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= psy9925
(180 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3Q9T|A Chain A, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|B Chain B, Crystal Structure Analysis Of Formate Oxidase
pdb|3Q9T|C Chain C, Crystal Structure Analysis Of Formate Oxidase
Length = 577
Score = 44.3 bits (103), Expect = 4e-05, Method: Composition-based stats.
Identities = 37/152 (24%), Positives = 65/152 (42%), Gaps = 18/152 (11%)
Query: 31 WGYKNVLPYFLKSEHNLQYNVR-KVMGGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKN 89
W YK + E + N R K +GG++ LN + G + +D++E+ G W +
Sbjct: 65 WAYKTTMVRRDDYERIEKPNTRGKTLGGSSSLNYFTWVPGHKATFDQWEEFGGKEWTWDP 124
Query: 90 VLPYFLKS-----EHNLQYNSSQNHARGGLLTVSH---YNDLPDLGHTLLAAGRELGYPT 141
++PY KS + L + GG + +SH +++ L A + +G P
Sbjct: 125 LVPYLRKSATYHDDPRLYSPELEKIGGGGPIPISHAELIDEMAPFRENLTKAWKSMGQPL 184
Query: 142 DVDIGHGRLR------EGFYRAQMTTRNGARL 167
+I G + + YR Q R+G+ L
Sbjct: 185 IENIYDGEMDGLTHCCDTIYRGQ---RSGSFL 213
Score = 36.2 bits (82), Expect = 0.009, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 25/43 (58%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPYFLKS 43
+GG++ LN + G + +D++E+ G W + ++PY KS
Sbjct: 90 LGGSSSLNYFTWVPGHKATFDQWEEFGGKEWTWDPLVPYLRKS 132
>pdb|3T37|A Chain A, Crystal Structure Of Pyridoxine 4-Oxidase From Mesorbium
Loti
Length = 526
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 54/121 (44%), Gaps = 2/121 (1%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEY-EKLGATGWGYKNVLPYFLKSEHNLQYNSSQNHAR 111
+++GG++ L+ + Y RG SD+ + + G WG+ +LP F E + +
Sbjct: 95 RLIGGSSCLHAMGYMRGHPSDFQAWVDASGDRRWGWDELLPVFQAIEDHPLGGDGIHGKG 154
Query: 112 GGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLREGFYRAQMTTRNGARLSAAK 171
G L +++ L + AG LG P G + G + R+G R++AA
Sbjct: 155 GPLPIHLPADEVSPLARAFIEAGASLGLPRLEGHNSGEM-IGVTPNSLNIRDGRRVTAAD 213
Query: 172 A 172
A
Sbjct: 214 A 214
Score = 33.1 bits (74), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEY-EKLGATGWGYKNVLPYFLKSE 44
+GG++ L+ + Y RG SD+ + + G WG+ +LP F E
Sbjct: 97 IGGSSCLHAMGYMRGHPSDFQAWVDASGDRRWGWDELLPVFQAIE 141
>pdb|1CF3|A Chain A, Glucose Oxidase From Apergillus Niger
pdb|1GAL|A Chain A, Crystal Structure Of Glucose Oxidase From Aspergillus
Niger: Refined At 2.3 Angstroms Resolution
pdb|3QVP|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group C2221
At 1.2 A Resolution
pdb|3QVR|A Chain A, Crystal Structure Of Glucose Oxidase For Space Group P3121
At 1.3 A Resolution
Length = 583
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSEHNLQYNVRKVMGG 57
+GG+T++NG + R + D +E + G GW + NV Y L++E N +++ G
Sbjct: 100 LGGSTLVNGGTWTRPHKAQVDSWETVFGNEGWNWDNVAAYSLQAERARAPNAKQIAAG 157
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 49/108 (45%), Gaps = 14/108 (12%)
Query: 55 MGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSEHNLQYNSSQ------ 107
+GG+T++NG + R + D +E + G GW + NV Y L++E N+ Q
Sbjct: 100 LGGSTLVNGGTWTRPHKAQVDSWETVFGNEGWNWDNVAAYSLQAERARAPNAKQIAAGHY 159
Query: 108 -NHARGGLLTVSHY------NDLPDLGHTLLAAGRELGYPTDVDIGHG 148
