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= psy7983
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3I7H|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Hbx
pdb|3I7K|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Whx
pdb|3I7L|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Ddb2
pdb|3I7N|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdtc1
pdb|3I7O|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Iqwd1
pdb|3I7P|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr40a
pdb|3I89|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr22
pdb|3I8C|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr21a
pdb|3I8E|A Chain A, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr42a
pdb|3I8E|B Chain B, Crystal Structure Of Ddb1 In Complex With The H-Box Motif Of
Wdr42a
Length = 1143
Score = 124 bits (312), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1041 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1100
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1101 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1143
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 694 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 751
>pdb|2B5L|A Chain A, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5L|B Chain B, Crystal Structure Of Ddb1 In Complex With Simian Virus 5 V
Protein
pdb|2B5M|A Chain A, Crystal Structure Of Ddb1
pdb|2HYE|A Chain A, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 1140
Score = 124 bits (312), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 691 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 748
>pdb|4A0L|A Chain A, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|C Chain C, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1144
Score = 124 bits (312), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1042 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1101
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1102 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1144
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 695 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 752
>pdb|3E0C|A Chain A, Crystal Structure Of Dna Damage-Binding Protein 1(Ddb1)
Length = 1140
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1038 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1097
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1098 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1140
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 691 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 748
>pdb|4E54|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb)
Dimerization And Its Roles In Chromatinized Dna Repair
pdb|4E5Z|A Chain A, Damaged Dna Induced Uv-Damaged Dna-Binding Protein (Uv-Ddb)
Dimerization And Its Roles In Chromatinized Dna Repair
Length = 1150
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1048 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1107
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1108 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1150
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 701 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 758
>pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex
pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex
Length = 1158
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1056 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1115
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1116 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1158
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 709 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 766
>pdb|4A11|A Chain A, Structure Of The Hsddb1-Hscsa Complex
pdb|4A0K|C Chain C, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 1159
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 710 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 767
>pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6-4 Photoproduct
Containing Dna-Duplex
pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic Site
Containing Dna-Duplex
pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex
Length = 1158
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1056 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1115
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1116 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1158
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 709 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 766
>pdb|4A08|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 13 Bp Cpd-Duplex (
Purine At D-1 Position) At 3.0 A Resolution (Cpd 1)
pdb|4A09|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 15 Bp Cpd-Duplex
(Purine At D-1 Position) At 3.1 A Resolution (Cpd 2)
Length = 1159
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 710 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 767
>pdb|4A0B|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
pdb|4A0B|C Chain C, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.8 A Resolution (Cpd 4)
Length = 1159
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 710 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 767
>pdb|4A0A|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Cpd-Duplex (
Pyrimidine At D-1 Position) At 3.6 A Resolution (Cpd 3)
Length = 1159
Score = 124 bits (311), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 59/104 (56%), Positives = 77/104 (74%), Gaps = 1/104 (0%)
Query: 81 GLVTQISPELYSFLFDLQERLAQTIRSVGRIEHSFWRSFNTDVKSDACEGFIDGDLIESF 140
GLVT +S Y+ L D+Q RL + I+SVG+IEHSFWRSF+T+ K++ GFIDGDLIESF
Sbjct: 1057 GLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF 1116
