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= 033363
(121 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NGN|A Chain A, Mismatch Repair In Methylated Dna. Structure Of The
Mismatch-Specific Thymine Glycosylase Domain Of
Methyl-Cpg- Binding Protein Mbd4
Length = 155
Score = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 36/94 (38%), Positives = 55/94 (58%)
Query: 21 VISDLFTLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHG 80
V+ + P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG
Sbjct: 52 VLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSDEYLTKQWRYPIELHG 111
Query: 81 VGKYAADAFAIFCTGKWDRVRPTDHMLNYYWEFL 114
+GKY D++ IFC +W +V P DH LN Y ++L
Sbjct: 112 IGKYGNDSYRIFCVNEWKQVHPEDHKLNKYHDWL 145
>pdb|4EW4|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With Dna
Containing A Ribose Sugar
Length = 146
Score = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 37/101 (36%), Positives = 56/101 (55%)
Query: 21 VISDLFTLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHG 80
V+ + P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG
Sbjct: 43 VLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSDEYLTKQWRYPIELHG 102
Query: 81 VGKYAADAFAIFCTGKWDRVRPTDHMLNYYWEFLVSTKGNL 121
+GKY D++ IFC +W +V P DH LN Y ++L L
Sbjct: 103 IGKYGNDSYRIFCVNEWKQVHPEDHKLNKYHDWLWENHEKL 143
>pdb|4E9E|A Chain A, Structure Of The Glycosylase Domain Of Mbd4
pdb|4E9F|A Chain A, Stucture Of The Glycosylase Domain Of Mbd4 Bound To Ap
Site Containing Dna
Length = 161
Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 35/85 (41%), Positives = 52/85 (61%)
Query: 30 PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAF 89
P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG+GKY D++
Sbjct: 61 PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSY 120
Query: 90 AIFCTGKWDRVRPTDHMLNYYWEFL 114
IFC +W +V P DH LN Y ++L
Sbjct: 121 RIFCVNEWKQVHPEDHKLNKYHDWL 145
>pdb|4DK9|A Chain A, Crystal Structure Of Mbd4 Catalytic Domain Bound To Abasic
Dna
Length = 157
Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 35/85 (41%), Positives = 52/85 (61%)
Query: 30 PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAF 89
P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG+GKY D++
Sbjct: 63 PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSY 122
Query: 90 AIFCTGKWDRVRPTDHMLNYYWEFL 114
IFC +W +V P DH LN Y ++L
Sbjct: 123 RIFCVNEWKQVHPEDHKLNKYHDWL 147
>pdb|3IHO|A Chain A, The C-Terminal Glycosylase Domain Of Human Mbd4
Length = 138
Score = 81.3 bits (199), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 35/85 (41%), Positives = 52/85 (61%)
Query: 30 PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAF 89
P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG+GKY D++
Sbjct: 50 PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSY 109
Query: 90 AIFCTGKWDRVRPTDHMLNYYWEFL 114
IFC +W +V P DH LN Y ++L
Sbjct: 110 RIFCVNEWKQVHPEDHKLNKYHDWL 134
>pdb|4EVV|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With A G:t
Mismatch
pdb|4EW0|A Chain A, Mouse Mbd4 Glycosylase Domain In Complex With A G:5hmu (5-
Hydroxymethyluracil) Mismatch
Length = 146
Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 36/101 (35%), Positives = 56/101 (55%)
Query: 21 VISDLFTLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHG 80
V+ + P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG
Sbjct: 43 VLWEFLEKYPSAEVARAADWRDVSELLKPLGLYDLRAKTIIKFSDEYLTKQWRYPIELHG 102
Query: 81 VGKYAADAFAIFCTGKWDRVRPTDHMLNYYWEFLVSTKGNL 121
+GKY D++ IFC +W +V P +H LN Y ++L L
Sbjct: 103 IGKYGNDSYRIFCVNEWKQVHPENHKLNKYHDWLWENHEKL 143
>pdb|4E9G|A Chain A, Structure Of The Glycosylase Domain Of Mbd4 Bound To
Thymine Containing Dna
pdb|4E9H|A Chain A, Structure Of Glycosylase Domain Of Mbd4 Bound To 5hmu
Containing Dna
Length = 161
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/85 (40%), Positives = 51/85 (60%)
Query: 30 PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAF 89
P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG+GKY D++
Sbjct: 61 PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSY 120
Query: 90 AIFCTGKWDRVRPTDHMLNYYWEFL 114
IFC +W +V P H LN Y ++L
Sbjct: 121 RIFCVNEWKQVHPEAHKLNKYHDWL 145
>pdb|4EA4|A Chain A, Structure Of The Glycosylase Domain Of Mbd4 Bound To
5hmu-Containing Dna
Length = 155
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/85 (40%), Positives = 51/85 (60%)
Query: 30 PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAF 89
P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG+GKY D++
Sbjct: 61 PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSY 120
Query: 90 AIFCTGKWDRVRPTDHMLNYYWEFL 114
IFC +W +V P H LN Y ++L
Sbjct: 121 RIFCVNEWKQVHPEAHKLNKYHDWL 145
>pdb|4EA5|A Chain A, Structure Of The Glycoslyase Domain Of Mbd4 Bound To A
5hmu Containing Dna
Length = 160
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 34/85 (40%), Positives = 51/85 (60%)
Query: 30 PDAKTATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAF 89
P A+ A D ++ +++ LGL RA I +FS EYL + W + +LHG+GKY D++
Sbjct: 61 PSAEVARTADWRDVSELLKPLGLYDLRAKTIVKFSDEYLTKQWKYPIELHGIGKYGNDSY 120
Query: 90 AIFCTGKWDRVRPTDHMLNYYWEFL 114
IFC +W +V P H LN Y ++L
Sbjct: 121 RIFCVNEWKQVHPEAHKLNKYHDWL 145
>pdb|3S6I|A Chain A, Schizosaccaromyces Pombe 3-Methyladenine Dna Glycosylase
(Mag1) In Complex With Abasic-Dna.
