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= 000107
(2191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XO7|A Chain A, Crystal Structure Of A Da:o-Allylhydroxylamine-Dc Basepair
In Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 580
Score = 233 bits (594), Expect = 9e-61, Method: Compositional matrix adjust.
Identities = 156/430 (36%), Positives = 226/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++LR +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGEELAEQLRTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKSKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + RLLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQARLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|2XY6|A Chain A, Crystal Structure Of A Salicylic Aldehyde Basepair In
Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 581
Score = 233 bits (594), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 156/430 (36%), Positives = 226/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++LR +E++ Y LAG +F++ + + +L+ L
Sbjct: 188 SILAEMEFAGVKVDTKRLEQMGEELAEQLRTVEQRIYELAGQEFNINSPKQLGVILFEKL 247
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 248 QLPV---LKKSKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 302
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 303 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 343
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 344 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 402
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 403 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 462
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 463 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 517
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + RLLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 518 ----------ARLKEERLQARLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 567
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 568 KVDYHYGSTW 577
>pdb|2XY5|A Chain A, Crystal Structure Of An Artificial Salen-Copper Basepair In
Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 581
Score = 233 bits (593), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 156/430 (36%), Positives = 226/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++LR +E++ Y LAG +F++ + + +L+ L
Sbjct: 188 SILAEMEFAGVKVDTKRLEQMGEELAEQLRTVEQRIYELAGQEFNINSPKQLGVILFEKL 247
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 248 QLPV---LKKSKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 302
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 303 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 343
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 344 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 402
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 403 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 462
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 463 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 517
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + RLLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 518 ----------ARLKEERLQARLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 567
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 568 KVDYHYGSTW 577
>pdb|2XY7|A Chain A, Crystal Structure Of A Salicylic Aldehyde Base In The
Pre-Insertion Site Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus
Length = 580
Score = 233 bits (593), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 156/430 (36%), Positives = 226/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++LR +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGEELAEQLRTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKSKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + RLLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQARLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|2Y1I|A Chain A, Crystal Structure Of A S-Diastereomer Analogue Of The Spore
Photoproduct In Complex With Fragment Dna Polymerase I
From Bacillus Stearothermophilus
pdb|2Y1J|A Chain A, Crystal Structure Of A R-Diastereomer Analogue Of The Spore
Photoproduct In Complex With Fragment Dna Polymerase I
From Bacillus Stearothermophilus
Length = 580
Score = 230 bits (587), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 156/430 (36%), Positives = 225/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++LR +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLRTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNKGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + RLLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQARLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|3HP6|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From Bacillus
Stearothermophilus F710y Mutant Bound To G:t Mismatch
pdb|3HP6|D Chain D, Crystal Structure Of Fragment Dna Polymerase I From Bacillus
Stearothermophilus F710y Mutant Bound To G:t Mismatch
Length = 580
Score = 229 bits (583), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 155/430 (36%), Positives = 225/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + YGI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNYGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|3PV8|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddttp-Da In Closed Conformation
pdb|3PV8|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddttp-Da In Closed Conformation
pdb|3PX0|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Dctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX0|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Dctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX4|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Wobble) In
Ajar Conformation
pdb|3PX4|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Wobble) In
Ajar Conformation
pdb|3PX6|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3PX6|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddctp-Da Mismatch (Tautomer) In
Closed Conformation
pdb|3THV|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddatp-Dt In Closed Conformation
pdb|3THV|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddatp-Dt In Closed Conformation
pdb|3TI0|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddgtp-Dc In Closed Conformation
pdb|3TI0|D Chain D, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Dna And Ddgtp-Dc In Closed Conformation
pdb|4DSE|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
F710y, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mg2+
pdb|4DSE|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
F710y, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mg2+
pdb|4DSF|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
F710y, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mn2+
pdb|4DSF|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
F710y, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mn2+
Length = 592
Score = 229 bits (583), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 155/430 (36%), Positives = 225/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 199 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 258
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 259 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 313
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 314 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 354
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 355 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 413
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + YGI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 414 TPNMRRQAKAVNYGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 473
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 474 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 528
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 529 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 578
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 579 KVDYHYGSTW 588
>pdb|2HHW|A Chain A, Ddttp:o6-Methyl-Guanine Pair In The Polymerase Active Site,
In The Closed Conformation
pdb|2HHW|D Chain D, Ddttp:o6-Methyl-Guanine Pair In The Polymerase Active Site,
In The Closed Conformation
Length = 580
Score = 228 bits (582), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 155/430 (36%), Positives = 225/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + YGI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNYGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|2HVH|A Chain A, Ddctp:o6meg Pair In The Polymerase Active Site (0 Position)
pdb|2HVH|D Chain D, Ddctp:o6meg Pair In The Polymerase Active Site (0 Position)
pdb|2HVI|A Chain A, Ddctp:g Pair In The Polymerase Active Site (0 Position)
pdb|2HVI|D Chain D, Ddctp:g Pair In The Polymerase Active Site (0 Position)
pdb|3EZ5|A Chain A, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I
With Duplex Dna , Dctp, And Zinc (Closed Form).
pdb|3EZ5|D Chain D, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I
With Duplex Dna , Dctp, And Zinc (Closed Form)
Length = 580
Score = 228 bits (582), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 155/430 (36%), Positives = 225/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + YGI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNYGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|3EYZ|A Chain A, Cocrystal Structure Of Bacillus Fragment Dna Polymerase I
With Duplex Dna (Open Form)
Length = 580
Score = 228 bits (581), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 155/430 (36%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + YGI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNYGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|4DQI|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Dctp (Paired With Dg Of Template)
pdb|4DQI|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Dctp (Paired With Dg Of Template)
pdb|4DQP|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Ddctp (Paired With Dg Of Template)
pdb|4DQP|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Ddctp (Paired With Dg Of Template)
pdb|4DS4|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Rctp In Presence Of Mn2+
pdb|4DS4|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Rctp In Presence Of Mn2+
pdb|4DS5|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Rctp In Presence Of Mg2+
pdb|4DS5|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment,
Dna Duplex, And Rctp In Presence Of Mg2+
Length = 592
Score = 227 bits (579), Expect = 5e-59, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 225/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 199 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 258
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 259 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 313
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 314 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 354
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 355 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 413
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 414 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 473
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 474 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 528
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 529 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 578
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 579 KVDYHYGSTW 588
>pdb|3TAN|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-1) Position
pdb|3TAP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-3) Position
pdb|3TAQ|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-4) Position
pdb|3TAR|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Large
Fragment Bound To Duplex Dna With Cytosine-Adenine
Mismatch At (N-6) Position
pdb|4DQS|A Chain A, Binary Complex Of Bacillus Dna Polymerase I Large Fragment
And Duplex Dna With Rc In Primer Terminus Paired With Dg
Of Template
Length = 592
Score = 226 bits (577), Expect = 8e-59, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 199 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 258
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 259 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 313
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 314 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 354
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 355 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 413
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 414 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 473
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 474 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 528
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 529 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 578
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 579 KVDYHYGSTW 588
>pdb|1L3S|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 9 Base Pairs Of Duplex Dna.
pdb|1L3T|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 10 Base Pairs Of Duplex Dna
Following Addition Of A Single Dttp Residue
pdb|1L3U|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 11 Base Pairs Of Duplex Dna
Following Addition Of A Dttp And A Datp Residue.
pdb|1L3V|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 15 Base Pairs Of Duplex Dna
Following Addition Of Dttp, Datp, Dctp, And Dgtp
Residues.
pdb|1L5U|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Product Complex With 12 Base Pairs Of Duplex Dna
Following Addition Of A Dttp, A Datp, And A Dctp Residue.
pdb|1NJW|A Chain A, Guanine-Thymine Mismatch At The Polymerase Active Site
pdb|1NJX|A Chain A, Thymine-Guanine Mismatch At The Polymerase Active Site
pdb|1NJY|A Chain A, Thymine-Thymine Mismatch At The Polymerase Active Site
pdb|1NJZ|A Chain A, Cytosine-thymine Mismatch At The Polymerase Active Site
pdb|1NK0|A Chain A, Adenine-Guanine Mismatch At The Polymerase Active Site
pdb|1NK4|A Chain A, Guanine-Guanine Mismatch At The Polymerase Active Site
pdb|1NK5|A Chain A, Adenine-Adenine Mismatch At The Polymerase Active Site
pdb|1NK6|A Chain A, Cytosine-Cytosine Mismatch At The Polymerase Active Site
pdb|1NK7|A Chain A, Guanine-Adenine Mismatch At The Polymerase Active Site
pdb|1NK8|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After A Single Round Of Primer
Extension, Following Incorporation Of Dctp.
pdb|1NK9|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After Two Rounds Of Primer
Extension, Following Incorporation Of Dctp And Dgtp.
pdb|1NKB|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After Three Rounds Of Primer
Extension, Following Incorporation Of Dctp, Dgtp, And
Dttp.
pdb|1NKC|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Guanine-Thymine Mismatch After Five Rounds Of Primer
Extension, Following Incorporation Of Dctp, Dgtp, Dttp,
And Datp.
pdb|1NKE|A Chain A, A Bacillus Dna Polymerase I Product Complex Bound To A
Cytosine-Thymine Mismatch After A Single Round Of Primer
Extension, Following Incorporation Of Dctp.
