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= 023155
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SFC|D Chain D, Neuronal Synaptic Fusion Complex
pdb|1SFC|H Chain H, Neuronal Synaptic Fusion Complex
pdb|1SFC|L Chain L, Neuronal Synaptic Fusion Complex
Length = 87
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 49/79 (62%)
Query: 207 QKVETGIYLRVIKTRWRKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADV 266
Q +G ++R + R+ + D+ L +S I+G+L+ MA+DMG+E+D QN+ +D +
Sbjct: 7 QMAISGGFIRRVTNDARENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKA 66
Query: 267 DELNSRVKGANQRARHLLG 285
D +R+ ANQRA +LG
Sbjct: 67 DSNKTRIDEANQRATKMLG 85
>pdb|3ZUR|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc0-A-Snap25-Hn-A
pdb|3ZUR|B Chain B, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc0-A-Snap25-Hn-A
Length = 960
Score = 55.8 bits (133), Expect = 2e-08, Method: Composition-based stats.
Identities = 25/60 (41%), Positives = 40/60 (66%)
Query: 226 KQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARHLLG 285
+ D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA +LG
Sbjct: 451 EMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATKMLG 510
>pdb|1N7S|D Chain D, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 66
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 42/63 (66%)
Query: 223 RKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARH 282
R+ + D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA
Sbjct: 4 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 63
Query: 283 LLG 285
+LG
Sbjct: 64 MLG 66
>pdb|1URQ|D Chain D, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
Length = 69
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 42/63 (66%)
Query: 223 RKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARH 282
R+ + D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA
Sbjct: 7 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 66
Query: 283 LLG 285
+LG
Sbjct: 67 MLG 69
>pdb|3HD7|D Chain D, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|H Chain H, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|D Chain D, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|H Chain H, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 68
Score = 54.3 bits (129), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 42/63 (66%)
Query: 223 RKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARH 282
R+ + D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA
Sbjct: 6 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 65
Query: 283 LLG 285
+LG
Sbjct: 66 MLG 68
>pdb|1KIL|D Chain D, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 66
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 41/62 (66%)
Query: 223 RKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARH 282
R+ + D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA
Sbjct: 4 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 63
Query: 283 LL 284
+L
Sbjct: 64 ML 65
>pdb|1XTG|B Chain B, Crystal Structure Of Neurotoxin BontA COMPLEXED WITH
Synaptosomal-Associated Protein 25
Length = 59
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 39/58 (67%)
Query: 228 DDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARHLLG 285
D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA +LG
Sbjct: 2 DENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATKMLG 59
>pdb|3RK2|D Chain D, Truncated Snare Complex
pdb|3RK2|H Chain H, Truncated Snare Complex
pdb|3RK3|D Chain D, Truncated Snare Complex With Complexin
pdb|3RL0|D Chain D, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|H Chain H, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|L Chain L, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|P Chain P, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|T Chain T, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|X Chain X, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|BB Chain b, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|FF Chain f, Truncated Snare Complex With Complexin (P1)
Length = 65
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 41/62 (66%)
Query: 223 RKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARH 282
R+ + D+ L +S I+G+L+ MA+DMG+E+D QN+ +D + D +R+ ANQRA
Sbjct: 4 RENEMDENLEQVSGIIGNLRHMALDMGNEIDTQNRQIDRIMEKADSNKTRIDEANQRATK 63
