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= psy6634
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ORG|A Chain A, Crystal Structure Of A Eukaryotic Clc Transporter
pdb|3ORG|B Chain B, Crystal Structure Of A Eukaryotic Clc Transporter
pdb|3ORG|C Chain C, Crystal Structure Of A Eukaryotic Clc Transporter
pdb|3ORG|D Chain D, Crystal Structure Of A Eukaryotic Clc Transporter
Length = 632
Score = 43.1 bits (100), Expect = 4e-05, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 32/55 (58%), Gaps = 2/55 (3%)
Query: 24 GSGIPEMKTILRGV--ALKEYLTFNTLVAKIIGLTATLGSGLPLGKEPISVSGHC 76
GSG+P+MK+IL G ++ L L AK +GL +G GLP+G E +V C
Sbjct: 79 GSGLPQMKSILSGFYDKMRSALELRVLFAKALGLICAIGGGLPVGWEGPNVHIAC 133
>pdb|1KPL|A Chain A, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
pdb|1KPL|B Chain B, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
pdb|1KPL|C Chain C, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
pdb|1KPL|D Chain D, Crystal Structure Of The Clc Chloride Channel From S.
Typhimurium
Length = 473
Score = 31.2 bits (69), Expect = 0.15, Method: Composition-based stats.
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 4/56 (7%)
Query: 24 GSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE--PISVSGHCG 77
GSGIPE++ L L+ + L K IG TLG+G+ LG+E + + G+ G
Sbjct: 106 GSGIPEIEGALE--ELRPVRWWRVLPVKFIGGMGTLGAGMVLGREGPTVQIGGNLG 159
>pdb|1U1H|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
pdb|1U1J|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
pdb|1U1U|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
pdb|1U22|A Chain A, A. Thaliana Cobalamine Independent Methionine Synthase
Length = 765
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 12 DLIGGSNQVYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKEPIS 71
DL+ G+ + L +G PE K + GV + N A + L A G +GK+ +
Sbjct: 267 DLVRGTKTLDLVKAGFPEGKYLFAGVVDGRNIWANDFAASLSTLQALEGI---VGKDKLV 323
Query: 72 VSGHC 76
VS C
Sbjct: 324 VSTSC 328
>pdb|1JN3|A Chain A, Fidelity Properties And Structure Of M282l Mutator Mutant
Of Dna Polymerase: Subtle Structural Changes Influence
The Mechanism Of Nucleotide Discrimination
Length = 251
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I LR AL++ T N + +G+T G LP+ E
Sbjct: 186 LYFTGSDI--FNKNLRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 232
>pdb|3LQC|B Chain B, X-Ray Crystal Structure Of Oxidized Xrcc1 Bound To Dna Pol
B Thumb Domain
Length = 200
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 129 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 175
>pdb|2VAN|A Chain A, Nucleotidyl Transfer Mechanism Of Mismatched Dntp
Incorporation By Dna Polymerase B By Structural And
Kinetic Analyses
Length = 245
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 180 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 226
>pdb|1GQZ|A Chain A, Refinement Of Haemophilus Influenzae Diaminopimelate
Epimerase At 1.7a
pdb|2GKE|A Chain A, Crystal Structure Of Diaminopimelate Epimerase In Complex
With An Irreversible Inhibitor Ll-Azidap
pdb|2GKJ|A Chain A, Crystal Structure Of Diaminopimelate Epimerase In Complex
With An Irreversible Inhibitor Dl-Azidap
Length = 274
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 1 MAGDLNTHDQVDLIGGSNQVYLSGSGIPEMKTILRGVALKEYLTFNTL 48
M G LN + QVDL GGS + +G G P T G A Y F TL
Sbjct: 230 MQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMT---GEATHIYDGFITL 274
>pdb|2Q9J|A Chain A, Crystal Structure Of The C217s Mutant Of Diaminopimelate
Epimerase
Length = 274
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 1 MAGDLNTHDQVDLIGGSNQVYLSGSGIPEMKTILRGVALKEYLTFNTL 48
M G LN + QVDL GGS + +G G P T G A Y F TL
Sbjct: 230 MQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMT---GEATHIYDGFITL 274
>pdb|1BWZ|A Chain A, Diaminopimelate Epimerase From Hemophilus Influenzae
Length = 274
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 1 MAGDLNTHDQVDLIGGSNQVYLSGSGIPEMKTILRGVALKEYLTFNTL 48
M G LN + QVDL GGS + +G G P T G A Y F TL
Sbjct: 230 MQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMT---GEATHIYDGFITL 274
>pdb|2Q9H|A Chain A, Crystal Structure Of The C73s Mutant Of Diaminopimelate
Epimerase
Length = 274