Query: 141 LDLNIKDMKSIATGLQITPPGSTTKRDATVDDIIKIVEDLTRIH 184
LD++ M+ + LQ GS KR+AT DD+IK+VE+LTRIH
Sbjct: 1117 LDISRPKMQEVVANLQYD-DGSGMKREATADDLIKVVEELTRIH 1159
Score = 85.9 bits (211), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 38/58 (65%), Positives = 47/58 (81%)
Query: 16 LALATDSTFTFGTIDEIQKLHIRTVPLGEAPRRIAYQESSQTFGVITTRIDIQEADAS 73
LALA +ST T GTIDEIQKLHIRTVPL E+PR+I YQE SQ FGV+++RI++Q+
Sbjct: 710 LALANNSTLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGG 767
>pdb|2B5N|A Chain A, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|B Chain B, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|C Chain C, Crystal Structure Of The Ddb1 Bpb Domain
pdb|2B5N|D Chain D, Crystal Structure Of The Ddb1 Bpb Domain
Length = 323
Score = 33.1 bits (74), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 15/19 (78%), Positives = 16/19 (84%)
Query: 16 LALATDSTFTFGTIDEIQK 34
LALA +ST T GTIDEIQK
Sbjct: 305 LALANNSTLTIGTIDEIQK 323
>pdb|1VFM|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2ALPHA-Cyclodextrin Complex
pdb|1VFM|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2ALPHA-Cyclodextrin Complex
pdb|1VFO|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2BETA-Cyclodextrin Complex
pdb|1VFO|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2BETA-Cyclodextrin Complex
pdb|1VFU|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Amylase 2GAMMA-Cyclodextrin Complex
pdb|1VFU|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Amylase 2GAMMA-Cyclodextrin Complex
Length = 585
Score = 30.0 bits (66), Expect = 0.85, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQERLAQT------IRSVGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + + ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLNVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1JL8|A Chain A, Complex Of Alpha-Amylase Ii (Tva Ii) From
Thermoactinomyces Vulgaris R-47 With Beta-Cyclodextrin
Based On A Co- Crystallization With Methyl
Beta-Cyclodextrin
pdb|1JL8|B Chain B, Complex Of Alpha-Amylase Ii (Tva Ii) From
Thermoactinomyces Vulgaris R-47 With Beta-Cyclodextrin
Based On A Co- Crystallization With Methyl
Beta-Cyclodextrin
pdb|1JIB|A Chain A, Complex Of Alpha-Amylase Ii (Tva Ii) From
Thermoactinomyces Vulgaris R-47 With Maltotetraose Based
On A Crystal Soaked With Maltohexaose.
pdb|1JIB|B Chain B, Complex Of Alpha-Amylase Ii (Tva Ii) From
Thermoactinomyces Vulgaris R-47 With Maltotetraose Based
On A Crystal Soaked With Maltohexaose.
pdb|1VB9|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase Ii (Tva Ii) Complexed With
Transglycosylated Product
pdb|1VB9|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase Ii (Tva Ii) Complexed With
Transglycosylated Product
pdb|2D2O|A Chain A, Structure Of A Complex Of Thermoactinomyces Vulgaris R-47
Alpha-Amylase 2 With Maltohexaose Demonstrates The
Important Role Of Aromatic Residues At The Reducing End
Of The Substrate Binding Cleft
pdb|2D2O|B Chain B, Structure Of A Complex Of Thermoactinomyces Vulgaris R-47
Alpha-Amylase 2 With Maltohexaose Demonstrates The
Important Role Of Aromatic Residues At The Reducing End
Of The Substrate Binding Cleft
Length = 585
Score = 30.0 bits (66), Expect = 0.87, Method: Composition-based stats.
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQERLAQT------IRSVGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + + ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLNVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1WZK|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-Amylase Ii (Tva Ii)
Mutatnt D465n
pdb|1WZK|B Chain B, Thermoactinomyces Vulgaris R-47 Alpha-Amylase Ii (Tva Ii)
Mutatnt D465n
Length = 585
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + Q I ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1JF6|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase Mutant F286y
pdb|1JF6|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase Mutant F286y
Length = 585
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + Q I ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1WZM|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-amylase Ii (tva Ii)
Mutatnt R469k
pdb|1WZM|B Chain B, Thermoactinomyces Vulgaris R-47 Alpha-amylase Ii (tva Ii)
Mutatnt R469k
Length = 585
Score = 29.3 bits (64), Expect = 1.3, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + Q I ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1WZL|A Chain A, Thermoactinomyces Vulgaris R-47 Alpha-Amylase Ii (Tva Ii)
Mutatnt R469l
pdb|1WZL|B Chain B, Thermoactinomyces Vulgaris R-47 Alpha-Amylase Ii (Tva Ii)
Mutatnt R469l
Length = 585
Score = 29.3 bits (64), Expect = 1.3, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + Q I ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1JF5|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2 Mutant F286a
pdb|1JF5|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2 Mutant F286a
Length = 585
Score = 29.3 bits (64), Expect = 1.3, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + Q I ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1BVZ|A Chain A, Alpha-Amylase Ii (Tvaii) From Thermoactinomyces Vulgaris
R- 47
pdb|1BVZ|B Chain B, Alpha-Amylase Ii (Tvaii) From Thermoactinomyces Vulgaris
R- 47
pdb|1JI2|A Chain A, Improved X-Ray Structure Of Thermoactinomyces Vulgaris
R-47 Alpha-Amylase 2
pdb|1JI2|B Chain B, Improved X-Ray Structure Of Thermoactinomyces Vulgaris
R-47 Alpha-Amylase 2
pdb|3A6O|A Chain A, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2ACARBOSE COMPLEX
pdb|3A6O|B Chain B, Crystal Structure Of Thermoactinomyces Vulgaris R-47
Alpha- Amylase 2ACARBOSE COMPLEX
Length = 585
Score = 29.3 bits (64), Expect = 1.3, Method: Composition-based stats.
