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= 046889
(333 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TCS|A Chain A, Crystal Structure Of A Putative Racemase From Roseobacter
Denitrificans
pdb|3TCS|B Chain B, Crystal Structure Of A Putative Racemase From Roseobacter
Denitrificans
Length = 388
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 33/79 (41%), Gaps = 9/79 (11%)
Query: 43 RTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKFLEDEVKVNKTC 102
R EA++L R D Q R G + WP + +EIIPT + L D+V
Sbjct: 148 RDEAERLKRLR-DTQGFTAFKVRAGAEVGRNRDEWPGRTEEIIPTMRRELGDDVD----- 201
Query: 103 LGGLCVDLKSRYKLSREAE 121
L +D S Y R E
Sbjct: 202 ---LLIDANSCYTPDRAIE 217
>pdb|3NE6|A Chain A, Rb69 Dna Polymerase (S565gY567A) TERNARY COMPLEX WITH DCTP
OPPOSITE Dg
pdb|3NHG|A Chain A, Rb69 Dna Polymerase (S565gY567A) TERNARY COMPLEX WITH DTTP
OPPOSITE Dg
Length = 903
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3SPY|A Chain A, Rb69 Dna Polymerase(L415aL561AS565GY567A) TERNARY COMPLEX
WITH Dupcpp Opposite Da
Length = 901
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3RWU|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite Difluorotoluene Nucleoside
pdb|3QNN|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dgt
Opposite 3tco
pdb|3QNO|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite 3tco
Length = 901
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3SPZ|A Chain A, Dna Polymerase(L415aL561AS565GY567A) TERNARY COMPLEX WITH
DUPCPP Opposite Da (Ca2+)
pdb|4FJ5|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/dt
pdb|4FJ7|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/dt
pdb|4FJ8|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/dt
pdb|4FJ9|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/dt
pdb|4FJG|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/dc
pdb|4FJH|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/dc
pdb|4FJI|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/dc
pdb|4FJJ|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/dc
pdb|4FJK|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/da
pdb|4FJL|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/da
pdb|4FJN|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/da
pdb|4FJX|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp/dg
pdb|4FK0|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/dg
pdb|4FK2|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp/dg
pdb|4FK4|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp/dg
Length = 903
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3LZI|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite 7,8- Dihydro-8-Oxoguanine
pdb|3LZJ|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite 7,8- Dihydro-8-Oxoguanine
pdb|3NAE|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Datp
Opposite Guanidinohydantoin
pdb|3NDK|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite Dg
pdb|3NGI|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp
Opposite Dg
pdb|3SUP|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite 2ap (Gc Rich Sequence)
Length = 903
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|1IG9|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase
pdb|1Q9X|A Chain A, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|1Q9X|B Chain B, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|1Q9X|C Chain C, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|1Q9X|D Chain D, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With Tetrahydrofuran Containing Dna
pdb|2ATQ|A Chain A, Rb69 Single-Stranded Dna Binding Protein-Dna Polymerase
Fusion
pdb|2OYQ|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OYQ|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OYQ|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OYQ|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nimp Opposite An Abasic Site Analog
pdb|2OZM|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With 5-
Nitp Opposite An Abasic Site Analog
pdb|2OZS|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Datp Opposite Dtmp
pdb|3NCI|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite Dg
At 1.8 Angstrom Resolution
pdb|4DU1|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite Dt
pdb|4DU3|A Chain A, Rb69 Dna Polymerase Ternary Complex With Ddtp Opposite Dt
With 3- Deaza-Adenine At The N-1 Position Of Template
Strand
pdb|4DU4|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite Dt
With 3- Deaza-Adenine At The N-3 Position Of Primer
Strand
Length = 903
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3SUN|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp
Opposite 2ap (At Rich Sequence)
Length = 895
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3SQ1|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dupcpp Opposite
Da
Length = 901
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3SCX|A Chain A, Rb69 Dna Polymerase Triple Mutant(L561aS565GY567A) TERNARY
COMPLEX With Dupnpp And A Deoxy-Terminated Primer In The
Presence Of Ca2+
pdb|3SI6|A Chain A, Rb69 Dna Polymerase Triple Mutant (L561aS565GY567A)
TERNARY COMPLEX With Dupnpp And A Deoxy-Terminated
Primer In The Presence Of Mg2+
pdb|3SJJ|A Chain A, Rb69 Dna Polymerase Triple Mutant (L561aS565GY567A)
TERNARY COMPLEX With Dupnpp And A Deoxy-Terminated
Primer In The Presence Of Mn2+
pdb|3SNN|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DCTP Opposite Dg In The Presence Of Mg2+
Length = 903
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3LDS|A Chain A, Crystal Structure Of Rb69 Gp43 With Dna And Datp Opposite
8-
Length = 903
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|4DTJ|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite An
Abasic Site And DdtDA AS THE PENULTIMATE BASE-Pair
pdb|4DTM|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite An
Abasic Site And DdgDC AS THE PENULTIMATE BASE-Pair
Length = 901
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3CQ8|A Chain A, Ternary Complex Of The L415f Mutant Rb69 Exo(-)polymerase
Length = 903
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3QEP|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DTTP Opposite Difluorotoluene Nucleoside
pdb|3S9H|A Chain A, Rb69 Dna Polymerase Triple Mutant(L561aS565GY567A) TERNARY