pdb|1XC9|A Chain A, Structure Of A High-Fidelity Polymerase Bound To A
Benzo[a]pyrene Adduct That Blocks Replication
pdb|1XWL|A Chain A, Bacillus Stearothermophilus (Newly Identified Strain As Yet
Unnamed) Dna Polymerase Fragment
Length = 580
Score = 226 bits (577), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|3BDP|A Chain A, Dna Polymerase IDNA COMPLEX
pdb|4BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 11 Base Pairs Of Duplex Dna After Addition
Of Two Datp Residues
pdb|2BDP|A Chain A, Crystal Structure Of Bacillus Dna Polymerase I Fragment
Complexed To 9 Base Pairs Of Duplex Dna
Length = 580
Score = 226 bits (577), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|1U45|A Chain A, 8oxoguanine At The Pre-Insertion Site Of The Polymerase
Active Site
pdb|1U47|A Chain A, Cytosine-8-Oxoguanine Base Pair At The Polymerase Active
Site
pdb|1U48|A Chain A, Extension Of A Cytosine-8-Oxoguanine Base Pair
pdb|1U49|A Chain A, Adenine-8oxoguanine Mismatch At The Polymerase Active Site
pdb|1U4B|A Chain A, Extension Of An Adenine-8oxoguanine Mismatch
pdb|1UA0|A Chain A, Aminofluorene Dna Adduct At The Pre-Insertion Site Of A Dna
Polymerase
pdb|1UA1|A Chain A, Structure Of Aminofluorene Adduct Paired Opposite Cytosine
At The Polymerase Active Site
Length = 580
Score = 226 bits (577), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|2HHQ|A Chain A, O6-Methyl-Guanine:t Pair In The Polymerase-10 Basepair
Position
pdb|2HHS|A Chain A, O6-Methyl:c Pair In The Polymerase-10 Basepair Position
pdb|2HHT|A Chain A, C:o6-Methyl-Guanine Pair In The Polymerase-2 Basepair
Position
pdb|2HHU|A Chain A, C:o6-Methyl-Guanine In The Polymerase Postinsertion Site (-
1 Basepair Position)
pdb|2HHV|A Chain A, T:o6-Methyl-Guanine In The Polymerase-2 Basepair Position
pdb|2HHX|A Chain A, O6-Methyl-Guanine In The Polymerase Template Preinsertion
Site
pdb|2HW3|A Chain A, T:o6-Methyl-Guanine Pair In The Polymerase Postinsertion
Site (-1 Basepair Position)
Length = 580
Score = 226 bits (577), Expect = 9e-59, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|1LV5|A Chain A, Crystal Structure Of The Closed Conformation Of Bacillus Dna
Polymerase I Fragment Bound To Dna And Dctp
pdb|1LV5|B Chain B, Crystal Structure Of The Closed Conformation Of Bacillus Dna
Polymerase I Fragment Bound To Dna And Dctp
Length = 580
Score = 226 bits (576), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|3HT3|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From Bacillus
Stearothermophilus V713p Mutant Bound To G:dctp
pdb|3HT3|D Chain D, Crystal Structure Of Fragment Dna Polymerase I From Bacillus
Stearothermophilus V713p Mutant Bound To G:dctp
Length = 579
Score = 226 bits (575), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 154/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 186 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 245
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 246 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 300
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 301 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 341
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 342 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 400
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 401 TPNMRRQAKAVNFGIPYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 460
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 461 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 515
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 516 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 565
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 566 KVDYHYGSTW 575
>pdb|4DQQ|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mg2+
pdb|4DQQ|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mg2+
pdb|4DQR|A Chain A, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mn2+
pdb|4DQR|D Chain D, Ternary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a, Dna Duplex, And Rctp (Paired With Dg Of Template)
In Presence Of Mn2+
pdb|4E0D|A Chain A, Binary Complex Of Bacillus Dna Polymerase I Large Fragment
E658a And Duplex Dna
Length = 592
Score = 224 bits (572), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 153/430 (35%), Positives = 224/430 (52%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 199 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 258
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 259 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 313
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
+T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 314 ATKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 354
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQI LR++AH ++D L+ + D+ T A SED V
Sbjct: 355 AFVPSESDWLIFAADYSQIALRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 413
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+YG+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 414 TPNMRRQAKAVNFGIVYGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 473
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 474 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 528
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 529 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 578
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 579 KVDYHYGSTW 588
>pdb|3HPO|A Chain A, Crystal Structure Of Fragment Dna Polymerase I From Bacillus
Stearothermophilus Y714s Mutant Bound To G:t Mismatch
Length = 580
Score = 223 bits (568), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 153/430 (35%), Positives = 223/430 (51%), Gaps = 40/430 (9%)
Query: 1744 NVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
++LA+ME G+ VD + Q L ++L +E++ Y LAG +F++ + + +L+ L
Sbjct: 187 SILAEMEFAGVKVDTKRLEQMGKELAEQLGTVEQRIYELAGQEFNINSPKQLGVILFEKL 246
Query: 1804 KLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARISM 1863
+LP+ K K ST L+ L H IV I +R L KL + + + + R
Sbjct: 247 QLPV---LKKTKTGYSTSADVLEKLAPYHEIVENILHYRQLGKLQSTYIEGLLKVVR--P 301
Query: 1864 STQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINARD 1923
T+K +H + Q T TGRLS EPNLQ + +E + KI R
Sbjct: 302 DTKK--VHTIFNQALTQTGRLSSTEPNLQNIPIRLE---------------EGRKI--RQ 342
Query: 1924 FFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDSV 1983
F+PS+ +W++ AADYSQIELR++AH ++D L+ + D+ T A SED V
Sbjct: 343 AFVPSESDWLIFAADYSQIELRVLAHIAEDDNLMEAFRR-DLDIHTKTAMDIFQVSEDEV 401
Query: 1984 GSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSSC 2043
R Q K + +GI+ G+ L++ LN S EA E I+ + SFPGV ++ V
Sbjct: 402 TPNMRRQAKAVNFGIVSGISDYGLAQNLNISRKEAAEFIERYFESFPGVKRYMENIVQEA 461
Query: 2044 HQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIVG 2103
QKGYV +L R+R+L I N +S A+R A+N+ QGSAADIIK AMI+++
Sbjct: 462 KQKGYVTTLLHRRRYLPDITSRNFNVRSFAERMAMNTPIQGSAADIIKKAMIDLN----- 516
Query: 2104 GVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVPL 2163
A + + + LLLQVHDEL+LE ++ LV + ME A L VPL
Sbjct: 517 ----------ARLKEERLQAHLLLQVHDELILEAPKEEMERLCRLVPEVMEQAVTLRVPL 566
Query: 2164 LVKIQVGSTW 2173
V GSTW
Sbjct: 567 KVDYHYGSTW 576
>pdb|1BGX|T Chain T, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
pdb|1TAU|A Chain A, Taq Polymerase (E.C.2.7.7.7)DNAB-Octylglucoside Complex
Length = 832
Score = 204 bits (518), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 147/434 (33%), Positives = 227/434 (52%), Gaps = 47/434 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 440 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 498
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 499 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 552
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + V + R
Sbjct: 553 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIP--VRTPLGQ---------------RIR 595
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 596 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 653
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 654 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 713
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 714 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 770
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVS-LVQKCMESAALLLV 2161
++ + R+LLQVHDELVLE P EAV+ L ++ ME L V
Sbjct: 771 --------------RLEEMGARMLLQVHDELVLEA-PKERAEAVARLAKEVMEGVYPLAV 815
Query: 2162 PLLVKIQVGSTWGS 2175
PL V++ +G W S
Sbjct: 816 PLEVEVGIGEDWLS 829
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 200 bits (508), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 197/776 (25%), Positives = 333/776 (42%), Gaps = 124/776 (15%)
Query: 513 ICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKM 572
I S K+RGI YP Q E L G+L+ +N + T++GK+ +AEI M+ R+++ G
Sbjct: 12 IKSTLKERGIESFYPPQAEALK-SGILEGKNALISIPTASGKTLIAEIAMVHRILTQGGK 70
Query: 573 ALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDT-----SVAVCTIEKA 627
A+ ++P ++ EK + + E +G V G+ KD + + T EK
Sbjct: 71 AVYIVPLKALAEEKFQEFQDW-EKIGLRVAMATGDYDS----KDEWLGKYDIIIATAEKF 125
Query: 628 NSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXX 687
+SL+ + ++ I+V DE+H++ ++RG
Sbjct: 126 DSLLRH--GSSWIKDVKILVADEIHLIGSRDRG--------------------------- 156
Query: 688 XXXXXKADPAHGL---QIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIY 744
+ AH L QI+G+SAT+ N +A+WL A L +++RPV L + +
Sbjct: 157 --ATLEVILAHMLGKAQIIGLSATIGNPEELAEWLNAELIVSDWRPVKLRRGVFYQGFVT 214
Query: 745 SKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFLK 804
+ + R EL + +++ LIF + R+ E A +SK +K
Sbjct: 215 WEDGSIDRF------------SSWEELVYDAIRKKKGALIFVNMRRKAERVALELSKKVK 262
Query: 805 KFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVETC 864
+ E + D+L P + L + + GVA+HHAGL +ER +VE
Sbjct: 263 SLL-----TKPEIRALNELADSLEENPT--NEKLAKAIRGGVAFHHAGLGRDERVLVEEN 315
Query: 865 YRKGLVRVLTATSTLAAGVNLPARRV----IFRQPRIGRDFIDGTRYRQMAGRAGRTGID 920
+RKG+++ + AT TL+AG+N PA RV I+R G + I QM GRAGR D
Sbjct: 316 FRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGRPKYD 375
Query: 921 TKGESMLICKPEEVKKIMGLLNESCP-PLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIH 979
GE +++ ++ +++M P L S LS + N + +L ++A T E+I
Sbjct: 376 EVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQLSNESN-LRSQVLALIATFGYSTVEEIL 434
Query: 980 RYVRCTLL-NSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGSSLCP 1038
+++ T K + + ++ L +L +F+E + + K+ + LG + P
Sbjct: 435 KFISNTFYAYQRKDTYSLEEKIRNILYFLLENEFIEISLEDKIRPLS-LGIRTAKLYIDP 493
Query: 1039 EESLIVLDDLSRAREGFVLASDLHLVYLS---TPINV---EVEPDWELYYERFLELSALD 1092
+ + D + + HL+ L+ TP N E E E YYE L D
Sbjct: 494 YTAKMFKDKMEEVVKDPNPIGIFHLISLTPDITPFNYSKREFERLEEEYYEFKDRLYFDD 553
Query: 1093 QSVGNQVGVSEPYLMRMAHGAPMRISSKLRDSTKGLHGKLEYRLGITSNNMLSDAQTLRV 1152
+ +PYL R +
Sbjct: 554 PYISGY----DPYLER------------------------------------------KF 567
Query: 1153 CKRFYVALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLE 1212
+ F AL+L + E P E+ E + V G + + E A + + LG Y++
Sbjct: 568 FRAFKTALVLLAWINEVPEGEIVEKYSVEPGDIYRIVETAEWLVYSLKEIAKVLGAYEIV 627
Query: 1213 GLIAKFQNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLRTPLAIAEASISEIVK 1268
+ + RV +G+R E++ L +P V RARALY +G R+ I++A E++K
Sbjct: 628 DYLETLRVRVKYGIREELIPLMQLPLVGRRRARALYNSGFRSIEDISQARPEELLK 683
>pdb|1TAQ|A Chain A, Structure Of Taq Dna Polymerase
Length = 832
Score = 199 bits (506), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 146/434 (33%), Positives = 226/434 (52%), Gaps = 47/434 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 440 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 498
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 499 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 552
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRL +PNLQ + V + R
Sbjct: 553 IHPRTGRLHTRFNQTATATGRLCCCDPNLQNIP--VRTPLGQ---------------RIR 595
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 596 RGFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 653
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 654 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 713
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 714 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 770
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVS-LVQKCMESAALLLV 2161
++ + R+LLQVHDELVLE P EAV+ L ++ ME L V
Sbjct: 771 --------------RLEEMGARMLLQVHDELVLEA-PKERAEAVARLAKEVMEGVYPLAV 815
Query: 2162 PLLVKIQVGSTWGS 2175
PL V++ +G W S
Sbjct: 816 PLEVEVGIGEDWLS 829
>pdb|1QTM|A Chain A, Ddttp-trapped Closed Ternary Complex Of The Large Fragment
Of Dna Polymerase I From Thermus Aquaticus
Length = 539
Score = 197 bits (502), Expect = 4e-50, Method: Composition-based stats.