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 21/48 (43%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 1 MAGDLNTHDQVDLIGGSNQVYLSGSGIPEMKTILRGVALKEYLTFNTL 48
M G LN + QVDL GGS + +G G P T G A Y F TL
Sbjct: 230 MQGLLNNNVQVDLPGGSLMIEWNGVGHPLYMT---GEATHIYDGFITL 274
>pdb|3K75|D Chain D, X-Ray Crystal Structure Of Reduced Xrcc1 Bound To Dna Pol
Beta Catalytic Domain
pdb|3K75|E Chain E, X-Ray Crystal Structure Of Reduced Xrcc1 Bound To Dna Pol
Beta Catalytic Domain
Length = 252
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 181 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 227
>pdb|1BPB|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta: Evidence For
A Common Polymerase Mechanism
pdb|1NOM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Mncl2 (5 Millimolar)
pdb|1ZQU|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Artificial Mother Liquor
pdb|1ZQV|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Cacl2 (150 Millimolar)
pdb|1ZQW|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Cscl (150 Millimolar)
pdb|1ZQX|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Kcl (150 Millimolar)
pdb|1ZQY|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Mgcl2 (50 Millimolar)
pdb|1ZQZ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7), 31-Kd Domain;
Soaked In The Presence Of Mncl2 (50 Millimolar)
pdb|2BPC|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta: Evidence For
A Common Polymerase Mechanism
Length = 248
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 183 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 229
>pdb|1RPL|A Chain A, 2.3 Angstroms Crystal Structure Of The Catalytic Domain Of
Dna Polymerase Beta
Length = 251
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 186 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 232
>pdb|3V72|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta Mutator
E295k: Enzyme- Dsdna
Length = 335
Score = 26.6 bits (57), Expect = 3.4, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 270 LYFTGSDI--FNKNMRAHALEKGFTINKYTIRPLGVTGVAGEPLPVDSE 316
>pdb|3V7K|A Chain A, Co-crystal Structure Of K72e Variant Of Rat Polymerase
Beta: Enzyme- Dna Binary Complex
pdb|3V7L|A Chain A, Apo Structure Of Rat Dna Polymerase Beta K72e Variant
Length = 340
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 275 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 321
>pdb|3V7J|A Chain A, Co-crystal Structure Of Wild Type Rat Polymerase Beta:
Enzyme-dna Binary Complex
Length = 340
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 275 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 321
>pdb|3UXO|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta Mutator I260q
Apoenzyme
pdb|3UXO|B Chain B, Crystal Structure Of Rat Dna Polymerase Beta Mutator I260q
Apoenzyme
pdb|3UXP|A Chain A, Co-Crystal Structure Of Rat Dna Polymerase Beta Mutator
I260q: Enzyme- Dna-Ddttp
pdb|3UXP|B Chain B, Co-Crystal Structure Of Rat Dna Polymerase Beta Mutator
I260q: Enzyme- Dna-Ddttp
Length = 335
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 270 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 316
>pdb|9ICG|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
(1 Millimolar) And Zncl2 (1 Millimolar)
pdb|9ICH|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dgtp
(1 Millimolar) And Zncl2 (1 Millimolar)
pdb|9ICI|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dttp
(1 Millimolar) And Zncl2 (1 Millimolar)
pdb|9ICJ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna
pdb|9ICK|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Artificial Mother Liquor
pdb|9ICL|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Pyrophosphate And Mncl2
pdb|9ICM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Double Stranded Dna (No 5'-Phosphate)
pdb|9ICN|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2',3'-
Dideoxycytidine-5'-Triphosphate, Soaked In The Presence
Of Ddctp And Mgcl2
pdb|9ICO|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Dttp And Mgcl2
pdb|9ICP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of
Pyrophosphate (1 Millimolar) And Mgcl2 (5 Millimolar)
pdb|9ICQ|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Datp (1