N + G+ H +D + L++A + G PT D G G
Sbjct: 160 FNASCHGVNGTVHAGPRDTGDDYSPIVKALMSAVEDRGVPTKKDFGCG 207
>pdb|1GPE|A Chain A, Glucose Oxidase From Penicillium Amagasakiense
pdb|1GPE|B Chain B, Glucose Oxidase From Penicillium Amagasakiense
Length = 587
Score = 38.9 bits (89), Expect = 0.002, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSE 98
K +GG+T++NG + R D D +EK+ G GW + N+ Y K+E
Sbjct: 102 KGLGGSTLINGDSWTRPDKVQIDSWEKVFGMEGWNWDNMFEYMKKAE 148
Score = 38.1 bits (87), Expect = 0.002, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSE 44
+GG+T++NG + R D D +EK+ G GW + N+ Y K+E
Sbjct: 104 LGGSTLINGDSWTRPDKVQIDSWEKVFGMEGWNWDNMFEYMKKAE 148
>pdb|3NNE|A Chain A, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|B Chain B, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|C Chain C, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|D Chain D, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|E Chain E, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|F Chain F, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|G Chain G, Crystal Structure Of Choline Oxidase S101a Mutant
pdb|3NNE|H Chain H, Crystal Structure Of Choline Oxidase S101a Mutant
Length = 546
Score = 35.4 bits (80), Expect = 0.015, Method: Composition-based stats.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 2/90 (2%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYE-KLGATGWGYKNVLPYFLKSEHNLQYN-SSQNHA 110
KVMGG + N + D DE+E K GATGW + P + + E N + +H
Sbjct: 91 KVMGGCSSHNACIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETNEDAGPDAPHHG 150
Query: 111 RGGLLTVSHYNDLPDLGHTLLAAGRELGYP 140
G + + + G LL A + G P
Sbjct: 151 DSGPVHLMNVPPKDPTGVALLDACEQAGIP 180
Score = 31.6 bits (70), Expect = 0.26, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYE-KLGATGWGYKNVLPYFLKSEHN 46
MGG + N + D DE+E K GATGW + P + + E N
Sbjct: 93 MGGCSSHNACIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETN 139
>pdb|2JBV|A Chain A, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
pdb|2JBV|B Chain B, Crystal Structure Of Choline Oxidase Reveals Insights Into
The Catalytic Mechanism
Length = 546
Score = 35.4 bits (80), Expect = 0.018, Method: Composition-based stats.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 2/90 (2%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYE-KLGATGWGYKNVLPYFLKSEHNLQYN-SSQNHA 110
KVMGG + N + D DE+E K GATGW + P + + E N + +H
Sbjct: 91 KVMGGCSSHNSCIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETNEDAGPDAPHHG 150
Query: 111 RGGLLTVSHYNDLPDLGHTLLAAGRELGYP 140
G + + + G LL A + G P
Sbjct: 151 DSGPVHLMNVPPKDPTGVALLDACEQAGIP 180
Score = 31.2 bits (69), Expect = 0.30, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYE-KLGATGWGYKNVLPYFLKSEHN 46
MGG + N + D DE+E K GATGW + P + + E N
Sbjct: 93 MGGCSSHNSCIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETN 139
>pdb|3LJP|A Chain A, Crystal Structure Of Choline Oxidase V464a Mutant
pdb|3LJP|B Chain B, Crystal Structure Of Choline Oxidase V464a Mutant
Length = 546
