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= psy965
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1KTN|A Chain A, Structural Genomics, Protein Ec1535
pdb|1KTN|B Chain B, Structural Genomics, Protein Ec1535
Length = 250
Score = 50.4 bits (119), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 70/160 (43%), Gaps = 4/160 (2%)
Query: 51 EFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPC 110
+ +DLTTL+ DDT+ V L +A P+ + F+ LK + +
Sbjct: 13 KLMDLTTLNDDDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARK---TLKEQGTPEIR 69
Query: 111 LSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEK 169
++ FP G ++ L E DEVD+V R+L+ N+ +
Sbjct: 70 IATVTNFPHGNDDIDIALAETRAAIAYGADEVDVVFPYRALMAGNEQVGFDLVKACKEAC 129
Query: 170 CGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ +K I+ GELK I AS ++ AG+DFIKTS
Sbjct: 130 AAANVLLKVIIETGELKDEALIRKASEISIKAGADFIKTS 169
>pdb|1JCJ|A Chain A, Observation Of Covalent Intermediates In An Enzyme
Mechanism At Atomic Resolution
pdb|1JCJ|B Chain B, Observation Of Covalent Intermediates In An Enzyme
Mechanism At Atomic Resolution
Length = 260
Score = 50.4 bits (119), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 70/160 (43%), Gaps = 4/160 (2%)
Query: 51 EFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPC 110
+ +DLTTL+ DDT+ V L +A P+ + F+ LK + +
Sbjct: 14 KLMDLTTLNDDDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARK---TLKEQGTPEIR 70
Query: 111 LSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEK 169
++ FP G ++ L E DEVD+V R+L+ N+ +
Sbjct: 71 IATVTNFPHGNDDIDIALAETRAAIAYGADEVDVVFPYRALMAGNEQVGFDLVKACKEAC 130
Query: 170 CGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ +K I+ GELK I AS ++ AG+DFIKTS
Sbjct: 131 AAANVLLKVIIETGELKDEALIRKASEISIKAGADFIKTS 170
>pdb|1JCL|A Chain A, Observation Of Covalent Intermediates In An Enzyme
Mechanism At Atomic Resolution
pdb|1JCL|B Chain B, Observation Of Covalent Intermediates In An Enzyme
Mechanism At Atomic Resolution
pdb|1P1X|A Chain A, Comparison Of Class I Aldolase Binding Site Architecture
Based On The Crystal Structure Of
2-Deoxyribose-5-Phosphate Aldolase Determined At 0.99
Angstrom Resolution
pdb|1P1X|B Chain B, Comparison Of Class I Aldolase Binding Site Architecture
Based On The Crystal Structure Of
2-Deoxyribose-5-Phosphate Aldolase Determined At 0.99
Angstrom Resolution
Length = 260
Score = 50.4 bits (119), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 70/160 (43%), Gaps = 4/160 (2%)
Query: 51 EFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPC 110
+ +DLTTL+ DDT+ V L +A P+ + F+ LK + +
Sbjct: 14 KLMDLTTLNDDDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARK---TLKEQGTPEIR 70
Query: 111 LSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEK 169
++ FP G ++ L E DEVD+V R+L+ N+ +
Sbjct: 71 IATVTNFPHGNDDIDIALAETRAAIAYGADEVDVVFPYRALMAGNEQVGFDLVKACKEAC 130
Query: 170 CGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ +K I+ GELK I AS ++ AG+DFIKTS
Sbjct: 131 AAANVLLKVIIETGELKDEALIRKASEISIKAGADFIKTS 170
>pdb|2A4A|A Chain A, Deoxyribose-Phosphate Aldolase From P. Yoelii
pdb|2A4A|B Chain B, Deoxyribose-Phosphate Aldolase From P. Yoelii
Length = 281
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 57/112 (50%), Gaps = 5/112 (4%)
Query: 107 YQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVK-- 164
++P ++ FP G +E L++ E DE+D+VI ++ N L K
Sbjct: 88 FKPKIACVINFPYGTDSMEKVLNDTEKALDDGADEIDLVINYKKIIENTDEGLKEATKLT 147