Millimolar) And Mncl2 (5 Millimolar)
pdb|9ICR|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
Deoxycytidine-5'-Triphosphate, Soaked In The Presence Of
Dctp And Mncl2
pdb|9ICS|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2',3'-
Dideoxycytidine-5'-Triphosphate, Soaked In The Presence
Of Ddctp And Mncl2
pdb|9ICT|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
Deoxyguanosine-5'-Triphosphate, Soaked In The Presence
Of Dgtp And Mncl2
pdb|9ICU|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Dttp (1
Millimolar) And Mncl2 (5 Millimolar)
pdb|9ICV|A Chain A, Dna Polymerase Beta (e.c.2.7.7.7)/dna Complex + 2'-
Deoxyadenosine-5'-triphosphate, Soaked In The Presence
Of Datp And Zncl2
pdb|9ICW|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Native Structure
pdb|9ICX|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Six Base Pairs Of Dna (non Gapped Dna Only)
pdb|9ICY|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7) Complexed With Seven
Base Pairs Of Dna (Non Gapped Dna Only)
pdb|8ICB|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of
Artificial Mother Liquor
pdb|8ICC|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna (no 5'-phosphate)
pdb|8ICE|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Cdcl2 (1 Millimolar)
pdb|8ICF|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(10 Millimolar) And Mgcl2 (50 Millimolar)
pdb|8ICG|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Mgcl2 (5 Millimolar)
pdb|8ICH|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
(1 Millimolar) And Mgcl2 (5 Millimolar)
pdb|8ICI|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dgtp
(1 Millimolar) And Mgcl2 (5 Millimolar)
pdb|8ICJ|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + THYMIDINE-
5'-Triphosphate, Soaked In The Presence Of Dttp And
Mgcl2
pdb|8ICK|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar), Mgcl2 (5 Millimolar), And Mncl2 (5
Millimolar)
pdb|8ICL|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Nicl2 (5 Millimolar)
pdb|8ICM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar), Mncl2 (5 Millimolar), And Ammonium
Sulfate (75 Millimolar)
pdb|8ICN|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Atp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICO|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of
Azt-Tp (1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICQ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Of
Datp (0.1 Millimolar) And Mncl2 (0.5 Millimolar)
pdb|8ICR|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICS|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICT|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dctp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICU|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Ddatp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICV|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dgtp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICW|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dttp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICX|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Dttp
(1 Millimolar) And Mncl2 (5 Millimolar)
pdb|8ICY|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + THYMIDINE-
5'-Triphosphate, Soaked In The Presence Of Dttp And
Mncl2
pdb|8ICZ|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Of
Datp (1 Millimolar), Mncl2 (5 Millimolar), And Lithium
Sulfate (75 Millimolar)
pdb|9ICA|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
Deoxyadenosine-5'-O-(1-Thiotriphosphate), Soaked In The
Presence Of Datp(Alpha)s And Mncl2
pdb|9ICB|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
Deoxyadenosine-5'-Triphosphate, Soaked In The Presence
Of Datp And Cocl2
pdb|9ICC|A Chain A, Dna Polymerase Beta (e.c.2.7.7.7)/dna Complex + 2'-
Deoxyadenosine-5'-triphosphate, Soaked In The Presence
Of Datp And Crcl3
pdb|9ICE|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Cucl2 (0.1 Millimolar)
pdb|9ICF|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX + 2'-
Deoxyadenosine-5'-Triphosphate, Soaked In The Presence
Of Datp And Zncl2