Identities = 142/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 148 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 206
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 207 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 260
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 261 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 303
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 304 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 361
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 362 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 421
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 422 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 478
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 479 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 524
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 525 LEVEVGIGEDWLS 537
>pdb|3KTQ|A Chain A, Crystal Structure Of An Active Ternary Complex Of The Large
Fragment Of Dna Polymerase I From Thermus Aquaticus
pdb|1JXE|A Chain A, Stoffel Fragment Of Taq Dna Polymerase I
pdb|3LWL|A Chain A, Structure Of Klenow Fragment Of Taq Polymerase In Complex Wi
Abasic Site
pdb|3LWM|A Chain A, Structure Of The Large Fragment Of Thermus Aquaticus Dna Pol
In Complex With A Blunt-Ended Dna And Ddatp
pdb|3M8R|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
Trapped 4'- Ethylated Dttp
pdb|3M8S|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
Trapped 4'- Methylated Dttp
pdb|3OJS|A Chain A, Snapshots Of The Large Fragment Of Dna Polymerase I From
Thermus Aquaticus Processing C5 Modified Thymidines
pdb|3OJU|A Chain A, Snapshot Of The Large Fragment Of Dna Polymerase I From
Thermus Aquaticus Processing C5 Modified Thymidies
pdb|3RR7|A Chain A, Binary Structure Of The Large Fragment Of Taq Dna Polymerase
Bound To An Abasic Site
pdb|3RR8|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna
Polymerase Bound To An Abasic Site And A Ddgtp
pdb|3RRG|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna
Polymerase Bound To An Abasic Site And A Ddgtp
pdb|3RRH|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna
Polymerase Bound To An Abasic Site And A Ddttp
pdb|3T3F|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna
Polymerase Bound To An Abasic Site And Dnitp
pdb|4DF4|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
7-(N-(10- Hydroxydecanoyl)-Aminopentinyl)-7-Deaza-2 -Datp
pdb|4DF8|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
Aminopentinyl-7- Deaza-2-Datp
pdb|4DFJ|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
5-(Aminopentinyl)- Dttp
pdb|4DFK|A Chain A, Large Fragment Of Dna Polymerase I From Thermus Aquaticus In
A Closed Ternary Complex With
5-(N-(10-Hydroxydecanoyl)-Aminopentinyl)-2-Dutp
pdb|4DFM|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In Ternary Complex With
5-(Aminopentinyl)-2-Dctp
pdb|4DFP|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aqauticus In A Ternary Complex With
7-(Aminopentinyl)-7- Deaza-Dgtp
pdb|3RTV|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
Natural PrimerTEMPLATE DNA
pdb|3SV3|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In A Closed Ternary Complex With
The Artificial Base Pair Dnam-D5sicstp
pdb|3SV4|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In An Open Binary Complex With Dt
As Templating Nucleobase
pdb|3SYZ|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In An Open Binary Complex With
Dnam As Templating Nucleobase
pdb|3SZ2|A Chain A, Crystal Structure Of The Large Fragment Of Dna Polymerase I
From Thermus Aquaticus In An Open Binary Complex With Dg
As Templating Nucleobase
pdb|4DLG|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna
Polymerase
Length = 540
Score = 197 bits (502), Expect = 5e-50, Method: Composition-based stats.
Identities = 142/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 148 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 206
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 207 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 260
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 261 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 303
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 304 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 361
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 362 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 421
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 422 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 478
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 479 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 524
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 525 LEVEVGIGEDWLS 537
>pdb|2KTQ|A Chain A, Open Ternary Complex Of The Large Fragment Of Dna Polymerase
I From Thermus Aquaticus
Length = 538
Score = 197 bits (502), Expect = 5e-50, Method: Composition-based stats.
Identities = 142/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 146 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 204
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 205 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 258
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 259 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 301
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 302 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 359
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 360 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 419
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 420 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 476
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 477 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 522
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 523 LEVEVGIGEDWLS 535
>pdb|1QSS|A Chain A, Ddgtp-Trapped Closed Ternary Complex Of The Large Fragment
Of Dna Polymerase I From Thermus Aquaticus
pdb|1QSY|A Chain A, Ddatp-Trapped Closed Ternary Complex Of The Large Fragment
Of Dna Polymerase I From Thermus Aquaticus
Length = 539
Score = 197 bits (502), Expect = 5e-50, Method: Composition-based stats.
Identities = 142/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 148 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 206
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 207 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 260
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 261 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 303
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 304 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 361
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 362 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 421
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 422 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 478
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 479 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 524
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 525 LEVEVGIGEDWLS 537
>pdb|4KTQ|A Chain A, Binary Complex Of The Large Fragment Of Dna Polymerase I
From T. Aquaticus Bound To A PrimerTEMPLATE DNA
Length = 539
Score = 197 bits (502), Expect = 5e-50, Method: Composition-based stats.
Identities = 142/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 147 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 205
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 206 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 259
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 260 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 302
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 303 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 360
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 361 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 420
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 421 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 477
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 478 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 523
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 524 LEVEVGIGEDWLS 536
>pdb|5KTQ|A Chain A, Large Fragment Of Taq Dna Polymerase Bound To Dctp
pdb|1KTQ|A Chain A, Dna Polymerase
Length = 543
Score = 197 bits (502), Expect = 5e-50, Method: Composition-based stats.
Identities = 142/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 151 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 209
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 210 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 263
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 264 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 306
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 307 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 364
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 365 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 424
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 425 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERMAFNMPVQGTAADLMKLAMVKLFP--- 481
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 482 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 527
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 528 LEVEVGIGEDWLS 540
>pdb|1KFS|A Chain A, Dna Polymerase I Klenow Fragment (e.c.2.7.7.7) Mutant/dna
Complex
pdb|1KRP|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA
Complex
pdb|1KSP|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA
Complex
pdb|2KFN|A Chain A, Klenow Fragment With Bridging-Sulfur Substrate And Manganese
pdb|2KFZ|A Chain A, Klenow Fragment With Bridging-Sulfur Substrate And Zinc Only
pdb|2KZM|A Chain A, Klenow Fragment With Normal Substrate And Zinc And Manganese
pdb|2KZZ|A Chain A, Klenow Fragment With Normal Substrate And Zinc Only
pdb|1QSL|A Chain A, Klenow Fragment Complexed With Single-Stranded Substrate And
Europium (Iii) Ion
pdb|1D9D|A Chain A, Crystall Structure Of The Complex Of Dna Polymerase I Klenow
Fragment With Short Dna Fragment Carrying 2'-0-
Aminopropyl-Rna Modifications 5'-D(Tcg)-Ap(Auc)-3'
pdb|1D9F|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I Klenow
Fragment With Dna Tetramer Carrying 2'-O-(3-Aminopropyl)-
Rna Modification 5'-D(Tt)-Ap(U)-D(T)-3'
Length = 605
Score = 196 bits (498), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 139/431 (32%), Positives = 225/431 (52%), Gaps = 40/431 (9%)