COMPLEX With Dupnpp And A Dideoxy-Terminated Primer In
The Presence Of Ca2+
pdb|3SQ0|A Chain A, Dna Polymerase(L561aS565GY567A) TERNARY COMPLEX WITH
DUPNPP OPPOSITE Da (Mn2+)
pdb|3QEI|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DCTP Opposite Difluorotoluene Nucleoside
pdb|3QER|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DATP Opposite Difluorotoluene Nucleoside
pdb|3QES|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DGTP Opposite Difluorotoluene Nucleoside
pdb|3QET|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DTTP Opposite Dt
pdb|3QEV|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DCTP Opposite Dt
pdb|3QEW|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DDTP Opposite Dt
pdb|3QEX|A Chain A, Rb69 Dna Polymerase (L561aS565GY567A) TERNARY COMPLEX WITH
DGTP Opposite Dt
pdb|4E3S|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dqtp Opposite Dt
pdb|4DTN|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite An
Abasic Site And DdaDT AS THE PENULTIMATE BASE-Pair
pdb|4DTO|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite An
Abasic Site And DdaDT AS THE PENULTIMATE BASE-Pair
pdb|4DTP|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp Opposite An
Abasic Site And DdaDT AS THE PENULTIMATE BASE-Pair
pdb|4DTR|A Chain A, Rb69 Dna Polymerase Ternary Complex With Datp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4DTS|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4DTU|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dgtp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4DTX|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite An
Abasic Site And DdcDG AS THE PENULTIMATE BASE-Pair
pdb|4FJM|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dctp/da
Length = 903
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|1Q9Y|A Chain A, Crystal Structure Of Enterobacteria Phage Rb69 Gp43 Dna
Polymerase Complexed With 8-Oxoguanosine Containing Dna
Length = 906
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 464 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 523
Query: 92 -LEDEVK 97
DE+K
Sbjct: 524 DFSDEIK 530
>pdb|3SUQ|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dctp
Opposite 2ap (At Rich Sequence)
Length = 897
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3SQ2|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite 2ap
(At Rich Sequence)
pdb|3SQ4|A Chain A, Rb69 Dna Polymerase Ternary Complex With Dttp Opposite 2ap
(Gc Rich Sequence)
Length = 902
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|2DTU|A Chain A, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|B Chain B, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|C Chain C, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
pdb|2DTU|D Chain D, Crystal Structure Of The Beta Hairpin Loop Deletion
Variant Of Rb69 Gp43 In Complex With Dna Containing An
Abasic Site Analog
Length = 896
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 454 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 513
Query: 92 -LEDEVK 97
DE+K
Sbjct: 514 DFSDEIK 520
>pdb|3SUO|A Chain A, Rb69 Dna Polymerase (Y567a) Ternary Complex With Dttp
Opposite 2ap (Gc Rich Sequence)
Length = 900
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|1WAF|A Chain A, Dna Polymerase From Bacteriophage Rb69
pdb|1WAF|B Chain B, Dna Polymerase From Bacteriophage Rb69
pdb|1CLQ|A Chain A, Crystal Structure Of A Replication Fork Dna Polymerase
Editing Complex At 2.7 A Resolution
pdb|1IH7|A Chain A, High-Resolution Structure Of Apo Rb69 Dna Polymerase
pdb|1WAJ|A Chain A, Dna Polymerase From Bacteriophage Rb69
pdb|3UIQ|A Chain A, Rb69 Dna Polymerase Ternary Complex Containing Dupnpp
Length = 903
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3L8B|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
The Oxidized Guanine Lesion Guanidinohydantoin
pdb|3L8B|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
The Oxidized Guanine Lesion Guanidinohydantoin
pdb|3RMA|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMA|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMA|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMA|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMB|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMC|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|A Chain A, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|B Chain B, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|C Chain C, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3RMD|D Chain D, Crystal Structure Of A Replicative Dna Polymerase Bound To
Dna Containing Thymine Glycol
pdb|3TAB|A Chain A, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAB|B Chain B, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAB|C Chain C, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAB|D Chain D, 5-Hydroxycytosine Paired With Dgmp In Rb69 Gp43
pdb|3TAE|A Chain A, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAE|B Chain B, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAE|C Chain C, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAE|D Chain D, 5-Hydroxycytosine Paired With Damp In Rb69 Gp43
pdb|3TAF|A Chain A, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAF|B Chain B, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAF|C Chain C, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAF|D Chain D, 5-Fluorocytosine Paired With Ddgmp In Rb69 Gp43
pdb|3TAG|A Chain A, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
pdb|3TAG|B Chain B, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
pdb|3TAG|C Chain C, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
pdb|3TAG|D Chain D, 5-Fluorocytosine Paired With Damp In Rb69 Gp43
Length = 906
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3CFO|A Chain A, Triple Mutant Apo Structure
pdb|3CFP|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase, Ternary Complex 1
pdb|3CFR|A Chain A, Structure Of The Replicating Complex Of A Pol Alpha Family
Dna Polymerase, Ternary Complex 2
Length = 909
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K+ + R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|3KD1|E Chain E, Closed Binary Complex Of An Rb69 Gp43 Fingers Domain
Mutant Complexed With An Acyclic Gmp Terminated Primer
Template Pair.