pdb|1ZQQ|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Mncl2
(15 Millimolar) And Nacl (15 Millimolar)
pdb|1ZQR|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Nicl2
pdb|1ZQS|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Tlcl
(0.5 Millimolar)
pdb|1ZQT|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(0.01 Millimolar) And Zncl2 (0.02 Millimolar)
pdb|7ICE|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Cacl2
pdb|7ICF|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Cdcl2
(0.1 Millimolar) (Four-Day Soak)
pdb|7ICG|A Chain A, Dna Polymerase Beta (e.c.2.7.7.7)/dna Complex, Soaked In
The Presence Of Cdcl2
pdb|7ICH|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Cocl2
pdb|7ICI|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Crcl3
(0.1 Millimolar)
pdb|7ICJ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Cucl2
(0.1 Millimolar)
pdb|7ICK|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Mgcl2
pdb|7ICL|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Mncl2
(0.1 Millimolar)
pdb|7ICM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Mncl2
(1.0 Millimolar)
pdb|7ICN|A Chain A, Dna Polymerase Beta (e.c.2.7.7.7)/dna Complex, Soaked In
The Presence Of Nicl2
pdb|7ICO|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Zncl2
pdb|7ICP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Zncl2
(0.01 Millimolar)
pdb|7ICQ|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Zncl2
pdb|7ICR|A Chain A, Dna Polymerase Beta (e.c.2.7.7.7)/dna Complex, Soaked In
The Presence Of Zncl2
pdb|7ICS|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Zncl2
pdb|7ICT|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7)DNA COMPLEX, SOAKED IN
The Presence Of Zncl2 And Mgcl2
pdb|7ICU|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Cdcl2
(0.1 Millimolar)
pdb|7ICV|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Six Base Pairs Of Dna; Soaked In The Presence Of Mncl2
(0.1 Millimolar) And In The Absence Of Nacl
pdb|8ICA|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Datp
(1 Millimolar) And Cacl2 (5 Millimolar)
pdb|1ZQA|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
(150 Millimolar) At Ph 7.5
pdb|1ZQB|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Bacl2
(150 Millimolar)
pdb|1ZQC|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
(15 Millimolar)
pdb|1ZQD|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
(150 Millimolar)
pdb|1ZQE|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Crcl3
(saturated Solution)
pdb|1ZQF|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Cscl
(150 Millimolar)
pdb|1ZQG|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of A
Sodium-Free Artificial Mother Liquor At Ph 6.5
pdb|1ZQH|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of A
Sodium-Free Artificial Mother Liquor At Ph 7.5
pdb|1ZQI|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
(150 Millimolar)
pdb|1ZQJ|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
(15 Millimolar) And Mgcl2 (15 Millimolar)
pdb|1ZQK|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
(75 Millimolar) And Mgcl2 (75 Millimolar)
pdb|1ZQL|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Mncl2
(15 Millimolar) And Mgcl2 (15 Millimolar)
pdb|1ZQM|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Mncl2
(15 Millimolar)
pdb|1ZQN|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Bacl2
(15 Millimolar) And Nacl (15 Millimolar)
pdb|1ZQO|A Chain A, Dna Polymerase Beta (pol B) (e.c.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Cacl2
(15 Millimolar) And Nacl (15 Millimolar)
pdb|1ZQP|A Chain A, Dna Polymerase Beta (Pol B) (E.C.2.7.7.7) Complexed With
Seven Base Pairs Of Dna; Soaked In The Presence Of Kcl
(75 Millimolar) And Nacl (75 Millimolar)
pdb|1BPX|A Chain A, Dna Polymerase BetaDNA COMPLEX
pdb|1BPY|A Chain A, Human Dna Polymerase Beta Complexed With Gapped Dna And
Ddctp
pdb|1BPZ|A Chain A, Human Dna Polymerase Beta Complexed With Nicked Dna
pdb|1MQ2|A Chain A, Human Dna Polymerase Beta Complexed With Gapped Dna
Containing An 8-Oxo-7,8-Dihydro-Guanine And Damp
pdb|1MQ3|A Chain A, Human Dna Polymerase Beta Complexed With Gapped Dna
Containing An 8-Oxo-7,8-Dihydro-Guanine Template Paired