Query: 283 LL 284
+L
Sbjct: 64 ML 65
>pdb|1L4A|D Chain D, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 87
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 44/71 (61%)
Query: 214 YLRVIKTRWRKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRV 273
Y+ I R+ ++ + ++S+++G+L+ MA+DMG+E+ QN+ +D + + SR+
Sbjct: 15 YVTRITNDAREDDMENNMKEVSSMIGNLRNMAIDMGNEIGSQNRQVDRIQQKAESNESRI 74
Query: 274 KGANQRARHLL 284
AN++A LL
Sbjct: 75 DEANKKATKLL 85
>pdb|3ZUS|A Chain A, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc-A-Snap23-Hn-A
pdb|3ZUS|B Chain B, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc-A-Snap23-Hn-A
pdb|3ZUS|C Chain C, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc-A-Snap23-Hn-A
pdb|3ZUS|D Chain D, Crystal Structure Of An Engineered Botulinum Neurotoxin
Type A-Snare23 Derivative, Lc-A-Snap23-Hn-A
Length = 927
Score = 44.7 bits (104), Expect = 6e-05, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 38/59 (64%)
Query: 226 KQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDADVDELNSRVKGANQRARHLL 284
+ ++ L+ + +ILG+LK MA+++G+E+D QN+ + + D R+ AN RA+ L+
Sbjct: 434 EMEENLTQVGSILGNLKDMALNIGNEIDAQNRQIKRITDKADTNRDRIDIANARAKKLI 492
>pdb|1JTH|A Chain A, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
pdb|1JTH|C Chain C, Crystal Structure And Biophysical Properties Of A Complex
Between The N-Terminal Region Of Snap25 And The Snare
Region Of Syntaxin 1a
Length = 82
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 40/72 (55%)
Query: 74 VQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNMVTDTEKD 133
++E++ A A+E+ S L++ E ++ +TL ML +QGEQ+ R + KD
Sbjct: 11 LEEMQRRADQLADESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLERIEEGMDQINKD 70
Query: 134 LSKGEKQLNNLG 145
+ + EK L +LG
Sbjct: 71 MKEAEKNLTDLG 82
>pdb|1N7S|C Chain C, High Resolution Structure Of A Truncated Neuronal Snare
Complex
Length = 79
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 44/79 (55%), Gaps = 1/79 (1%)
Query: 67 GGLENQSVQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNM 126
G + N+ ++E++ A A+E+ S L++ E ++ +TL ML +QGEQ+ R
Sbjct: 1 GSMRNE-LEEMQRRADQLADESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEG 59
Query: 127 VTDTEKDLSKGEKQLNNLG 145
+ +D+ + EK L +LG
Sbjct: 60 MNHINQDMKEAEKNLKDLG 78
>pdb|1SFC|C Chain C, Neuronal Synaptic Fusion Complex
pdb|1SFC|G Chain G, Neuronal Synaptic Fusion Complex
pdb|1SFC|K Chain K, Neuronal Synaptic Fusion Complex
Length = 83
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%)
Query: 74 VQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNMVTDTEKD 133
++E++ A A+E+ S L++ E ++ +TL ML +QGEQ+ R + +D
Sbjct: 11 LEEMQRRADQLADESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQD 70
Query: 134 LSKGEKQLNNLG 145
+ + EK L +LG
Sbjct: 71 MKEAEKNLKDLG 82
>pdb|3RK2|C Chain C, Truncated Snare Complex
pdb|3RK2|G Chain G, Truncated Snare Complex
pdb|3RK3|C Chain C, Truncated Snare Complex With Complexin
pdb|3RL0|C Chain C, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|G Chain G, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|K Chain K, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|O Chain O, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|S Chain S, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|W Chain W, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|AA Chain a, Truncated Snare Complex With Complexin (P1)
pdb|3RL0|EE Chain e, Truncated Snare Complex With Complexin (P1)
Length = 81
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%)
Query: 74 VQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNMVTDTEKD 133
++E++ A A+E+ S L++ E ++ +TL ML +QGEQ+ R + +D
Sbjct: 9 LEEMQRRADQLADESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQD 68
Query: 134 LSKGEKQLNNLG 145
+ + EK L +LG
Sbjct: 69 MKEAEKNLKDLG 80
>pdb|1URQ|C Chain C, Crystal Structure Of Neuronal Q-Snares In Complex With
R-Snare Motif Of Tomosyn
pdb|3HD7|C Chain C, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3HD7|G Chain G, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup C 1 2 1
pdb|3IPD|C Chain C, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
pdb|3IPD|G Chain G, Helical Extension Of The Neuronal Snare Complex Into The
Membrane, Spacegroup I 21 21 21
Length = 80
