVYILV 156
D R F D+V VD G T ++ + NSR ++ + + ++K +Y+LV
Sbjct: 65 DARYETSFDNSLIDTVAKYSVDDGETWETQIAIKNSRASSVSRVVDPTVIVKGNKLYVLV 124
Query: 157 -TYGAPIYRLGMLRDSCSWNIKLHVIE--------KLVVEEKSGHPIWELTNPVPLENDG 207
+Y + D+ W+I L V E K+ K G P+ L P E +G
Sbjct: 125 GSYNSSRSYWTSHGDARDWDILLAVGEVTKSTAGGKITASIKWGSPV-SLKEFFPAEMEG 183
Query: 208 RSVEELLG 215
+ LG
Sbjct: 184 MHTNQFLG 191
>pdb|4G68|A Chain A, Biochemical And Structural Insights Into Xylan Utilization
By The Thermophilic Bacteriumcaldanaerobius
Polysaccharolyticus
Length = 456
Score = 26.9 bits (58), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 121 GTLDSLLCGSNSR--QNATQMLKEVWRVLKDKGVYILVTYGAPIYRLGMLRDSCSWNIKL 178
GT+ +L +NS+ A + K + + L D + L+ G P ++ + S +++
Sbjct: 342 GTVGALXVSANSKYKDEAVRAAKYLAKQLSD--MDYLIATGLPAWKYDNIDQSKVDPLEI 399
Query: 179 HVIEKLVVEEKSGHPIWEL 197
++ +V K P W++
Sbjct: 400 QIMNNIVANAKGSVPAWDI 418
>pdb|4G68|B Chain B, Biochemical And Structural Insights Into Xylan Utilization
By The Thermophilic Bacteriumcaldanaerobius
Polysaccharolyticus
Length = 432
Score = 26.9 bits (58), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 121 GTLDSLLCGSNSR--QNATQMLKEVWRVLKDKGVYILVTYGAPIYRLGMLRDSCSWNIKL 178
GT+ +L +NS+ A + K + + L D + L+ G P ++ + S +++
Sbjct: 318 GTVGALXVSANSKYKDEAVRAAKYLAKQLSD--MDYLIATGLPAWKYDNIDQSKVDPLEI 375
Query: 179 HVIEKLVVEEKSGHPIWEL 197
++ +V K P W++
Sbjct: 376 QIMNNIVANAKGSVPAWDI 394
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 0.135 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,410,069
Number of Sequences: 62578
Number of extensions: 299758
Number of successful extensions: 962
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 947
Number of HSP's gapped (non-prelim): 25
length of query: 237
length of database: 14,973,337
effective HSP length: 96
effective length of query: 141
effective length of database: 8,965,849
effective search space: 1264184709
effective search space used: 1264184709
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)