Score = 35.4 bits (80), Expect = 0.018, Method: Composition-based stats.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 2/90 (2%)
Query: 53 KVMGGTTVLNGLMYCRGDSSDYDEYE-KLGATGWGYKNVLPYFLKSEHNLQYN-SSQNHA 110
KVMGG + N + D DE+E K GATGW + P + + E N + +H
Sbjct: 91 KVMGGCSSHNSCIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETNEDAGPDAPHHG 150
Query: 111 RGGLLTVSHYNDLPDLGHTLLAAGRELGYP 140
G + + + G LL A + G P
Sbjct: 151 DSGPVHLMNVPPKDPTGVALLDACEQAGIP 180
Score = 31.2 bits (69), Expect = 0.31, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYE-KLGATGWGYKNVLPYFLKSEHN 46
MGG + N + D DE+E K GATGW + P + + E N
Sbjct: 93 MGGCSSHNSCIAFWAPREDLDEWEAKYGATGWNAEAAWPLYKRLETN 139
>pdb|3FIM|B Chain B, Crystal Structure Of Aryl-Alcohol-Oxidase From Pleurotus
Eryingii
Length = 566
Score = 35.0 bits (79), Expect = 0.021, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 37/69 (53%), Gaps = 3/69 (4%)
Query: 46 NLQYNVRKVMGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSEHNLQYN 104
++ Y +++GG++ ++ ++ RG + D+D Y + G GW + N+ + K+E +
Sbjct: 75 SIAYPRGRMLGGSSSVHYMVMMRGSTEDFDRYAAVTGDEGWNWDNIQQFVRKNE--MVVP 132
Query: 105 SSQNHARGG 113
+ NH G
Sbjct: 133 PADNHNTSG 141
Score = 33.5 bits (75), Expect = 0.074, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 1 MGGTTVLNGLMYCRGDSSDYDEYEKL-GATGWGYKNVLPYFLKSE 44
+GG++ ++ ++ RG + D+D Y + G GW + N+ + K+E
Sbjct: 84 LGGSSSVHYMVMMRGSTEDFDRYAAVTGDEGWNWDNIQQFVRKNE 128
>pdb|1ODZ|A Chain A, Expansion Of The Glycosynthase Repertoire To Produce
Defined Manno-oligosaccharides
pdb|1ODZ|B Chain B, Expansion Of The Glycosynthase Repertoire To Produce
Defined Manno-oligosaccharides
Length = 386
Score = 31.6 bits (70), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 62 NGLMYCRGDSSDYDEYEKLG--ATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSH 119
GL R D + D + +G A +G+ + K+E ++ + +ARGG++TVS
Sbjct: 46 QGLTITRTDGTQSDTFNAVGDFAAVYGWDTLSIVAPKAEGDIVAQVKKAYARGGIITVSS 105
Query: 120 YNDLP 124
+ D P
Sbjct: 106 HFDNP 110
>pdb|1GVY|A Chain A, Substrate Distorsion By Beta-Mannanase From Pseudomonas
Cellulosa
Length = 383
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 62 NGLMYCRGDSSDYDEYEKLG--ATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSH 119
GL R D + D + +G A +G+ + K+E ++ + +ARGG++TVS
Sbjct: 45 QGLTITRTDGTQSDTFNAVGDFAAVYGWDTLSIVAPKAEGDIVAQVKKAYARGGIITVSS 104
Query: 120 YNDLP 124
+ D P
Sbjct: 105 HFDNP 109
>pdb|1J9Y|A Chain A, Crystal Structure Of Mannanase 26a From Pseudomonas
Cellulosa
Length = 385
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 62 NGLMYCRGDSSDYDEYEKLG--ATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSH 119
GL R D + D + +G A +G+ + K+E ++ + +ARGG++TVS
Sbjct: 45 QGLTITRTDGTQSDTFNAVGDFAAVYGWDTLSIVAPKAEGDIVAQVKKAYARGGIITVSS 104
Query: 120 YNDLP 124
+ D P
Sbjct: 105 HFDNP 109
>pdb|1GW1|A Chain A, Substrate Distortion By Beta-Mannanase From Pseudomonas
Cellulosa
Length = 376
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 62 NGLMYCRGDSSDYDEYEKLG--ATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSH 119