Query: 1743 VNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGH 1802
V VL+ +E G+ +D + L +L LEKKA+ +AG +F+L + + +L+
Sbjct: 211 VPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIAGEEFNLSSTKQLQTILFEK 270
Query: 1803 LKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
+ P G PST + L+ L ++P+ VI E+R LAKL + + +
Sbjct: 271 QGIK-PLKKTPGGA-PSTSEEVLEELALDYPLPKVILEYRGLAKLKSTYTDKLP----LM 324
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
++ + +H + Q TATGRLS +PNLQ + + NE+ G R
Sbjct: 325 INPKTGRVHTSYHQAVTATGRLSSTDPNLQNI------PVRNEE---GR--------RIR 367
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI + E++++++ADYSQIELR+MAH S+D L+ ++ D+ AA G ++
Sbjct: 368 QAFI-APEDYVIVSADYSQIELRIMAHLSRDKGLLTAFAEGK-DIHRATAAEVFGLPLET 425
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V S++R K + +G++YGM L+ QLN EA++ + + +PGV ++ +
Sbjct: 426 VTSEQRRSAKAINFGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRAQ 485
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+ +L IK N ++ A+R A+N+ QG+AADIIK AMI
Sbjct: 486 AKEQGYVETLDGRRLYLPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAMI------- 538
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ A Q + R R+++QVHDELV EV + + + ME+ L VP
Sbjct: 539 --------AVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAVAKQIHQLMENCTRLDVP 590
Query: 2163 LLVKIQVGSTW 2173
LLV++ G W
Sbjct: 591 LLVEVGSGENW 601
>pdb|1DPI|A Chain A, Structure Of Large Fragment Of Escherichia Coli Dna
Polymerase I Complexed With DTMP
pdb|1KFD|A Chain A, Crystal Structures Of The Klenow Fragment Of Dna Polymerase
I Complexed With Deoxynucleoside Triphosphate And
Pyrophosphate
Length = 605
Score = 196 bits (497), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 139/431 (32%), Positives = 225/431 (52%), Gaps = 40/431 (9%)
Query: 1743 VNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGH 1802
V VL+ +E G+ +D + L +L LEKKA+ +AG +F+L + + +L+
Sbjct: 211 VPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIAGEEFNLSSTKQLQTILFEK 270
Query: 1803 LKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
+ P G PST + L+ L ++P+ VI E+R LAKL + + +
Sbjct: 271 QGIK-PLKKTPGGA-PSTSEEVLEELALDYPLPKVILEYRGLAKLKSTYTDKLP----LM 324
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
++ + +H + Q TATGRLS +PNLQ + + NE+ G R
Sbjct: 325 INPKTGRVHTSYHQAVTATGRLSSTDPNLQNI------PVRNEE---GR--------RIR 367
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI + E++++++ADYSQIELR+MAH S+D L+ ++ D+ AA G ++
Sbjct: 368 QAFI-APEDYVIVSADYSQIELRIMAHLSRDKGLLTAFAEGK-DIHRATAAEVFGLPLET 425
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V S++R K + +G++YGM L+ QLN EA++ + + +PGV ++ +
Sbjct: 426 VTSEQRRSAKAINFGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRAQ 485
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+ +L IK N ++ A+R A+N+ QG+AADIIK AMI
Sbjct: 486 AKEQGYVETLDGRRLYLPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAMI------- 538
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ A Q + R R+++QVHDELV EV + + + ME+ L VP
Sbjct: 539 --------AVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAVAKQIHQLMENCTRLDVP 590
Query: 2163 LLVKIQVGSTW 2173
LLV++ G W
Sbjct: 591 LLVEVGSGENW 601
>pdb|1KLN|A Chain A, Dna Polymerase I Klenow Fragment (E.C.2.7.7.7) MutantDNA
Complex
Length = 605
Score = 196 bits (497), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 139/431 (32%), Positives = 225/431 (52%), Gaps = 40/431 (9%)
Query: 1743 VNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGH 1802
V VL+ +E G+ +D + L +L LEKKA+ +AG +F+L + + +L+
Sbjct: 211 VPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIAGEEFNLSSTKQLQTILFEK 270
Query: 1803 LKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
+ P G PST + L+ L ++P+ VI E+R LAKL + + +
Sbjct: 271 QGIK-PLKKTPGGA-PSTSEEVLEELALDYPLPKVILEYRGLAKLKSTYTDKLP----LM 324
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
++ + +H + Q TATGRLS +PNLQ + + NE+ G R
Sbjct: 325 INPKTGRVHTSYHQAVTATGRLSSTDPNLQNI------PVRNEE---GR--------RIR 367
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI + E++++++ADYSQIELR+MAH S+D L+ ++ D+ AA G ++
Sbjct: 368 QAFI-APEDYVIVSADYSQIELRIMAHLSRDKGLLTAFAEGK-DIHRATAAEVFGLPLET 425
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V S++R K + +G++YGM L+ QLN EA++ + + +PGV ++ +
Sbjct: 426 VTSEQRRSAKAINFGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRAQ 485
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+ +L IK N ++ A+R A+N+ QG+AADIIK AMI
Sbjct: 486 AKEQGYVETLDGRRLYLPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAMI------- 538
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ A Q + R R+++QVHDELV EV + + + ME+ L VP
Sbjct: 539 --------AVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAVAKQIHQLMENCTRLDVP 590
Query: 2163 LLVKIQVGSTW 2173
LLV++ G W
Sbjct: 591 LLVEVGSGENW 601
>pdb|1D8Y|A Chain A, Crystal Structure Of The Complex Of Dna Polymerase I Klenow
Fragment With Dna
Length = 605
Score = 196 bits (497), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 139/431 (32%), Positives = 225/431 (52%), Gaps = 40/431 (9%)
Query: 1743 VNVLADMELWGIGVDMEGCLQARNLLQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGH 1802
V VL+ +E G+ +D + L +L LEKKA+ +AG +F+L + + +L+
Sbjct: 211 VPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIAGEEFNLSSTKQLQTILFEK 270
Query: 1803 LKLPIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
+ P G PST + L+ L ++P+ VI E+R LAKL + + +
Sbjct: 271 QGIK-PLKKTPGGA-PSTSEEVLEELALDYPLPKVILEYRGLAKLKSTYTDKLP----LM 324
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
++ + +H + Q TATGRLS +PNLQ + + NE+ G R
Sbjct: 325 INPKTGRVHTSYHQAVTATGRLSSTDPNLQNI------PVRNEE---GR--------RIR 367
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI + E++++++ADYSQIELR+MAH S+D L+ ++ D+ AA G ++
Sbjct: 368 QAFI-APEDYVIVSADYSQIELRIMAHLSRDKGLLTAFAEGK-DIHRATAAEVFGLPLET 425
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V S++R K + +G++YGM L+ QLN EA++ + + +PGV ++ +
Sbjct: 426 VTSEQRRSAKAINFGLIYGMSAFGLARQLNIPRKEAQKYMDLYFERYPGVLEYMERTRAQ 485
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+ +L IK N ++ A+R A+N+ QG+AADIIK AMI
Sbjct: 486 AKEQGYVETLDGRRLYLPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAMI------- 538
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ A Q + R R+++QVHDELV EV + + + ME+ L VP
Sbjct: 539 --------AVDAWLQAEQPRVRMIMQVHDELVFEVHKDDVDAVAKQIHQLMENCTRLDVP 590
Query: 2163 LLVKIQVGSTW 2173
LLV++ G W
Sbjct: 591 LLVEVGSGENW 601
>pdb|3PO4|A Chain A, Structure Of A Mutant Of The Large Fragment Of Dna
Polymerase I From Thermus Aquaticus In Complex With A
Blunt-Ended Dna And Ddatp
pdb|3PO5|A Chain A, Structure Of A Mutant Of The Large Fragment Of Dna
Polymerase I From Thermus Auqaticus In Complex With An
Abasic Site And Ddatp
pdb|3PY8|A Chain A, Crystal Structure Of A Mutant Of The Large Fragment Of Dna
Polymerase I From Thermus Aquaticus In A Closed Ternary
Complex With Dna And Ddctp
Length = 540
Score = 195 bits (496), Expect = 2e-49, Method: Composition-based stats.
Identities = 141/433 (32%), Positives = 221/433 (51%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 148 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHPFNLNSRDQLERVLFDEL 206
Query: 1804 KLP-IPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
LP I + GK+ ST L+ LR HPIV I ++R L KL + + + L
Sbjct: 207 GLPAIGKTEKTGKR--STSAAVLEALREAHPIVEKILQYRELTKLKSTYIDPLPDL---- 260
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
+ + LH + QT+TATGRLS +PNLQ + R
Sbjct: 261 IHPRTGRLHTRFNQTATATGRLSSSDPNLQNIPVRTPLGQ-----------------RIR 303
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQ ELR++AH S D LI + + D+ T A+ G ++
Sbjct: 304 RAFI-AEEGWLLVALDYSQKELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVPREA 361
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SFP V +W+ +
Sbjct: 362 VDPLMRRAAKTINFGVLYGMSAHRLSQELAIPYEEAQAFIERYFQSFPKVRAWIEKTLEE 421
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R+A N QG+AAD++K+AM+ +
Sbjct: 422 GRRRGYVETLFGRRRYVPDLEARVKSVREAAERKAFNMPVQGTAADLMKLAMVKLFP--- 478
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L VP
Sbjct: 479 --------------RLEEMGARMLLQVHDELVLEAPKERAEAVARLAKEVMEGVYPLAVP 524
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 525 LEVEVGIGEDWLS 537
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 182 bits (463), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 140/433 (32%), Positives = 213/433 (49%), Gaps = 59/433 (13%)
Query: 504 DLSSWLPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILML 563
+L+ + S I K+ GI +L+P Q E V+ V +NL+ T+AGK+ +AE+ M+
Sbjct: 5 ELAESISSYAVGILKEEGIEELFPPQAEA--VEKVFSGKNLLLAMPTAAGKTLLAEMAMV 62
Query: 564 RRLISTGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGN-QGGGSLPKDTSVAVC 622
R I GK +L V+P ++ EK E + E +G + G+ + D + V
Sbjct: 63 REAIKGGK-SLYVVPLRALAGEKYESFKKW-EKIGLRIGISTGDYESRDEHLGDCDIIVT 120
Query: 623 TIEKANSLV-NRMLEEGRLSEIGIIVIDELHMVADQNRGYXXXXXXXXXRYAAXXXXXXX 681
T EKA+SL+ NR + + +V+DE+H++ + RG R
Sbjct: 121 TSEKADSLIRNRA---SWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMR---------- 167
Query: 682 XXXXXXXXXXXKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGN 741
+ + A L+++G+SAT PNV +A+WL A Y +++RPVPL E +
Sbjct: 168 -----------RMNKA--LRVIGLSATAPNVTEIAEWLDADYYVSDWRPVPLVEGVLCEG 214
Query: 742 AI--YSKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHV 799
+ + R + EL +E V E VL+F S+R+G E TA +
Sbjct: 215 TLELFDGAFSTSRRV------------KFEELVEECVAENGGVLVFESTRRGAEKTAVKL 262
Query: 800 SKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEERE 859
S K+ N + AI L + L E + G A+HHAGL +R
Sbjct: 263 SAITAKYVENE--------GLEKAI--LEENEGEMSRKLAECVRKGAAFHHAGLLNGQRR 312
Query: 860 VVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDF---IDGTRYRQMAGRAGR 916
VVE +R+G ++V+ AT TLAAGVNLPARRVI R + I + Y+QMAGRAGR
Sbjct: 313 VVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGR 372
Query: 917 TGIDTKGESMLIC 929
G+D +GE+++I
Sbjct: 373 PGMDERGEAIIIV 385
Score = 47.0 bits (110), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 50/95 (52%), Gaps = 4/95 (4%)
Query: 1159 ALILSRLVQETPVLEVCETFKVARGMVQALQENAGRFASMVSVFCERLGWYDLEGLIAKF 1218
AL L ++E E+C + +A G ++ + E A ++ ++ E +G + GL
Sbjct: 564 ALCLKDWIEEKDEDEICAKYGIAPGDLRRIVETAEWLSNAMNRIAEEVGNTSVSGL---- 619
Query: 1219 QNRVSFGVRAEIVELTTIPYVKGSRARALYKAGLR 1253
R+ GV+ E++EL I ++ RAR LY AG+R
Sbjct: 620 TERIKHGVKEELLELVRIRHIGRVRARKLYNAGIR 654
>pdb|4DLE|A Chain A, Ternary Structure Of The Large Fragment Of Taq Dna
Polymerase: 4- Fluoroproline Variant
Length = 540
Score = 182 bits (461), Expect = 2e-45, Method: Composition-based stats.