With Dctp
pdb|1TV9|A Chain A, Human Dna Polymerase Beta Complexed With Nicked Dna
Containing A Mismatched Template Adenine And Incoming
Cytidine
pdb|1TVA|A Chain A, Human Dna Polymerase Beta Complexed With Nicked Dna
Containing A Mismatched Template Thymidine And Incoming
Cytidine
pdb|1ZJM|A Chain A, Human Dna Polymerase Beta Complexed With Dna Containing An
A-A Mismatched Primer Terminus
pdb|1ZJN|A Chain A, Human Dna Polymerase Beta Complexed With Dna Containing An
A-A Mismatched Primer Terminus With Dgtp
pdb|2FMP|A Chain A, Dna Polymerase Beta With A Terminated Gapped Dna Substrate
And Ddctp With Sodium In The Catalytic Site
pdb|2FMQ|A Chain A, Sodium In Active Site Of Dna Polymerase Beta
pdb|2FMS|A Chain A, Dna Polymerase Beta With A Gapped Dna Substrate And
Dumpnpp With Magnesium In The Catalytic Site
pdb|2I9G|A Chain A, Dna Polymerase Beta With A Benzo[c]phenanthrene Diol
Epoxide Adducted Guanine Base
pdb|2ISO|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-
Difluoromethylene Triphosphate
pdb|2ISP|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-
Methylene Triphosphate
pdb|2P66|A Chain A, Human Dna Polymerase Beta Complexed With Tetrahydrofuran
(abasic Site) Containing Dna
pdb|2PXI|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta, Gamma-
Monofluoromethylene Triphosphate
pdb|3C2K|A Chain A, Dna Polymerase Beta With A Gapped Dna Substrate And
Dumpnpp With Manganese In The Active Site
pdb|3C2L|A Chain A, Ternary Complex Of Dna Polymerase Beta With A C:dapcpp
Mismatch In The Active Site
pdb|3C2M|A Chain A, Ternary Complex Of Dna Polymerase Beta With A G:dapcpp
Mismatch In The Active Site
pdb|3ISB|A Chain A, Binary Complex Of Human Dna Polymerase Beta With A Gapped
Dna
pdb|3ISC|A Chain A, Binary Complex Of Human Dna Polymerase Beta With An Abasic
Site (Thf) In The Gapped Dna
pdb|3ISD|A Chain A, Ternary Complex Of Human Dna Polymerase Beta With An
Abasic Site (Thf): Dapcpp Mismatch
pdb|3JPN|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Dichloro Methyl Triphosphate
pdb|3JPO|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monochloromethy Triphosphate
pdb|3JPP|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monomethyl Meth Triphosphate
pdb|3JPQ|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monobromo Methy Triphosphate
pdb|3JPR|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Dimethyl Methyl Triphosphate
pdb|3JPS|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Fluoro Methyl M Triphosphate
pdb|3JPT|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Termin Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Fluoro Chloro M Triphosphate
pdb|3MBY|A Chain A, Ternary Complex Of Dna Polymerase Beta With Template Base
A And 8oxodgtp In The Active Site With A Dideoxy
Terminated Primer
pdb|3LK9|A Chain A, Dna Polymerase Beta With A Gapped Dna Substrate And
Dtmp(Cf2)p(Cf2)p
pdb|3RH4|A Chain A, Dna Polymerase Beta With A Dideoxy-Terminated Primer With
An Incoming Ribonucleotide (Rctp)
pdb|3RJE|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Gapped Dna
Containing 8odg At Template Position
pdb|3RJF|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Gapped Dna
Containing (Syn)8odg At Template Position Paired With
Non-Hydrolyzable Datp Analog (Dapcpp)
pdb|3RJG|A Chain A, Binary Complex Of Dna Polymerase Beta With A Gapped Dna
Containing 8odg:da Base-Pair At Primer Terminus
pdb|3RJH|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Gapped Dna
Containing (Syn)8odg:da At Primer Terminus And
Dg:dcmp(Cf2)ppin The Active Site
pdb|3RJI|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Gapped Dna
Containing 8odg At Template Position Paired With
Non-Hydrolyzable Dctp Analog (Dcmp(Cf2)pp)
pdb|3RJJ|A Chain A, Ternary Complex Crystal Structure Of Dna Polymerase Beta
With Template 8odg Provides Insight Into Mutagenic
Lesion Bypass
pdb|3RJK|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Gapped Dna
Containing 8odg:dc Base Pair At Primer Terminus And
Dg:dcmp(Cf2)pp In The Active Site
pdb|3TFR|A Chain A, Ternary Complex Structure Of Dna Polymerase Beta With A
Gapped Dna Substrate And A, B Damp(Cf2)pp In The Active
Site