GL R D + D + +G A +G+ + K+E ++ + +ARGG++TVS
Sbjct: 41 QGLTITRTDGTQSDTFNAVGDFAAVYGWDTLSIVAPKAEGDIVAQVKKAYARGGIITVSS 100
Query: 120 YNDLP 124
+ D P
Sbjct: 101 HFDNP 105
>pdb|1R7O|A Chain A, Crystal Structure Of Apo-mannanase 26a From Psudomonas
Cellulosa
Length = 395
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 63 GLMYCRGDSSDYDEYEKLG--ATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSHY 120
GL R D + D + +G A +G+ + K+E ++ + +ARGG++TVS +
Sbjct: 56 GLTITRTDGTQSDTFNAVGDFAAVYGWDTLSIVAPKAEGDIVAQVKKAYARGGIITVSSH 115
Query: 121 NDLP 124
D P
Sbjct: 116 FDNP 119
>pdb|1NG5|A Chain A, 2.0 A Crystal Structure Of Staphylococcus Aureus Sortase B
pdb|1NG5|B Chain B, 2.0 A Crystal Structure Of Staphylococcus Aureus Sortase B
Length = 215
Score = 30.4 bits (67), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 96 KSEHN-LQYNSSQNHARGGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLREGF 154
K+ H+ L + + H R G + + N+L +L H + G +G T D+ L++ F
Sbjct: 61 KTNHDYLNLDFEREHRRKGSIFMDFRNELKNLNHNTILYGHHVGDNTMFDVLEDYLKQSF 120
Query: 155 Y 155
Y
Sbjct: 121 Y 121
>pdb|1QWZ|A Chain A, Crystal Structure Of Sortase B From S. Aureus Complexed
With Mtset
pdb|1QXA|A Chain A, Crystal Structure Of Sortase B Complexed With Gly3
Length = 235
Score = 30.4 bits (67), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 96 KSEHN-LQYNSSQNHARGGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLREGF 154
K+ H+ L + + H R G + + N+L +L H + G +G T D+ L++ F
Sbjct: 81 KTNHDYLNLDFEREHRRKGSIFMDFRNELKNLNHNTILYGHHVGDNTMFDVLEDYLKQSF 140
Query: 155 Y 155
Y
Sbjct: 141 Y 141
>pdb|4GPQ|A Chain A, Structural Insights Into Inhibition Of The Bivalent
Menin-Mll Interaction By Small Molecules In Leukemia
pdb|4GQ3|A Chain A, Human Menin With Bound Inhibitor Mi-2
pdb|4GQ4|A Chain A, Human Menin With Bound Inhibitor Mi-2-2
pdb|4GQ6|A Chain A, Human Menin In Complex With Mll Peptide
Length = 489
Score = 30.4 bits (67), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 11/82 (13%)
Query: 34 KNVLPY-FLKSEHNLQYNVRKVMGG----TTVLNGLMYCRGDSSDYDEYEKLGATGWGYK 88
+++ PY +L H NVR+ + TV+ YCR D Y E+ ++
Sbjct: 301 EHIYPYMYLAGYHCRNRNVREALQAWADTATVIQDYNYCREDEEIYKEFFEVA------N 354
Query: 89 NVLPYFLKSEHNLQYNSSQNHA 110
+V+P LK +L SQ A
Sbjct: 355 DVIPNLLKEAASLLEAGSQGSA 376
>pdb|1QX6|A Chain A, Crystal Structure Of Sortase B Complexed With E-64
Length = 214
Score = 30.0 bits (66), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 1/61 (1%)
Query: 96 KSEHN-LQYNSSQNHARGGLLTVSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLREGF 154
K+ H+ L + + H R G + N+L +L H + G +G T D+ L++ F
Sbjct: 60 KTNHDYLNLDFEREHRRKGSIFXDFRNELKNLNHNTILYGHHVGDNTXFDVLEDYLKQSF 119
Query: 155 Y 155
Y
Sbjct: 120 Y 120
>pdb|2WHM|A Chain A, Cellvibrio Japonicus Man26a E121a And E320g Double Mutant
In Complex With Mannobiose
Length = 385
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 62 NGLMYCRGDSSDYDEYEKLG--ATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSH 119
GL R D + D + +G A +G+ + K+ ++ + +ARGG++TVS