pdb|3KD5|E Chain E, Closed Ternary Complex Of An Rb69 Gp43 Fingers Domain
Mutant Complexed With An Acyclic Gmp Terminated Primer
Template Pair And Phosphonoformic Acid
Length = 913
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 32 LCKYKHYIEALRTEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF 91
+ YK + TE K R + + + AA RNGE IK+ + VDE + +F
Sbjct: 461 MMYYKDRDGVVPTEITKWVSQRKEHKGYMLAAQRNGEIIKEALHNPNLSVDEPLDVDYRF 520
Query: 92 -LEDEVK 97
DE+K
Sbjct: 521 DFSDEIK 527
>pdb|4ED9|A Chain A, Crystal Structure Of A CaibBAIF FAMILY PROTEIN FROM
BRUCELLA SUIS
Length = 385
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 30/136 (22%), Positives = 55/136 (40%), Gaps = 21/136 (15%)
Query: 102 CLGGLCVDLKSRYKLSREAEEKILAISALIAAGNFGKDVSRPAPPPAIISLSEGFYNFK- 160
C+ G+ + Y S ++ +++ GN +++ P +S+S+G++
Sbjct: 211 CMSGVLANQAMNYLASGKSPKRM---------GNAHPNIA----PYQTLSVSDGYFIIAC 257
Query: 161 ------SRESTMKDIMEAMKDEKVSXXXXXXXXXXXKTTLVKEIQKQAKEKKMFDEVAMA 214
+ ST+ I E KDE+ + T L++E KQ K + E+A
Sbjct: 258 GNDGQFGKLSTLLGIGELAKDERFATNSARVANRAALTALLEERTKQWKRDDLLAELAKI 317
Query: 215 VVSQTPSITKIQDEIA 230
V P I + D A
Sbjct: 318 GVPAGP-INTVADVFA 332
>pdb|2DY4|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2DY4|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2DY4|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2DY4|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing Thymine Glycol
pdb|2P5O|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5O|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5O|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5O|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna
Containing An Abasic Site Analog
pdb|2P5G|A Chain A, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
pdb|2P5G|B Chain B, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
pdb|2P5G|C Chain C, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
pdb|2P5G|D Chain D, Crystal Structure Of Rb69 Gp43 In Complex With Dna With
Damp Opposite An Abasic Site Analog In A 21mer Template
Length = 903
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 44 TEAKKLTDTRNDLQAEIDAATRNGEAIKDEVQRWPDKVDEIIPTAEKF-LEDEVK 97
TE K+ + R + + AA RNGE IK+ + VDE + +F DE+K
Sbjct: 473 TEITKVFNQRKEHKGYXLAAQRNGEIIKEALHNPNLSVDEPLDVDYRFDFSDEIK 527
>pdb|3DNF|A Chain A, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate
Reductase, The Terminal Enzyme Of The Non-mevalonate
Pathway
pdb|3DNF|B Chain B, Structure Of (e)-4-hydroxy-3-methyl-but-2-enyl Diphosphate
Reductase, The Terminal Enzyme Of The Non-mevalonate
Pathway
Length = 297
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 30/65 (46%)
Query: 165 TMKDIMEAMKDEKVSXXXXXXXXXXXKTTLVKEIQKQAKEKKMFDEVAMAVVSQTPSITK 224
T++DI EA+K E+V +V EI KE K+ + + A + S+ K
Sbjct: 146 TLEDIGEALKHERVGIVAQTTQNEEFFKEVVGEIALWVKEVKVINTICNATSLRQESVKK 205
Query: 225 IQDEI 229
+ E+
Sbjct: 206 LAPEV 210
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.132 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,668,962
Number of Sequences: 62578
Number of extensions: 320880
Number of successful extensions: 939
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 917
Number of HSP's gapped (non-prelim): 28
length of query: 333
length of database: 14,973,337
effective HSP length: 99
effective length of query: 234
effective length of database: 8,778,115
effective search space: 2054078910
effective search space used: 2054078910
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)