pdb|3S6I|D Chain D, Schizosaccaromyces Pombe 3-Methyladenine Dna Glycosylase
(Mag1) In Complex With Abasic-Dna
Length = 228
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 7/63 (11%)
Query: 44 EKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAFAIFCTGKWDRVRPT 103
E IS L K+ A +R S E L E +TQ+ G+G++ + IF + D V P
Sbjct: 116 EATISGLIPTKEEA---ERLSNEELIE---RLTQIKGIGRWTVEMLLIFSLNR-DDVMPA 168
Query: 104 DHM 106
D +
Sbjct: 169 DDL 171
>pdb|1M72|A Chain A, Crystal Structure Of Caspase-1 From Spodoptera
Frugiperda
pdb|1M72|B Chain B, Crystal Structure Of Caspase-1 From Spodoptera
Frugiperda
pdb|1M72|C Chain C, Crystal Structure Of Caspase-1 From Spodoptera
Frugiperda
Length = 272
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 32 AKTATEVDAEEIEKIISTLGLQKKRAPMIK 61
++T T VD++ + K++ TLG + P +K
Sbjct: 50 SRTGTNVDSDNLSKVLKTLGFKVTVFPNLK 79
>pdb|2NN3|C Chain C, Structure Of Pro-Sf-Caspase-1
pdb|2NN3|D Chain D, Structure Of Pro-Sf-Caspase-1
Length = 310
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 32 AKTATEVDAEEIEKIISTLGLQKKRAPMIK 61
++T T VD++ + K++ TLG + P +K
Sbjct: 78 SRTGTNVDSDNLSKVLKTLGFKVTVFPNLK 107
>pdb|1ULQ|A Chain A, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|B Chain B, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|C Chain C, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|D Chain D, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|E Chain E, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|F Chain F, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|G Chain G, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
pdb|1ULQ|H Chain H, Crystal Structure Of Tt0182 From Thermus Thermophilus Hb8
Length = 401
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 15/64 (23%), Positives = 31/64 (48%), Gaps = 4/64 (6%)
Query: 48 STLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAFAIFCTGK----WDRVRPT 103
+TLG + M + E +GE+ ++ +++G+ + D FA+ K W+ R
Sbjct: 143 TTLGWRFVNPKMQALYGTESMGETAENLAEMYGIRREEQDRFALLSHQKAVRAWEEGRFQ 202
Query: 104 DHML 107
D ++
Sbjct: 203 DEVV 206
>pdb|1P9R|A Chain A, Crystal Structure Of Vibrio Cholerae Putative Ntpase Epse
pdb|1P9W|A Chain A, Crystal Structure Of Vibrio Cholerae Putative Ntpase Epse
Length = 418
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 5/34 (14%)
Query: 27 TLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMI 60
TLCPD K E D E+ K+ + KK+ P+I
Sbjct: 305 TLCPDCKEPYEADKEQ-RKLFDS----KKKEPLI 333
>pdb|3RH5|A Chain A, Dna Polymerase Beta Mutant (Y271) With A
Dideoxy-Terminated Primer With An Incoming
Deoxynucleotide (Dctp)
pdb|3RH6|A Chain A, Dna Polymerase Beta Mutant (Y271) With A
Dideoxy-Terminated Primer With An Incoming
Ribonucleotide (Rctp)
Length = 335
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 40 AEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAFAIFCTGKWDR 99
AE+I++ ++T L+K +++ Q+ S +T++ G+G AA F +
Sbjct: 70 AEKIDEFLATGKLRK-----LEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLED 124
Query: 100 VRPTDHMLNYY 110
+R + LN++
Sbjct: 125 LRKNEDKLNHH 135
>pdb|4F5N|A Chain A, Open Ternary Complex Of R283k Dna Polymerase Beta With A
Metal Free Dctp Analog
pdb|4F5O|A Chain A, Open Ternary Complex Of R283k Dna Polymerase Beta With A
One Metal Bound Dctp Analog
pdb|4F5P|A Chain A, Open Ternary Mismatch Complex Of R283k Dna Polymerase Beta
With A Datp Analog
pdb|4F5Q|A Chain A, Closed Ternary Complex Of R283k Dna Polymerase Beta
pdb|4F5R|A Chain A, Open And Closed Ternary Complex Of R283k Dna Polymerase
Beta With A Dctp Analog In The Same Asymmetric Unit
pdb|4F5R|B Chain B, Open And Closed Ternary Complex Of R283k Dna Polymerase
Beta With A Dctp Analog In The Same Asymmetric Unit