Sbjct: 45 QGLTITRTDGTQSDTFNAVGDFAAVYGWDTLSIVAPKAAGDIVAQVKKAYARGGIITVSS 104
Query: 120 YNDLP 124
+ D P
Sbjct: 105 HFDNP 109
>pdb|2IF7|A Chain A, Crystal Structure Of Ntb-A
pdb|2IF7|B Chain B, Crystal Structure Of Ntb-A
pdb|2IF7|C Chain C, Crystal Structure Of Ntb-A
pdb|2IF7|D Chain D, Crystal Structure Of Ntb-A
Length = 193
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 117 VSHYNDLPDLGHTLLAAGRELGYPTDVDIGHGRLR---EGFYRAQMTTRNGARLSA 169
V H P++ T G+ L + + L+ G YRAQ++T+ A+LS+
Sbjct: 44 VPHETKSPEIHVTNPKQGKRLNFTQSYSLQLSNLKMEDTGSYRAQISTKTSAKLSS 99
>pdb|3U84|A Chain A, Crystal Structure Of Human Menin
pdb|3U84|B Chain B, Crystal Structure Of Human Menin
pdb|3U85|A Chain A, Crystal Structure Of Human Menin In Complex With Mll1
pdb|3U86|A Chain A, Crystal Structure Of Human Menin In Complex With Jund
pdb|3U88|A Chain A, Crystal Structure Of Human Menin In Complex With Mll1 And
Ledgf
pdb|3U88|B Chain B, Crystal Structure Of Human Menin In Complex With Mll1 And
Ledgf
Length = 550
Score = 28.5 bits (62), Expect = 1.9, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 11/73 (15%)
Query: 34 KNVLPY-FLKSEHNLQYNVRKVMGG----TTVLNGLMYCRGDSSDYDEYEKLGATGWGYK 88
+++ PY +L H NVR+ + TV+ YCR D Y E+ ++
Sbjct: 316 EHIYPYMYLAGYHCRNRNVREALQAWADTATVIQDYNYCREDEEIYKEFFEVA------N 369
Query: 89 NVLPYFLKSEHNL 101
+V+P LK +L
Sbjct: 370 DVIPNLLKEAASL 382
>pdb|3HAM|A Chain A, Structure Of The Gentamicin-Aph(2")-Iia Complex
pdb|3HAM|B Chain B, Structure Of The Gentamicin-Aph(2")-Iia Complex
pdb|3HAV|A Chain A, Structure Of The Streptomycin-Atp-Aph(2")-Iia Ternary
Complex
pdb|3HAV|B Chain B, Structure Of The Streptomycin-Atp-Aph(2")-Iia Ternary
Complex
pdb|3HAV|C Chain C, Structure Of The Streptomycin-Atp-Aph(2")-Iia Ternary
Complex
Length = 299
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 47 LQYNVRKVMGGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPY----FLKSEHNLQ 102
L Y + V+ + N + Y +G+ Y++Y KL K+ L Y FLK H+++
Sbjct: 68 LSYQIPAVVYQSDRFNIMKYIKGERITYEQYHKLSEKE---KDALAYDEATFLKELHSIE 124
Query: 103 YNSS 106
+ S
Sbjct: 125 IDCS 128
>pdb|1JU2|A Chain A, Crystal Structure Of The Hydroxynitrile Lyase From Almond
pdb|1JU2|B Chain B, Crystal Structure Of The Hydroxynitrile Lyase From Almond
Length = 536
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 20/26 (76%), Gaps = 1/26 (3%)
Query: 50 NVR-KVMGGTTVLNGLMYCRGDSSDY 74
NVR +V+GGT+++N +Y R ++S Y
Sbjct: 97 NVRGRVLGGTSIINAGVYARANTSIY 122
>pdb|3GDN|A Chain A, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDN|B Chain B, Almond Hydroxynitrile Lyase In Complex With Benzaldehyde
pdb|3GDP|A Chain A, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
pdb|3GDP|B Chain B, Hydroxynitrile Lyase From Almond, Monoclinic Crystal Form
Length = 521
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 20/26 (76%), Gaps = 1/26 (3%)
Query: 50 NVR-KVMGGTTVLNGLMYCRGDSSDY 74
NVR +V+GGT+++N +Y R ++S Y
Sbjct: 97 NVRGRVLGGTSIINAGVYARANTSIY 122
>pdb|1WCQ|A Chain A, Mutagenesis Of The Nucleophilic Tyrosine In A Bacterial
Sialidase To Phenylalanine.