pdb|3TFS|A Chain A, Ternary Complex Structure Of Dna Polymerase Beta With A
Gapped Dna Substrate And A, B Damp(Cfh)pp In The Active
Site: Stereoselective Binding Of (S) Isomer
pdb|4DO9|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monofluoromethylene Triphosphate: Stereoselective
Binding Of R-Isomer
pdb|4DOA|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monofluoromethylene Triphosphate: Non-Interactive
Binding Of S-Isomer
pdb|4DOB|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monochlororomethylene Triphosphate:
Stereoselective Binding Of R-Isomer
pdb|4DOC|A Chain A, Ternary Complex Of Dna Polymerase Beta With A Dideoxy
Terminated Primer And 2'-Deoxyguanosine 5'-Beta,
Gamma-Monochlororomethylene Triphosphate:binding Of
S-Isomer
Length = 335
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 270 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 316
>pdb|2BPF|A Chain A, Structures Of Ternary Complexes Of Rat Dna Polymerase
Beta, A Dna Template-Primer, And Ddctp
pdb|2BPG|A Chain A, Structures Of Ternary Complexes Of Rat Dna Polymerase
Beta, A Dna Template-Primer, And Ddctp
pdb|2BPG|B Chain B, Structures Of Ternary Complexes Of Rat Dna Polymerase
Beta, A Dna Template-Primer, And Ddctp
pdb|1HUO|A Chain A, Crystal Structure Of Dna Polymerase Beta Complexed With
Dna And Cr-Tmppcp
pdb|1HUO|B Chain B, Crystal Structure Of Dna Polymerase Beta Complexed With
Dna And Cr-Tmppcp
pdb|1HUZ|A Chain A, Crystal Structure Of Dna Polymerase Complexed With Dna And
Cr-Pcp
pdb|1HUZ|B Chain B, Crystal Structure Of Dna Polymerase Complexed With Dna And
Cr-Pcp
pdb|1BPD|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta: Evidence For
A Common Polymerase Mechanism
pdb|3UXN|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta, Wild Type
Apoenzyme
pdb|3UXN|B Chain B, Crystal Structure Of Rat Dna Polymerase Beta, Wild Type
Apoenzyme
Length = 335
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 270 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 316
>pdb|1BPE|A Chain A, Crystal Structure Of Rat Dna Polymerase Beta; Evidence For
A Common Polymerase Mechanism
Length = 335
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 270 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 316
>pdb|3OGU|A Chain A, Dna Polymerase Beta Mutant 5p20 Complexed With 6bp Of Dna
Length = 335
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 270 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 316
>pdb|3GDX|A Chain A, Dna Polymerase Beta With A Gapped Dnd Substrate And
Dtmp(Cf2)pp
Length = 326
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 20 VYLSGSGIPEMKTILRGVALKEYLTFNTLVAKIIGLTATLGSGLPLGKE 68
+Y +GS I +R AL++ T N + +G+T G LP+ E
Sbjct: 261 LYFTGSDI--FNKNMRAHALEKGFTINEYTIRPLGVTGVAGEPLPVDSE 307
>pdb|2ZXE|A Chain A, Crystal Structure Of The Sodium - Potassium Pump In The
E2.2k+.Pi State
pdb|3A3Y|A Chain A, Crystal Structure Of The Sodium-potassium Pump With Bound
Potassium And Ouabain
Length = 1028
Score = 25.8 bits (55), Expect = 6.9, Method: Composition-based stats.
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 52 IIGLTATLGSGLPLGKEPIS 71
++G ATL SGL +G+ PI+
Sbjct: 271 VMGRIATLASGLEVGRTPIA 290
>pdb|3PA8|A Chain A, Structure Of The C. Difficile Tcdb Cysteine Protease
Domain In Complex With A Peptide Inhibitor
pdb|3PA8|B Chain B, Structure Of The C. Difficile Tcdb Cysteine Protease
Domain In Complex With A Peptide Inhibitor
pdb|3PEE|B Chain B, Structure Of The C. Difficile Tcdb Cysteine Protease
Domain
pdb|3PEE|A Chain A, Structure Of The C. Difficile Tcdb Cysteine Protease
Domain
Length = 254
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 23 SGSGIPEMKTILRGVALKEYLTFNTLVAKI 52
SG I + ++I++ ++ KEY++FN KI
Sbjct: 215 SGEWINKEESIIKDISSKEYISFNPKENKI 244
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
0.316 0.137 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,908,097
Number of Sequences: 62578
Number of extensions: 105230
Number of successful extensions: 214
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 205
Number of HSP's gapped (non-prelim): 46
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
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)