pdb|4GXI|A Chain A, R283k Dna Polymerase Beta Binary Complex With A Templating
8og
pdb|4GXJ|A Chain A, R283k Dna Polymerase Beta Ternary Complex With A
Templating 8og And Incoming Dctp Analog
pdb|4GXK|A Chain A, R283k Dna Polymerase Beta Ternary Complex With A
Templating 8og And Incoming Datp Analog
Length = 335
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 40 AEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAFAIFCTGKWDR 99
AE+I++ ++T L+K +++ Q+ S +T++ G+G AA F +
Sbjct: 70 AEKIDEFLATGKLRK-----LEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLED 124
Query: 100 VRPTDHMLNYY 110
+R + LN++
Sbjct: 125 LRKNEDKLNHH 135
>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 = 3.4, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 40 AEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAFAIFCTGKWDR 99
AE+I++ ++T L+K +++ Q+ S +T++ G+G AA F +
Sbjct: 70 AEKIDEFLATGKLRK-----LEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLED 124
Query: 100 VRPTDHMLNYY 110
+R + LN++
Sbjct: 125 LRKNEDKLNHH 135
>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 = 3.4, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 40 AEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQLHGVGKYAADAFAIFCTGKWDR 99
AE+I++ ++T L+K +++ Q+ S +T++ G+G AA F +
Sbjct: 61 AEKIDEFLATGKLRK-----LEKIRQDDTSSSINFLTRVSGIGPSAARKFVDEGIKTLED 115
Query: 100 VRPTDHMLNYY 110
+R + LN++
Sbjct: 116 LRKNEDKLNHH 126
>pdb|3Q6P|A Chain A, Salivary Protein From Lutzomyia Longipalpis.
Selenomethionine Derivative
pdb|3Q6P|B Chain B, Salivary Protein From Lutzomyia Longipalpis.
Selenomethionine Derivative
Length = 381
Score = 26.6 bits (57), Expect = 4.2, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 6/44 (13%)
Query: 34 TATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQ 77
T EVD + ++LG++ K +P++ +FS G+ T + Q
Sbjct: 54 TLAEVDTK------NSLGVKGKHSPLLNKFSGHKTGKELTSIYQ 91
>pdb|3Q6K|A Chain A, Salivary Protein From Lutzomyia Longipalpis
pdb|3Q6K|B Chain B, Salivary Protein From Lutzomyia Longipalpis
pdb|3Q6T|A Chain A, Salivary Protein From Lutzomyia Longipalpis, Ligand Free
pdb|3Q6T|B Chain B, Salivary Protein From Lutzomyia Longipalpis, Ligand Free
Length = 381
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 6/44 (13%)
Query: 34 TATEVDAEEIEKIISTLGLQKKRAPMIKRFSQEYLGESWTHVTQ 77
T EVD + ++LG++ K +P++ +FS G+ T + Q
Sbjct: 54 TLAEVDTK------NSLGVKGKHSPLLNKFSGHKTGKELTSIYQ 91
>pdb|1FFU|B Chain B, Carbon Monoxide Dehydrogenase From Hydrogenophaga
Pseudoflava Which Lacks The Mo-Pyranopterin Moiety Of
The Molybdenum Cofactor
pdb|1FFU|E Chain E, Carbon Monoxide Dehydrogenase From Hydrogenophaga
Pseudoflava Which Lacks The Mo-Pyranopterin Moiety Of
The Molybdenum Cofactor
pdb|1FFV|B Chain B, Carbon Monoxide Dehydrogenase From Hydrogenophaga
Pseudoflava
pdb|1FFV|E Chain E, Carbon Monoxide Dehydrogenase From Hydrogenophaga
Pseudoflava
Length = 803
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 6/54 (11%)
Query: 8 RLKEIAILLKAGRVISDLFTLCPDAKTATEVDAEEIEKIISTLGLQKKRAPMIK 61
+++E+AI VI+D + DA A +V+ +E+ +I + K AP+++
Sbjct: 111 QMQEVAI------VIADDRYIAADAVEAVKVEYDELPVVIDPIDALKPDAPVLR 158
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
0.322 0.136 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,471,541
Number of Sequences: 62578
Number of extensions: 122347
Number of successful extensions: 343
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 332
Number of HSP's gapped (non-prelim): 21
length of query: 121
length of database: 14,973,337
effective HSP length: 83
effective length of query: 38
effective length of database: 9,779,363
effective search space: 371615794
effective search space used: 371615794
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)