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%)
Query: 74 VQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNMVTDTEKD 133
++E++ A A+E+ S L++ E ++ +TL ML +QGEQ+ R + +D
Sbjct: 8 LEEMQRRADQLADESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQD 67
Query: 134 LSKGEKQLNNLG 145
+ + EK L +LG
Sbjct: 68 MKEAEKNLKDLG 79
>pdb|1KIL|C Chain C, Three-Dimensional Structure Of The ComplexinSNARE COMPLEX
Length = 74
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 40/72 (55%)
Query: 73 SVQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNMVTDTEK 132
S++E++ A A+E+ S L++ E ++ +TL ML +QGEQ+ R + +
Sbjct: 2 SLEEMQRRADQLADESLESTRRMLQLVEESKDAGIRTLVMLDEQGEQLDRVEEGMNHINQ 61
Query: 133 DLSKGEKQLNNL 144
D+ + EK L +L
Sbjct: 62 DMKEAEKNLKDL 73
>pdb|1L4A|C Chain C, X-Ray Structure Of The Neuronal ComplexinSNARE COMPLEX
From The Squid Loligo Pealei
Length = 83
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 3/74 (4%)
Query: 74 VQELENYAVYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNMVTDTEKD 133
++E++ +++ S L + E +E +TL ML +QGEQ+ R + +D
Sbjct: 11 LEEIQQQCNQVTDDSLESTRRMLNMCEESKEAGIRTLVMLDEQGEQLDRIEEGLDQINQD 70
Query: 134 LSKGEKQLNNLGGM 147
+ EK NL GM
Sbjct: 71 MKDAEK---NLEGM 81
>pdb|3NIE|A Chain A, Crystal Structure Of Pf11_0147
pdb|3NIE|B Chain B, Crystal Structure Of Pf11_0147
Length = 429
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 6/61 (9%)
Query: 161 AGPLDTPDHSSKKGVNKGEREKLGVAPVPKPRSAGRTPPPEPANAMQKVETGIYLRVIKT 220
PL +PDH+SKK K R++L + + TPP E + K E Y+++ T
Sbjct: 273 CFPL-SPDHNSKKVHEKSNRDQLNII-----FNVIGTPPEEDLKCITKQEVIKYIKLFPT 326
Query: 221 R 221
R
Sbjct: 327 R 327
>pdb|1GL2|D Chain D, Crystal Structure Of An Endosomal Snare Core Complex
Length = 65
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 24/37 (64%)
Query: 226 KQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHL 262
+QD L LS+I+ K M ++G+ELD QN+ +D L
Sbjct: 6 EQDAGLDALSSIISRQKQMGQEIGNELDEQNEIIDDL 42
>pdb|1J2Q|A Chain A, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
pdb|1J2Q|B Chain B, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
pdb|1J2Q|C Chain C, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
pdb|1J2Q|D Chain D, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
pdb|1J2Q|E Chain E, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
pdb|1J2Q|F Chain F, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
pdb|1J2Q|G Chain G, 20s Proteasome In Complex With Calpain-inhibitor I From
Archaeoglobus Fulgidus
Length = 237
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 9/73 (12%)
Query: 222 WRKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDAD--------VDELNSRV 273
+ K +DD D + +LG L M + + SEL +N + ++ D +EL V
Sbjct: 166 FEKEYRDDLSFDDAMVLG-LVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYV 224
Query: 274 KGANQRARHLLGK 286
+ AN+R R LL K
Sbjct: 225 ERANERIRELLKK 237
>pdb|1J2P|A Chain A, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
pdb|1J2P|B Chain B, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
pdb|1J2P|C Chain C, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
pdb|1J2P|D Chain D, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
pdb|1J2P|E Chain E, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
pdb|1J2P|F Chain F, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
pdb|1J2P|G Chain G, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus
Length = 246
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 36/73 (49%), Gaps = 9/73 (12%)
Query: 222 WRKPKQDDALSDLSNILGDLKGMAVDMGSELDRQNKSLDHLDAD--------VDELNSRV 273
+ K +DD D + +LG L M + + SEL +N + ++ D +EL V
Sbjct: 175 FEKEYRDDLSFDDAMVLG-LVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYV 233
Query: 274 KGANQRARHLLGK 286
+ AN+R R LL K
Sbjct: 234 ERANERIRELLKK 246
>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 = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 105 DATKTLDMLHQQGEQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSK 150
++TK +LHQ EQ+ + H +TDT LSKGE + + + SK
Sbjct: 203 ESTKQPKLLHQVVEQLQKVH-FITDT---LSKGETKFMGVCQLPSK 244
>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 = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 105 DATKTLDMLHQQGEQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSK 150
++TK +LHQ EQ+ + H +TDT LSKGE + + + SK