Query: 165 -QMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS-GSIQL 214
+K+ KI +K I+ VGELKT + I ++ + +DFIKTS G +Q+
Sbjct: 148 QSVKKLLTNKI-LKVIIEVGELKTEDLIIKTTLAVLNGNADFIKTSTGKVQI 198
>pdb|3R12|A Chain A, Crystal Structure Of A Deoxyribose-Phosphate Aldolase
(Tm_1559) From Thermotoga Maritima At 1.75 A Resolution
pdb|3R12|B Chain B, Crystal Structure Of A Deoxyribose-Phosphate Aldolase
(Tm_1559) From Thermotoga Maritima At 1.75 A Resolution
pdb|3R13|A Chain A, Crystal Structure Of A Deoxyribose-Phosphate Aldolase
(Tm_1559) From Thermotoga Maritima At 1.83 A Resolution
pdb|3R13|B Chain B, Crystal Structure Of A Deoxyribose-Phosphate Aldolase
(Tm_1559) From Thermotoga Maritima At 1.83 A Resolution
Length = 260
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 2/94 (2%)
Query: 116 GFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIH 175
GFP G T+ HE + DE+D VI + +W ++ +++ + E K+
Sbjct: 102 GFPLGANETRTKAHEAIFAVESGADEIDXVINVGXLKAKEWEYVYEDIRSVVESVKGKV- 160
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+K I+ L T E I A + + AG+ F+KTS
Sbjct: 161 VKVIIETCYLDTEEKI-AACVISKLAGAHFVKTS 193
>pdb|3NG3|A Chain A, Crystal Structure Of Deoxyribose Phosphate Aldolase From
Mycobacterium Avium 104 In A Schiff Base With An Unknown
Aldehyde
pdb|3NG3|B Chain B, Crystal Structure Of Deoxyribose Phosphate Aldolase From
Mycobacterium Avium 104 In A Schiff Base With An Unknown
Aldehyde
pdb|3NG3|C Chain C, Crystal Structure Of Deoxyribose Phosphate Aldolase From
Mycobacterium Avium 104 In A Schiff Base With An Unknown
Aldehyde
pdb|3NG3|D Chain D, Crystal Structure Of Deoxyribose Phosphate Aldolase From
Mycobacterium Avium 104 In A Schiff Base With An Unknown
Aldehyde
Length = 227
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 21/124 (16%)
Query: 106 VYQPCLSQP-----------------AGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQR 148
VY C+S P AGFPSG+++ + HE L E+D+VI
Sbjct: 42 VYAVCVSPPMVPAAVQAGAGVRVASVAGFPSGKHVSAVKAHEAALAVASGAAEIDMVIDV 101
Query: 149 SLVLNNQWPELFSEVKQMKEKCGEKIHMKTIL---AVGELKTSENIYCASMTAMFAGSDF 205
L + +++ ++ G + +K I+ A+ L + A AG+DF
Sbjct: 102 GAALAGDLDGVRADIAAVRGAVGGAV-LKVIVESSALLALADEHTLVRVCRAAEDAGADF 160
Query: 206 IKTS 209
+KTS
Sbjct: 161 VKTS 164
>pdb|1J2W|A Chain A, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|B Chain B, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|C Chain C, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1J2W|D Chain D, Tetrameric Structure Of Aldolase From Thermus Thermophilus
Hb8
pdb|1UB3|A Chain A, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|B Chain B, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|C Chain C, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
pdb|1UB3|D Chain D, Crystal Structure Of Tetrameric Structure Of Aldolase From
Thermus Thermophilus Hb8
Length = 220
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Query: 116 GFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIH 175
GFP G E + E L + DEVD+V+ L +EV+ ++E + +
Sbjct: 62 GFPLGYQEKEVKALEAALACARGADEVDMVLHLGRAKAGDLDYLEAEVRAVREAVPQAV- 120
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+K IL G + E I + A+ G+DF+KTS
Sbjct: 121 LKVILETGYF-SPEEIARLAEAAIRGGADFLKTS 153
>pdb|3NGJ|A Chain A, Crystal Structure Of A Putative Deoxyribose-Phosphate
Aldolase From Entamoeba Histolytica
pdb|3NGJ|B Chain B, Crystal Structure Of A Putative Deoxyribose-Phosphate
Aldolase From Entamoeba Histolytica