Identities = 139/433 (32%), Positives = 217/433 (50%), Gaps = 45/433 (10%)
Query: 1745 VLADMELWGIGVDMEGCLQARNL-LQKKLRYLEKKAYTLAGMKFSLYTAADIANVLYGHL 1803
VLA ME G+ +D+ L+A +L + +++ LE + + LAG F+L + + VL+ L
Sbjct: 148 VLAHMEATGVRLDV-AYLRALSLEVAEEIARLEAEVFRLAGHXFNLNSRDQLERVLFDEL 206
Query: 1804 KL-PIPEGHNKGKQHPSTDKHCLDLLRHEHPIVPVIKEHRTLAKLLNCTLGSICSLARIS 1862
L I + GK+ ST L+ LR H IV I ++R L KL + + + L I
Sbjct: 207 GLXAIGKTEKTGKR--STSAAVLEALREAHXIVEKILQYRELTKLKSTYIDXLXDL--IH 262
Query: 1863 MSTQKYTLHGHWLQTSTATGRLSMEEPNLQCVEHMVEFKMSNEDIYGGNAEVDHCKINAR 1922
T + LH + QT+TATGRLS + NLQ + R
Sbjct: 263 XRTGR--LHTRFNQTATATGRLSSSDXNLQNIXVRTXLGQ-----------------RIR 303
Query: 1923 DFFIPSQENWILLAADYSQIELRLMAHFSKDPALIGLLSKPHGDVFTMIAARWTGRSEDS 1982
FI ++E W+L+A DYSQIELR++AH S D LI + + D+ T A+ G ++
Sbjct: 304 RAFI-AEEGWLLVALDYSQIELRVLAHLSGDENLIRVFQEGR-DIHTETASWMFGVXREA 361
Query: 1983 VGSQERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVASWLHVAVSS 2042
V R K + +G+LYGM + LS++L EA+ I+ + SF V +W+ +
Sbjct: 362 VDXLMRRAAKTINFGVLYGMSAHRLSQELAIXYEEAQAFIERYFQSFXKVRAWIEKTLEE 421
Query: 2043 CHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSIIV 2102
++GYVE+L GR+R++ ++ + A+R A N QG+AAD++K+AM+ +
Sbjct: 422 GRRRGYVETLFGRRRYVXDLEARVKSVREAAERMAFNMXVQGTAADLMKLAMVKLFX--- 478
Query: 2103 GGVYKPDSSLAANFQMLKGRCRLLLQVHDELVLEVDPSVIKEAVSLVQKCMESAALLLVP 2162
++ + R+LLQVHDELVLE + L ++ ME L V
Sbjct: 479 --------------RLEEMGARMLLQVHDELVLEAXKERAEAVARLAKEVMEGVYXLAVX 524
Query: 2163 LLVKIQVGSTWGS 2175
L V++ +G W S
Sbjct: 525 LEVEVGIGEDWLS 537
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 176 bits (446), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 155/544 (28%), Positives = 254/544 (46%), Gaps = 63/544 (11%)
Query: 509 LPSEICSIYKKRGISKLYPWQVECLHVDGVLQRRNLVYCASTSAGKSFVAEILMLRRLIS 568
LPS + I KKRGI KL P Q E + G+L+ L+ + T +GK+ +AE+ ++ L+
Sbjct: 15 LPSNVIEIIKKRGIKKLNPPQTEAVK-KGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLK 73
Query: 569 TGKMALLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGN-QGGGSLPKDTSVAVCTIEKA 627
G A+ V P ++ EK + E +G V G+ + K+ + + T EK
Sbjct: 74 NGGKAIYVTPLRALTNEKYLTFKDW-ELIGFKVAMTSGDYDTDDAWLKNYDIIITTYEKL 132
Query: 628 NSLVNRMLEEGRLSEIGIIVIDELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXX 687
+SL E L+E+ V+DELH + D RG
Sbjct: 133 DSLWRHRPE--WLNEVNYFVLDELHYLNDPERGPVVESVTIR------------------ 172
Query: 688 XXXXXKADPAHGLQIVGMSATMPNVAAVADWLQAALYETNFRPVPLEEYIKVGNAIY--- 744
A ++ +SAT+ N +A WL A TN+RPVPL E IY
Sbjct: 173 ---------AKRRNLLALSATISNYKQIAKWLGAEPVATNWRPVPLIE-----GVIYPER 218
Query: 745 -SKKMDVVRTILTAANLGGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKFL 803
K+ +V+ T + G D I+ + + + VL+F +SRK ESTA ++ ++
Sbjct: 219 KKKEYNVIFKDNTTKKVHGDDA--IIAYTLDSLSKNGQVLVFRNSRKMAESTALKIANYM 276
Query: 804 KKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLEETLPSGVAYHHAGLTVEEREVVET 863
S++ ++ +I +D + + +L+ + GVAYHHAGL+ R+++E
Sbjct: 277 NFVSLD----ENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEE 332
Query: 864 CYRKGLVRVLTATSTLAAGVNLPARRVI------FRQPRIG-RDFIDGTRYRQMAGRAGR 916
+R+ ++V+ AT TLAAGVNLPAR VI F + G D I Y+QM+GRAGR
Sbjct: 333 GFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGR 392
Query: 917 TGIDTKGESMLICK-PEEVKKIM-GLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQT 974
G D GES+++ + E+V ++ + P+ S L ++ T + + A G + +
Sbjct: 393 PGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERAFYTFLLGILSAEGNL-S 451
Query: 975 AEDIHRYVRCTLLNSTKPFQDVVKSAQDSLRWLCHRKFLEWNEDTKLYSTTPLGRAAFGS 1034
+ + + +LL K DV ++RWL F++ E+ ++ T G+
Sbjct: 452 EKQLENFAYESLL--AKQLVDVY--FDRAIRWLLEHSFIK--EEGNTFALTNFGKRVADL 505
Query: 1035 SLCP 1038
+ P
Sbjct: 506 YINP 509
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 128 bits (321), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 133/467 (28%), Positives = 202/467 (43%), Gaps = 81/467 (17%)
Query: 543 NLVYCASTSAGKSFVAEILMLRRLISTGKM----------ALLVLPYVSICAEKAEHLEV 592
NL+ CA T AGK+ VA + MLR + M + + P S+ E
Sbjct: 97 NLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFGK 156
Query: 593 LLEPLGRHVRSYYGNQGGGSLPKD----TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVI 648
L G V G+ L K+ T + VCT EK + + + E + +I++
Sbjct: 157 RLATYGITVAELTGDH---QLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRLIIL 213
Query: 649 DELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXKADPAHGLQIVGMSAT 708
DE+H++ D R ++++G+SAT
Sbjct: 214 DEIHLLHDDRGPVLEALVARAIRNIEMTQ--------------------EDVRLIGLSAT 253
Query: 709 MPNVAAVADWLQA------ALYETNFRPVPLEE-YIKVGNAIYSKKMDVVRTILTAANL- 760
+PN VA +L+ ++ +FRPVPLE+ Y+ + K+ ++ I+ +
Sbjct: 254 LPNYEDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIME 313
Query: 761 -GGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKF-LKKFSINVHSSDSEFI 818
GK+ VL+F SRK TAR + L+K ++ + F+
Sbjct: 314 HAGKN----------------QVLVFVHSRKETGKTARAIRDMCLEKDTLGL------FL 351
Query: 819 DITSAIDALRRCPAGLDPVLE--ETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTAT 876
SA + R A LE + LP G A HHAG+T +R +VE + ++VL +T
Sbjct: 352 REGSASTEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVST 411
Query: 877 STLAAGVNLPARRVIFR-----QPRIGR-DFIDGTRYRQMAGRAGRTGIDTKGESMLICK 930
+TLA GVNLPA VI + P GR + QM GRAGR DTKGE +LI
Sbjct: 412 ATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITS 471
Query: 931 PEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAED 977
E++ + LLN+ P+ S + M +A E+V G VQ A+D
Sbjct: 472 HGELQYYLSLLNQQL-PIESQMVSKLPDMLNA--EIVLGN-VQNAKD 514
Score = 87.8 bits (216), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 109/462 (23%), Positives = 187/462 (40%), Gaps = 63/462 (13%)
Query: 543 NLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA--EHLEVLLEPLGRH 600
N+ A T +GK+ AE +LR L+ + + + + + AE+ + E + L +
Sbjct: 944 NVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKK 1003
Query: 601 VRSYYGNQGGG-SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659
V G L ++ + T EK + L R + + I + V+DE+H++ +N
Sbjct: 1004 VVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGEN- 1062
Query: 660 GYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXKADPAHGLQIVGMSATMPNVAAVADWL 719
G RY + + ++IV +S+++ N VA WL
Sbjct: 1063 GPVLEVICSRMRYIS-------------------SQIERPIRIVALSSSLSNAKDVAHWL 1103
Query: 720 QAAL-----YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDE 774
+ + N RPVPLE +I+ N +++ R + A + H
Sbjct: 1104 GCSATSTFNFHPNVRPVPLELHIQGFNISHTQ----TRLLSMAKPVYHAITKH------- 1152
Query: 775 VVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGL 834
V++F SRK TA + L + ++ F+ T D +
Sbjct: 1153 --SPKKPVIVFVPSRKQTRLTAIDI---LTTCAADIQRQ--RFLHCTEK-DLIPYLEKLS 1204
Query: 835 DPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894
D L+ETL +GV Y H GL+ ER +VE + G ++V+ A+ +L G+N+ A VI
Sbjct: 1205 DSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMD 1264
Query: 895 PRIGRD----FIDGTRYR--QMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCP-- 946
+ ++D Y QM G A R D +G +++C+ + L E P
Sbjct: 1265 TQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVE 1324
Query: 947 -PLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLL 987
L C+ + N E+V I + +D Y+ T L
Sbjct: 1325 SHLDHCMHDHFNA------EIVTKTI-ENKQDAVDYLTWTFL 1359
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 127 bits (320), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 133/467 (28%), Positives = 202/467 (43%), Gaps = 81/467 (17%)
Query: 543 NLVYCASTSAGKSFVAEILMLRRLISTGKM----------ALLVLPYVSICAEKAEHLEV 592
NL+ CA T AGK+ VA + MLR + M + + P S+ E
Sbjct: 97 NLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFGK 156
Query: 593 LLEPLGRHVRSYYGNQGGGSLPKD----TSVAVCTIEKANSLVNRMLEEGRLSEIGIIVI 648
L G V G+ L K+ T + VCT EK + + + E + +I++
Sbjct: 157 RLATYGITVAELTGDH---QLCKEEISATQIIVCTPEKWDIITRKGGERTYTQLVRLIIL 213