pdb|1WCQ|B Chain B, Mutagenesis Of The Nucleophilic Tyrosine In A Bacterial
Sialidase To Phenylalanine.
pdb|1WCQ|C Chain C, Mutagenesis Of The Nucleophilic Tyrosine In A Bacterial
Sialidase To Phenylalanine
Length = 601
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 1 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 31
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 55 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 85
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
>pdb|1EUT|A Chain A, Sialidase, Large 68kd Form, Complexed With Galactose
pdb|1EUU|A Chain A, Sialidase Or Neuraminidase, Large 68kd Form
Length = 605
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 1 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 31
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 516 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 552
Score = 27.7 bits (60), Expect = 3.6, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 55 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 85
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 516 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 552
>pdb|2BZD|A Chain A, Galactose Recognition By The Carbohydrate-Binding Module
Of A Bacterial Sialidase.
pdb|2BZD|B Chain B, Galactose Recognition By The Carbohydrate-Binding Module
Of A Bacterial Sialidase.
pdb|2BZD|C Chain C, Galactose Recognition By The Carbohydrate-Binding Module
Of A Bacterial Sialidase
Length = 601
Score = 27.7 bits (60), Expect = 3.7, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 1 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 31
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
Score = 27.7 bits (60), Expect = 3.7, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 55 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 85
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
>pdb|2BER|A Chain A, Y370g Active Site Mutant Of The Sialidase From
Micromonospora Viridifaciens In Complex With Beta-Neu5ac
(Sialic Acid)
Length = 601
Score = 27.7 bits (60), Expect = 3.7, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 1 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 31
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
Score = 27.7 bits (60), Expect = 3.7, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 55 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 85
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
>pdb|1W8N|A Chain A, Contribution Of The Active Site Aspartic Acid To Catalysis
In The Bacterial Neuraminidase From Micromonospora
Viridifaciens.
pdb|1W8O|A Chain A, Contribution Of The Active Site Aspartic Acid To Catalysis
In The Bacterial Neuraminidase From Micromonospora
Viridifaciens
Length = 601
Score = 27.7 bits (60), Expect = 3.8, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 1 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 31
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
Score = 27.7 bits (60), Expect = 3.8, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 55 MGGTTVLNGLMYCRGDSS------DYDEYEKLGATGW 85
+GGT ++GL Y R +S DY+ Y L T W
Sbjct: 512 LGGTHTISGLQYTRRQNSANEQVADYEIYTSLNGTTW 548
>pdb|2VSF|A Chain A, Structure Of Xpd From Thermoplasma Acidophilum
Length = 602
Score = 27.3 bits (59), Expect = 5.1, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 6 VLNGLMYCRGDS---SDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNVR 52
+L GL + R D+ S +D YE+ GW Y V P +K + +R
Sbjct: 503 ILAGLPFPRPDAINRSLFDYYERKYGKGWEYSVVYPTAIKIRQEIGRLIR 552