pdb|3NGJ|C Chain C, Crystal Structure Of A Putative Deoxyribose-Phosphate
Aldolase From Entamoeba Histolytica
pdb|3NGJ|D Chain D, Crystal Structure Of A Putative Deoxyribose-Phosphate
Aldolase From Entamoeba Histolytica
Length = 239
Score = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 50/95 (52%), Gaps = 4/95 (4%)
Query: 116 GFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIH 175
GFP G E + +E ++ +Q +EVD+VI +V ++ ++ +VK + + G+ +
Sbjct: 86 GFPLGATPSEVKAYETKVAVEQGAEEVDMVINIGMVKAKKYDDVEKDVKAVVDASGKAL- 144
Query: 176 MKTILAVGELKTSENI-YCASMTAMFAGSDFIKTS 209
K I+ L E + C A AG++++KTS
Sbjct: 145 TKVIIECCYLTNEEKVEVCKRCVA--AGAEYVKTS 177
>pdb|3OA3|A Chain A, Crystal Structure Of A Putative Deoxyribose-Phosphate
Aldolase From Coccidioides Immitis
pdb|3OA3|B Chain B, Crystal Structure Of A Putative Deoxyribose-Phosphate
Aldolase From Coccidioides Immitis
Length = 288
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/94 (23%), Positives = 50/94 (53%), Gaps = 2/94 (2%)
Query: 116 GFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIH 175
GF G Y + ++ E + + E+D+V+ + ++ ++F +++ ++ + I
Sbjct: 117 GFHEGTYSTDQKVSEAKRAMQNGASELDMVMNYPWLSEKRYTDVFQDIRAVRLAAKDAI- 175
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+K IL +L T++ I + + AG+D++KTS
Sbjct: 176 LKVILETSQL-TADEIIAGCVLSSLAGADYVKTS 208
>pdb|3NDO|A Chain A, Crystal Structure Of Deoxyribose Phosphate Aldolase From
Mycobacterium Smegmatis
pdb|3NDO|B Chain B, Crystal Structure Of Deoxyribose Phosphate Aldolase From
Mycobacterium Smegmatis
Length = 231
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 4/98 (4%)
Query: 115 AGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKI 174
AGFPSG+++ + E EL E+D+VI L + +++ +++
Sbjct: 70 AGFPSGKHVPGIKATEAELAVAAGATEIDMVIDVGAALAGDLDAVSADITAVRKAV-RAA 128
Query: 175 HMKTIL---AVGELKTSENIYCASMTAMFAGSDFIKTS 209
+K I+ A+ E + A AG+DF+KTS
Sbjct: 129 TLKVIVESAALLEFSGEPLLADVCRVARDAGADFVKTS 166
>pdb|4EIV|A Chain A, 1.37 Angstrom Resolution Crystal Structure Of Apo-Form Of
A Putative Deoxyribose-Phosphate Aldolase From
Toxoplasma Gondii Me49
pdb|4EIV|B Chain B, 1.37 Angstrom Resolution Crystal Structure Of Apo-Form Of
A Putative Deoxyribose-Phosphate Aldolase From
Toxoplasma Gondii Me49
Length = 297
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 10/102 (9%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPE-----LFSEVKQMKEKC 170
FP G +T E K DE++ +I R + N E L SEVK++
Sbjct: 92 FPEGTGTPDTVSLEAVGALKDGADEIECLIDWRRMNENVADGESRIRLLVSEVKKV---V 148
Query: 171 GEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTSGSI 212
G K +K +L+ GEL+ + I A++ A+ G+DF++TS +
Sbjct: 149 GPKT-LKVVLSGGELQGGDIISRAAVAALEGGADFLQTSSGL 189
>pdb|3QYQ|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of A Putative
Deoxyribose- Phosphate Aldolase From Toxoplasma Gondii
Me49
pdb|3QYQ|B Chain B, 1.8 Angstrom Resolution Crystal Structure Of A Putative
Deoxyribose- Phosphate Aldolase From Toxoplasma Gondii
Me49
pdb|3QYQ|C Chain C, 1.8 Angstrom Resolution Crystal Structure Of A Putative
Deoxyribose- Phosphate Aldolase From Toxoplasma Gondii
Me49
pdb|3QYQ|D Chain D, 1.8 Angstrom Resolution Crystal Structure Of A Putative
Deoxyribose- Phosphate Aldolase From Toxoplasma Gondii
Me49
Length = 293
Score = 33.5 bits (75), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 10/102 (9%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPE-----LFSEVKQMKEKC 170
FP G +T E K DE++ +I R + N E L SEVK++