Query: 649 DELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXKADPAHGLQIVGMSAT 708
DE+H++ D R ++++G+SAT
Sbjct: 214 DEIHLLHDDRGPVLEALVARAIRNIEMTQ--------------------EDVRLIGLSAT 253
Query: 709 MPNVAAVADWLQA------ALYETNFRPVPLEE-YIKVGNAIYSKKMDVVRTILTAANL- 760
+PN VA +L+ ++ +FRPVPLE+ Y+ + K+ ++ I+ +
Sbjct: 254 LPNYEDVATFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIME 313
Query: 761 -GGKDPDHIVELCDEVVQEGHSVLIFCSSRKGCESTARHVSKF-LKKFSINVHSSDSEFI 818
GK+ VL+F SRK TAR + L+K ++ + F+
Sbjct: 314 HAGKN----------------QVLVFVHSRKETGKTARAIRDMCLEKDTLGL------FL 351
Query: 819 DITSAIDALRRCPAGLDPVLE--ETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTAT 876
SA + R A LE + LP G A HHAG+T +R +VE + ++VL +T
Sbjct: 352 REGSASTEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVST 411
Query: 877 STLAAGVNLPARRVIFR-----QPRIGR-DFIDGTRYRQMAGRAGRTGIDTKGESMLICK 930
+TLA GVNLPA VI + P GR + QM GRAGR DTKGE +LI
Sbjct: 412 ATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITS 471
Query: 931 PEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAILEVVAGGIVQTAED 977
E++ + LLN+ P+ S + M +A E+V G VQ A+D
Sbjct: 472 HGELQYYLSLLNQQL-PIESQMVSKLPDMLNA--EIVLGN-VQNAKD 514
Score = 87.8 bits (216), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 109/462 (23%), Positives = 187/462 (40%), Gaps = 63/462 (13%)
Query: 543 NLVYCASTSAGKSFVAEILMLRRLISTGKMALLVLPYVSICAEKA--EHLEVLLEPLGRH 600
N+ A T +GK+ AE +LR L+ + + + + + AE+ + E + L +
Sbjct: 944 NVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKK 1003
Query: 601 VRSYYGNQGGG-SLPKDTSVAVCTIEKANSLVNRMLEEGRLSEIGIIVIDELHMVADQNR 659
V G L ++ + T EK + L R + + I + V+DE+H++ +N
Sbjct: 1004 VVLLTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGEN- 1062
Query: 660 GYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXKADPAHGLQIVGMSATMPNVAAVADWL 719
G RY + + ++IV +S+++ N VA WL
Sbjct: 1063 GPVLEVICSRMRYIS-------------------SQIERPIRIVALSSSLSNAKDVAHWL 1103
Query: 720 QAAL-----YETNFRPVPLEEYIKVGNAIYSKKMDVVRTILTAANLGGKDPDHIVELCDE 774
+ + N RPVPLE +I+ N +++ R + A + H
Sbjct: 1104 GCSATSTFNFHPNVRPVPLELHIQGFNISHTQ----TRLLSMAKPVYHAITKH------- 1152
Query: 775 VVQEGHSVLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGL 834
V++F SRK TA + L + ++ F+ T D +
Sbjct: 1153 --SPKKPVIVFVPSRKQTRLTAIDI---LTTCAADIQRQ--RFLHCTEK-DLIPYLEKLS 1204
Query: 835 DPVLEETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQ 894
D L+ETL +GV Y H GL+ ER +VE + G ++V+ A+ +L G+N+ A VI
Sbjct: 1205 DSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMD 1264
Query: 895 PRIGRD----FIDGTRYR--QMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCP-- 946
+ ++D Y QM G A R D +G +++C+ + L E P
Sbjct: 1265 TQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLYEPLPVE 1324
Query: 947 -PLHSCLSEDKNGMTHAILEVVAGGIVQTAEDIHRYVRCTLL 987
L C+ + N E+V I + +D Y+ T L
Sbjct: 1325 SHLDHCMHDHFNA------EIVTKTI-ENKQDAVDYLTWTFL 1359
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 108 bits (270), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 109/458 (23%), Positives = 195/458 (42%), Gaps = 92/458 (20%)
Query: 517 YKKRGISKLYPWQVECLH---VDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMA 573
+K+ ++ YP+ ++ + + + +++ A TSAGK+ VAE + + L + ++
Sbjct: 172 HKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRV- 230
Query: 574 LLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNR 633
+ P ++ +K L +G G ++ D V T E S++ R
Sbjct: 231 IYTSPIKALSNQKYRELLAEFGDVGLMT-------GDITINPDAGCLVMTTEILRSMLYR 283
Query: 634 MLEEGRLSEIGIIVIDELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXK 693
E R E+ ++ DE+H + D+ RG
Sbjct: 284 GSEVMR--EVAWVIFDEVHYMRDKERGVVWEETIILL----------------------- 318
Query: 694 ADPAHGLQIVGMSATMPNVAAVADWL------QAALYETNFRPVPLEEYI--KVGNAIY- 744
++ V +SAT+PN A+W+ + TNFRP PL+ Y+ G+ IY
Sbjct: 319 ---PDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYL 375
Query: 745 -------SKKMDVVRTILTAANLGGKDPD-----------------------HIVELCDE 774
++ + + + + +N G DP+ I ++
Sbjct: 376 VVDEKSTFREENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKM 435
Query: 775 VVQEGHS-VLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDI-TSAIDALRRCPA 832
+ ++ ++ V++F S++ CE A +S K N I +AI L
Sbjct: 436 IWKKKYNPVIVFSFSKRDCEELALKMS----KLDFNSDDEKEALTKIFNNAIALLPETDR 491
Query: 833 GLDPVLEETLP---SGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889
L P ++ LP G+ HH+GL +EV+E +++G ++VL AT T + G+N+PA+
Sbjct: 492 EL-PQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKT 550
Query: 890 VIFRQPRI--GRDF--IDGTRYRQMAGRAGRTGIDTKG 923
V+F R G+ F + G Y QM+GRAGR G+D +G
Sbjct: 551 VVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRG 588
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 107 bits (268), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 109/458 (23%), Positives = 195/458 (42%), Gaps = 92/458 (20%)
Query: 517 YKKRGISKLYPWQVECLH---VDGVLQRRNLVYCASTSAGKSFVAEILMLRRLISTGKMA 573
+K+ ++ YP+ ++ + + + +++ A TSAGK+ VAE + + L + ++
Sbjct: 74 HKRVNEARTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKNKQRV- 132
Query: 574 LLVLPYVSICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSVAVCTIEKANSLVNR 633
+ P ++ +K L +G G ++ D V T E S++ R
Sbjct: 133 IYTSPIKALSNQKYRELLAEFGDVGLMT-------GDITINPDAGCLVMTTEILRSMLYR 185
Query: 634 MLEEGRLSEIGIIVIDELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXK 693
E R E+ ++ DE+H + D+ RG
Sbjct: 186 GSEVMR--EVAWVIFDEVHYMRDKERGVVWEETIILL----------------------- 220
Query: 694 ADPAHGLQIVGMSATMPNVAAVADWL------QAALYETNFRPVPLEEYI--KVGNAIY- 744
++ V +SAT+PN A+W+ + TNFRP PL+ Y+ G+ IY
Sbjct: 221 ---PDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYL 277
Query: 745 -------SKKMDVVRTILTAANLGGKDPD-----------------------HIVELCDE 774
++ + + + + +N G DP+ I ++
Sbjct: 278 VVDEKSTFREENFQKAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKM 337
Query: 775 VVQEGHS-VLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDI-TSAIDALRRCPA 832
+ ++ ++ V++F S++ CE A +S K N I +AI L
Sbjct: 338 IWKKKYNPVIVFSFSKRDCEELALKMS----KLDFNSDDEKEALTKIFNNAIALLPETDR 393
Query: 833 GLDPVLEETLP---SGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARR 889
L P ++ LP G+ HH+GL +EV+E +++G ++VL AT T + G+N+PA+
Sbjct: 394 EL-PQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKT 452
Query: 890 VIFRQPRI--GRDF--IDGTRYRQMAGRAGRTGIDTKG 923
V+F R G+ F + G Y QM+GRAGR G+D +G
Sbjct: 453 VVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRG 490
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 79.3 bits (194), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 53/155 (34%), Positives = 78/155 (50%), Gaps = 11/155 (7%)
Query: 782 VLIFCSSRKGCESTARHVSKFLKKFSINVHSSDSEFIDITSAIDALRRCPAGLDPVLE-- 839
+++F S+K CE A + F N S I +I L++ L +L+
Sbjct: 339 MVVFVFSKKRCEEYADWLEGI--NFCNNKEKSQIHMF-IEKSITRLKKEDRDLPQILKTR 395
Query: 840 ETLPSGVAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIG- 898
L G+A HH GL +E++E + KG ++VL AT T A G+NLP R VIF R
Sbjct: 396 SLLERGIAVHHGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLPTRTVIFSSIRKHD 455
Query: 899 ----RDFIDGTRYRQMAGRAGRTGIDTKGESMLIC 929
R+ G + QMAGRAGR G+D+ G +++
Sbjct: 456 GNGLRELTPG-EFTQMAGRAGRRGLDSTGTVIVMA 489
Score = 42.4 bits (98), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 53/225 (23%), Positives = 93/225 (41%), Gaps = 57/225 (25%)
Query: 526 YPWQVECLHVDGV--LQRRNLVYCAS-TSAGKSFVAE--ILMLRRLISTGKMALLVLPYV 580
+P++++ + V L++ + V+ A+ TSAGK+ VAE I M R ++ + P
Sbjct: 36 WPFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRNMTK---TIYTSPIK 92
Query: 581 SICAEKAEHLEVLLEPLGRHVRSYYGNQGGGSLPKDTSV---AVCTIEKANSLVNRMLEE 637
++ +K R + + + G + D + A C I ++ ML
Sbjct: 93 ALSNQKF-----------RDFKETFDDVNIGLITGDVQINPDANCLI-MTTEILRSMLYR 140
Query: 638 GR--LSEIGIIVIDELHMVADQNRGYXXXXXXXXXRYAAXXXXXXXXXXXXXXXXXXKAD 695
G + ++ ++ DE+H V DQ+RG
Sbjct: 141 GADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIML------------------------- 175