>pdb|4A15|A Chain A, Crystal Structure Of An Xpd Dna Complex
Length = 620
Score = 27.3 bits (59), Expect = 5.2, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 6 VLNGLMYCRGDS---SDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNVR 52
+L GL + R D+ S +D YE+ GW Y V P +K + +R
Sbjct: 521 ILAGLPFPRPDAINRSLFDYYERKYGKGWEYSVVYPTAIKIRQEIGRLIR 570
>pdb|4E1L|A Chain A, Crystal Structure Of Acetoacetyl-Coa Thiolase (Thla2) From
Clostridium Difficile
pdb|4E1L|B Chain B, Crystal Structure Of Acetoacetyl-Coa Thiolase (Thla2) From
Clostridium Difficile
pdb|4E1L|C Chain C, Crystal Structure Of Acetoacetyl-Coa Thiolase (Thla2) From
Clostridium Difficile
pdb|4E1L|D Chain D, Crystal Structure Of Acetoacetyl-Coa Thiolase (Thla2) From
Clostridium Difficile
Length = 395
Score = 26.9 bits (58), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 27/63 (42%)
Query: 70 DSSDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNSSQNHARGGLLTVSHYNDLPDLGHT 129
++ D DEY KLG T G + P F K N+S + +L + +LG
Sbjct: 215 ETIDKDEYPKLGMTFEGLSKLKPAFKKDGTVTAGNASGINDGAAMLILMSQQKADELGIR 274
Query: 130 LLA 132
LA
Sbjct: 275 PLA 277
>pdb|1LTK|A Chain A, Crystal Structure Of Phosphoglycerate Kinase From
Plasmodium Falciparum, In The Open Conformation
pdb|1LTK|B Chain B, Crystal Structure Of Phosphoglycerate Kinase From
Plasmodium Falciparum, In The Open Conformation
pdb|1LTK|C Chain C, Crystal Structure Of Phosphoglycerate Kinase From
Plasmodium Falciparum, In The Open Conformation
Length = 425
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 32/78 (41%)
Query: 14 RGDSSDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNVRKVMGGTTVLNGLMYCRGDSSD 73
R SS + A+G+ K L YF K+ N Q + ++GG V + + +
Sbjct: 179 RAHSSXVGVKLNVKASGFLXKKELEYFSKALENPQRPLLAILGGAKVSDKIQLIKNLLDK 238
Query: 74 YDEYEKLGATGWGYKNVL 91
D G + +K VL
Sbjct: 239 VDRXIIGGGXAYTFKKVL 256
>pdb|3OZA|A Chain A, Crystal Structure Of Plasmodium Falciparum
3-Phosphoglycerate Kinase
pdb|3OZA|B Chain B, Crystal Structure Of Plasmodium Falciparum
3-Phosphoglycerate Kinase
pdb|3OZA|C Chain C, Crystal Structure Of Plasmodium Falciparum
3-Phosphoglycerate Kinase
Length = 424
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 32/78 (41%)
Query: 14 RGDSSDYDEYEKLGATGWGYKNVLPYFLKSEHNLQYNVRKVMGGTTVLNGLMYCRGDSSD 73
R SS + A+G+ K L YF K+ N Q + ++GG V + + +
Sbjct: 178 RAHSSXVGVKLNVKASGFLXKKELEYFSKALENPQRPLLAILGGAKVSDKIQLIKNLLDK 237
Query: 74 YDEYEKLGATGWGYKNVL 91
D G + +K VL
Sbjct: 238 VDRXIIGGGXAYTFKKVL 255
>pdb|3UZR|A Chain A, Crystal Structure Of Aminoglycoside Phosphotransferase
Aph(2'')-Ib, Apo Form
pdb|4DCA|A Chain A, Crystal Structure Of Aminoglycoside Phosphotransferase
Aph(2'')-Ib, Adp-Bound
Length = 320
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 7/64 (10%)
Query: 47 LQYNVRKVMGGTTVLNGLMYCRGDSSDYDEYEKLGATGWGYKNVLPY----FLKSEHNLQ 102
L Y + V+ + N Y +G+ Y++Y KL K+ L Y FLK H+++
Sbjct: 89 LSYQIPAVVYQSDRFNIXKYIKGERITYEQYHKLSEKE---KDALAYDEATFLKELHSIE 145
Query: 103 YNSS 106
+ S
Sbjct: 146 IDCS 149
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 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,070,406
Number of Sequences: 62578
Number of extensions: 261414
Number of successful extensions: 732
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 697
Number of HSP's gapped (non-prelim): 59
length of query: 180
length of database: 14,973,337
effective HSP length: 93
effective length of query: 87
effective length of database: 9,153,583
effective search space: 796361721
effective search space used: 796361721
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: 48 (23.1 bits)