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +LFD+ + Q I ++H+FWR F VKS + I G++
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGEI 355
>pdb|1G1Y|A Chain A, Crystal Structure Of Alpha-Amylase Ii (Tvaii) From
Thermoactinomyces Vulgaris R-47 And Beta-Cyclodextrin
Complex
pdb|1G1Y|B Chain B, Crystal Structure Of Alpha-Amylase Ii (Tvaii) From
Thermoactinomyces Vulgaris R-47 And Beta-Cyclodextrin
Complex
Length = 585
Score = 28.5 bits (62), Expect = 2.4, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 20/88 (22%)
Query: 87 SPELYSFLFDLQE-RLAQTIRS-----VGRIEHSFWRSFNTDVKS---DA---------C 128
+PE+ +LFD+ + Q I ++H+FWR F VKS DA
Sbjct: 300 NPEVKEYLFDVARFWMEQGIDGWRLDVANEVDHAFWREFRRLVKSLNPDALIVGAIWHDA 359
Query: 129 EGFIDGDLIESFLDLNIKD--MKSIATG 154
G++ GD +S ++ ++ ++ ATG
Sbjct: 360 SGWLMGDQFDSVMNYLFRESVIRFFATG 387
>pdb|1J0H|A Chain A, Crystal Structure Of Bacillus Stearothermophilus
Neopullulanase
pdb|1J0H|B Chain B, Crystal Structure Of Bacillus Stearothermophilus
Neopullulanase
pdb|1J0I|A Chain A, Crystal Structure Of Neopullulanase Complex With Panose
pdb|1J0I|B Chain B, Crystal Structure Of Neopullulanase Complex With Panose
Length = 588
Score = 27.3 bits (59), Expect = 4.9, Method: Composition-based stats.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 7/57 (12%)
Query: 87 SPELYSFLFDLQERLAQTIRSVG-------RIEHSFWRSFNTDVKSDACEGFIDGDL 136
+PE+ +L D+ + G I+H FWR F +VK+ + +I G++
Sbjct: 302 NPEVKRYLLDVATYWIREFDIDGWRLDVANEIDHEFWREFRQEVKALKPDVYILGEI 358
>pdb|1ZSY|A Chain A, The Structure Of Human Mitochondrial 2-Enoyl Thioester
Reductase (Cgi- 63)
Length = 357
Score = 26.9 bits (58), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 42 LGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQIS---PELYSFLFDL- 97
+G+A +IA +T V+ R DIQ+ L S + ++T+ PE+ +F D+
Sbjct: 180 VGQAVIQIAAALGLRTINVVRDRPDIQKLSDRLKSLGAEHVITEEELRRPEMKNFFKDMP 239
Query: 98 QERLA 102
Q RLA
Sbjct: 240 QPRLA 244
>pdb|2VCY|A Chain A, Crystal Structure Of 2-Enoyl Thioester Reductase Of Human
Fas Ii
pdb|2VCY|B Chain B, Crystal Structure Of 2-Enoyl Thioester Reductase Of Human
Fas Ii
Length = 344
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 4/65 (6%)
Query: 42 LGEAPRRIAYQESSQTFGVITTRIDIQEADASLNSFVSTGLVTQIS---PELYSFLFDL- 97
+G+A +IA +T V+ R DIQ+ L S + ++T+ PE+ +F D+
Sbjct: 167 VGQAVIQIAAALGLRTINVVRDRPDIQKLSDRLKSLGAEHVITEEELRRPEMKNFFKDMP 226
Query: 98 QERLA 102
Q RLA
Sbjct: 227 QPRLA 231
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
0.320 0.135 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,821,107
Number of Sequences: 62578
Number of extensions: 179382
Number of successful extensions: 419
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 384
Number of HSP's gapped (non-prelim): 35
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)