Sbjct: 93 FPEGTGTPDTVSLEAVGALKDGADEIECLIDWRRMNENVADGESRIRLLVSEVKKV---V 149
Query: 171 GEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTSGSI 212
G K +K +L+ GEL+ + I A++ A+ G+DF++TS +
Sbjct: 150 GPKT-LKVVLSGGELQGGDIISRAAVAALEGGADFLQTSSGL 190
>pdb|1VCV|A Chain A, Structure Of 2-Deoxyribose-5-Phosphate Aldolase From
Pyrobaculum Aerophilum
pdb|1VCV|B Chain B, Structure Of 2-Deoxyribose-5-Phosphate Aldolase From
Pyrobaculum Aerophilum
Length = 226
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 46/95 (48%), Gaps = 3/95 (3%)
Query: 115 AGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKI 174
A FP G +R+ + LA + DE+D+V LV + +W E+ ++ + G ++
Sbjct: 57 ADFPFGALPTASRIALVSRLA-EVADEIDVVAPIGLVKSRRWAEVRRDLISVVGAAGGRV 115
Query: 175 HMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+K I L+ E + A AG+ FIK+S
Sbjct: 116 -VKVITEEPYLRDEERYTLYDIIAE-AGAHFIKSS 148
>pdb|3NPX|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
pdb|3NPX|B Chain B, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
Length = 264
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 62/160 (38%), Gaps = 4/160 (2%)
Query: 51 EFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPC 110
+ + L T +GDDT+ V L +A P+ + F+ LK + +
Sbjct: 14 KLMHLATANGDDTDEKVIALCHQAKTPVGTTDAIFIYPRFIPIA---RKTLKEQGTPEIR 70
Query: 111 LSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEK 169
+ FP G ++ L E D V +V R+L+ N+ +
Sbjct: 71 IWTSTNFPHGNDDIDIALAETRAAIAYGADGVAVVFPYRALMAGNEQVGFDLVKACKEAC 130
Query: 170 CGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ + I+ GELK I AS ++ AG+D I TS
Sbjct: 131 AAANVLLSVIIETGELKDEALIRKASEISIKAGADHIVTS 170
>pdb|3NQ8|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution R4 85A
Length = 269
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 39/94 (41%), Gaps = 1/94 (1%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEKCGEKIH 175
FP G ++ L E D V +V R+L+ N+ + +
Sbjct: 78 FPHGNDDIDIALAETRAAIAYGADGVAVVFPYRALMAGNEQVGFDLVKACKEACAAANVL 137
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ I+ GELK I AS ++ AG+D+I TS
Sbjct: 138 LSVIIETGELKDEALIRKASEISIKAGADYIVTS 171
>pdb|1MZH|A Chain A, Qr15, An Aldolase
pdb|1MZH|B Chain B, Qr15, An Aldolase
Length = 225
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 2/94 (2%)
Query: 116 GFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIH 175
GFP G ++ E + E+DIV S + ++ + E+K++ + +H
Sbjct: 61 GFPLGLNKTSVKVKEAVEAVRDGAQELDIVWNLSAFKSEKYDFVVEELKEIFRETPSAVH 120
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
K I+ L E I A + AG+DFIKTS
Sbjct: 121 -KVIVETPYL-NEEEIKKAVEICIEAGADFIKTS 152
>pdb|1N7K|A Chain A, Unique Tetrameric Structure Of Deoxyribose Phosphate
Aldolase From Aeropyrum Pernix
pdb|1N7K|B Chain B, Unique Tetrameric Structure Of Deoxyribose Phosphate
Aldolase From Aeropyrum Pernix
Length = 234
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 4/94 (4%)
Query: 116 GFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIH 175
GFP GQ LE +L E + + + E+D+V SL + E+ VK K
Sbjct: 79 GFPLGQAPLEVKLVEAQTVLEAGATELDVVPHLSLGPEAVYREVSGIVKLAKSYGA---V 135
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+K IL L + + ++ AG+D +KTS
Sbjct: 136 VKVILEA-PLWDDKTLSLLVDSSRRAGADIVKTS 168
>pdb|2GV9|A Chain A, Crystal Structure Of The Herpes Simplex Virus Type 1 Dna
Polymerase
pdb|2GV9|B Chain B, Crystal Structure Of The Herpes Simplex Virus Type 1 Dna
Polymerase
Length = 1193
Score = 28.1 bits (61), Expect = 3.3, Method: Composition-based stats.