Sbjct: 203 ESTKQPKLLHQVVEQLQKVH-FITDT---LSKGETKFMGVCQLPSK 244
>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 = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 105 DATKTLDMLHQQGEQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSK 150
++TK +LHQ EQ+ + H +TDT LSKGE + + + SK
Sbjct: 203 ESTKQPKLLHQVVEQLQKVH-FITDT---LSKGETKFMGVCQLPSK 244
>pdb|3GDX|A Chain A, Dna Polymerase Beta With A Gapped Dnd Substrate And
Dtmp(Cf2)pp
Length = 326
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 105 DATKTLDMLHQQGEQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSK 150
++TK +LHQ EQ+ + H +TDT LSKGE + + + SK
Sbjct: 194 ESTKQPKLLHQVVEQLQKVH-FITDT---LSKGETKFMGVCQLPSK 235
>pdb|2R02|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE HIV-1
Ypltsl Late Domain
pdb|2R03|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE YPDL
Late Domain
pdb|2R05|A Chain A, Crystal Structure Of AlixAIP1 IN COMPLEX WITH THE HIV-1
Yplasl Late Domain
Length = 697
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 34/165 (20%), Positives = 67/165 (40%), Gaps = 19/165 (11%)
Query: 102 IREDATKTLDMLHQQG-EQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSKTWKPKKTRNI 160
I + +T+D L ++ E + R ++ ++ + L + E N+L F + W+ + +
Sbjct: 424 IEQGGIQTVDQLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNEL 483
Query: 161 AGPLDTPDHSSKKGVNKG-------------EREKLGVAPVPKPRSAGRTPPPEPANAMQ 207
PL + + ++K R+ + + P+P P PA MQ
Sbjct: 484 YKPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQ 543
Query: 208 KVETGIYLRVIKTRWRKPKQDDALSDLSNILGDLKGMAVDMGSEL 252
E L+ + + + K++ L N DLK + DM S+
Sbjct: 544 GSEVVNVLKSLLSNLDEVKKER--EGLEN---DLKSVNFDMTSKF 583
>pdb|2XS1|A Chain A, Crystal Structure Of Alix In Complex With The Sivmac239
Pykevtedl Late Domain
pdb|2XS8|A Chain A, Crystal Structure Of Alix In Complex With The Sivagmtan-1
Aydparkll Late Domain
Length = 704
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 34/165 (20%), Positives = 67/165 (40%), Gaps = 19/165 (11%)
Query: 102 IREDATKTLDMLHQQG-EQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSKTWKPKKTRNI 160
I + +T+D L ++ E + R ++ ++ + L + E N+L F + W+ + +
Sbjct: 431 IEQGGIQTVDQLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNEL 490
Query: 161 AGPLDTPDHSSKKGVNKG-------------EREKLGVAPVPKPRSAGRTPPPEPANAMQ 207
PL + + ++K R+ + + P+P P PA MQ
Sbjct: 491 YKPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQ 550
Query: 208 KVETGIYLRVIKTRWRKPKQDDALSDLSNILGDLKGMAVDMGSEL 252
E L+ + + + K++ L N DLK + DM S+
Sbjct: 551 GSEVVNVLKSLLSNLDEVKKER--EGLEN---DLKSVNFDMTSKF 590
>pdb|2OEV|A Chain A, Crystal Structure Of AlixAIP1
Length = 705
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 34/165 (20%), Positives = 67/165 (40%), Gaps = 19/165 (11%)
Query: 102 IREDATKTLDMLHQQG-EQIHRTHNMVTDTEKDLSKGEKQLNNLGGMFSKTWKPKKTRNI 160
I + +T+D L ++ E + R ++ ++ + L + E N+L F + W+ + +
Sbjct: 432 IEQGGIQTVDQLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNEL 491
Query: 161 AGPLDTPDHSSKKGVNKG-------------EREKLGVAPVPKPRSAGRTPPPEPANAMQ 207
PL + + ++K R+ + + P+P P PA MQ
Sbjct: 492 YKPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQ 551
Query: 208 KVETGIYLRVIKTRWRKPKQDDALSDLSNILGDLKGMAVDMGSEL 252
E L+ + + + K++ L N DLK + DM S+
Sbjct: 552 GSEVVNVLKSLLSNLDEVKKER--EGLEN---DLKSVNFDMTSKF 591
>pdb|1JPU|A Chain A, Crystal Structure Of Bacillus Stearothermophilus Glycerol
Dehydrogenase
pdb|1JQA|A Chain A, Bacillus Stearothermophilus Glycerol Dehydrogenase Complex
With Glycerol
pdb|1JQ5|A Chain A, Bacillus Stearothermophilus Glycerol Dehydrogenase Complex
With Nad+
Length = 370
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 9/89 (10%)
Query: 68 GLENQSVQELENYA-VYKAEETTNSVNNCLKIAENIREDATKTLDMLHQQGEQIHRTHNM 126
LE S QE+E Y +Y + ++ + +K+ + RED K +GE IH N+
Sbjct: 287 ALEEHSQQEIERYIELYLCLDLPVTLED-IKLKDASREDILKVAKAATAEGETIHNAFNV 345
Query: 127 VTDTEKDLSKGEKQLNNLGGMFSKTWKPK 155
D D Q ++K +K K
Sbjct: 346 TADDVADAIFAADQ-------YAKAYKEK 367
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
0.310 0.129 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,809,676
Number of Sequences: 62578
Number of extensions: 372718
Number of successful extensions: 733
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 698
Number of HSP's gapped (non-prelim): 53
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)