Query: 696 PAHGLQIVGMSATMPNVAAVADWL----QAALY--ETNFRPVPLE 734
P H ++ + +SAT+PN A+W+ Q +Y T RPVPLE
Sbjct: 176 PQH-VKFILLSATVPNTYEFANWIGRTKQKNIYVISTPKRPVPLE 219
>pdb|1ZYQ|A Chain A, T7 Dna Polymerase In Complex With 8og And Incoming Ddatp
Length = 698
Score = 53.5 bits (127), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 66/301 (21%), Positives = 115/301 (38%), Gaps = 38/301 (12%)
Query: 1815 KQHPSTDKHCLDLLRHEHP----IVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTL 1870
K P D L+ +R + P + +IKE+ + K + + + R K +
Sbjct: 353 KGAPVVDDEVLEGVRVDDPEKQAAIDLIKEYLMIQKRIGQSAEGDKAWLRYVAEDGK--I 410
Query: 1871 HGHWLQTSTATGRLSMEEPNLQCVEHM-VEFKMSNEDIYGGNAEVDHCKINARDFFIPSQ 1929
HG TGR + PNL + + + +G +D +
Sbjct: 411 HGSVNPNGAVTGRATHAFPNLAQIPGVRSPYGEQCRAAFGAEHHLDGI----------TG 460
Query: 1930 ENWILLAADYSQIELRLMAHFSKDPALIGLLSKPH----GDVFTMIAARWTGRSEDSVGS 1985
+ W+ D S +ELR +AHF A H GD+ T +++ +
Sbjct: 461 KPWVQAGIDASGLELRCLAHFM---ARFDNGEYAHEILNGDIHT--------KNQIAAEL 509
Query: 1986 QERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVA----SWLHVAVS 2041
RD K IYG LYG G + + + KE K F + P +A S V
Sbjct: 510 PTRDNAKTFIYGFLYGAGDEAIGQIVGAGKERGKELKKKFLENTPAIAALRESIQQTLVE 569
Query: 2042 SCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSII 2101
S + +K ++R++ + K ++ A+N++ Q + A I K+ +I ++
Sbjct: 570 SSQWVAGEQQVKWKRRWIKGLD--GRKVHVRSPHAALNTLLQSAGALICKLWIIKTEEML 627
Query: 2102 V 2102
V
Sbjct: 628 V 628
>pdb|1T7P|A Chain A, T7 Dna Polymerase Complexed To Dna PrimerTEMPLATE,A
Nucleoside Triphosphate, And Its Processivity Factor
Thioredoxin
pdb|1SKR|A Chain A, T7 Dna Polymerase Complexed To Dna Primer/template And Ddatp
pdb|1SKS|A Chain A, Binary 3' Complex Of T7 Dna Polymerase With A Dna
PrimerTEMPLATE CONTAINING A CIS-Syn Thymine Dimer On The
Template
pdb|1SKW|A Chain A, Binary 3' Complex Of T7 Dna Polymerase With A Dna
PrimerTEMPLATE CONTAINING A DISORDERED CIS-Syn Thymine
Dimer On The Template
pdb|1SL0|A Chain A, Ternary 3' Complex Of T7 Dna Polymerase With A Dna
PrimerTEMPLATE CONTAINING A DISORDERED CIS-Syn Thymine
Dimer On The Template And An Incoming Nucleotide
pdb|1SL0|C Chain C, Ternary 3' Complex Of T7 Dna Polymerase With A Dna
PrimerTEMPLATE CONTAINING A DISORDERED CIS-Syn Thymine
Dimer On The Template And An Incoming Nucleotide
pdb|1SL1|A Chain A, Binary 5' Complex Of T7 Dna Polymerase With A Dna
Primer/template Containing A Cis-syn Thymine Dimer On The
Template
pdb|1SL2|A Chain A, Ternary 5' Complex Of T7 Dna Polymerase With A Dna
PrimerTEMPLATE CONTAINING A CIS-Syn Thymine Dimer On The
Template And An Incoming Nucleotide
pdb|1TK0|A Chain A, T7 Dna Polymerase Ternary Complex With 8 Oxo Guanosine And
Ddctp At The Insertion Site
pdb|1TK5|A Chain A, T7 Dna Polymerase Binary Complex With 8 Oxo Guanosine In The
Templating Strand
pdb|1TK8|A Chain A, T7 Dna Polymerase Ternary Complex With 8 Oxo Guanosine And
Damp At The Elongation Site
pdb|1TKD|A Chain A, T7 Dna Polymerase Ternary Complex With 8 Oxo Guanosine And
Dcmp At The Elongation Site
pdb|1T8E|A Chain A, T7 Dna Polymerase Ternary Complex With Dctp At The Insertion
Site.
pdb|1X9M|A Chain A, T7 Dna Polymerase In Complex With An N-2-
Acetylaminofluorene-adducted Dna
pdb|1X9S|A Chain A, T7 Dna Polymerase In Complex With A PrimerTEMPLATE DNA
Containing A Disordered N-2 Aminofluorene On The
Template, Crystallized With Dideoxy-Ctp As The Incoming
Nucleotide.
pdb|1X9W|A Chain A, T7 Dna Polymerase In Complex With A Primer/template Dna
Containing A Disordered N-2 Aminofluorene On The
Template, Crystallized With Dideoxy-atp As The Incoming
Nucleotide
Length = 698
Score = 53.1 bits (126), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 66/301 (21%), Positives = 115/301 (38%), Gaps = 38/301 (12%)
Query: 1815 KQHPSTDKHCLDLLRHEHP----IVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTL 1870
K P D L+ +R + P + +IKE+ + K + + + R K +
Sbjct: 353 KGAPVVDDEVLEGVRVDDPEKQAAIDLIKEYLMIQKRIGQSAEGDKAWLRYVAEDGK--I 410
Query: 1871 HGHWLQTSTATGRLSMEEPNLQCVEHM-VEFKMSNEDIYGGNAEVDHCKINARDFFIPSQ 1929
HG TGR + PNL + + + +G +D +
Sbjct: 411 HGSVNPNGAVTGRATHAFPNLAQIPGVRSPYGEQCRAAFGAEHHLDGI----------TG 460
Query: 1930 ENWILLAADYSQIELRLMAHFSKDPALIGLLSKPH----GDVFTMIAARWTGRSEDSVGS 1985
+ W+ D S +ELR +AHF A H GD+ T +++ +
Sbjct: 461 KPWVQAGIDASGLELRCLAHFM---ARFDNGEYAHEILNGDIHT--------KNQIAAEL 509
Query: 1986 QERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVA----SWLHVAVS 2041
RD K IYG LYG G + + + KE K F + P +A S V
Sbjct: 510 PTRDNAKTFIYGFLYGAGDEKIGQIVGAGKERGKELKKKFLENTPAIAALRESIQQTLVE 569
Query: 2042 SCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSII 2101
S + +K ++R++ + K ++ A+N++ Q + A I K+ +I ++
Sbjct: 570 SSQWVAGEQQVKWKRRWIKGLD--GRKVHVRSPHAALNTLLQSAGALICKLWIIKTEEML 627
Query: 2102 V 2102
V
Sbjct: 628 V 628
>pdb|2AJQ|A Chain A, Structure Of Replicative Dna Polymerase Provides Insigts
Into The Mechanisms For Processivity, Frameshifting And
Editing
pdb|2AJQ|F Chain F, Structure Of Replicative Dna Polymerase Provides Insigts
Into The Mechanisms For Processivity, Frameshifting And
Editing
Length = 704
Score = 53.1 bits (126), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 66/301 (21%), Positives = 115/301 (38%), Gaps = 38/301 (12%)
Query: 1815 KQHPSTDKHCLDLLRHEHP----IVPVIKEHRTLAKLLNCTLGSICSLARISMSTQKYTL 1870
K P D L+ +R + P + +IKE+ + K + + + R K +
Sbjct: 359 KGAPVVDDEVLEGVRVDDPEKQAAIDLIKEYLMIQKRIGQSAEGDKAWLRYVAEDGK--I 416
Query: 1871 HGHWLQTSTATGRLSMEEPNLQCVEHM-VEFKMSNEDIYGGNAEVDHCKINARDFFIPSQ 1929
HG TGR + PNL + + + +G +D +
Sbjct: 417 HGSVNPNGAVTGRATHAFPNLAQIPGVRSPYGEQCRAAFGAEHHLDGI----------TG 466
Query: 1930 ENWILLAADYSQIELRLMAHFSKDPALIGLLSKPH----GDVFTMIAARWTGRSEDSVGS 1985
+ W+ D S +ELR +AHF A H GD+ T +++ +
Sbjct: 467 KPWVQAGIDASGLELRCLAHFM---ARFDNGEYAHEILNGDIHT--------KNQIAAEL 515
Query: 1986 QERDQTKRLIYGILYGMGPNTLSEQLNCSSNEAKEKIKSFKSSFPGVA----SWLHVAVS 2041
RD K IYG LYG G + + + KE K F + P +A S V
Sbjct: 516 PTRDNAKTFIYGFLYGAGDEKIGQIVGAGKERGKELKKKFLENTPAIAALRESIQQTLVE 575
Query: 2042 SCHQKGYVESLKGRKRFLSKIKFGNNKEKSKAQRQAVNSICQGSAADIIKIAMINIHSII 2101
S + +K ++R++ + K ++ A+N++ Q + A I K+ +I ++
Sbjct: 576 SSQWVAGEQQVKWKRRWIKGLD--GRKVHVRSPHAALNTLLQSAGALICKLWIIKTEEML 633
Query: 2102 V 2102
V
Sbjct: 634 V 634
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 41.2 bits (95), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 50/119 (42%), Gaps = 21/119 (17%)
Query: 847 AYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFIDG 904
A +HAGL R V+ +++ ++++ AT G+N P R + F PR +
Sbjct: 264 AAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPR------NI 317
Query: 905 TRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAI 963
Y Q GRAGR G+ E+ML P ++ L CL E G I
Sbjct: 318 ESYYQETGRAGRDGL--PAEAMLFYDPADMAW-----------LRRCLEEKPQGQLQDI 363
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 39.7 bits (91), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFID 903
V+ H L +ER+ + +R+G +VL T+ LA G+++P ++ + P + D
Sbjct: 270 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 329
Query: 904 GTRYRQMAGRAGRTG 918
Y GR GR G
Sbjct: 330 PATYIHRIGRTGRFG 344
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 39.7 bits (91), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFID 903
V+ H L +ER+ + +R+G +VL T+ LA G+++P ++ + P + D
Sbjct: 270 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 329
Query: 904 GTRYRQMAGRAGRTG 918
Y GR GR G
Sbjct: 330 PATYIHRIGRTGRFG 344
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 39.3 bits (90), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 2/75 (2%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFID 903
V+ H L +ER+ + +R+G +VL T+ LA G+++P ++ + P + D
Sbjct: 62 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQAD 121
Query: 904 GTRYRQMAGRAGRTG 918
Y GR GR G