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 70 LTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKL 105
+T KA+ + ++ E +L+ F+ VWH D++ +L
Sbjct: 1129 VTFKALFGNNAKITESLLKRFIPEVWHPPDDVAARL 1164
>pdb|3NQ2|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution R2 35G
pdb|3NQ2|B Chain B, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution R2 35G
Length = 264
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 1/94 (1%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEKCGEKIH 175
FP G ++ L E D V +V R+L+ N+ + +
Sbjct: 77 FPHGNDDIDIALAETRAAIAYGADGVAVVFPYRALMAGNEQVGFDLVKACKEACAAANVL 136
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ I+ GELK I AS ++ AG+D I TS
Sbjct: 137 LSVIIETGELKDEALIRKASEISIKAGADHIVTS 170
>pdb|3NPU|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
pdb|3NPU|B Chain B, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
pdb|3NPV|B Chain B, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
pdb|3NPV|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
Length = 263
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 1/94 (1%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEKCGEKIH 175
FP G ++ L E D V +V R+L+ N+ + +
Sbjct: 76 FPHGNDDIDIALAETRAAIAYGADGVAVVFPYRALMAGNEQVGFDLVKACKEACAAANVL 135
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ I+ GELK I AS ++ AG+D I TS
Sbjct: 136 LSVIIETGELKDEALIRKASEISIKAGADHIVTS 169
>pdb|3NPW|A Chain A, In Silico Designed Of An Improved Kemp Eliminase Ke70
Mutant By Computational Design And Directed Evolution
pdb|3NPW|B Chain B, In Silico Designed Of An Improved Kemp Eliminase Ke70
Mutant By Computational Design And Directed Evolution
Length = 264
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 1/94 (1%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEKCGEKIH 175
FP G ++ L E D V +V R+L+ N+ + +
Sbjct: 77 FPHGNDDIDIALAETRAAIAYGADGVAVVFPYRALMAGNEQVGFDLVKACKEACAAANVL 136
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ I+ GELK I AS ++ AG+D I TS
Sbjct: 137 LSVIIETGELKDEALIRKASEISIKAGADHIVTS 170
>pdb|3NQV|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution R5 74A
Length = 272
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 37/160 (23%), Positives = 61/160 (38%), Gaps = 4/160 (2%)
Query: 51 EFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGSDNLKTKLVYQPC 110
+ + L T + DDT+ V L +A P+ + F+ LK + +
Sbjct: 14 KLMHLATANDDDTDENVIALCHQAKTPVGNTDAIFIYPRFIPIARK---TLKEQGTPEIR 70
Query: 111 LSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEK 169
+ FP G ++ L E D V +V R+L+ N+ +
Sbjct: 71 ICTSTNFPHGNDDIDIALAETRAAIAYGADSVAVVFPYRALMAGNEQVGFDLVKACKEAC 130
Query: 170 CGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ + I+ GELK I AS ++ AG+D I TS
Sbjct: 131 AAANVLLAVIIETGELKDEALIRKASEISIKAGADNIVTS 170
>pdb|3Q2D|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
pdb|3Q2D|B Chain B, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution
Length = 272
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 1/94 (1%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEKCGEKIH 175
FP G ++ L E D V +V R+L+ N+ + +
Sbjct: 78 FPHGNDDIDIALAETRAAIAYGADSVAVVFPYRALMAGNEQVGFDLVKACKEACAAANVL 137
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ I+ GELK I AS ++ AG+D I TS
Sbjct: 138 LAVIIETGELKDEALIRKASEISIKAGADNIVTS 171
>pdb|3NR0|A Chain A, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution R6 610A
pdb|3NR0|B Chain B, Optimization Of The In Silico Designed Kemp Eliminase Ke70
By Computational Design And Directed Evolution R6 610A
Length = 271
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 1/94 (1%)
Query: 117 FPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNNQWPELFSEVKQMKEKCGEKIH 175
FP G ++ L E D V +V R+L+ N+ + +
Sbjct: 77 FPHGNDDIDIALAETRAAIAYGADSVAVVFPYRALMAGNEQVGFDLVKACKEACAAANVL 136
Query: 176 MKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ I+ GELK I AS ++ AG+D I TS
Sbjct: 137 LAVIIETGELKDEALIRKASEISIKAGADNIVTS 170
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 0.132 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,459,336
Number of Sequences: 62578
Number of extensions: 192314
Number of successful extensions: 570
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 547
Number of HSP's gapped (non-prelim): 30
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
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: 49 (23.5 bits)