Sbjct: 122 PATYIHRIGRTGRFG 136
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 38.1 bits (87), Expect = 0.048, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFID 903
V+ H L +ER+ + +R+G +VL T+ LA G+++P + + P + D
Sbjct: 63 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 122
Query: 904 GTRYRQMAGRAGRTG 918
Y GR GR G
Sbjct: 123 PATYIHRIGRTGRFG 137
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 38.1 bits (87), Expect = 0.048, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFID 903
V+ H L +ER+ + +R+G +VL T+ LA G+++P + + P + D
Sbjct: 64 VSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQAD 123
Query: 904 GTRYRQMAGRAGRTG 918
Y GR GR G
Sbjct: 124 PATYIHRIGRTGRFG 138
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 38.1 bits (87), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 33/119 (27%), Positives = 48/119 (40%), Gaps = 21/119 (17%)
Query: 847 AYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFIDG 904
A +HAGL R V+ +++ ++++ AT G+N P R + F PR +
Sbjct: 264 AAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPR------NI 317
Query: 905 TRYRQMAGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSEDKNGMTHAI 963
Y Q GRAGR G+ E+ L P + L CL E G I
Sbjct: 318 ESYYQETGRAGRDGL--PAEAXLFYDPADXAW-----------LRRCLEEKPQGQLQDI 363
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 35.8 bits (81), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 6/72 (8%)
Query: 848 YHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGTR- 906
Y HA + +ER V +R+G VR L + L G+++ A V+ I DF
Sbjct: 287 YSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVV-----INFDFPKTAET 341
Query: 907 YRQMAGRAGRTG 918
Y GR+GR G
Sbjct: 342 YLHRIGRSGRFG 353
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 35.4 bits (80), Expect = 0.37, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 2/48 (4%)
Query: 850 HAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQP 895
H ++ ERE V +R+G VRVL AT A G+++P ++ +R P
Sbjct: 59 HGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMP 106
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 35.0 bits (79), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 8/73 (10%)
Query: 848 YHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFIDGT 905
Y HA + E R V +R GL R L T G+++ A V+ F P++ ++
Sbjct: 73 YIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYL--- 129
Query: 906 RYRQMAGRAGRTG 918
GR+GR G
Sbjct: 130 ---HRIGRSGRFG 139
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 35.0 bits (79), Expect = 0.43, Method: Composition-based stats.
Identities = 17/37 (45%), Positives = 23/37 (62%)
Query: 850 HAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLP 886
H L+ ERE V +R+G VRVL AT A G+++P
Sbjct: 62 HGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIP 98
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 33.9 bits (76), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGT 905
V+ H + +ERE + +R G RVL +T A G+++P +I I D +
Sbjct: 282 VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI-----INYDLPNNR 336
Query: 906 R-YRQMAGRAGRTGIDTKGESMLICKPEEVK 935
Y GR+GR G KG ++ K ++++
Sbjct: 337 ELYIHRIGRSGRYG--RKGVAINFVKNDDIR 365
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 33.5 bits (75), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGT 905
V+ H + +ERE + +R G RVL +T A G+++P +I I D +
Sbjct: 267 VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI-----INYDLPNNR 321
Query: 906 R-YRQMAGRAGRTGIDTKGESMLICKPEEVK 935
Y GR+GR G KG ++ K ++++
Sbjct: 322 ELYIHRIGRSGRYG--RKGVAVNFVKNDDIR 350
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 33.5 bits (75), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGT 905
V+ H + +ERE + +R G RVL +T A G+++P +I I D +
Sbjct: 303 VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI-----INYDLPNNR 357
Query: 906 R-YRQMAGRAGRTGIDTKGESMLICKPEEVK 935
Y GR+GR G KG ++ K ++++
Sbjct: 358 ELYIHRIGRSGRYG--RKGVAINFVKNDDIR 386
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 33.5 bits (75), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGT 905
V+ H + +ERE + +R G RVL +T A G+++P +I I D +
Sbjct: 304 VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI-----INYDLPNNR 358
Query: 906 R-YRQMAGRAGRTGIDTKGESMLICKPEEVK 935
Y GR+GR G KG ++ K ++++
Sbjct: 359 ELYIHRIGRSGRYG--RKGVAINFVKNDDIR 387
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 33.5 bits (75), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 9/89 (10%)
Query: 871 RVLTATSTLAAGVNLPARRVIFR---QPRIGR------DFIDGTRYRQMAGRAGRTGIDT 921
++L AT + G+NL RR+IF +P I + I ++ Q+AGRAGR
Sbjct: 374 KILVATDAIGXGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRF 433
Query: 922 KGESMLICKPEEVKKIMGLLNESCPPLHS 950
K + E++ + +L P+ +
Sbjct: 434 KEGEVTTXNHEDLSLLKEILKRPVDPIRA 462
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 33.5 bits (75), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 9/89 (10%)
Query: 871 RVLTATSTLAAGVNLPARRVIFR---QPRIGR------DFIDGTRYRQMAGRAGRTGIDT 921
++L AT + G+NL RR+IF +P I + I ++ Q+AGRAGR
Sbjct: 374 KILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRF 433
Query: 922 KGESMLICKPEEVKKIMGLLNESCPPLHS 950
K + E++ + +L P+ +
Sbjct: 434 KEGEVTTMNHEDLSLLKEILKRPVDPIRA 462
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 33.5 bits (75), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGT 905
V+ H + +ERE + +R G RVL +T A G+++P +I I D +
Sbjct: 304 VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI-----INYDLPNNR 358
Query: 906 R-YRQMAGRAGRTGIDTKGESMLICKPEEVK 935
Y GR+GR G KG ++ K ++++
Sbjct: 359 ELYIHRIGRSGRYG--RKGVAINFVKNDDIR 387
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 33.5 bits (75), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 8/91 (8%)
Query: 846 VAYHHAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVIFRQPRIGRDFIDGT 905
V+ H + +ERE + +R G RVL +T A G+++P +I I D +
Sbjct: 267 VSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLI-----INYDLPNNR 321
Query: 906 R-YRQMAGRAGRTGIDTKGESMLICKPEEVK 935
Y GR+GR G KG ++ K ++++
Sbjct: 322 ELYIHRIGRSGRYG--RKGVAVNFVKNDDIR 350
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 32.7 bits (73), Expect = 2.2, Method: Composition-based stats.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 10/90 (11%)
Query: 850 HAGLTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFIDGTRY 907
H L+ +RE V +++ +R+L AT + G+++ + + P+ + Y
Sbjct: 269 HGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVINYHLPQ------NPESY 322
Query: 908 RQMAGRAGRTGIDTKGESMLICKPEEVKKI 937
GR GR G KG+++ I E KK+
Sbjct: 323 XHRIGRTGRAG--KKGKAISIINRREYKKL 350
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 32.3 bits (72), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 48/105 (45%), Gaps = 4/105 (3%)
Query: 853 LTVEEREVVETCYRKGLVRVLTATSTLAAGVNLPARRVI--FRQPRIGRDFIDGTRYRQM 910
LTVE+R + +R G +VL T+ A G+++ ++ F P + D Y
Sbjct: 68 LTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHR 127
Query: 911 AGRAGRTGIDTKGESMLICKPEEVKKIMGLLNESCPPLHSCLSED 955
GR GR G KG + + + +E+ +M + + + +ED
Sbjct: 128 IGRTGRFG--KKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAED 170
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 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 59,749,688
Number of Sequences: 62578
Number of extensions: 2365645
Number of successful extensions: 5323
Number of sequences better than 100.0: 68
Number of HSP's better than 100.0 without gapping: 53
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 5055
Number of HSP's gapped (non-prelim): 101
length of query: 2191
length of database: 14,973,337
effective HSP length: 114
effective length of query: 2077
effective length of database: 7,839,445
effective search space: 16282527265
effective search space used: 16282527265
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: 59 (27.3 bits)